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gene expression in embryonic development

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https://www.readbyqxmd.com/read/29049289/a-molecular-atlas-of-the-developing-ectoderm-defines-neural-neural-crest-placode-and-nonneural-progenitor-identity-in-vertebrates
#1
Jean-Louis Plouhinec, Sofía Medina-Ruiz, Caroline Borday, Elsa Bernard, Jean-Philippe Vert, Michael B Eisen, Richard M Harland, Anne H Monsoro-Burq
During vertebrate neurulation, the embryonic ectoderm is patterned into lineage progenitors for neural plate, neural crest, placodes and epidermis. Here, we use Xenopus laevis embryos to analyze the spatial and temporal transcriptome of distinct ectodermal domains in the course of neurulation, during the establishment of cell lineages. In order to define the transcriptome of small groups of cells from a single germ layer and to retain spatial information, dorsal and ventral ectoderm was subdivided along the anterior-posterior and medial-lateral axes by microdissections...
October 19, 2017: PLoS Biology
https://www.readbyqxmd.com/read/29048526/comparative-transcriptomics-of-steinernema-and-caenorhabditis-single-embryos-reveals-orthologous-gene-expression-convergence-during-late-embryogenesis
#2
Marissa Macchietto, Dristi Angdembey, Negar Heidarpour, Lorrayne Serra, Bryan Rodriguez, Nicole El-Ali, Ali Mortazavi
Cells express distinct sets of genes in a precise spatio-temporal manner during embryonic development. There is a wealth of information on the deterministic embryonic development of Caenorhabditis elegans, but much less is known about embryonic development in nematodes from other taxa, especially at the molecular level. We are interested in insect pathogenic nematodes from the genus Steinernema as models of parasitism and symbiosis as well as a satellite model for evolution in comparison to C. elegans. To explore gene expression differences across taxa, we sequenced the transcriptomes of single embryos of two Steinernema species and two Caenorhabditis species at 11 stages during embryonic development and found several interesting features...
October 1, 2017: Genome Biology and Evolution
https://www.readbyqxmd.com/read/29047024/generation-of-photoreceptor-precursors-from-mouse-embryonic-stem-cells
#3
Amy Q Lu, Colin J Barnstable
Embryonic stem cell (ESC) differentiation can be used to model development and to produce transplantable cells of the desired phenotype. ESCs can reproducibly generate retinal cells but the derivation of photoreceptor precursors is variable and depends on an array of exogenous factors and intrinsic cell-cell interactions. In this work, we have defined the use of exogenous signaling factors, dissociation, and adherent versus 3-dimensional (3D) conditions on the derivation of retinal cells from pluripotent mouse ESCs...
October 18, 2017: Stem Cell Reviews
https://www.readbyqxmd.com/read/29046905/the-controversial-role-of-forkhead-box-f2-foxf2-transcription-factor-in-breast-cancer
#4
Pang-Kuo Lo
Deregulating the subcellular localization, functions and expression of Forkhead box (FOX) transcription factors that are critically involved in embryonic development and multiple biological processes is known to result in the development and progression of diseases, in particular cancer. Human FOXF transcription factors, including FOXF1 and FOXF2, are a subfamily of the FOX gene family. The recent findings from ours and others have linked FOXF2 to breast cancer development and progression. Our studies have shown that FOXF2 acts as a tumor-suppressive inhibitor of DNA replication in luminal and HER2-positive breast cancers and as an oncogenic activator of the epithelial-mesenchymal transition (EMT) in triple-negative/basal-like breast cancers (TN/BLBC), suggesting that FOXF2 plays a dual role in breast cancer...
2017: PRAS Open
https://www.readbyqxmd.com/read/29046629/cerebellar-vermis-and-midbrain-hypoplasia-upon-conditional-deletion-of-chd7-from-the-embryonic-mid-hindbrain-region
#5
Alex P A Donovan, Tian Yu, Jacob Ellegood, Kimberley L H Riegman, Christa de Geus, Conny van Ravenswaaij-Arts, Cathy Fernandes, Jason P Lerch, M Albert Basson
Reduced fibroblast growth factor (FGF) signaling from the mid-hindbrain or isthmus organizer (IsO) during early embryonic development results in hypoplasia of the midbrain and cerebellar vermis. We previously reported evidence for reduced Fgf8 expression and FGF signaling in the mid-hindbrain region of embryos heterozygous for Chd7, the gene mutated in CHARGE (Coloboma, Heart defects, choanal Atresia, Retarded growth and development, Genitourinary anomalies and Ear defects) syndrome. However, Chd7(+/-) animals only exhibit mild cerebellar vermis anomalies...
