Works (135)

Updated: April 22nd, 2024 05:28

2024 article

Arabidopsis as a model for translational research

Yaschenko, A. E., Alonso, J. M., & Stepanova, A. N. (2024, February 27). PLANT CELL, Vol. 2.

TL;DR: It is envisioned that the power of Arabidopsis-inspired biotechnologies and foundational discoveries will continue to fuel the development of resilient, high-yielding, nutritious plants for the betterment of plant and animal health and greater environmental sustainability. (via Semantic Scholar)
Sources: ORCID, Web Of Science, NC State University Libraries
Added: March 1, 2024

2022 review

Deciphering the molecular basis of tissue-specific gene expression in plants: Can synthetic biology help?

[Review of ]. CURRENT OPINION IN PLANT BIOLOGY, 68.

author keywords: Tissue specificity; Gene expression; Synthetic biology; Transcription; factor; Epigenetics; Single cell; Transcriptomics; Logic gate; Promoter; Cis-regulatory element
MeSH headings : Computational Biology; Gene Expression; Gene Regulatory Networks / genetics; Plants / genetics; Plants / metabolism; Promoter Regions, Genetic / genetics; Synthetic Biology; Transcription Factors / metabolism
TL;DR: Synthetic biology shows great promise not only as a means of testing candidate DNA motifs but also for establishing the general rules of nature driving promoter architecture and for the rational design of genetic circuits in research and agriculture to confer tissue-specific expression to genes or molecular pathways of interest. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (OpenAlex)
Sources: Web Of Science, NC State University Libraries, ORCID
Added: June 12, 2022

2022 journal article

Tandem C2 domains mediate dynamic organelle targeting of a DOCK family guanine nucleotide exchange factor

JOURNAL OF CELL SCIENCE, 135(7).

author keywords: DOCK; Rac/Rho-of-plants; Lipid binding; Organelle association; Small GTPases
MeSH headings : C2 Domains; Cytokinesis; Guanine Nucleotide Exchange Factors / metabolism; Monomeric GTP-Binding Proteins / metabolism; Organelles / metabolism
TL;DR: Mechanistic insight is provided into how DOCK GEFs sense compositional and biophysical membrane properties at the interface of two organelle systems and an evolutionarily conserved and essential localization determinant is uncovered named SPIKE1. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: ORCID, Web Of Science, NC State University Libraries
Added: April 14, 2022

2022 journal article

To Fight or to Grow: The Balancing Role of Ethylene in Plant Abiotic Stress Responses

PLANTS-BASEL, 11(1).

author keywords: ethylene; abiotic stress; hormone crosstalk; growth and defense tradeoff
TL;DR: The crosstalk between ethylene and other plant hormones in tipping the balance between plant growth and abiotic stress responses is described. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries, ORCID
Added: December 24, 2021

2021 journal article

A G protein-coupled receptor-like module regulates cellulose synthase secretion from the endomembrane system in Arabidopsis

DEVELOPMENTAL CELL, 56(10), 1484-+.

MeSH headings : Arabidopsis / metabolism; Arabidopsis Proteins / metabolism; Cell Membrane / metabolism; Cell Wall / metabolism; GTP-Binding Proteins / genetics; GTP-Binding Proteins / metabolism; Glucosyltransferases / metabolism; Membrane Proteins / metabolism; Multiprotein Complexes / metabolism; Mutation / genetics; Protein Binding; Receptors, G-Protein-Coupled / metabolism; Seedlings / growth & development; Seedlings / ultrastructure; Signal Transduction; Stress, Physiological; trans-Golgi Network / metabolism; trans-Golgi Network / ultrastructure
TL;DR: This work identifies members of a family of seven transmembrane domain-containing proteins (7TMs) that are important for cellulose production during cell wall integrity stress and outlines how a G protein-coupled module regulates CESA trafficking and reveals that defects in this process lead to exacerbated responses to cell wall Integrity stress. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: June 10, 2021

2021 journal article

Auxin Interactions with Other Hormones in Plant Development

Cold Spring Harbor Perspectives in Biology, 13(10), a039990.

MeSH headings : Indoleacetic Acids / metabolism; Plant Development; Plant Growth Regulators / metabolism
TL;DR: A glimpse into the complexity of hormone interactions that involve auxin is provided, underscoring how patchy current understanding of this crosstalk is. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
15. Life on Land (OpenAlex)
Sources: Crossref, NC State University Libraries, Web Of Science, ORCID
Added: April 27, 2021

2021 review

Leveraging synthetic biology approaches in plant hormone research

[Review of ]. CURRENT OPINION IN PLANT BIOLOGY, 60.

By: C. Zhao, A. Yaschenko, J. Alonso & A. Stepanova

UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: June 28, 2021

2020 journal article

An Improved Recombineering Toolset for Plants

The Plant Cell.

MeSH headings : Arabidopsis / genetics; Chromosomes, Artificial, Bacterial; Gene Editing / methods; Genes, Reporter; Genetic Engineering / methods; Plants / genetics; Plants, Genetically Modified / genetics; Recombination, Genetic
TL;DR: A scalable recombinase-mediated cassette exchange system to facilitate the transfer of the desired sequences from a bacterial artificial chromosome clone to a transformation-compatible binary vector is developed, expanding the use of the recombineering approaches beyond Arabidopsis (Arabidopsis thaliana). (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Source: ORCID
Added: January 11, 2020

2020 journal article

Development of a relative quantification method for infrared matrix-assisted laser desorption electrospray ionization mass spectrometry imaging of Arabidopsis seedlings

RAPID COMMUNICATIONS IN MASS SPECTROMETRY, 34(6).

By: M. Bagley n, A. Stepanova n, M. Ekelof n, J. Alonso n & D. Muddiman n

MeSH headings : Arabidopsis / chemistry; Arabidopsis / genetics; Arabidopsis Proteins / genetics; Indoleacetic Acids / analysis; Indoles / analysis; Mutation; Oximes / analysis; Oxygenases / genetics; Seedlings / chemistry; Seedlings / genetics; Spectrometry, Mass, Electrospray Ionization / methods; Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization / methods
TL;DR: IAA doping of agarose was demonstrated as a viable technique for relative quantification of metabolites in live seedlings or tissues with similar biological considerations and was shown to be an appropriate sampling surface for IR-MALDESI mass spectrometry imaging of Arabidopsis seedlings. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, NC State University Libraries
Added: March 10, 2020

2020 journal article

Gibberellin-mediated RGA-LIKE1 degradation regulates embryo sac development in Arabidopsis

JOURNAL OF EXPERIMENTAL BOTANY, 71(22), 7059–7072.

By: M. Dolores Gomez*, D. Barro-Trastoy*, C. Fuster-Almunia*, P. Tornero, J. Alonso n & M. Perez-Amador*

author keywords: Arabidopsis; DELLA; development; embryo sac; gibberellin; megagametogenesis; ovule; RGL1
MeSH headings : Arabidopsis / genetics; Arabidopsis / metabolism; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Gene Expression Regulation, Plant; Gibberellins; Ovule / genetics; Ovule / metabolism
TL;DR: New genetic tools to study R GL1 expression and function through plant development allowed the uncovering of an RGL1-specific role in the control of female gametophyte development. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: February 15, 2021

2020 journal article

Regulation of ovule initiation by gibberellins and brassinosteroids in tomato and Arabidopsis: two plant species, two molecular mechanisms

The Plant Journal.

By: D. Barro‐Trastoy*, E. Carrera*, J. Baños*, J. Palau‐Rodríguez*, O. Ruiz‐Rivero*, P. Tornero*, J. Alonso n, I. López‐Díaz*, M. Gómez*, M. Pérez‐Amador*

author keywords: Arabidopsis thaliana; tomato; Solanum lycopersicum; gibberellins; brassinosteroids; ovule; reproductive development; hormone interaction
MeSH headings : Arabidopsis / genetics; Arabidopsis / metabolism; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Brassinosteroids / metabolism; Gene Expression Regulation, Plant / genetics; Gene Expression Regulation, Plant / physiology; Gibberellins / metabolism; Solanum lycopersicum / genetics; Solanum lycopersicum / metabolism; Plant Proteins / genetics; Plant Proteins / metabolism; Signal Transduction / genetics; Signal Transduction / physiology
TL;DR: The data strongly suggest that different molecular mechanisms could operate in different plant species to regulate identical developmental processes even, as in the case of ovule primordia initiation, when the same set of hormones trigger similar responses, adding a new level of complexity. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
15. Life on Land (OpenAlex)
Source: ORCID
Added: February 14, 2020

2020 chapter

RiboSimR: A Tool for Simulation and Power Analysis of Ribo-seq Data

In I. Măndoiu, T. Murali, G. Narasimhan, S. Rajasekaran, P. Skums, & A. Zelikovsky (Eds.), Computational Advances in Bio and Medical Sciences (pp. 121–133).

By: P. Perkins n, A. Stepanova n, J. Alonso n & S. Heber n

Ed(s): I. Măndoiu, T. Murali, G. Narasimhan, S. Rajasekaran, P. Skums & A. Zelikovsky

Event: ICCABS 2019

TL;DR: A power assessment tool, called RiboSimR, that produces semi-parametric simulations that generate data based on real RNA and Ribo-seq experiments, with customizable choices on baseline parameters and tool configurations is proposed. (via Semantic Scholar)
Sources: Crossref, NC State University Libraries
Added: October 9, 2021

2020 journal article

Structure–Function Analysis of Interallelic Complementation in ROOTY Transheterozygotes

Plant Physiology, 183(3), 1110–1125.

MeSH headings : Alleles; Arabidopsis / genetics; Arabidopsis Proteins / chemistry; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Binding Sites; Carbon-Sulfur Lyases / chemistry; Carbon-Sulfur Lyases / genetics; Carbon-Sulfur Lyases / metabolism; Cotyledon / genetics; Genetic Complementation Test; Genetic Loci; Heterozygote; Models, Molecular; Mutation / genetics; Phenotype; Plants, Genetically Modified; Protein Multimerization; Structure-Activity Relationship
TL;DR: This work identified an allelic series of fertile, hypomorphic Arabidopsis (Arabidopsis thaliana) mutants for the essential glucosinolate biosynthetic gene ROOTY (RTY) that exhibit a range of phenotypic defects characteristic of enhanced auxin production and underscores the importance of employing true null mutants in genetic complementation studies. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Source: ORCID
Added: July 2, 2020

2019 article

An improved plant toolset for high-throughput recombineering

Brumos, J., Zhao, C., Gong, Y., Soriano, D., Patel, A. P., Perez-Amador, M. A., … Alonso, J. M. (2019, June 3). (Vol. 6). Vol. 6.

By: J. Brumos, C. Zhao, Y. Gong*, D. Soriano*, A. Patel, M. Perez-Amador*, A. Stepanova*, J. Alonso

TL;DR: A recombineering-based tagging system that brings together the convenience of the classical transgenic approaches and the high degree of confidence in the obtained results provided by the direct chromosomal tagging achievable by genome editing strategies is developed. (via Semantic Scholar)
Source: ORCID
Added: December 19, 2019

2019 article

From Ethylene-Auxin Interactions to Auxin Biosynthesis and Signal Integration

Stepanova, A. N., & Alonso, J. M. (2019, July). PLANT CELL, Vol. 31, pp. 1393–1394.

MeSH headings : Ethylenes / metabolism; Gene Expression Regulation, Plant; Indoleacetic Acids / metabolism; Models, Biological; Plant Proteins / metabolism; Plant Roots / metabolism; Signal Transduction
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science; OpenAlex)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries, ORCID
Added: July 29, 2019

2019 journal article

RGL2 controls flower development, ovule number and fertility in Arabidopsis

PLANT SCIENCE, 281, 82–92.

By: M. Dolores Gomez*, C. Fuster-Almunia*, J. Ocana-Cuesta*, J. Alonso n & M. Perez-Amador*

author keywords: Gibberellin; DELLA; RGL2; Arabidopsis; Development; Ovule
MeSH headings : Arabidopsis / genetics; Arabidopsis / metabolism; Arabidopsis / physiology; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Flowers / genetics; Flowers / metabolism; Flowers / physiology; Gene Expression Regulation, Plant / genetics; Gene Expression Regulation, Plant / physiology; Germination / genetics; Germination / physiology; Gibberellins / metabolism
TL;DR: The RGL2 role in seed germination was further confirmed using genetic tools, while new functions of RGL1 in plant development were uncovered, and the increased ovule number in the YPet-rgl2Δ17 line points out the role of R GL2 in the determination of ovules number. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: April 2, 2019

2019 article

RiboStreamR: a web application for quality control, analysis, and visualization of Ribo-seq data

Perkins, P., Mazzoni-Putman, S., Stepanova, A., Alonso, J., & Heber, S. (2019, June 6). BMC GENOMICS, Vol. 20.

