Recent Works

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Sorted by most recent date added to the index first, which may not be the same as publication date order.

2024 journal article

Intelligent Beam Optimization for Light-Sheet Fluorescence Microscopy through Deep Learning

INTELLIGENT COMPUTING, 3.

topics (OpenAlex): Advanced Fluorescence Microscopy Techniques; Image Processing Techniques and Applications; Optical Coherence Tomography Applications
Source: Web Of Science
Added: January 13, 2025

2024 article

The people behind the papers - Julia Grzymkowski and Nanette Nascone-Yoder

Grzymkowski, J., & Nascone-Yoder, N. (2024, January). DEVELOPMENT, Vol. 151.

MeSH headings : Humans; Animals; Digestive System Abnormalities; Intestinal Volvulus; Xenopus laevis; North Carolina
topics (OpenAlex): Intestinal Malrotation and Obstruction Disorders; Metabolism and Genetic Disorders; Genetic Syndromes and Imprinting
TL;DR: Exposure of Xenopus embryos to atrazine, a widely-used herbicide, can disrupt cellular metabolism in the developing gut tube and lead to intestinal malrotation, a prevalent birth anomaly. (via Semantic Scholar)
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UN Sustainable Development Goal Categories
Sources: Web Of Science, NC State University Libraries
Added: March 11, 2024

2024 journal article

Developmental regulation of cellular metabolism is required for intestinal elongation and rotation

DEVELOPMENT, 151(1).

By: J. Grzymkowski n, Y. Chiu, D. Jima n, B. Wyatt n, S. Jayachandran n, W. Stutts n, N. Nascone-Yoder n

author keywords: Intestine; Metabolism; Rotation; Electron transport chain; Elongation; Atrazine; Xenopus
MeSH headings : Atrazine; Rotation; Herbicides / toxicity; Oxidation-Reduction; Gene Expression Profiling
topics (OpenAlex): Intestinal Malrotation and Obstruction Disorders; Metabolism and Genetic Disorders; Pediatric Hepatobiliary Diseases and Treatments
TL;DR: Roles for metabolism in gut morphogenesis are revealed and implicate defective gut tube elongation and/or metabolic perturbations in the etiology of intestinal malrotation. (via Semantic Scholar)
Sources: ORCID, Web Of Science, NC State University Libraries
Added: February 22, 2024

2024 journal article

Morphoelastic models discriminate between different mechanisms of left-right asymmetric stomach morphogenesis

CELLS & DEVELOPMENT, 177.

By: A. Nikas, E. Curcio, N. Nascone-Yoder & S. Lubkin

author keywords: Stomach morphogenesis; Morphoelasticity; Modeling; left/right asymmetry
MeSH headings : Animals; Body Patterning / genetics; Morphogenesis; Vertebrates; Stomach; Signal Transduction
topics (OpenAlex): Congenital heart defects research; Developmental Biology and Gene Regulation; Morphological variations and asymmetry
TL;DR: A continuum model of asymmetric stomach morphogenesis is developed using a morphoelastic framework and reveals that, of the various differential growth mechanisms tested, only one category is consistent with the leftward stomach curvature observed in wild-type embryos. (via Semantic Scholar)
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UN Sustainable Development Goal Categories
10. Reduced Inequalities (OpenAlex)
Sources: ORCID, Web Of Science, NC State University Libraries
Added: January 28, 2024

2023 journal article

Rare variants in <i>CAPN2</i> increase risk for isolated hypoplastic left heart syndrome

HUMAN GENETICS AND GENOMICS ADVANCES, 4(4).

