Works Published in 2020
Displaying works 1 - 20 of 22 in total
Sorted by most recent date added to the index first, which may not be the same as publication date order.
2020 article
Exchange of molecular and cellular information: a hybrid model that integrates stem cell divisions and key regulatory interactions
Broeck, L. V., Spurney, R. J., Fisher, A. P., Schwartz, M., Clark, N. M., Nguyen, T. T., … Sozzani, R. (2020, December 1).
TL;DR:
A non-cell autonomous role for WOX5 in the CEI is proposed and a regulator, AN3/GIF1, that coordinates CEI divisions is identified and an interdependency between CEI and QC divisions is shown.
(via Semantic Scholar)
www.cambridge.org (publisher PDF)
Source: ORCID
Added: January 25, 2024
2020 article
Deep learning-enabled phenotyping reveals distinct patterns of neurodegeneration induced by aging and cold-shock
Saberi-Bosari, S., Flores, K. B., & San-Miguel, A. (2020, March 9).
TL;DR:
It is identified that acute cold-shock-induced neurodegeneration is reversible and depends on rearing temperature, and importantly, that aging andcold-shock induce distinct neuronal beading patterns.
(via Semantic Scholar)
Source: ORCID
Added: May 31, 2023
2020 journal article
An inexpensive programmable optogenetic platform for controlled neuronal activation regimens inC. elegans
APL Bioengineering, 4(1), 016101.
TL;DR:
An accessible platform that enables controlled optogenetic stimulation of Caenorhabditis elegans in two modes, composed of inexpensive components, while providing the illumination strength of high-end systems, which require expensive lasers, shutters, or automated stages is presented.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science; OpenAlex)
Source: ORCID
Added: May 31, 2023
2020 journal article
A reference map of the human binary protein interactome
Nature, 580(7803), 402–408.
MeSH headings : Extracellular Space / metabolism; Humans; Organ Specificity; Protein Interaction Mapping; Proteome / metabolism
TL;DR:
The utility of HuRI is demonstrated in identifying the specific subcellular roles of protein–protein interactions and in identifying potential molecular mechanisms that might underlie tissue-specific phenotypes of Mendelian diseases.
(via Semantic Scholar)
Source: ORCID
Added: May 31, 2023
2020 review
Capturing complex epigenetic phenomena through human multicellular systems
[Review of ]. CURRENT OPINION IN BIOMEDICAL ENGINEERING, 16, 34–41.
author keywords: Epigenetics; Organoids; Development; Aging; 3D; Multicellular
TL;DR:
Recent work is highlighted that demonstrates how multicellular systems provide a natural approach to capture complex epigenetic phenomena through more closely matching the in vivo environment and through the intrinsic nature of multi-cellular systems being able to generate and model multiple distinct cellular states, all within one system.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: June 10, 2021
2020 article
Qu-2, a robust poplar suspension cell line for molecular biology
JOURNAL OF FORESTRY RESEARCH.
author keywords: Qu-2 cell line; Suspension cell; Poplar; Protoplast isolation; Transient transformation
TL;DR:
A hormone autotrophic poplar suspension cell line from a hybrid of Populus alba × P. berolinensis ‘Yinzhong’, named Qu-2, which has the great potential to be an excellent model cell line in tree molecular biological research, ranging from physiology to gene function.
(via Semantic Scholar)
Sources: NC State University Libraries, ORCID
Added: February 3, 2021
2020 journal article
BAM1/2 receptor kinase signaling drives CLE peptide-mediated formative cell divisions in Arabidopsis roots
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA, 117(51), 32750–32756.
author keywords: Arabidopsis; receptor kinase; cell cycle; SHORT-ROOT; CLE peptide
MeSH headings : Arabidopsis / cytology; Arabidopsis / genetics; Arabidopsis / metabolism; Arabidopsis Proteins / genetics; Arabidopsis Proteins / metabolism; Cell Division; Gene Expression Regulation, Plant; Green Fluorescent Proteins / genetics; Green Fluorescent Proteins / metabolism; Plant Cells / metabolism; Plant Roots / cytology; Plant Roots / genetics; Plant Roots / metabolism; Plants, Genetically Modified; Protein Serine-Threonine Kinases / genetics; Protein Serine-Threonine Kinases / metabolism; Signal Transduction; Transcription Factors / genetics; Transcription Factors / metabolism
TL;DR:
It is shown that key cell divisions that generate the plant root are controlled by cell-to-cell signaling peptides which act through plant-specific receptor kinases to control expression of a specific cyclinD cell cycle regulatory gene.