By: P. Perkins n, S. Mazzoni-Putman n, A. Stepanova n, J. Alonso n & S. Heber n

author keywords: Ribo-seq; Next-generation sequencing; Data analysis; Web application
MeSH headings : Computer Graphics; Genomics / methods; High-Throughput Nucleotide Sequencing / methods; Humans; Protein Biosynthesis; Quality Control; RNA, Messenger / genetics; RNA, Messenger / metabolism; Ribosomes / metabolism; Sequence Analysis, RNA; Software; Transcriptome; Web Browser
TL;DR: RiboStreamR is presented, a comprehensive Ribo-seq quality control (QC) platform in the form of an R Shiny web application that provides visualization and analysis tools for various Ribe-seq QC metrics, including read length distribution, read periodicity, and translational efficiency. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: July 1, 2019

2018 journal article

A mechanistic framework for auxin dependent Arabidopsis root hair elongation to low external phosphate

Nature Communications, 9(1).

By: R. Bhosale*, J. Giri*, B. Pandey*, R. Giehl*, A. Hartmann*, R. Traini*, J. Truskina*, N. Leftley* ...

Contributors: R. Bhosale*, J. Giri*, B. Pandey*, R. Giehl*, A. Hartmann*, R. Traini*, J. Truskina*, N. Leftley* ...

MeSH headings : Arabidopsis / drug effects; Arabidopsis / genetics; Arabidopsis / growth & development; Arabidopsis / metabolism; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Basic Helix-Loop-Helix Transcription Factors / genetics; Basic Helix-Loop-Helix Transcription Factors / metabolism; Gene Expression Regulation, Plant; Gravitropism / physiology; Indoleacetic Acids / metabolism; Organogenesis, Plant / drug effects; Organogenesis, Plant / genetics; Phosphates / deficiency; Phosphates / pharmacology; Plant Growth Regulators / metabolism; Plant Roots / drug effects; Plant Roots / genetics; Plant Roots / growth & development; Plant Roots / metabolism; Plants, Genetically Modified; Stress, Physiological; Transcription Factors / genetics; Transcription Factors / metabolism
TL;DR: It is reported that auxin plays a critical role promoting root hair growth in Arabidopsis in response to low external P, and auxin synthesis, transport and response pathway components play critical roles regulating this low P root adaptive response. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Crossref, NC State University Libraries, ORCID
Added: December 19, 2019

2018 journal article

Author Correction: A mechanistic framework for auxin dependent Arabidopsis root hair elongation to low external phosphate

Nature Communications, 9(1), 1818.

By: R. Bhosale*, J. Giri*, B. Pandey*, R. Giehl*, A. Hartmann*, R. Traini*, J. Truskina*, N. Leftley* ...

Contributors: R. Bhosale*, J. Giri*, B. Pandey*, R. Giehl*, A. Hartmann*, R. Traini*, J. Truskina*, N. Leftley* ...

TL;DR: The original version of this Article omitted the following from the Acknowledgements: ‘The authors also thank DBT-CREST BT/HRD/03/01/2002’. (via Semantic Scholar)
Sources: Crossref, NC State University Libraries, ORCID
Added: December 19, 2019

2018 journal article

Gibberellins negatively modulate ovule number in plants

Development, 145(13), dev163865.

By: M. Gomez*, D. Barro-Trastoy*, E. Escoms*, M. Saura-Sánchez*, I. Sánchez*, A. Briones-Moreno*, F. Vera-Sirera*, E. Carrera* ...

author keywords: Ovule; Seed; Gibberellin; Auxin; Arabidopsis; Tomato
MeSH headings : Arabidopsis / cytology; Arabidopsis / embryology; Arabidopsis Proteins / metabolism; Gibberellins / metabolism; Ovule / cytology; Ovule / embryology
TL;DR: This work provides molecular and genetic evidence that points to DELLA proteins as novel players in the determination of ovule number in Arabidopsis and in species of agronomic interest, adding a new layer of complexity to this important developmental process. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Crossref, NC State University Libraries
Added: October 9, 2021

2018 journal article

Local Auxin Biosynthesis Is a Key Regulator of Plant Development

DEVELOPMENTAL CELL, 47(3), 306-+.

By: J. Brumos n, L. Robles n, J. Yun n, T. Vu n, S. Jackson n, J. Alonso n, A. Stepanova n

Contributors: J. Brumos n, L. Robles n, J. Yun n, T. Vu n, S. Jackson n, J. Alonso n, A. Stepanova n

MeSH headings : Arabidopsis / metabolism; Arabidopsis Proteins / metabolism; Biological Transport; Ethylenes / metabolism; Flowers / metabolism; Gene Expression Regulation, Plant / genetics; Indoleacetic Acids / metabolism; Meristem / embryology; Meristem / metabolism; Morphogenesis; Oxygenases; Plant Development / genetics; Plant Growth Regulators / genetics; Plant Growth Regulators / metabolism; Plant Roots / embryology; Plant Roots / genetics; Plant Roots / metabolism; Spatio-Temporal Analysis
TL;DR: This study systematically addressed the role of local auxin biosynthesis in plant development and responses to the stress phytohormone ethylene by manipulating spatiotemporal patterns of WEI8 and revealed that local auxIn biosynthesis and transport act synergistically and are individually dispensable for root meristem maintenance. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries, ORCID
Added: November 26, 2018

2018 journal article

Microtubule-Dependent Confinement of a Cell Signaling and Actin Polymerization Control Module Regulates Polarized Cell Growth

Current Biology, 28(15), 2459–2466.e4.

MeSH headings : Actins / chemistry; Arabidopsis / physiology; Arabidopsis Proteins / metabolism; Cell Cycle / physiology; Microtubules / physiology; Polymerization; Signal Transduction
TL;DR: The data provide a useful model for cell-shape control, in which a GEF, actin filament nucleation complexes, microtubules, and the cell wall function as interacting systems that dynamically pattern polarized growth in leaf epidermal cells. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Crossref, NC State University Libraries
Added: January 25, 2020

2017 article

Transcriptomic Analysis in Strawberry Fruits Reveals Active Auxin Biosynthesis and Signaling in the Ripe Receptacle (vol 8, pg 889, 2017)

Estrada-Johnson, E., Csukasi, F., Pizarro, C. M., Vallarino, J. G., Kiryakova, Y., Vioque, A., … Valpuesta, V. (2017, July 24). FRONTIERS IN PLANT SCIENCE, Vol. 8.

By: E. Estrada-Johnson*, F. Csukasi*, C. Pizarro*, J. Vallarino*, Y. Kiryakova*, A. Vioque*, C. Merchante*, J. Brumos n ...

author keywords: auxin; fruit; strawberry; transcriptome regulation; ripening
TL;DR: This paper presents a meta-analyses of the determinants of infectious disease in eight operation theatres of the immune system and three of them are confirmed to be immune-to-inflammatory bowel diseases. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2017 journal article

Transcriptomic analysis in strawberry fruits reveals active auxin biosynthesis and signaling in the ripe receptacle

Frontiers in Plant Science, 8.

By: E. Estrada-Johnson, F. Csukasi, C. Pizarro, J. Vallarino, Y. Kiryakova, A. Vioque, J. Brumos, N. Medina-Escobar ...

Source: NC State University Libraries
Added: August 6, 2018

2017 journal article

Translation regulation in plants: an interesting past, an exciting present and a promising future

PLANT JOURNAL, 90(4), 628–653.

author keywords: translation; upstream open reading frames; internal ribosomal entry sites; gene-specific translation; global regulation of translation; RNA-binding protein
MeSH headings : Gene Expression Regulation / genetics; Gene Expression Regulation / physiology; Open Reading Frames / genetics; Plants / genetics; Plants / metabolism; Protein Biosynthesis / genetics; Protein Biosynthesis / physiology; RNA, Plant / genetics; RNA, Plant / metabolism; Ribosomes / genetics; Ribosomes / metabolism
TL;DR: The use of high-throughput approaches to map and quantify different critical parameters affecting translation, such as RNA structure, protein-RNA interactions and ribosome occupancy at the genome level, holds the promise to decipher the likely complex and diverse, but also fascinating, mechanisms behind the regulation of translation. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, NC State University Libraries, ORCID
Added: August 6, 2018

2017 report

Translation regulation of uORFs-containing genes in Arabidopsis

By: C. Merchante, J. Yun, V. Valpuesta-Fernandez, A. Stepanova & J. Alonso

Source: NC State University Libraries
Added: October 14, 2021

2016 review

50 years of Arabidopsis research: Highlights and future directions

[Review of ]. New Phytologist, 209(3), 921–944.

By: N. Provart, J. Alonso, S. Assmann, D. Bergmann, S. Brady, J. Brkljacic, J. Browse, C. Chapple ...

Source: NC State University Libraries
Added: August 6, 2018

2016 journal article

A Ribosome Footprinting Protocol for Plants

BIO-PROTOCOL, 6(21).

By: C. Merchante, Q. Hu, S. Heber, J. Alonso & A. Stepanova

TL;DR: This protocol is able to successfully isolate and analyze high-quality ribosomal footprints from different stages of in vitro grown Arabidopsis thaliana plants (dark-grown seedlings and 13-day-old plantlets in plates and plants grown in liquid culture [unpublished results]). (via Semantic Scholar)
Sources: Crossref, NC State University Libraries
Added: October 10, 2021

2016 article

Auxin catabolism unplugged: Role of IAA oxidation in auxin homeostasis

Stepanova, A. N., & Alonso, J. M. (2016, September 27). PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, Vol. 113, pp. 10742–10744.

Contributors: A. Stepanova n & J. Alonso n

MeSH headings : Arabidopsis / metabolism; Arabidopsis Proteins / metabolism; Genes, Plant; Homeostasis; Indoleacetic Acids / metabolism
TL;DR: The recent identification of a rice 2-oxoglutarate-dependent-Fe(II) dioxygenase, originally linked to male fertility in rice and capable of oxidizing IAA into oxIAA, has opened new avenues for addressing the physiological significance of auxin catabolism in plant growth and development. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries, ORCID
Added: August 6, 2018

2016 article

Cutting Out the Middle Man in Light-Hormone Interactions

Stepanova, A. N., & Alonso, J. M. (2016, December 5). DEVELOPMENTAL CELL, Vol. 39, pp. 524–526.

Contributors: A. Stepanova n & J. Alonso n

MeSH headings : Arabidopsis / metabolism; Arabidopsis Proteins / genetics; Ethylenes / metabolism; Gene Expression Regulation, Plant; Nuclear Proteins / genetics; Transcription Factors / genetics
TL;DR: Findings provide a paradigm for crosstalk between light and hormone signaling pathways in red-light-activated phytochrome B by bringing the F-box proteins EBF1 and 2 to the complex. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries, ORCID
Added: August 6, 2018

2016 journal article

Genome-wide search for translated upstream open reading frames in Arabidopsis thaliana

IEEE Transactions on Nanobioscience, 15(2), 150–159.

By: Q. Hu, C. Merchante, A. Stepanova, J. Alonso & S. Heber

Source: NC State University Libraries
Added: August 6, 2018

2016 report

Hormone-Mediated Gene-Specific Translation Regulation

http://hdl.handle.net/10630/11885

By: C. Merchante, J. Brumós, J. Yun, A. Stepanova & J. Alonso

Source: NC State University Libraries
Added: October 14, 2021

2015 journal article

A Recombineering-based gene tagging system for Arabidopsis

Bacterial Artificial Chromosomes, 2nd Edition, 1227, 233–243.

By: J. Alonso & A. Stepanova

Source: NC State University Libraries
Added: August 6, 2018

2015 chapter

A Stacking-Based Approach to Identify Translated Upstream Open Reading Frames in Arabidopsis Thaliana

In Bioinformatics Research and Applications (Vol. 9096, pp. 138–149).

author keywords: uORF; Translation; Ribosome footprinting; Stacking; Classification; Arabidopsis thaliana
TL;DR: This paper uses ribosome footprinting together with a stacking-based classification approach to identify translated uORFs in Arabidopsis thaliana, resulting in a set of 5360 potentially translated u ORFs in 2051 genes. (via Semantic Scholar)
UN Sustainable Development Goal Categories
4. Quality Education (OpenAlex)
Sources: Crossref, ORCID, NC State University Libraries
Added: December 19, 2019

2015 conference paper

A stacking-based approach to identify translated upstream open reading frames in Arabidopsis thaliana

Bioinformatics research and applications (isbra 2015), 9096, 138–149.

By: Q. Hu, C. Merchante, A. Stepanova, J. Alonso & S. Heber

Source: NC State University Libraries
Added: August 6, 2018

2015 journal article

Auxin Influx Carriers Control Vascular Patterning and Xylem Differentiation in Arabidopsis thaliana

PLOS GENETICS, 11(4).