By: E. Blue, J. White, M. Dush, W. Gordon, B. Wyatt, P. White, C. Marvin, E. Helle ...

co-author countries: Finland 🇫🇮
MeSH headings : Animals; Humans; Hypoplastic Left Heart Syndrome / genetics; Alleles; Aorta; Calpain / genetics; Cerebral Ventricles
topics (OpenAlex): Congenital heart defects research; RNA modifications and cancer; Cardiac Valve Diseases and Treatments
TL;DR: The findings show that iHLHS is typically not a Mendelian condition, demonstrate that CAPN2 variants increase risk of i HLHS, and identify a novel pathway involved in HLHS pathogenesis. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: October 16, 2023

2023 journal article

Deep learning-based adaptive optics for light sheet fluorescence microscopy

BIOMEDICAL OPTICS EXPRESS, 14(6), 2905–2919.

topics (OpenAlex): Advanced Fluorescence Microscopy Techniques; Optical Coherence Tomography Applications; Photoacoustic and Ultrasonic Imaging
TL;DR: It is shown that the application of correction using a deformable mirror greatly improves image quality and two conceptually different network architectures are compared; one that shares convolutional features and another that estimates each aberration independently. (via Semantic Scholar)
Source: Web Of Science
Added: July 24, 2023

2023 journal article

Bulk and mosaic deletions of Egfr reveal regionally defined gliogenesis in the developing mouse forebrain

IScience, 26(3), 106242.

By: X. Zhang n, G. Xiao n, C. Johnson n, Y. Cai n, Z. Horowitz n, C. Mennicke n, R. Coffey*, M. Haider* ...

topics (OpenAlex): MicroRNA in disease regulation; Neurogenesis and neuroplasticity mechanisms; RNA Research and Splicing
TL;DR: Subtractive bulk ventral and dorsal forebrain deletions of Egfr uncovered significant and permanent decreases in oligodendrogenesis and myelination in the cortex and corpus callosum, and a regenerative population of gliogenic progenitors in the mouse forebrain may compensate for the missing EGFR-dependent dorsal glia in the bulk Egfr-deleted forebrain. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries, Crossref
Added: June 5, 2023

2023 journal article

COMBINe enables automated detection and classification of neurons and astrocytes in tissue-cleared mouse brains

CELL REPORTS METHODS, 3(4).

By: Y. Cai n, X. Zhang n, C. Li n, H. Ghashghaei n & A. Greenbaum n

MeSH headings : Animals; Mice; Astrocytes; Excipients; Microscopy, Fluorescence; Neurons; Prosencephalon
topics (OpenAlex): Cell Image Analysis Techniques; Single-cell and spatial transcriptomics; Advanced Fluorescence Microscopy Techniques
TL;DR: An automated workflow to map sparsely labeled neurons and astrocytes in genetically distinct mouse forebrains using mosaic analysis with double markers (MADM) is presented and the regional and subregional effects of MADM-based deletion of the epidermal growth factor receptor (EGFR) are quantitatively analyzed. (via Semantic Scholar)
Source: Web Of Science
Added: May 30, 2023

2022 journal article

Normal Table of Xenopus development: a new graphical resource

DEVELOPMENT, 149(14).

co-author countries: Canada 🇨🇦
author keywords: Xenopus laevis; Normal table; Amphibian development; FETAX; EAMA; AMA; Metamorphosis; Embryo
MeSH headings : Animals; Databases, Genetic; Genomics; Humans; Metamorphosis, Biological; Reproducibility of Results; Xenopus laevis / genetics
topics (OpenAlex): Developmental Biology and Gene Regulation; Congenital heart defects research; Zebrafish Biomedical Research Applications
TL;DR: 133 new, high-quality illustrations of X. laevis development from fertilization to metamorphosis are presented, with additional views that were not available in the original collection. (via Semantic Scholar)
Sources: Web Of Science, NC State University Libraries
Added: August 15, 2022

2022 journal article

Illumination angle correction during image acquisition in light-sheet fluorescence microscopy using deep learning

BIOMEDICAL OPTICS EXPRESS, 13(2), 888–901.