(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: January 19, 2021
2020 article
Editorial overview: Directionality and precision - how signaling and gene regulation drive plant development and growth
Van Norman, J. M., Strader, L. C., & Sozzani, R. (2020, October). CURRENT OPINION IN PLANT BIOLOGY, Vol. 57, pp. A1–A3.
UN Sustainable Development Goal Categories
2. Zero Hunger
(OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: January 19, 2021
2020 review
Microbial Interactions Within Multiple-Strain Biological Control Agents Impact Soil-Borne Plant Disease
[Review of ]. FRONTIERS IN MICROBIOLOGY, 11.
Contributors: B. Niu *, W. Wang*, Z. Yuan*, R. Sederoff n, H. Sederoff n , V. Chiang n, R. Borriss *
author keywords: microbial interaction; biological control agents; soil-borne disease; consortia; microbiome and community
TL;DR:
The current state of the use of single strain and multi-strain biological control consortia in the management of soil-borne diseases and potential mechanisms used by microbial components to improve the disease suppressing efficacy are summarized.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
2. Zero Hunger
(Web of Science)
Sources: Web Of Science, NC State University Libraries, ORCID
Added: November 16, 2020
2020 journal article
Human Cerebral Organoids Reveal Early Spatiotemporal Dynamics and Pharmacological Responses of UBE3A
STEM CELL REPORTS, 15(4), 845–854.
MeSH headings : Angelman Syndrome / pathology; Cell Line; Cell Nucleus / drug effects; Cell Nucleus / metabolism; Cerebrum / metabolism; Genomic Imprinting / drug effects; Humans; Neurons / drug effects; Neurons / metabolism; Organoids / drug effects; Organoids / metabolism; Time Factors; Topoisomerase Inhibitors / pharmacology; Ubiquitin-Protein Ligases / metabolism
TL;DR:
Human cerebral organoids are established as an important model for studying UBE3A and motivates their broader use in understanding complex neurodevelopmental disorders.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
4. Quality Education
(OpenAlex)
Source: Web Of Science
Added: November 9, 2020
2020 journal article
Deep learning-enabled analysis reveals distinct neuronal phenotypes induced by aging and cold-shock
BMC BIOLOGY, 18(1).
author keywords: Deep learning; Convolutional neural networks; Neurodegeneration; Neuronal beading; Aging; Machine learning; Phenotyping; C; elegans
MeSH headings : Aging / physiology; Animals; Caenorhabditis elegans / physiology; Cold-Shock Response / physiology; Deep Learning; Neurons / physiology; Phenotype
TL;DR:
Deep learning is applied to perform quantitative image-based analysis of complex neurodegeneration patterns exhibited by the PVD neuron in C. elegans and revealed that distinct patterns of morphological alteration are induced by aging and cold-shock, suggesting different mechanisms at play.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Sources: Web Of Science, ORCID, NC State University Libraries
Added: October 26, 2020
2020 article
Lifelong Analysis of Key Aging Genes as Determinants of Lifespan in <it>C</it>. <it>elegans</it>
San Miguel, A., Ramirez, J., & Flores, K. (2020, April). FASEB JOURNAL, Vol. 34.
TL;DR:
This work presents a system that enables in vivo tracking the endogenous spatiotemporal activity of key aging genes throughout C. elegans lifespan using an integrative experimental platform based on microfluidics, computer vision, and tagging of endogenous genes via CRISPR/Cas9 genetic engineering approaches.
(via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: October 12, 2020
2020 chapter
MAGIC: Live imaging of cellular division in plant seedlings using lightsheet microscopy
In Methods in Cell Biology (Vol. 160, pp. 405–418).
MeSH headings : Arabidopsis / cytology; Arabidopsis / growth & development; Cell Division; Imaging, Three-Dimensional; Microscopy, Fluorescence / methods; Seedlings / cytology; Seedlings / growth & development
TL;DR:
This chapter describes a detailed method for preparing and imaging Arabidopsis thaliana seedlings for lightsheet microscopy via a Multi-Sample Imaging Growth Chamber (MAGIC), which allows simultaneous imaging of at least four samples.