MeSH headings : Arabidopsis / genetics; Arabidopsis / growth & development; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Cell Differentiation / genetics; Gene Expression Regulation, Plant; Indoleacetic Acids; Membrane Transport Proteins / genetics; Membrane Transport Proteins / metabolism; Plant Development / genetics; Plant Shoots / genetics; Plant Shoots / growth & development; Xylem / genetics; Xylem / growth & development
TL;DR: The theoretical analysis predicts that influx carriers facilitate periodic patterning and modulate the periodicity of auxin maxima and computational simulations propose a role for extracellular auxin as an inhibitor of xylem differentiation. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2015 journal article

Bird and Scarecrow proteins organize tissue formation in Arabidopsis roots

Science, 350(6259), 426–430.

MeSH headings : Arabidopsis / cytology; Arabidopsis / genetics; Arabidopsis / growth & development; Arabidopsis Proteins / metabolism; Cell Division / genetics; Cell Lineage / genetics; Gene Expression Regulation, Plant; Plant Roots / cytology; Plant Roots / genetics; Plant Roots / growth & development; Transcription Factors / metabolism; Transcription, Genetic
TL;DR: It is shown that the BIRDs and SCARECROW regulate lineage identity, positional signals, patterning, and formative divisions throughout Arabidopsis root growth, ensuring developmental plasticity. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
15. Life on Land (OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

2015 journal article

CESA TRAFFICKING INHIBITOR Inhibits Cellulose Deposition and Interferes with the Trafficking of Cellulose Synthase Complexes and Their Associated Proteins KORRIGAN1 and POM2/CELLULOSE SYNTHASE INTERACTIVE PROTEIN

Plant Physiology, 167(2), 381–393.

By: N. Worden*, T. Wilkop*, V. Esteve*, R. Jeannotte*, R. Lathe*, S. Vernhettes*, B. Weimer*, G. Hicks* ...

MeSH headings : Anisotropy; Arabidopsis / cytology; Arabidopsis / enzymology; Arabidopsis / growth & development; Arabidopsis / metabolism; Arabidopsis Proteins / metabolism; Benzamides / pharmacology; Carrier Proteins / metabolism; Cell Compartmentation / drug effects; Cell Membrane / drug effects; Cell Membrane / metabolism; Cellulase / metabolism; Cellulose / metabolism; Dinitrobenzenes / pharmacology; Enzyme Inhibitors / pharmacology; Glucose / metabolism; Glucosyltransferases / metabolism; Green Fluorescent Proteins / metabolism; Hypocotyl / drug effects; Hypocotyl / metabolism; Membrane Proteins / metabolism; Microtubules / drug effects; Microtubules / metabolism; Multiprotein Complexes / metabolism; Protein Transport / drug effects; Sulfanilamides / pharmacology
TL;DR: A unique small molecule, CESA TRAFFICKING INHIBITOR (CESTRIN), which reduces cellulose content and alters the anisotropic growth of Arabidopsis hypocotyls and afford unique avenues to study and understand the mechanism under which PM-associated CSCs are maintained and interact with MTs and to dissect their trafficking routes in etiolated hypocotYLs. (via Semantic Scholar)
Sources: Crossref, NC State University Libraries
Added: October 9, 2021

2015 journal article

Gene-Specific Translation Regulation Mediated by the Hormone-Signaling Molecule EIN2

CELL, 163(3), 684–697.

MeSH headings : 3' Untranslated Regions; Arabidopsis / genetics; Arabidopsis / metabolism; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; DNA-Binding Proteins; Ethylenes / metabolism; F-Box Proteins / genetics; Gene Expression Regulation, Plant; Nuclear Proteins / metabolism; Protein Biosynthesis; RNA, Messenger / metabolism; Receptors, Cell Surface / metabolism; Ribosomes / metabolism; Signal Transduction; Transcription Factors / metabolism
TL;DR: Characterization of one of the targets of this translation regulatory machinery, the ethylene signaling component EBF2, indicates that the signaling molecule EIN2 and the nonsense-mediated decay proteins UPFs play a central role in this ethylene-induced translational response. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries, ORCID
Added: August 6, 2018

2015 conference paper

Mining transcript features related to translation in Arabidopsis using LASSO and random forest

International conference on computational advances in bio and medical.

TL;DR: It is found that the contribution of features may be different for transcripts belonging to different functional groups, suggesting that transcripts might employ different mechanisms for the regulation of translation. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Sources: NC State University Libraries, NC State University Libraries, ORCID
Added: August 6, 2018

2015 journal article

Plant functional genomics methods and protocols second edition preface

Plant Functional Genomics: Methods and Protocols, 2nd Edition, 1284, V-.

By: J. Alonso & A. Stepanova

Source: NC State University Libraries
Added: August 6, 2018

2015 book

Plant functional genomics: Methods and protocols

In J. M. Alonso & A. N. Stepanova (Eds.), Plant Functional Genomics: Methods and Protocols: Second Edition (2nd ed., pp. 1–526).

By: J. Alonso & A. Stepanova*

Contributors: J. Alonso & A. Stepanova*

Ed(s): J. Alonso & A. Stepanova*

TL;DR: This chapter describes an approach to map chromatin features in specifi c cell types of Arabidopsis thaliana using nuclei purifi cation from individual cell types with the INTACT method followed by chromatin immunoprecipitation and high-throughput sequencing (ChIP-seq). (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries, ORCID
Added: August 6, 2018

2015 journal article

Regulator of bulb biogenesis1 (RBB1) is involved in vacuole bulb formation in arabidopsis

PLoS One, 10(4), e0125621.

Ed(s): D. Bassham

TL;DR: It is proposed that the bulbs may function transiently to accommodate membranes and proteins when transvacuolar strands fail to elongate, and it is shown that RBB1 corresponds to a very large protein of unknown function that is specific to plants, is present in the cytosol, and may associate with cellular membranes. (via Semantic Scholar)
Sources: NC State University Libraries, NC State University Libraries, ORCID
Added: August 6, 2018

2014 chapter

Arabidopsis Transformation with Large Bacterial Artificial Chromosomes

In Arabidopsis Protocols (pp. 271–283).

By: J. Alonso & A. Stepanova

Contributors: J. Alonso & A. Stepanova

Source: ORCID
Added: December 19, 2019

2014 journal article

Genetic aspects of auxin biosynthesis and its regulation

PHYSIOLOGIA PLANTARUM, 151(1), 3–12.

MeSH headings : Arabidopsis / enzymology; Arabidopsis / genetics; Arabidopsis / metabolism; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Indoleacetic Acids / metabolism; Mixed Function Oxygenases / genetics; Mixed Function Oxygenases / metabolism; Plants / enzymology; Plants / genetics; Plants / metabolism; Tryptophan Transaminase / genetics; Tryptophan Transaminase / metabolism
TL;DR: A genetic perspective is taken to describe the current view of auxin biosynthesis and its regulation in plants, focusing primarily on Arabidopsis. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2014 journal article

Systems analysis of auxin transport in the arabidopsis root apex

Plant Cell, 26(3), 862–875.

By: L. Band, D. Wells, J. Fozard, T. Ghetiu, A. French, M. Pound, M. Wilson, L. Yu ...

Source: NC State University Libraries
Added: August 6, 2018

2014 journal article

The Arabidopsis 14-3-3 Protein RARE COLD INDUCIBLE 1A Links Low-Temperature Response and Ethylene Biosynthesis to Regulate Freezing Tolerance and Cold Acclimation  

The Plant Cell, 26(8), 3326–3342.

MeSH headings : 14-3-3 Proteins / genetics; 14-3-3 Proteins / metabolism; 14-3-3 Proteins / physiology; Acclimatization / genetics; Arabidopsis / genetics; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Arabidopsis Proteins / physiology; Cold Temperature; Freezing; Gene Expression Regulation, Plant; Stress, Physiological
TL;DR: The results demonstrate that RCI1A functions as a negative regulator of constitutive freezing tolerance and cold acclimation in Arabidopsis thaliana by controlling cold-induced gene expression and shows that these levels are required to promote proper cold- induced geneexpression and freezing tolerance before and after cold Acclimation. (via Semantic Scholar)
Sources: Crossref, NC State University Libraries
Added: October 9, 2021

2013 journal article

Arabidopsis SABRE and CLASP interact to stabilize cell division plane orientation and planar polarity

NATURE COMMUNICATIONS, 4.

By: S. Pietra*, A. Gustavsson*, C. Kiefer*, L. Kalmbach*, P. Horstedt*, Y. Ikeda*, A. Stepanova n, J. Alonso n, M. Grebe*

Contributors: S. Pietra*, A. Gustavsson*, C. Kiefer*, L. Kalmbach*, P. Hörstedt*, Y. Ikeda*, A. Stepanova n, J. Alonso n, M. Grebe*

MeSH headings : Alleles; Amino Acid Sequence; Arabidopsis / cytology; Arabidopsis / physiology; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Base Sequence; Cell Division / physiology; Cell Polarity / physiology; Chromosomes, Plant; Gene Expression Regulation, Plant / physiology; Intracellular Signaling Peptides and Proteins / genetics; Intracellular Signaling Peptides and Proteins / metabolism; Microtubule-Associated Proteins / genetics; Microtubule-Associated Proteins / metabolism; Phylogeny
TL;DR: It is demonstrated in Arabidopsis thaliana that the SABRE protein is important for mediating cell and planar polarity by stabilizing the orientation of microtubules during cell division and cell elongation. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2013 review

Ethylene signaling: simple ligand, complex regulation

[Review of ]. CURRENT OPINION IN PLANT BIOLOGY, 16(5), 554–560.

MeSH headings : Arabidopsis / genetics; Arabidopsis / physiology; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Ethylenes / metabolism; Gene Expression Regulation, Plant; Gene Regulatory Networks; Models, Biological; Plant Growth Regulators / metabolism; Protein Kinases / genetics; Protein Kinases / metabolism; Receptors, Cell Surface / genetics; Receptors, Cell Surface / metabolism; Signal Transduction
TL;DR: This review describes the most current outlook on ethylene signal transduction and emphasizes the latest discoveries in the ethylene field that shed light on the mechanistic mode of action of the central pathway components CTR1 and EIN2, as well as on the post-transcriptional regulatory steps that modulate the signaling flow through the pathway. (via Semantic Scholar)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2013 journal article

Functional Characterization of Type-B Response Regulators in the Arabidopsis Cytokinin Response    

Plant Physiology, 162(1), 212–224.

By: K. Hill*, D. Mathews*, H. Kim*, I. Street*, S. Wildes*, Y. Chiang*, M. Mason*, J. Alonso* ...

MeSH headings : Arabidopsis / drug effects; Arabidopsis / genetics; Arabidopsis / metabolism; Arabidopsis / physiology; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Cytokinins / metabolism; Gene Expression Regulation, Plant; Multigene Family; Mutagenesis, Insertional; Phenotype; Plant Growth Regulators / metabolism; Plant Roots / genetics; Plant Roots / growth & development; Plant Roots / metabolism; Plants, Genetically Modified; RNA, Plant / genetics; Regulatory Sequences, Nucleic Acid; Seedlings / genetics; Seedlings / growth & development; Seedlings / metabolism; Signal Transduction / physiology; Transcription Factors / genetics; Transcription Factors / metabolism; Transgenes
TL;DR: The results indicate that type-B ARR expression profiles in the plant, along with posttranscriptional regulation, play significant roles in modulating their contribution to cytokinin signaling. (via Semantic Scholar)
UN Sustainable Development Goal Categories
15. Life on Land (OpenAlex)
Sources: Crossref, NC State University Libraries
Added: October 9, 2021

2013 journal article

Kinetic analysis of Arabidopsis glucosyltransferase UGT74B1 illustrates a general mechanism by which enzymes can escape product inhibition

BIOCHEMICAL JOURNAL, 450(1), 37–46.

By: J. Kopycki*, E. Wieduwild*, J. Kohlschmidt*, W. Brandt*, A. Stepanova n, J. Alonso n, M. Pedras*, S. Abel*, C. Grubb*

Contributors: J. Kopycki*, E. Wieduwild*, J. Kohlschmidt*, W. Brandt*, A. Stepanova n, J. Alonso n, M. Pedras*, S. Abel*, C. Grubb*

author keywords: glucosinolate; glycosyltransferase; ordered binding; product inhibition; UDP-glycosyltransferase (UGT)
MeSH headings : Arabidopsis / enzymology; Arabidopsis / genetics; Arabidopsis Proteins / chemistry; Arabidopsis Proteins / metabolism; Genome, Plant; Glucosyltransferases / chemistry; Glucosyltransferases / metabolism; Kinetics; Leucine / genetics; Leucine / metabolism; Models, Molecular; Mutation; Phenotype; Plants, Genetically Modified; Serine / genetics; Serine / metabolism; Substrate Specificity; Uridine Diphosphate Glucose / metabolism
TL;DR: It is found that mutation of the highly conserved Ser284 to leucine [wei9-1 (weak ethylene insensitive)] caused only very mild morphological and metabolic phenotypes, in dramatic contrast with knockout mutants, indicating that steady state glucosinolate levels are actively regulated even in unchallenged plants. (via Semantic Scholar)
UN Sustainable Development Goal Categories
Sources: Web Of Science, NC State University Libraries, ORCID
Added: August 6, 2018

2013 journal article

Local Auxin Sources Orient the Apical-Basal Axis in Arabidopsis Embryos

CURRENT BIOLOGY, 23(24), 2506–2512.