topics (OpenAlex): Advanced Fluorescence Microscopy Techniques; Image Processing Techniques and Applications; Cell Image Analysis Techniques
TL;DR: This study provides a framework that can correct the angle of the light-sheet and improve the overall image quality in high-resolution LSFM 3D image acquisition. (via Semantic Scholar)
Source: Web Of Science
Added: February 14, 2022

2022 article

Phosphorylation-dependent proteome of Marcks in ependyma during aging and behavioral homeostasis in the mouse forebrain

Muthusamy, N., Williams, T. I., O'Toole, R., Brudvig, J. J., Adler, K. B., Weimer, J. M., … Ghashghaei, H. T. (2022, January 24). GEROSCIENCE, Vol. 1.

author keywords: Aging; Behavior; Clca3; Ependymal cells; Forebrain; Marcks; Mass spectrometry; Neuroinflammation
MeSH headings : Mice; Animals; Phosphorylation; Ependyma / metabolism; Intracellular Signaling Peptides and Proteins / metabolism; Myristoylated Alanine-Rich C Kinase Substrate / metabolism; Proteome / metabolism; Membrane Proteins / metabolism; Protein Kinase C / metabolism; Homeostasis; Prosencephalon / metabolism; Mammals / metabolism
topics (OpenAlex): Neuroscience and Neuropharmacology Research; Neuroinflammation and Neurodegeneration Mechanisms; Alzheimer's disease research and treatments
TL;DR: This study provides first line of evidence for potential mechanisms that may mediate differential Marcks functions in young and old ECs, and their effect on forebrain homeostasis during aging. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
6. Clean Water and Sanitation (OpenAlex)
Sources: ORCID, Web Of Science, NC State University Libraries
Added: January 31, 2022

2021 journal article

Detection and classification of neurons and glial cells in the MADM mouse brain using RetinaNet

PLOS ONE, 16(9).

MeSH headings : Animals; Brain; Cell Differentiation; Mice; Neuroglia; Neurons
topics (OpenAlex): Cell Image Analysis Techniques; Single-cell and spatial transcriptomics; Advanced Fluorescence Microscopy Techniques
TL;DR: Object detection networks (neural networks) are utilized to detect and classify targets in complex microscopy images, while simplifying data annotation, and merging the predictions of the two computational models significantly improved the automated cell counting of glial clusters. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
8. Decent Work and Economic Growth (OpenAlex)
Source: Web Of Science
Added: February 28, 2022

2022 article

Deep learning-based autofocus method enhances image quality in light-sheet fluorescence microscopy: publishers note (vol 12, pg 5214, 2021)

LI, C., Moatti, A., Zhang, X., Ghashghaei, H. T., & Greenbaum, A. (2022, January 1). BIOMEDICAL OPTICS EXPRESS, Vol. 13, pp. 373–373.

topics (OpenAlex): Advanced Fluorescence Microscopy Techniques; Cell Image Analysis Techniques; Image Processing Techniques and Applications
Source: Web Of Science
Added: January 10, 2022

2021 journal article

Single-minded 2 is required for left-right asymmetric stomach morphogenesis

DEVELOPMENT, 148(17).

author keywords: right asymmetry; Stomach; Morphogenesis; Pitx2; Sim2; Down syndrome; Frog
MeSH headings : Animals; Anura; Basic Helix-Loop-Helix Transcription Factors / genetics; Basic Helix-Loop-Helix Transcription Factors / metabolism; Body Patterning; Embryo, Nonmammalian; Endoderm / embryology; Endoderm / metabolism; Gene Expression Regulation, Developmental; Homeodomain Proteins / genetics; Homeodomain Proteins / metabolism; Morphogenesis; Stomach / embryology; Transcription Factors / genetics; Transcription Factors / metabolism
topics (OpenAlex): Congenital heart defects research; Developmental Biology and Gene Regulation
TL;DR: It is demonstrated that sim2 functions downstream of LR patterning cues to regulate key cellular properties and behaviors in the left stomach epithelium that drive asymmetric curvature, and has implications for dose-dependent roles of laterality factors in non-laterality-related birth defects. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
3. Good Health and Well-being (Web of Science; OpenAlex)
Sources: Web Of Science, NC State University Libraries
Added: September 27, 2021

2021 journal article

Deep learning-based autofocus method enhances image quality in light-sheet fluorescence microscopy

BIOMEDICAL OPTICS EXPRESS, 12(8), 5214–5226.