(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, Web Of Science
Added: September 14, 2020
2020 chapter
BioVision Tracker: A semi-automated image analysis software for spatiotemporal gene expression tracking in Arabidopsis thaliana
In Methods in Cell Biology (Vol. 160, pp. 419–436).
MeSH headings : Arabidopsis / genetics; Automation; Gene Expression Regulation, Plant; Image Processing, Computer-Assisted; Plant Roots / anatomy & histology; Software; Time Factors
TL;DR:
A procedure for analyzing 3D microscopy images to track spatiotemporal gene expression signals using the MATLAB-based BioVision Tracker software, which requires either a fluorescence image or a brightfield image to analyze root geometry and afluorescence image to capture and track temporal changes in gene expression.
(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, Web Of Science
Added: September 14, 2020
2020 journal article
Protein complex stoichiometry and expression dynamics of transcription factors modulate stem cell division
Proceedings of the National Academy of Sciences, 117(26), 15332–15342.
author keywords: protein complex stoichiometry; intercellular protein movement; mathematical modeling; expression dynamics; transcription factor
MeSH headings : Arabidopsis / genetics; Arabidopsis / metabolism; Arabidopsis Proteins / chemistry; Arabidopsis Proteins / metabolism; Biomarkers; Cell Differentiation; Gene Expression Regulation, Plant / physiology; Models, Biological; Mutation; Stem Cells / physiology; Transcription Factors / genetics; Transcription Factors / metabolism
TL;DR:
It is suggested that SHR-SCR protein complex stoichiometry and regulation of SHR transcription modulate the division timing of two different specialized cell types in the root stem cell niche.
(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: September 14, 2020
2020 journal article
Novel Imaging Modalities Shedding Light on Plant Biology: Start Small and Grow Big
Annual Review of Plant Biology, 71(1), 789–816.
author keywords: Forster resonance energy transfer; scanning fluorescent correlation spectroscopy; microfluid devices; light sheet microscopy; imaging of macroscopic traits; multiscale imaging techniques
MeSH headings : Biology; Plant Development; Plants
TL;DR:
New imaging modalities are presented and how they have enabled a better understanding of plant growth from the microscopic to the macroscopic scale are reviewed to enable unprecedented systems-level computational modeling.
(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: September 14, 2020
2020 journal article
Gene Regulatory Network Inference: Connecting Plant Biology and Mathematical Modeling
Frontiers in Genetics, 11.
author keywords: gene regulatory network; network properties; network inference; machine learning; experimental methodologies
TL;DR:
This review provides examples of experimental methodologies commonly used to identify regulatory interactions and generate GRNs, and describes network inference techniques that leverage gene expression data to predict regulatory interactions.
(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, Web Of Science
Added: July 13, 2020
2020 journal article
Dynamic and scalable DNA-based information storage
NATURE COMMUNICATIONS, 11(1).
MeSH headings : Algorithms; Bacteriophage T7 / genetics; DNA / genetics; DNA, Single-Stranded / genetics; Gene Expression Regulation, Viral; Genetic Code; Models, Genetic; Promoter Regions, Genetic / genetics; Transcription, Genetic
TL;DR:
It is shown that a simple architecture comprised of a T7 promoter and a single-stranded overhang domain (ss-dsDNA), can unlock dynamic DNA-based information storage with powerful capabilities and advantages.
(via Semantic Scholar)
UN Sustainable Development Goal Categories
3. Good Health and Well-being
(Web of Science)
Source: Web Of Science
Added: July 13, 2020
2020 chapter
Utility of stable isotope ratios of tap water and human hair in determining region of origin in Central and Southern Mexico
In Forensic Science and Humanitarian Action.
UN Sustainable Development Goal Categories
6. Clean Water and Sanitation
(OpenAlex)
Source: ORCID
Added: April 7, 2020
2020 journal article
Achieving Net Zero Energy Greenhouses by Integrating Semitransparent Organic Solar Cells
JOULE, 4(2), 490–506.
Contributors: E. Ravishankar n, R. Booth n, C. Saravitz n, H. Sederoff n , H. Ade n & . B.T. O'Connor
UN Sustainable Development Goal Categories
2. Zero Hunger
(OpenAlex)
7. Affordable and Clean Energy
(Web of Science)
Sources: Web Of Science, NC State University Libraries, ORCID
Added: March 10, 2020
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