MeSH headings : Arabidopsis / embryology; Arabidopsis Proteins / metabolism; Body Patterning / drug effects; Indoleacetic Acids / metabolism; Indoleacetic Acids / pharmacology; Membrane Transport Proteins / metabolism; Plant Growth Regulators / metabolism; Plant Growth Regulators / pharmacology; Plant Growth Regulators / physiology; Protein Transport; Seeds / drug effects; Seeds / growth & development
TL;DR: The tight spatiotemporal control of distinct local auxin sources provides a necessary, non-cell-autonomous trigger for the coordinated cell polarization and subsequent apical-basal axis orientation during embryogenesis and, presumably, also for other polarization events during postembryonic plant life. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2013 journal article

Molecular Mechanisms of EthyleneAuxin Interaction

MOLECULAR PLANT, 6(6), 1734–1737.

Contributors: L. Robles n, A. Stepanova n & J. Alonso n

MeSH headings : Ethylenes / metabolism; Indoleacetic Acids / metabolism; Plant Growth Regulators / metabolism; RNA Processing, Post-Transcriptional; Transcription, Genetic
TL;DR: This work has uncovered how these molecules are sensed by the plant cell and how they trigger signaling cascades that relay information to the nucleus, ultimately culminating in a transcriptional cascade. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2013 journal article

Molecular mechanisms of ethylene–auxin interactions

Molecular Plant, sst113.

By: L. Robles, A. Stepanova & J. Alonso

Contributors: L. Robles, A. Stepanova & J. Alonso

Source: ORCID
Added: December 19, 2019

2012 journal article

AUX/LAX genes encode a family of auxin influx transporters that perform distinct functions during Arabidopsis development

The Plant Cell Online, 24(7), 2874–2885.

By: B. Péret*, K. Swarup*, A. Ferguson*, M. Seth*, Y. Yang*, S. Dhondt*, N. James*, I. Casimiro*, P. Perry*, A. Syed*

Contributors: B. Péret*, K. Swarup*, A. Ferguson*, M. Seth*, Y. Yang*, S. Dhondt*, N. James*, I. Casimiro*, P. Perry*, A. Syed*

MeSH headings : Arabidopsis / cytology; Arabidopsis / genetics; Arabidopsis / growth & development; Arabidopsis / metabolism; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Biological Transport; Body Patterning; Cotyledon / cytology; Cotyledon / genetics; Cotyledon / growth & development; Cotyledon / metabolism; Gene Knockout Techniques; Indoleacetic Acids / metabolism; Membrane Transport Proteins / genetics; Membrane Transport Proteins / metabolism; Multigene Family; Mutagenesis, Insertional; Phenotype; Plant Roots / cytology; Plant Roots / genetics; Plant Roots / growth & development; Plant Roots / metabolism; Plant Vascular Bundle / cytology; Plant Vascular Bundle / genetics; Plant Vascular Bundle / growth & development; Plant Vascular Bundle / metabolism; Plants, Genetically Modified; Seedlings / cytology; Seedlings / genetics; Seedlings / growth & development; Seedlings / metabolism
TL;DR: It is reported that LAX2 regulates vascular patterning in cotyledons and is concluded that Arabidopsis AUX/LAX genes encode a family of auxin influx transporters that perform distinct developmental functions and have evolved distinct regulatory mechanisms. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Source: ORCID
Added: December 19, 2019

2012 journal article

AUX/LAX genes encode a family of auxin influx transporters that perform distinct functions during arabidopsis development

Plant Cell, 24(7), 2874–2885.

By: B. Peret, K. Swarup, A. Ferguson, M. Seth, Y. Yang, S. Dhondt, N. James, I. Casimiro ...

Source: NC State University Libraries
Added: August 6, 2018

2011 journal article

A Small-Molecule Screen Identifies l-Kynurenine as a Competitive Inhibitor of TAA1/TAR Activity in Ethylene-Directed Auxin Biosynthesis and Root Growth in Arabidopsis

The Plant Cell, 23(11), 3944–3960.

By: W. He*, J. Brumos n, H. Li*, Y. Ji*, M. Ke*, X. Gong*, Q. Zeng*, W. Li* ...

Contributors: W. He*, J. Brumos n, H. Li*, Y. Ji*, M. Ke*, X. Gong*, Q. Zeng*, W. Li*, X. Zhang*, F. An*

MeSH headings : Arabidopsis / drug effects; Arabidopsis / growth & development; Arabidopsis / metabolism; Arabidopsis Proteins / metabolism; Cell Nucleus / metabolism; DNA-Binding Proteins; Enzyme Inhibitors / pharmacology; Ethylenes / metabolism; Ethylenes / pharmacology; F-Box Proteins / metabolism; Indoleacetic Acids / metabolism; Indoleacetic Acids / pharmacology; Kynurenine / chemistry; Kynurenine / metabolism; Kynurenine / pharmacology; Models, Molecular; Nuclear Proteins / metabolism; Plant Roots / drug effects; Plant Roots / growth & development; Plant Roots / metabolism; Small Molecule Libraries; Transcription Factors / metabolism; Tryptophan Transaminase / antagonists & inhibitors; Tryptophan Transaminase / genetics; Tryptophan Transaminase / metabolism
TL;DR: This work identifies a small molecule, l-kynurenine (Kyn), which effectively inhibited ethylene responses in Arabidopsis thaliana root tissues and describes a previously undiscovered positive feedback loop between auxin biosynthesis and ethylene signaling pathways in roots. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries, Crossref
Added: August 6, 2018

2011 journal article

A recombineering-based gene tagging system for Arabidopsis

PLANT JOURNAL, 66(4), 712–723.

Contributors: R. Zhou n, L. Benavente n, A. Stepanova n & J. Alonso n

author keywords: Arabidopsis; recombineering; Aux; IAA; gene tagging; fluorescent; proteins
MeSH headings : Agrobacterium tumefaciens / genetics; Agrobacterium tumefaciens / metabolism; Arabidopsis / genetics; Arabidopsis / metabolism; Chromosomes, Artificial, Bacterial / genetics; DNA Primers / genetics; Escherichia coli; Gene Expression Profiling / methods; Genetic Engineering / methods; Genetic Vectors; Green Fluorescent Proteins / metabolism; Plants, Genetically Modified / genetics; Plants, Genetically Modified / metabolism; Point Mutation; Recombination, Genetic
TL;DR: It is suggested that recombineering-based gene tagging should be the gold standard for gene expression studies in Arabidopsis because it has several advantages compared to other classical strategies. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2011 article

Bypassing Transcription: A Shortcut in Cytokinin-Auxin Interactions

Stepanova, A. N., & Alonso, J. M. (2011, October 18). DEVELOPMENTAL CELL, Vol. 21, pp. 608–610.

Contributors: A. Stepanova n & J. Alonso n

TL;DR: A transcription-independent molecular mechanism of interaction between auxin and cytokinin in the regulation of plant meristem function is uncovered by modulating endocytic trafficking of PIN1, which controls auxin flux and, therefore, auxin gradients. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2011 journal article

The Arabidopsis YUCCA1 Flavin Monooxygenase Functions in the Indole-3-Pyruvic Acid Branch of Auxin Biosynthesis

PLANT CELL, 23(11), 3961–3973.

MeSH headings : Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Cytochrome P-450 Enzyme System / genetics; Cytochrome P-450 Enzyme System / metabolism; Gene Knockdown Techniques; Indoleacetic Acids / metabolism; Indoles / metabolism; Oxygenases / genetics; Oxygenases / metabolism; Tryptophan Transaminase / genetics; Tryptophan Transaminase / metabolism
TL;DR: Results strongly suggest that the enzymatic reactions involved in indole-3-acetic acid (IAA) production via IPyA are different than those previously postulated, and a new and testable model for how IAA is produced in plants is needed. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2009 journal article

A combinatorial interplay among the 1-aminocyclopropane-1-carboxylate isoforms regulates ethylene biosynthesis in Arabidopsis thaliana

Genetics, 183(3), 979–1003.

By: A. Tsuchisaka*, G. Yu*, H. Jin*, J. Alonso*, J. Ecker*, X. Zhang*, S. Gao*, A. Theologis*

Contributors: A. Tsuchisaka*, G. Yu*, H. Jin*, J. Alonso*, J. Ecker*, X. Zhang*, S. Gao*, A. Theologis*

MeSH headings : Amino Acids, Cyclic / metabolism; Arabidopsis / genetics; Arabidopsis / growth & development; Arabidopsis / metabolism; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Epistasis, Genetic; Ethylenes / biosynthesis; Flowers / genetics; Flowers / growth & development; Flowers / metabolism; Gene Expression Profiling; Gene Expression Regulation, Developmental; Gene Expression Regulation, Enzymologic; Gene Expression Regulation, Plant; Genetic Complementation Test; Genome, Plant / genetics; Isoenzymes / genetics; Isoenzymes / metabolism; Lyases / genetics; Lyases / metabolism; Mutation; Plant Diseases / genetics; Plant Diseases / microbiology; Plants, Genetically Modified; Reverse Transcriptase Polymerase Chain Reaction; S-Adenosylmethionine / metabolism; Time Factors
TL;DR: The lethality of the null ACS mutant contrasts with the viability of null mutations in key components of the ethylene signaling apparatus, strongly supporting the view that ACC, the precursor of ethylene, is a primary regulator of plant growth and development. (via Semantic Scholar)
Source: ORCID
Added: December 19, 2019

2009 review

Ethylene signaling and response: where different regulatory modules meet

[Review of ]. CURRENT OPINION IN PLANT BIOLOGY, 12(5), 548–555.

Contributors: A. Stepanova n & J. Alonso n

MeSH headings : Ethylenes / metabolism; Gene Expression Regulation, Plant; Indoleacetic Acids / metabolism; Plant Development; Plant Growth Regulators / metabolism; Plant Proteins / metabolism; Plants / metabolism; Receptors, Cell Surface / metabolism; Signal Transduction
TL;DR: Tissue-specific regulation of auxin biosynthesis, transport, and response by ethylene is emerging as a key element in this signal integration process. (via Semantic Scholar)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2009 journal article

Local auxin biosynthesis modulates gradient-directed planar polarity in Arabidopsis

NATURE CELL BIOLOGY, 11(6), 731–U70.

MeSH headings : Animals; Arabidopsis / anatomy & histology; Arabidopsis / metabolism; Arabidopsis Proteins / biosynthesis; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Cell Polarity; Genes, Reporter; Morphogenesis / physiology; Mutation; Plant Roots / cytology; Plant Roots / growth & development; Plants, Genetically Modified; Protein Kinases / genetics; Protein Kinases / metabolism; Recombinant Fusion Proteins / genetics; Recombinant Fusion Proteins / metabolism
TL;DR: It is demonstrated that the Raf-like kinase CONSTITUTIVE TRIPLE RESPONSE1 (CTR1) acts as a concentration-dependent repressor of a biosynthesis-dependent auxin gradient that modulates planar polarity in the root tip that contributes to gradient homeostasis during long-range coordination of cellular morphogenesis. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2008 journal article

Potential sites of bioactive gibberellin production during reproductive growth in Arabidopsis

The Plant Cell Online, 20(2), 320–336.

By: J. Hu*, M. Mitchum*, N. Barnaby*, B. Ayele, M. Ogawa*, E. Nam*, W. Lai*, A. Hanada, J. Alonso*, J. Ecker*

Contributors: J. Hu*, M. Mitchum*, N. Barnaby*, B. Ayele, M. Ogawa*, E. Nam*, W. Lai*, A. Hanada, J. Alonso*, J. Ecker*

MeSH headings : Arabidopsis / genetics; Arabidopsis / growth & development; Arabidopsis / metabolism; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Flowers / genetics; Flowers / growth & development; Flowers / metabolism; Gene Expression Regulation, Developmental; Gene Expression Regulation, Plant; Gibberellins / biosynthesis; Mixed Function Oxygenases / genetics; Mixed Function Oxygenases / metabolism; Mutation; Plants, Genetically Modified; Reverse Transcriptase Polymerase Chain Reaction; Seeds / genetics; Seeds / metabolism
TL;DR: The data suggest that de novo synthesis of active GAs is necessary for stamen development in early flowers and that bioactive GAs made in the stamens and/or flower receptacles are transported to petals to promote their growth. (via Semantic Scholar)
Source: ORCID
Added: December 19, 2019

2008 journal article

TAA1-Mediated Auxin Biosynthesis Is Essential for Hormone Crosstalk and Plant Development

Cell, 133(1), 177–191.