By: C. Li n, A. Moatti n, X. Zhang n, H. Ghashghaei n & A. Greenabum

topics (OpenAlex): Advanced Fluorescence Microscopy Techniques; Image Processing Techniques and Applications; Cell Image Analysis Techniques
TL;DR: A deep learning-based autofocus framework that can estimate the position of the objective-lens focal plane relative to the light-sheet, based on two defocused images is presented, which outperforms or provides comparable results with the best traditional aut ofocus method on small and large image patches respectively. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
14. Life Below Water (OpenAlex)
Sources: Web Of Science, ORCID
Added: August 16, 2021

2020 review

The twists and turns of left-right asymmetric gut morphogenesis

[Review of ]. DEVELOPMENT, 147(19).

author keywords: Gut tube; Intestine; Laterality; Left-right asymmetry; Morphogenesis; Stomach
MeSH headings : Animals; Body Patterning / genetics; Body Patterning / physiology; Gastrointestinal Microbiome / genetics; Gastrointestinal Microbiome / physiology; Gene Expression Regulation, Developmental / genetics; Gene Expression Regulation, Developmental / physiology; Humans; Morphogenesis / genetics; Morphogenesis / physiology; Signal Transduction / genetics; Signal Transduction / physiology
topics (OpenAlex): Congenital heart defects research; Intestinal Malrotation and Obstruction Disorders; Congenital Heart Disease Studies
TL;DR: New evidence is summarized challenging century-old ideas about the development of stomach and intestine laterality, challenging classical models of left-right asymmetric gut morphogenesis. (via Semantic Scholar)
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UN Sustainable Development Goal Categories
Sources: Web Of Science, NC State University Libraries
Added: November 16, 2020

2020 journal article

Sp2 regulates late neurogenic but not early expansive divisions of neural stem cells underlying population growth in the mouse cortex

DEVELOPMENT, 147(4).

author keywords: Corticogenesis; Mitosis; MADM; Neurogenesis; Sp2; Neural stem cell
MeSH headings : Alleles; Animals; Cell Differentiation; Cell Division; Cell Lineage; Cell Proliferation; Cerebral Cortex / embryology; Female; Gene Deletion; Genetic Markers; Male; Mice; Mice, Transgenic; Mitosis; Mutation; Neural Stem Cells / cytology; Phenotype; Sp2 Transcription Factor / genetics; Sp2 Transcription Factor / physiology
topics (OpenAlex): Neurogenesis and neuroplasticity mechanisms; MicroRNA in disease regulation; RNA Research and Splicing
TL;DR: It is found that loss of Sp2 in progenitors undergoing neurogenic divisions results in prolonged mitosis due to extension of early mitotic stages, and mechanistic differences between the early expansive and later neurogenic periods of cortical development are revealed. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: April 20, 2020

2020 article

The people behind the papers - Caroline Johnson and Troy Ghashghaei

Johnson, C., & Ghashghaei, T. (2020, February). DEVELOPMENT, Vol. 147.

MeSH headings : Animals; Brain / embryology; Cell Proliferation; Developmental Biology / history; Developmental Biology / methods; History, 21st Century; Mice; Mitosis; Sp2 Transcription Factor / physiology
topics (OpenAlex): Pluripotent Stem Cells Research; Neurogenesis and neuroplasticity mechanisms; Congenital heart defects research
TL;DR: This new paper in Development investigates the molecular control of mitosis in these two stages, using simultaneous labelling and gene knockout in clones in the developing mouse brain. (via Semantic Scholar)
Source: Web Of Science
Added: April 20, 2020

2020 journal article

Ependyma-expressed CCN1 restricts the size of the neural stem cell pool in the adult ventricular-subventricular zone

EMBO JOURNAL, 39(5).

co-author countries: China 🇨🇳
author keywords: CCN1; EGFR; ependymal cells; neural stem cells; niche
MeSH headings : Adult Stem Cells / physiology; Animals; Brain; Cysteine-Rich Protein 61 / genetics; Cysteine-Rich Protein 61 / metabolism; Ependyma / cytology; Ependyma / metabolism; ErbB Receptors / genetics; ErbB Receptors / metabolism; Female; Male; Mice; Mice, Inbred C57BL; Mice, Knockout; Neural Stem Cells / cytology; Neural Stem Cells / metabolism; Neurogenesis / physiology; Signal Transduction
topics (OpenAlex): Connective Tissue Growth Factor Research; Mesenchymal stem cell research; Kruppel-like factors research
TL;DR: It is shown that ependyma‐derived matricellular protein CCN1 (cellular communication network factor 1) negatively regulates niche capacity and NSC number in the adult ventricular–subventricular zone (V‐SVZ) of the adult brain to maintain the proper niche capacity of the V‐VZ. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
Source: Web Of Science
Added: February 17, 2020

2019 journal article

Exome sequencing of family trios from the National Birth Defects Prevention Study: Tapping into a rich resource of genetic and environmental data

BIRTH DEFECTS RESEARCH, 111(20), 1618–1632.

author keywords: birth defects; gene-environment interaction; genetics; intestinal atresia; sequence analysis
MeSH headings : Congenital Abnormalities / genetics; Congenital Abnormalities / prevention & control; Family; Gene-Environment Interaction; Humans; Exome Sequencing
topics (OpenAlex): Prenatal Screening and Diagnostics; Pediatric Hepatobiliary Diseases and Treatments; Intestinal Malrotation and Obstruction Disorders
TL;DR: Successful sequencing of exomes from well-characterized NBDPS families indicated that this unique collection can be used to investigate the roles of genetic variation and gene-environment interaction effects in birth defect etiologies, providing a valuable resource for birth defect researchers. (via Semantic Scholar)
UN Sustainable Development Goals Color Wheel
UN Sustainable Development Goal Categories
Sources: Web Of Science, NC State University Libraries
Added: August 12, 2019

2019 journal article

Vangl2 coordinates cell rearrangements during gut elongation

DEVELOPMENTAL DYNAMICS, 248(7), 569–582.

By: M. Dush n & N. Nascone-Yoder n

author keywords: Vangl2; endoderm; gut; Xenopus; morphogenesis; elongation
MeSH headings : Animals; Body Patterning; Cell Adhesion; Cell Movement; Cell Polarity; Endoderm / cytology; Intestines / anatomy & histology; Intestines / growth & development; Membrane Proteins / metabolism; Membrane Proteins / physiology; Morphogenesis; Xenopus Proteins / metabolism; Xenopus Proteins / physiology; Xenopus laevis / growth & development
topics (OpenAlex): Hippo pathway signaling and YAP/TAZ; Pluripotent Stem Cells Research
TL;DR: The embryonic gut tube undergoes extensive lengthening to generate the surface area required for nutrient absorption across the digestive epithelium in Xenopus, a process that concomitantly opens the gut lumen and facilitates epithelial morphogenesis. (via Semantic Scholar)
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UN Sustainable Development Goal Categories
Sources: Web Of Science, NC State University Libraries
Added: July 22, 2019

2018 journal article

To scratch an itch: Establishing a mouse model to determine active brain areas involved in acute histaminergic itch

IBRO Reports, 5, 67–73.