By: A. Stepanova n, J. Robertson-Hoyt n, J. Yun n, L. Benavente n, D. Xie n, K. Doležal*, A. Schlereth*, G. Jürgens*, J. Alonso n

Contributors: A. Stepanova n, J. Robertson-Hoyt n, J. Yun n, L. Benavente n, D. Xie n, K. Doležal*, A. Schlereth*, G. Jürgens*, J. Alonso n

MeSH headings : Amino Acid Sequence; Arabidopsis / drug effects; Arabidopsis / embryology; Arabidopsis / genetics; Arabidopsis / metabolism; Biosynthetic Pathways; Ethylenes / pharmacology; Indoleacetic Acids / metabolism; Indoles / metabolism; Molecular Sequence Data; Mutation; Plant Roots / drug effects; Seedlings / metabolism; Sequence Alignment; Tryptophan Transaminase / chemistry; Tryptophan Transaminase / genetics; Tryptophan Transaminase / metabolism
TL;DR: By characterizing the Arabidopsis wei8 mutant, it is found that a small family of genes mediates tissue-specific responses to ethylene, and the IPA route of auxin production is key to generating robust auxin gradients in response to environmental and developmental cues. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries, Crossref
Added: August 6, 2018

2008 journal article

The Arabidopsis phytochrome-interacting factor PIF7, together with PIF3 and PIF4, regulates responses to prolonged red light by modulating phyB levels

The Plant Cell Online, 20(2), 337–352.

MeSH headings : Amino Acid Sequence; Arabidopsis / genetics; Arabidopsis / metabolism; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Basic Helix-Loop-Helix Transcription Factors / genetics; Basic Helix-Loop-Helix Transcription Factors / metabolism; Electrophoretic Mobility Shift Assay; Gene Expression Regulation, Plant / radiation effects; Immunoprecipitation; Light; Microscopy, Fluorescence; Molecular Sequence Data; Phytochrome / genetics; Phytochrome / metabolism; Phytochrome B / genetics; Phytochrome B / metabolism; Plants, Genetically Modified; Protein Binding; Seedlings / genetics; Seedlings / metabolism; Sequence Homology, Amino Acid; Two-Hybrid System Techniques
TL;DR: The role of these phyB-interacting bHLH factors in modulating seedling deetiolation in prolonged red light may not be as phy-activated signaling intermediates, as proposed previously, but as direct modulators of the abundance of the photoreceptor. (via Semantic Scholar)
Source: ORCID
Added: December 19, 2019

2007 journal article

A WD40 domain cyclophilin interacts with histone H3 and functions in gene repression and organogenesis in Arabidopsis

PLANT CELL, 19(8), 2403–2416.

MeSH headings : Arabidopsis / embryology; Arabidopsis / genetics; Arabidopsis Proteins / chemistry; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Body Patterning; Cell Nucleus / metabolism; Cyclophilins / chemistry; Cyclophilins / genetics; Cyclophilins / metabolism; Flowers / anatomy & histology; Gene Expression Regulation, Plant; Genes, Homeobox; Histones / metabolism; Meristem / metabolism; Methylation; Mutant Proteins / isolation & purification; Mutation / genetics; Organogenesis; Plant Leaves / embryology; Plant Leaves / genetics; Plant Roots / growth & development; Protein Binding; Protein Structure, Tertiary; Protein Transport; Repressor Proteins / metabolism
TL;DR: A WD40 domain cyclophilin, CYCLOPHILIN71 (CYP71), is identified, which functions in gene repression and organogenesis in Arabidopsis thaliana and it is proposed that it serves as a highly conserved histone remodeling factor involved in chromatin-based gene silencing in eukaryotic organisms. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2007 journal article

An adapter ligation-mediated PCR method for high-throughput mapping of T-DNA inserts in the Arabidopsis genome

NATURE PROTOCOLS, 2(11), 2910–2917.

By: . Ronan C. O'Malley, J. Alonso n, C. Kim*, T. Leisse* & J. Ecker*

Contributors: . Ronan C. O'Malley, J. Alonso n, C. Kim*, T. Leisse* & J. Ecker*

MeSH headings : Arabidopsis / genetics; Chromosome Mapping / methods; DNA Primers; DNA, Bacterial / chemistry; Genome, Plant; Mutagenesis, Insertional; Polymerase Chain Reaction / methods; Sequence Analysis, DNA; Transformation, Genetic
TL;DR: This protocol describes an adapter ligation-mediated PCR method that has been used to screen a mutant library and identify over 150,000 T-DNA insertional mutants; the method can also be applied to map individual mutants. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2007 journal article

Genome-Wide High-Resolution Mapping of Exosome Substrates Reveals Hidden Features in the< i> Arabidopsis</i> Transcriptome

Genome-Wide High-Resolution Mapping of Exosome Substrates Reveals Hidden Features in the< i> Arabidopsis Transcriptome. Cell, 131(7), 1340–1353.

Contributors: J. Chekanova*, B. Gregory*, S. Reverdatto*, H. Chen*, R. Kumar*, T. Hooker*, J. Yazaki*, P. Li*, N. Skiba*, Q. Peng*

MeSH headings : Arabidopsis / genetics; Arabidopsis / metabolism; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Chromosome Mapping / methods; Exoribonucleases / genetics; Exoribonucleases / metabolism; Exosome Multienzyme Ribonuclease Complex; Gene Expression Profiling / methods; Gene Expression Regulation, Plant; Genotype; MicroRNAs / metabolism; Molecular Sequence Data; Mutation; Nuclear Proteins / metabolism; Nucleic Acid Conformation; Oligonucleotide Array Sequence Analysis; Peptide Mapping; Phenotype; Plants, Genetically Modified / metabolism; Proteomics / methods; RNA / chemistry; RNA / metabolism; RNA Interference; RNA, Messenger / metabolism; RNA, Small Interfering / metabolism; RNA, Untranslated / metabolism; Tandem Mass Spectrometry
TL;DR: It is demonstrated that as opposed to yeast and metazoans the plant exosome core possesses an unanticipated functional plasticity and a genome-wide atlas of Arabidopsis exosomes targets is presented, which will aid in illuminating new fundamental components and regulatory mechanisms of eukaryotic transcriptomes. (via Semantic Scholar)
Source: ORCID
Added: December 19, 2019

2007 journal article

Multilevel interactions between ethylene and auxin in Arabidopsis roots

PLANT CELL, 19(7), 2169–2185.

By: A. Stepanova n, J. Yun n, A. Likhacheva n & J. Alonso n

Contributors: A. Stepanova n, J. Yun n, A. Likhacheva n & J. Alonso n

MeSH headings : Arabidopsis / drug effects; Arabidopsis / genetics; Arabidopsis / metabolism; Arabidopsis Proteins / metabolism; Binding Sites; DNA-Binding Proteins / metabolism; Ethylenes / metabolism; Ethylenes / pharmacology; Gene Expression Profiling; Genes, Plant; Genes, Reporter; Glucuronidase / metabolism; Indoleacetic Acids / metabolism; Models, Biological; Mutation / genetics; Nuclear Proteins / metabolism; Oligonucleotide Array Sequence Analysis; Plant Roots / drug effects; Plant Roots / enzymology; Plant Roots / growth & development; Plant Roots / metabolism; Promoter Regions, Genetic / genetics; Reverse Transcriptase Polymerase Chain Reaction; Transcription Factors / metabolism
TL;DR: Analysis of the morphological effects of ethylene and auxin in a variety of mutant backgrounds indicates that auxin biosynthesis, transport, signaling, and response are required for the ethylene-induced growth inhibition in roots but not in hypocotyls of dark-grown seedlings, and suggests a simple mechanistic model for the interaction between these two hormones in roots. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
15. Life on Land (OpenAlex)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2006 journal article

CDPKs CPK6 and CPK3 function in ABA regulation of guard cell S-type anion-and Ca2+-permeable channels and stomatal closure

PLoS Biology, 4(10), e327.

By: I. Mori, Y. Murata, Y. Yang, S. Munemasa, Y. Wang, S. Andreoli, H. Tiriac, J. Alonso, J. Harper, J. Ecker

Contributors: I. Mori, Y. Murata, Y. Yang, S. Munemasa, Y. Wang, S. Andreoli, H. Tiriac, J. Alonso, J. Harper, J. Ecker

Source: ORCID
Added: December 19, 2019

2006 journal article

Downregulation of ClpR2 leads to reduced accumulation of the ClpPRS protease complex and defects in chloroplast biogenesis in Arabidopsis

PLANT CELL, 18(7), 1704–1721.

By: A. Rudella*, G. Friso*, J. Alonso n, J. Ecker* & K. Wijk*

Contributors: A. Rudella*, G. Friso*, J. Alonso n, J. Ecker* & K. Van Wijk*

MeSH headings : Amino Acid Sequence; Arabidopsis / cytology; Arabidopsis / enzymology; Arabidopsis / physiology; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Chloroplasts / metabolism; Chloroplasts / ultrastructure; Down-Regulation; Electron Transport Chain Complex Proteins / genetics; Electron Transport Chain Complex Proteins / metabolism; Endopeptidase Clp / genetics; Endopeptidase Clp / metabolism; Gene Expression Regulation, Enzymologic; Gene Expression Regulation, Plant; Homeostasis; Molecular Chaperones / metabolism; Molecular Sequence Data; Multienzyme Complexes; Phenotype; Photoperiod; Photosystem II Protein Complex / physiology; Pigments, Biological / metabolism; Plant Leaves / metabolism; Plant Leaves / ultrastructure; Plants, Genetically Modified; Plastids / enzymology; Sequence Alignment; Starch / metabolism; Thylakoids / chemistry; Thylakoids / metabolism; Thylakoids / ultrastructure
TL;DR: It is concluded that ClpR2 cannot be functionally replaced by other ClpP/R homologues and that the ClpPRS complex is central to chloroplast biogenesis, thylakoid protein homeostasis, and plant development. (via Semantic Scholar)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2006 journal article

Localization of iron in Arabidopsis seed requires the vacuolar membrane transporter VIT1

SCIENCE, 314(5803), 1295–1298.

MeSH headings : Arabidopsis / genetics; Arabidopsis / growth & development; Arabidopsis / metabolism; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Cation Transport Proteins / genetics; Cation Transport Proteins / metabolism; Cotyledon / chemistry; Homeostasis; Hypocotyl / chemistry; Image Processing, Computer-Assisted; Intracellular Membranes / metabolism; Iron / analysis; Iron / metabolism; Manganese / analysis; Mutation; Plant Epidermis / chemistry; Plants, Genetically Modified; Recombinant Fusion Proteins / metabolism; Seedlings / growth & development; Seeds / chemistry; Seeds / metabolism; Tomography, X-Ray Computed; Vacuoles / chemistry; Vacuoles / metabolism; Zinc / analysis
TL;DR: Using synchrotron x-ray fluorescence microtomography to directly visualize iron in Arabidopsis seeds, it is shown that iron is localized primarily to the provascular strands of the embryo. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science; OpenAlex)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2006 journal article

Molecular mechanisms of ethylene signaling in Arabidopsis

Molecular BioSystems, 2(3-4), 165.

By: L. Benavente n & J. Alonso n

Contributors: L. Benavente n & J. Alonso n

MeSH headings : Arabidopsis / genetics; Arabidopsis / metabolism; Ethylenes / metabolism; Ethylenes / pharmacology; Gene Expression Regulation, Plant; Plant Proteins / chemistry; Plant Proteins / genetics; Plant Proteins / metabolism; Receptors, Cell Surface / chemistry; Receptors, Cell Surface / genetics; Receptors, Cell Surface / metabolism; Signal Transduction / drug effects; raf Kinases / metabolism
TL;DR: The ethylene signaling pathway starts with the perception of this gaseous hormone by a family of membrane-anchored receptors followed by a Raf-like kinase CTR1 that is physically associated with the receptors and actively inhibits downstream components of the pathway. (via Semantic Scholar)
Sources: Crossref, ORCID
Added: December 19, 2019

2006 journal article

Moving forward in reverse: genetic technologies to enable genome-wide phenomic screens in Arabidopsis

Nature Reviews Genetics, 7(7), 524–536.

Contributors: J. Alonso n & J. Ecker*

MeSH headings : Arabidopsis / genetics; Biotechnology / methods; Biotechnology / trends; Genome, Plant; Genomics / methods; Genomics / trends
TL;DR: The combination of classical forward genetics with recently developed genome-wide, gene-indexed mutant collections is beginning to revolutionize the way in which gene functions are studied in plants. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: NC State University Libraries, ORCID, NC State University Libraries
Added: August 6, 2018

2006 chapter

PCR-based screening for insertional mutants

In Arabidopsis Protocols (pp. 163–172).

By: A. Stepanova & J. Alonso

Contributors: A. Stepanova & J. Alonso

Source: ORCID
Added: December 19, 2019

2006 journal article

PHYTOCHROME KINASE SUBSTRATE 1 is a phototropin 1 binding protein required for phototropism

Proceedings of the National Academy of Sciences, 103(26), 10134–10139.