co-author countries: Germany 🇩🇪
author keywords: c-fos; Itch; Brain; Medial habenula; Histamine H4 receptor
topics (OpenAlex): Dermatology and Skin Diseases; Asthma and respiratory diseases; Allergic Rhinitis and Sensitization
TL;DR: The specific histamine H4 receptor agonist ST-1006 induces acute itch in mice and selective H4R activation in the skin increases neuronal activity in the medial habenula. (via Semantic Scholar)
Source: Crossref
Added: February 21, 2020

2018 journal article

MARCKS regulates neuritogenesis and interacts with a CDC42 signaling network

SCIENTIFIC REPORTS, 8.

MeSH headings : Actins / metabolism; Animals; Cytoskeleton / metabolism; Female; Male; Mice; Mice, Inbred C57BL; Microtubules / metabolism; Myristoylated Alanine-Rich C Kinase Substrate / metabolism; Neurites / metabolism; Neurons / cytology; Neurons / metabolism; Phosphorylation; Primary Cell Culture; Protein Binding; Pseudopodia / metabolism; Signal Transduction; cdc42 GTP-Binding Protein / metabolism
topics (OpenAlex): Retinal Development and Disorders; Cellular transport and secretion; Neuroscience and Neuropharmacology Research
TL;DR: It is proposed that MARCKS is uniquely positioned to regulate CDC42 localization and interactions within specialized cellular compartments, such as nascent neurites. (via Semantic Scholar)
Source: Web Of Science
Added: October 19, 2018

2018 journal article

Foxj1 expressing ependymal cells do not contribute new cells to sites of injury or stroke in the mouse forebrain

SCIENTIFIC REPORTS, 8.

By: N. Muthusamy n, A. Brumm*, X. Zhang n, S. Carmichael* & H. Ghashghaei n

MeSH headings : Animals; Cell Differentiation / physiology; Ependyma / metabolism; Forkhead Transcription Factors / metabolism; Mice; Neurogenesis / physiology; Neuroglia / metabolism; Neurons / metabolism; Prosencephalon / metabolism; Stem Cells / metabolism; Stroke / metabolism
topics (OpenAlex): Neurogenesis and neuroplasticity mechanisms; MicroRNA in disease regulation; FOXO transcription factor regulation
TL;DR: Using a cell specific genetic approach, Foxj1+ ependymal cells are ruled out as stem cells participating in neurogenesis and gliogenesis in response to acute injury or stroke in the mouse forebrain. (via Semantic Scholar)
Source: Web Of Science
Added: August 6, 2018

2018 journal article

The left-right asymmetry of liver lobation is generated by Pitx2c-mediated asymmetries in the hepatic diverticulum

DEVELOPMENTAL BIOLOGY, 439(2), 80–91.

By: M. Womble n, N. Amin n & N. Nascone-Yoder n

author keywords: Xenopus; Liver; Left-right asymmetry; Endoderm; Morphogenesis; Pitx2
MeSH headings : Animals; Body Patterning / genetics; Diverticulum / embryology; Diverticulum / metabolism; Embryo, Nonmammalian / metabolism; Gene Expression Regulation, Developmental / genetics; Homeodomain Proteins / metabolism; Homeodomain Proteins / physiology; Liver / embryology; Liver / physiology; Morphogenesis / physiology; Transcription Factors / metabolism; Xenopus / embryology; Xenopus / physiology; Xenopus Proteins / metabolism; Xenopus Proteins / physiology
topics (OpenAlex): Congenital heart defects research; Liver physiology and pathology; Congenital Anomalies and Fetal Surgery
TL;DR: Side-specific gain- and loss-of-function studies reveal that asymmetric expression of the left-right determinant Pitx2c elicits distinct epithelial morphogenesis events in the left side of the diverticulum. (via Semantic Scholar)
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UN Sustainable Development Goal Categories
Sources: Web Of Science, NC State University Libraries
Added: August 6, 2018

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