By: P. Lariguet*, I. Schepens*, D. Hodgson*, U. Pedmale*, M. Trevisan*, C. Kami*, M. Carbonnel*, J. Alonso*, J. Ecker*, E. Liscum*

Contributors: P. Lariguet*, I. Schepens*, D. Hodgson*, U. Pedmale*, M. Trevisan*, C. Kami*, M. Carbonnel*, J. Alonso*, J. Ecker*, E. Liscum*

author keywords: Arabidopsis thaliana; NONPHOTOTROPIC HYPOCCTYL 3; photomorphogenesis photoreceptors
MeSH headings : Arabidopsis / genetics; Arabidopsis / physiology; Arabidopsis Proteins / analysis; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Cell Membrane / chemistry; Cell Membrane / metabolism; Intracellular Signaling Peptides and Proteins / analysis; Intracellular Signaling Peptides and Proteins / genetics; Intracellular Signaling Peptides and Proteins / metabolism; Membrane Proteins / analysis; Membrane Proteins / genetics; Membrane Proteins / metabolism; Phosphoproteins / analysis; Phosphoproteins / genetics; Phosphoproteins / metabolism; Phototropism / genetics; Phytochrome A / metabolism; Protein Serine-Threonine Kinases / genetics; Protein Serine-Threonine Kinases / metabolism
TL;DR: It is shown that PKS1 induction by a pulse of blue light is phytochrome A-dependent, suggesting that the PKS proteins may provide a molecular link between these two photoreceptor families. (via Semantic Scholar)
Source: ORCID
Added: December 19, 2019

2006 journal article

RACK1 mediates multiple hormone responsiveness and developmental processes in Arabidopsis

Journal of Experimental Botany, 57(11), 2697–2708.

author keywords: Abscisic acid; auxin; brassinosteroid; flowering; gibberellin; RACK1; seed germination; signal transduction
MeSH headings : Amino Acid Sequence; Arabidopsis / drug effects; Arabidopsis / growth & development; Arabidopsis Proteins / chemistry; Arabidopsis Proteins / genetics; Arabidopsis Proteins / physiology; GTP-Binding Proteins / genetics; Gibberellins / pharmacology; Glucuronidase / analysis; Models, Molecular; Molecular Sequence Data; Mutation; Plant Growth Regulators / pharmacology; Plant Leaves / anatomy & histology; Plant Leaves / growth & development; Plant Leaves / metabolism; Plants, Genetically Modified / drug effects; Plants, Genetically Modified / growth & development; Plants, Genetically Modified / metabolism; Protein Subunits / genetics; Receptors for Activated C Kinase; Receptors, Cell Surface / chemistry; Receptors, Cell Surface / genetics; Receptors, Cell Surface / physiology; Recombinant Fusion Proteins / analysis; Sequence Alignment
TL;DR: Results provide the first genetic evidence that RACK1A is involved in multiple signal transduction pathways and mediates hormone responses and plays a regulatory role in multiple developmental processes. (via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being (OpenAlex)
Source: ORCID
Added: December 19, 2019

2006 journal article

The Arabidopsis histidine phosphotransfer proteins are redundant positive regulators of cytokinin signaling

The Plant Cell Online, 18(11), 3073–3087.

By: C. Hutchison*, J. Li*, C. Argueso*, M. Gonzalez*, E. Lee*, M. Lewis*, B. Maxwell*, T. Perdue*, G. Schaller*, J. Alonso*

Contributors: C. Hutchison*, J. Li*, C. Argueso*, M. Gonzalez*, E. Lee*, M. Lewis*, B. Maxwell*, T. Perdue*, G. Schaller*, J. Alonso*

MeSH headings : Arabidopsis / drug effects; Arabidopsis / metabolism; Arabidopsis Proteins / metabolism; Chlorophyll / metabolism; Cytokinins / metabolism; Cytokinins / pharmacology; DNA, Bacterial / metabolism; Histidine / metabolism; Hypocotyl / cytology; Hypocotyl / drug effects; Molecular Sequence Data; Mutagenesis, Insertional; Mutation / genetics; Phenotype; Phosphotransferases / metabolism; Phylogeny; Plant Roots / cytology; Plant Roots / drug effects; Plant Shoots / cytology; Plant Shoots / drug effects; Seedlings / cytology; Seedlings / drug effects; Seeds / cytology; Seeds / drug effects; Signal Transduction / drug effects
TL;DR: Most of the AHPs are redundant, positive regulators of cytokinin signaling and affect multiple aspects of plant development, including reduced fertility, increased seed size, reduced vascular development, and a shortened primary root. (via Semantic Scholar)
Source: ORCID
Added: December 19, 2019

2005 journal article

" Flagellin is not a major defense elicitor in Ralstonia solanacearum cells (vol 17, pg 696, 2005)

MOLECULAR PLANT-MICROBE INTERACTIONS, 18(9), 1024.

By: C. Pfund, J. Tans-Kersten, F. Dunning, J. Alonso, J. Ecker, C. Allen, A. Bent

Contributors: C. Pfund, J. Tans-Kersten, F. Dunning, J. Alonso, J. Ecker, C. Allen, A. Bent

Source: ORCID
Added: December 19, 2019

2005 journal article

A link between ethylene and auxin uncovered by the characterization of two root-specific ethylene-insensitive mutants in Arabidopsis

PLANT CELL, 17(8), 2230–2242.

Contributors: A. Stepanova n, J. Hoyt n, A. Hamilton n & J. Alonso n

MeSH headings : Anthranilate Synthase / genetics; Anthranilate Synthase / metabolism; Arabidopsis / genetics; Ethylenes / metabolism; Indoleacetic Acids / physiology; Mutation; Nitrogenous Group Transferases / genetics; Nitrogenous Group Transferases / metabolism; Plant Growth Regulators / physiology; Plant Roots / genetics; Plant Roots / physiology
TL;DR: It is shown that ethylene-triggered inhibition of root growth, one of the classical effects of ethylene in Arabidopsis thaliana seedlings, is mediated by the action of the WEAK ETHYLENE INSENSITIVE2/ANTHRANILATE SYNTHASE α1 and ASA1 genes that encode α- and β-subunits of a rate-limiting enzyme of Trp biosynthesis, anthranilate synthase. (via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger (Web of Science)
13. Climate Action (Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2005 journal article

An Arabidopsis NPR1-like gene, NPR4, is required for disease resistance

PLANT JOURNAL, 41(2), 304–318.

Contributors: G. Liu*, E. Holub*, J. Alonso n, J. Ecker* & P. Fobert*

author keywords: reverse genetics; PR genes; cross-talk; signaling; salicylic acid; gene family
MeSH headings : Amino Acid Sequence; Arabidopsis / genetics; Arabidopsis Proteins / genetics; Base Sequence; DNA, Bacterial / genetics; Immunity, Innate; Molecular Sequence Data; Mutagenesis, Insertional; Phylogeny; Plant Diseases / genetics; Plant Diseases / microbiology; Pseudomonas syringae / pathogenicity
TL;DR: Results indicate that NPR4 is required for basal defense against pathogens, and that it may be implicated in the cross-talk between the SA- and JA-dependent signaling pathways. (via Semantic Scholar)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2005 journal article

Arabidopsis ethylene signaling pathway

Science Signaling, 2005(276), cm4.

By: A. Stepanova & J. Alonso

Contributors: A. Stepanova & J. Alonso

Source: ORCID
Added: December 19, 2019

2005 journal article

Auxin response factors ARF6 and ARF8 promote jasmonic acid production and flower maturation

Development, 132(18), 4107–4118.

By: P. Nagpal, C. Ellis, H. Weber, S. Ploense, L. Barkawi, T. Guilfoyle, G. Hagen, J. Alonso, J. Cohen, E. Farmer

Contributors: P. Nagpal, C. Ellis, H. Weber, S. Ploense, L. Barkawi, T. Guilfoyle, G. Hagen, J. Alonso, J. Cohen, E. Farmer

Source: ORCID
Added: December 19, 2019

2005 journal article

Class III homeodomain-leucine zipper gene family members have overlapping, antagonistic, and distinct roles in Arabidopsis development

The Plant Cell Online, 17(1), 61–76.

By: M. Prigge, D. Otsuga, J. Alonso, J. Ecker, G. Drews & S. Clark

Contributors: M. Prigge, D. Otsuga, J. Alonso, J. Ecker, G. Drews & S. Clark

Source: ORCID
Added: December 19, 2019

2005 journal article

Ethylene signalling and response pathway: A unique signalling cascade with a multitude of inputs and outputs

Physiologia Plantarum, 123(2), 195–206.

By: A. Stepanova & J. Alonso

Contributors: A. Stepanova & J. Alonso

Sources: NC State University Libraries, NC State University Libraries, ORCID
Added: August 6, 2018

2005 journal article

Functional genomic analysis of the AUXIN RESPONSE FACTOR gene family members in Arabidopsis thaliana: unique and overlapping functions of ARF7 and ARF19

The Plant Cell Online, 17(2), 444–463.

By: Y. Okushima, P. Overvoorde, K. Arima, J. Alonso, A. Chan, C. Chang, J. Ecker, B. Hughes, A. Lui, D. Nguyen

Contributors: Y. Okushima, P. Overvoorde, K. Arima, J. Alonso, A. Chan, C. Chang, J. Ecker, B. Hughes, A. Lui, D. Nguyen

Source: ORCID
Added: December 19, 2019

2005 journal article

Functional genomic analysis of the AUXIN/INDOLE-3-ACETIC ACID gene family members in Arabidopsis thaliana

The Plant Cell Online, 17(12), 3282–3300.

By: P. Overvoorde, Y. Okushima, J. Alonso, A. Chan, C. Chang, J. Ecker, B. Hughes, A. Liu, C. Onodera, H. Quach

Contributors: P. Overvoorde, Y. Okushima, J. Alonso, A. Chan, C. Chang, J. Ecker, B. Hughes, A. Liu, C. Onodera, H. Quach

Source: ORCID
Added: December 19, 2019

2005 journal article

Multiple type-B response regulators mediate cytokinin signal transduction in Arabidopsis

The Plant Cell Online, 17(11), 3007–3018.

By: M. Mason, D. Mathews, D. Argyros, B. Maxwell, J. Kieber, J. Alonso, J. Ecker, G. Schaller

Contributors: M. Mason, D. Mathews, D. Argyros, B. Maxwell, J. Kieber, J. Alonso, J. Ecker, G. Schaller

Source: ORCID
Added: December 19, 2019

2005 journal article

NPH4/ARF7 and ARF19 promote leaf expansion and auxin‐induced lateral root formation

The Plant Journal, 43(1), 118–130.

By: J. Wilmoth, S. Wang, S. Tiwari, A. Joshi, G. Hagen, T. Guilfoyle, J. Alonso, J. Ecker, J. Reed

Contributors: J. Wilmoth, S. Wang, S. Tiwari, A. Joshi, G. Hagen, T. Guilfoyle, J. Alonso, J. Ecker, J. Reed

Source: ORCID
Added: December 19, 2019

2005 journal article

Phytochrome-Specific Type 5 Phosphatase Controls Light Signal Flux by Enhancing Phytochrome Stability and Affinity for a Signal Transducer

Cell, 120(3), 395–406.

By: J. Ryu*, J. Kim*, T. Kunkel*, B. Kim*, D. Cho*, S. Hong*, S. Kim*, A. Fernández* ...

MeSH headings : Arabidopsis / genetics; Arabidopsis / metabolism; Arabidopsis / radiation effects; Arabidopsis Proteins / genetics; Arabidopsis Proteins / isolation & purification; Arabidopsis Proteins / metabolism; Avena; Binding Sites / physiology; Light; Nucleoside-Diphosphate Kinase / metabolism; Phosphoprotein Phosphatases / genetics; Phosphoprotein Phosphatases / isolation & purification; Phosphoprotein Phosphatases / metabolism; Phosphorylation; Photic Stimulation; Photosynthesis / physiology; Photosynthesis / radiation effects; Phytochrome / metabolism; Phytochrome / radiation effects; Plants, Genetically Modified; Protein Structure, Tertiary / physiology; Serine / metabolism; Signal Transduction / physiology; Signal Transduction / radiation effects; Up-Regulation / physiology
TL;DR: It is found that a type 5 protein phosphatase (PAPP5) specifically dephosphorylates biologically active Pfr-phytochromes and enhances phytochrome-mediated photoresponses, and depending on the specific serine residues deph phosphorylated by PAPP5, phy tochrome stability and affinity for a downstream signal transducer, NDPK2, were enhanced. (via Semantic Scholar)
Source: Crossref
Added: September 8, 2020

2005 journal article

Phytochrome-specific type 5 phosphatase controls light signal flux by enhancing phytochrome stability and affinity for a signal transducer

Cell, 120(3), 395–406.

By: J. Ryu, J. Kim, T. Kunkel, B. Kim, D. Cho, S. Hong, S. Kim, A. Fernández, Y. Kim, J. Alonso

Contributors: J. Ryu, J. Kim, T. Kunkel, B. Kim, D. Cho, S. Hong, S. Kim, A. Fernández, Y. Kim, J. Alonso

Source: ORCID
Added: December 19, 2019

2004 journal article

A Homolog of Prokaryotic Thiol Disulfide Transporter CcdA Is Required for the Assembly of the Cytochrome b6f Complex in Arabidopsis Chloroplasts

Journal of Biological Chemistry, 279(31), 32474–32482.

By: M. Page, P. Hamel, S. Gabilly, H. Zegzouti*, J. Perea*, J. Alonso*, J. Ecker*, S. Theg*, S. Christensen*, S. Merchant

Contributors: M. Page, P. Hamel, S. Gabilly, H. Zegzouti*, J. Perea*, J. Alonso*, J. Ecker*, S. Theg*, S. Christensen*, S. Merchant

MeSH headings : Alkaline Phosphatase; Amino Acid Motifs; Arabidopsis / metabolism; Arabidopsis Proteins / chemistry; Arabidopsis Proteins / metabolism; Bacterial Proteins / chemistry; Cell Membrane / metabolism; Chloroplasts / metabolism; Cyclin-Dependent Kinases / chemistry; Cytochrome b6f Complex / metabolism; Cytochromes / chemistry; Cytochromes / metabolism; Cytochromes f / chemistry; Disulfides / chemistry; Lac Operon; Membrane Proteins / chemistry; Membrane Proteins / metabolism; Models, Genetic; Mutation; Peptides / chemistry; Photosynthesis; Plastids / metabolism; Protein Conformation; Protein Structure, Tertiary; RNA, Messenger / metabolism; Sulfhydryl Compounds; Time Factors
TL;DR: It is postulate that plastid cytochrome c maturation requires CCDA, thioredoxin HCF164, and other molecules in a membrane-associated trans-thylakoid thiol-reducing pathway. (via Semantic Scholar)
Sources: Crossref, ORCID
Added: December 19, 2019

2004 journal article

CBF2/DREB1C is a negative regulator of CBF1/DREB1B and CBF3/DREB1A expression and plays a central role in stress tolerance in Arabidopsis

Proceedings of the National Academy of Sciences, 101(11), 3985–3990.

Contributors: F. Novillo*, J. Alonso*, J. Ecker* & J. Salinas*

MeSH headings : Arabidopsis / genetics; Arabidopsis / metabolism; Arabidopsis Proteins / biosynthesis; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Cold Temperature; DNA-Binding Proteins / biosynthesis; DNA-Binding Proteins / genetics; Mutation; Time Factors; Trans-Activators / biosynthesis; Trans-Activators / genetics; Trans-Activators / metabolism; Transcription Factors
TL;DR: It is shown that cbf2 plants have higher capacity to tolerate freezing than WT ones before and after cold acclimation and are more tolerant to dehydration and salt stress and negatively regulates CBF2/DREB1C, ensuring that their expression is transient and tightly controlled. (via Semantic Scholar)
Sources: Crossref, ORCID
Added: December 19, 2019

2004 journal article

Convergence of signaling of differential cell growth pathways in the control in Arabidopsis

Developmental Cell, 7(2), 193–204.

Contributors: H. Li*, P. Johnson*, A. Stepanova*, J. Alonso* & J. Ecker*

MeSH headings : ADP-Ribosylation Factors / genetics; Alleles; Arabidopsis / genetics; Arabidopsis / physiology; Cell Division; Cloning, Molecular; Ethylenes / pharmacology; Gene Expression Regulation, Plant; Immunoblotting; In Situ Hybridization; Indoleacetic Acids / metabolism; Models, Biological; Models, Genetic; Mutagenesis; Mutation; Phenotype; Plant Proteins / physiology; Plants, Genetically Modified; Plasmids / metabolism; RNA / metabolism; Saccharomyces cerevisiae Proteins; Signal Transduction; Time Factors; Transcription, Genetic
TL;DR: It is demonstrated that both ethylene and light signals affect differential cell growth by acting through HLS1 to modulate the auxin response factors, pinpointing HLS 1 as a key integrator of the signaling pathways that control hypocotyl bending. (via Semantic Scholar)
Source: ORCID
Added: December 19, 2019

2004 journal article

DELLA proteins and gibberellin-regulated seed germination and floral development in Arabidopsis

Plant Physiology, 135(2), 1008–1019.

By: L. Tyler, S. Thomas, J. Hu, A. Dill, J. Alonso, J. Ecker, T. Sun

Contributors: L. Tyler, S. Thomas, J. Hu, A. Dill, J. Alonso, J. Ecker, T. Sun

Source: ORCID
Added: December 19, 2019

2004 journal article

Flagellin is not a major defense elicitor in Ralstonia solanacearum cells or extracts applied to Arabidopsis thaliana

MOLECULAR PLANT-MICROBE INTERACTIONS, 17(6), 696–706.

By: C. Pfund, J. Tans-Kersten, F. Dunning, J. Alonso, . Ecker, C. Allen, A. Bent

Contributors: C. Pfund, J. Tans-Kersten, F. Dunning, J. Alonso, J. Ecker, C. Allen, A. Bent

MeSH headings : Amino Acid Sequence; Arabidopsis / growth & development; Arabidopsis / metabolism; Arabidopsis / microbiology; Arabidopsis Proteins / metabolism; Cell Division / drug effects; Cell Extracts / pharmacology; Consensus Sequence; Flagella / physiology; Flagellin / chemistry; Molecular Sequence Data; Movement; Peptides / chemistry; Peptides / pharmacology; Plant Diseases / microbiology; Protein Kinases / metabolism; Ralstonia solanacearum / cytology; Ralstonia solanacearum / pathogenicity; Ralstonia solanacearum / physiology; Seedlings / cytology; Seedlings / drug effects; Seedlings / metabolism; Tobacco / drug effects; Tobacco / microbiology; Virulence Factors / metabolism
TL;DR: The phytopathogenic bacterium Ralstonia solanacearum requires motility for full virulence, and its flagellin is a candidate pathogen-associated molecular pattern that may elicit plant defenses, but it is not this elicitor of defense-associated responses. (via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being (OpenAlex)
Sources: Web Of Science, ORCID
Added: August 6, 2018

2004 journal article

GCR1 can act independently of heterotrimeric G-protein in response to brassinosteroids and gibberellins in Arabidopsis seed germination

Plant Physiology, 135(2), 907–915.

By: J. Chen, S. Pandey, J. Huang, J. Alonso, J. Ecker, S. Assmann, A. Jones

Contributors: J. Chen, S. Pandey, J. Huang, J. Alonso, J. Ecker, S. Assmann, A. Jones

Source: ORCID
Added: December 19, 2019

2004 journal article

Regulation of flowering time in Arabidopsis by K homology domain proteins

Proceedings of the National Academy of Sciences, 101(34), 12759–12764.

By: T. Mockler*, X. Yu*, D. Shalitin*, D. Parikh*, T. Michael*, J. Liou*, J. Huang*, Z. Smith* ...

Contributors: T. Mockler*, X. Yu*, D. Shalitin*, D. Parikh*, T. Michael*, J. Liou*, J. Huang*, Z. Smith*, J. Alonso*, J. Ecker*

MeSH headings : Arabidopsis / physiology; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Biological Clocks / physiology; Circadian Rhythm / physiology; Flowers / physiology; Gene Expression Profiling; Gene Expression Regulation, Plant; MADS Domain Proteins / genetics; MADS Domain Proteins / metabolism; Mutation; Oligonucleotide Array Sequence Analysis; Photoperiod; Plants, Genetically Modified; Recombinant Fusion Proteins / genetics; Recombinant Fusion Proteins / metabolism; Time Factors
TL;DR: A study of the flowering-time gene, FLK [flowering locus K homology (KH) domain] that encodes a putative RNA-binding protein with three KH domains that causes delayed flowering without a significant effect on the photoperiodic or vernalization responses. (via Semantic Scholar)
Sources: Crossref, ORCID
Added: December 19, 2019

2004 journal article

The canonical ethylene signaling pathway

Science Signaling, 2004(221), cm1.

By: A. Stepanova & J. Alonso

Contributors: A. Stepanova & J. Alonso

Source: ORCID
Added: December 19, 2019

2004 journal article

The ethylene signaling pathway

SCIENCE, 306(5701), 1513–1515.

Contributors: J. Alonso n & A. Stepanova n

MeSH headings : Arabidopsis / genetics; Arabidopsis / metabolism; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Cell Nucleus / metabolism; DNA-Binding Proteins; Ethylenes / metabolism; Models, Biological; Mutation; Nuclear Proteins / genetics; Nuclear Proteins / metabolism; Plant Proteins / chemistry; Plant Proteins / metabolism; Plants / genetics; Plants / metabolism; Receptors, Cell Surface / chemistry; Receptors, Cell Surface / metabolism; SKP Cullin F-Box Protein Ligases / metabolism; Signal Transduction; Transcription Factors / genetics; Transcription Factors / metabolism; Transcription, Genetic
TL;DR: This work describes the four main modules that constitute this signaling pathway: a phosphotransfer relay, an EIN2-based unit, a ubiquitin-mediated protein degradation component, and a transcriptional cascade. (via Semantic Scholar)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: August 6, 2018

2004 journal article

The phytochrome-interacting transcription factor, PIF3, acts early, selectively, and positively in light-induced chloroplast development

Proceedings of the National Academy of Sciences, 101(46), 16091–16098.

Contributors: E. Monte*, J. Tepperman*, B. Al-Sady*, K. Kaczorowski*, J. Alonso*, J. Ecker*, X. Li*, Y. Zhang*, P. Quail*

MeSH headings : Arabidopsis / genetics; Arabidopsis / growth & development; Arabidopsis / physiology; Arabidopsis Proteins / genetics; Arabidopsis Proteins / physiology; Basic Helix-Loop-Helix Transcription Factors; Chlorophyll / metabolism; Chloroplasts / physiology; Chloroplasts / radiation effects; Circadian Rhythm; Gene Expression Profiling; Genes, Plant; Light; Mutation; Photosynthetic Reaction Center Complex Proteins / genetics; Photosynthetic Reaction Center Complex Proteins / physiology; Phytochrome / genetics; Phytochrome / physiology; Plants, Genetically Modified; Seedlings / growth & development; Seedlings / physiology; Seedlings / radiation effects; Signal Transduction
Sources: Crossref, ORCID
Added: December 19, 2019

2004 journal article

Type-A Arabidopsis response regulators are partially redundant negative regulators of cytokinin signaling

The Plant Cell Online, 16(3), 658–671.

By: J. To, G. Haberer, F. Ferreira, J. Deruère, M. Mason, G. Schaller, J. Alonso, J. Ecker, J. Kieber

Contributors: J. To, G. Haberer, F. Ferreira, J. Deruère, M. Mason, G. Schaller, J. Alonso, J. Ecker, J. Kieber

Source: ORCID
Added: December 19, 2019

2003 journal article

< i> Arabidopsis</i> RIN4 Is a Target of the Type III Virulence Effector AvrRpt2 and Modulates RPS2-Mediated Resistance

< i> Arabidopsis RIN4 Is a Target of the Type III Virulence Effector AvrRpt2 and Modulates RPS2-Mediated Resistance. Cell, 112(3), 379–389.

By: D. Mackey, Y. Belkhadir, J. Alonso, J. Ecker & J. Dangl

Contributors: D. Mackey, Y. Belkhadir, J. Alonso, J. Ecker & J. Dangl

Source: ORCID
Added: December 19, 2019

2003 journal article

A growth regulatory loop that provides homeostasis to phytochrome A signaling

The Plant Cell Online, 15(12), 2966–2978.

By: P. Lariguet, H. Boccalandro, J. Alonso, J. Ecker, J. Chory, J. Casal, C. Fankhauser

Contributors: P. Lariguet, H. Boccalandro, J. Alonso, J. Ecker, J. Chory, J. Casal, C. Fankhauser

Source: ORCID
Added: December 19, 2019

2003 journal article

Chloroplast to nucleus communication triggered by accumulation of Mg-protoporphyrinIX

Nature, 421(6918), 79–83.

By: Å. Strand, T. Asami, J. Alonso, J. Ecker & J. Chory

Contributors: Å. Strand, T. Asami, J. Alonso, J. Ecker & J. Chory

Source: ORCID
Added: December 19, 2019

2003 journal article

Enhanced fitness conferred by naturally occurring variation in the circadian clock

Science, 302(5647), 1049–1053.

By: T. Michael, P. Salome, J. Hannah, T. Spencer, E. Sharp, M. McPeek, J. Alonso, J. Ecker, C. McClung

Contributors: T. Michael, P. Salome, J. Hannah, T. Spencer, E. Sharp, M. McPeek, J. Alonso, J. Ecker, C. McClung

Source: ORCID
Added: December 19, 2019

2003 journal article

Five components of the ethylene-response pathway identified in a screen for weak ethylene-insensitive mutants in Arabidopsis

Proceedings of the National Academy of Sciences, 100(5), 2992–2997.

By: J. Alonso, A. Stepanova, R. Solano, E. Wisman, S. Ferrari, F. Ausubel, J. Ecker

Contributors: J. Alonso, A. Stepanova, R. Solano, E. Wisman, S. Ferrari, F. Ausubel, J. Ecker

Source: ORCID
Added: December 19, 2019

2003 journal article

GUN4, a regulator of chlorophyll synthesis and intracellular signaling

Science, 299(5608), 902–906.

By: R. Larkin, J. Alonso, J. Ecker & J. Chory

Contributors: R. Larkin, J. Alonso, J. Ecker & J. Chory

Source: ORCID
Added: December 19, 2019

2003 journal article

Genome-wide insertional mutagenesis of Arabidopsis thaliana

Science, 301(5633), 653–657.

By: J. Alonso, A. Stepanova, T. Leisse, C. Kim, H. Chen, P. Shinn, D. Stevenson, J. Zimmerman, P. Barajas, R. Cheuk

Contributors: J. Alonso, A. Stepanova, T. Leisse, C. Kim, H. Chen, P. Shinn, D. Stevenson, J. Zimmerman, P. Barajas, R. Cheuk

Source: ORCID
Added: December 19, 2019

2003 journal article

Genome-wide insertional mutagenesis of Arabidopsis thaliana (vol 301, pg 653, 2003)

Science, 301(5641), 1849.

By: J. Alonso

Contributors: J. Alonso

Source: ORCID
Added: December 19, 2019

2003 journal article

Isolation and characterization of phyC mutants in Arabidopsis reveals complex crosstalk between phytochrome signaling pathways

The Plant Cell Online, 15(9), 1962–1980.

By: E. Monte, J. Alonso, J. Ecker, Y. Zhang, X. Li, J. Young, S. Austin-Phillips, P. Quail

Contributors: E. Monte, J. Alonso, J. Ecker, Y. Zhang, X. Li, J. Young, S. Austin-Phillips, P. Quail

Source: ORCID
Added: December 19, 2019

2003 journal article

Mutations in the Ca2+/H+ transporter CAX1 increase CBF/DREB1 expression and the cold-acclimation response in Arabidopsis

The Plant Cell Online, 15(12), 2940–2951.

By: R. Catalá, E. Santos, J. Alonso, J. Ecker, J. Martínez-Zapater & J. Salinas

Contributors: R. Catalá, E. Santos, J. Alonso, J. Ecker, J. Martínez-Zapater & J. Salinas

Source: ORCID
Added: December 19, 2019

2003 chapter

T-DNA mutagenesis in Arabidopsis

In Plant Functional Genomics (pp. 177–187).

Contributors: J. Alonso n & A. Stepanova n

MeSH headings : Arabidopsis / genetics; Arabidopsis / growth & development; DNA, Bacterial / genetics; Genetic Techniques; Indicators and Reagents; Mutagenesis, Insertional / methods; Rhizobium / genetics; Transformation, Genetic
TL;DR: A simple yet robustArabidopsis transformation procedure that can be used to generate large numbers of insertional mutants in Arabidopsis thaliana is described and transformation efficiencies of up to 5% can be achieved. (via Semantic Scholar)
Sources: NC State University Libraries, ORCID
Added: August 6, 2018

2003 journal article

The Balance between phytochrome kinase substrate1 and PKS2 Provides Homeostasis for Phytochrome A Signaling in Arabidopsis

The Plant Cell Online.

By: P. Lariguet, H. Boccalandro, J. Alonso, J. Ecker, J. Chory, J. Casal, C. Fankhausera

Contributors: P. Lariguet, H. Boccalandro, J. Alonso, J. Ecker, J. Chory, J. Casal, C. Fankhausera

Source: ORCID
Added: December 19, 2019

2003 journal article

The β-subunit of the Arabidopsis G protein negatively regulates auxin-induced cell division and affects multiple developmental processes

The Plant Cell Online, 15(2), 393–409.

By: H. Ullah, J. Chen, B. Temple, D. Boyes, J. Alonso, K. Davis, J. Ecker, A. Jones

Contributors: H. Ullah, J. Chen, B. Temple, D. Boyes, J. Alonso, K. Davis, J. Ecker, A. Jones

Source: ORCID
Added: December 19, 2019

2002 journal article

A role for peroxisomes in photomorphogenesis and development of Arabidopsis

Science, 297(5580), 405–409.

By: J. Hu, M. Aguirre, C. Peto, J. Alonso, J. Ecker & J. Chory

Contributors: J. Hu, M. Aguirre, C. Peto, J. Alonso, J. Ecker & J. Chory

Source: ORCID
Added: December 19, 2019

2002 journal article

De-Etiolated 1 and Damaged DNA Binding Protein 1 Interact to Regulate< i> Arabidopsis</i> Photomorphogenesis

De-Etiolated 1 and Damaged DNA Binding Protein 1 Interact to Regulate< i> Arabidopsis Photomorphogenesis. Current Biology, 12(17), 1462–1472.

By: D. Schroeder, M. Gahrtz, B. Maxwell, R. Cook, J. Kan, J. Alonso, J. Ecker, J. Chory

Contributors: D. Schroeder, M. Gahrtz, B. Maxwell, R. Cook, J. Kan, J. Alonso, J. Ecker, J. Chory

Source: ORCID
Added: December 19, 2019

2002 journal article

NPSN11 is a cell plate-associated SNARE protein that interacts with the syntaxin KNOLLE

Plant Physiology, 129(2), 530–539.

By: H. Zheng, S. Bednarek, A. Sanderfoot, J. Alonso, J. Ecker & N. Raikhel

Contributors: H. Zheng, S. Bednarek, A. Sanderfoot, J. Alonso, J. Ecker & N. Raikhel

Source: ORCID
Added: December 19, 2019

2002 journal article

Three redundant brassinosteroid early response genes encode putative bHLH transcription factors required for normal growth

Genetics, 162(3), 1445–1456.

By: D. Friedrichsen, J. Nemhauser, T. Muramitsu, J. Maloof, J. Alonso, J. Ecker, M. Furuya, J. Chory

Contributors: D. Friedrichsen, J. Nemhauser, T. Muramitsu, J. Maloof, J. Alonso, J. Ecker, M. Furuya, J. Chory

Source: ORCID
Added: December 19, 2019

2002 journal article

Trp-dependent auxin biosynthesis in Arabidopsis: involvement of cytochrome P450s CYP79B2 and CYP79B3

Genes & Development, 16(23), 3100–3112.

By: Y. Zhao, A. Hull, N. Gupta, K. Goss, J. Alonso, J. Ecker, J. Normanly, J. Chory, J. Celenza

Contributors: Y. Zhao, A. Hull, N. Gupta, K. Goss, J. Alonso, J. Ecker, J. Normanly, J. Chory, J. Celenza

Source: ORCID
Added: December 19, 2019

2001 journal article

An Arabidopsis circadian clock component interacts with both CRY1 and phyB

Nature, 410(6827), 487–490.

By: J. Jarillo, J. Capel, R. Tang, H. Yang, J. Alonso, J. Ecker, A. Cashmore

Contributors: J. Jarillo, J. Capel, R. Tang, H. Yang, J. Alonso, J. Ecker, A. Cashmore

Source: ORCID
Added: December 19, 2019

2001 journal article

Phototropin-related NPL1 controls chloroplast relocation induced by blue light

Nature, 410(6831), 952–954.

By: J. Jarillo, H. Gabrys, J. Capel, J. Alonso, J. Ecker & A. Cashmore

Contributors: J. Jarillo, H. Gabrys, J. Capel, J. Alonso, J. Ecker & A. Cashmore

Source: ORCID
Added: December 19, 2019

2001 journal article

The ethylene pathway: a paradigm for plant hormone signaling and interaction

Science Signaling, 2001(70), re1.

By: J. Alonso & J. Ecker

Contributors: J. Alonso & J. Ecker

Source: ORCID
Added: December 19, 2019

2000 journal article

Ethylene captures a metal! Metal ions are involved in ethylene perception and signal transduction

Plant and Cell Physiology, 41(5), 548–555.

By: T. Hirayama & J. Alonso

Contributors: T. Hirayama & J. Alonso

Source: ORCID
Added: December 19, 2019

2000 journal article

Involvement of NRAMP1 from Arabidopsis thaliana in iron transport

Biochem. J, 347, 749–755.

author keywords: iron deficiency; iron toxicity; Nramp; plant; transport
TL;DR: The sequence of five NRAMP proteins from A. thaliana demonstrate that AtNramp1 participates in the control of iron homoeostasis in plants and leads to an increase in plant resistance to toxic iron concentration. (via Semantic Scholar)
Source: ORCID
Added: December 19, 2019

2000 journal article

Sequence and analysis of chromosome 1 of the plant Arabidopsis thaliana

Nature, 408(6814), 816–820.

By: A. Theologis, J. Ecker, C. Palm, N. Federspiel, S. Kaul, O. White, J. Alonso, H. Altafi, R. Araujo, C. Bowman

Contributors: A. Theologis, J. Ecker, C. Palm, N. Federspiel, S. Kaul, O. White, J. Alonso, H. Altafi, R. Araujo, C. Bowman

Source: ORCID
Added: December 19, 2019

1999 journal article

EIN2, a bifunctional transducer of ethylene and stress responses in Arabidopsis

Science, 284(5423), 2148–2152.

By: J. Alonso, T. Hirayama, G. Roman, S. Nourizadeh & J. Ecker

Contributors: J. Alonso, T. Hirayama, G. Roman, S. Nourizadeh & J. Ecker

Source: ORCID
Added: December 19, 2019

1999 chapter

Ethylene Perception and Response in Citrus Fruit

In Biology and Biotechnology of the Plant Hormone Ethylene II (pp. 137–143).

By: X. Cubells-Martinez, J. Alonso, M. Sanchez-Ballesta & A. Granell

Contributors: X. Cubells-Martinez, J. Alonso, M. Sanchez-Ballesta & A. Granell

Source: ORCID
Added: December 19, 2019

1999 journal article

RESPONSIVE-TO-ANTAGONIST1, a Menkes/Wilson Disease–Related Copper Transporter, Is Required for Ethylene Signaling in< i> Arabidopsis</i>

RESPONSIVE-TO-ANTAGONIST1, a Menkes/Wilson Disease–Related Copper Transporter, Is Required for Ethylene Signaling in< i> Arabidopsis. Cell, 97(3), 383–393.

By: T. Hirayama, J. Kieber, N. Hirayama, M. Kogan, P. Guzman, S. Nourizadeh, J. Alonso, W. Dailey, A. Dancis, J. Ecker

Contributors: T. Hirayama, J. Kieber, N. Hirayama, M. Kogan, P. Guzman, S. Nourizadeh, J. Alonso, W. Dailey, A. Dancis, J. Ecker

Source: ORCID
Added: December 19, 2019

1995 journal article

A non-photosynthetic ferredoxin gene is induced by ethylene in Citrus organs

Plant Molecular Biology, 29(6), 1211–1221.

By: J. Alonso, J. Chamarro & A. Granell

Contributors: J. Alonso, J. Chamarro & A. Granell

Source: ORCID
Added: December 19, 2019

1995 journal article

A putative vacuolar processing protease is regulated by ethylene and also during fruit ripening in Citrus fruit

Plant Physiology, 109(2), 541–547.

By: J. Alonso & A. Granell

Contributors: J. Alonso & A. Granell

Source: ORCID
Added: December 19, 2019

1995 journal article

Evidence for the involvement of ethylene in the expression of specific RNAs during maturation of the orange, a non-climacteric fruit

Plant Molecular Biology, 29(2), 385–390.

By: J. Alonso, J. Chamarro & A. Granell

Contributors: J. Alonso, J. Chamarro & A. Granell

Source: ORCID
Added: December 19, 2019

1992 journal article

Two dimensional gel electrophoresis patterns of total, in vivo labelled and in vitro translated polypeptides from orange flavedo during maturation and following ethylene treatment

Physiologia Plantarum, 85(2), 147–156.

By: J. Alonso, J. García‐Martínez & J. Chamarro

Contributors: J. Alonso, J. García‐Martínez & J. Chamarro

Source: ORCID
Added: December 19, 2019

conference paper

Deep sequencing of ribosomal footprints for studying genome-wide mRNA translation in plants

Merchante, K., Hu, Q., Stepanova, A. N., Alonso, J. M., & Heber, S.

By: K. Merchante, Q. Hu, A. Stepanova, J. Alonso & S. Heber

Contributors: K. Merchante, Q. Hu, A. Stepanova, J. Alonso & S. Heber

Source: ORCID
Added: December 19, 2019

Employment

Updated: March 1st, 2019 10:42

2001 - present

North Carolina State University Raleigh, NC, US
Professor Plant and Microbial Biology

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