2017: Frontiers in Neuroanatomy
https://www.readbyqxmd.com/read/29045725/stemmapper-a-curated-gene-expression-database-for-stem-cell-lineage-analysis
#6
José P Pinto, Rui S R Machado, Ramiro Magno, Daniel V Oliveira, Susana Machado, Raquel P Andrade, José Bragança, Isabel Duarte, Matthias E Futschik
Transcriptomic data have become a fundamental resource for stem cell (SC) biologists as well as for a wider research audience studying SC-related processes such as aging, embryonic development and prevalent diseases including cancer, diabetes and neurodegenerative diseases. Access and analysis of the growing amount of freely available transcriptomics datasets for SCs, however, are not trivial tasks. Here, we present StemMapper, a manually curated gene expression database and comprehensive resource for SC research, built on integrated data for different lineages of human and mouse SCs...
October 17, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/29044892/mouse-parthenogenetic-embryonic-stem-cells-with-biparental-like-expression-of-imprinted-genes-generate-cortical-like-neurons-that-integrate-into-the-injured-adult-cerebral-cortex
#7
Annie Varrault, Sigrid Eckardt, Benoît Girard, Anne Le Digarcher, Isabelle Sassetti, Céline Meusnier, Chantal Ripoll, Armen Badalyan, Federica Bertaso, K John McLaughlin, Laurent Journot, Tristan Bouschet
One strategy for stem cell-based therapy of the cerebral cortex involves the generation and transplantation of functional, histocompatible cortical-like neurons from embryonic stem cells (ESCs). Diploid parthenogenetic Pg-ESCs have recently emerged as a promising source of histocompatible ESC derivatives for organ regeneration but their utility for cerebral cortex therapy is unknown. A major concern with Pg-ESCs is genomic imprinting. In contrast with biparental Bp-ESCs derived from fertilized oocytes, Pg-ESCs harbor two maternal genomes but no sperm-derived genome...
October 16, 2017: Stem Cells
https://www.readbyqxmd.com/read/29044517/circfut10-reduces-proliferation-and-facilitates-differentiation-of-myoblasts-by-sponging-mir-133a
#8
Hui Li, Jiameng Yang, Xuefeng Wei, Chengchuang Song, Dong Dong, Yongzhen Huang, Xianyong Lan, Martin Plath, Chuzhao Lei, Yun Ma, Xinglei Qi, Yueyu Bai, Hong Chen
Circular RNAs (circRNAs) have been identified in various tissues and cell types from human, monkey, porcine and mouse. However, knowledge on circRNAs in bovine muscle development is limited. We downloaded and analyzed the circRNAs sequencing data of bovine skeletal muscle tissue, and further characterized the role of a candidate circRNA (circFUT10) in muscle development. Quantitative real-time PCR (qPCR) and western blot assays were used to confirm the expression of genes involved in myoblasts differentiation and proliferation...
October 18, 2017: Journal of Cellular Physiology
https://www.readbyqxmd.com/read/29044125/transcription-factor-ctip1-bcl11a-regulates-epidermal-differentiation-and-lipid-metabolism-during-skin-development
#9
Shan Li, Amy Teegarden, Emily M Bauer, Jaewoo Choi, Nadia Messaddeq, David A Hendrix, Gitali Ganguli-Indra, Mark Leid, Arup K Indra
The epidermal permeability barrier (EPB) prevents organisms from dehydration and infection. The transcriptional regulation of EPB development is poorly understood. We demonstrate here that transcription factor COUP-TF-interacting protein 1 (CTIP1/BCL11A; hereafter CTIP1) is highly expressed in the developing murine epidermis. Germline deletion of Ctip1 (Ctip1 (-/-)) results in EPB defects accompanied by compromised epidermal differentiation, drastic reduction in profilaggrin processing, reduced lamellar bodies in granular layers and significantly altered lipid composition...
October 18, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29042680/sperm-borne-mir-449b-influences-cleavage-epigenetic-reprogramming-and-apoptosis-of-scnt-embryos-in-bovine
#10
Mengyun Wang, Yang Gao, Pengxiang Qu, Suzhu Qing, Fang Qiao, Yong Zhang, Jesse Mager, Yongsheng Wang
Accumulating evidence indicates the absence of paternally derived miRNAs, piwiRNAs, and proteins may be one important factor contributing to developmental failure in somatic cell cloned embryos. In the present study, we found microRNA-449b (miR-449b) was highly expressed in sperm. Target gene predictions and experimental verification indicate that several embryonic development-related genes, including CDK6, c-MYC, HDAC1 and BCL-2, are targets of miR-449b. We therefore investigated the role of miR-449b using somatic cell nuclear transfer (SCNT) embryo model...
October 17, 2017: Scientific Reports
https://www.readbyqxmd.com/read/29042436/wilms-tumor-protein-dependent-transcription-of-vegf-receptor-2-and-hypoxia-regulate-expression-of-the-testis-promoting-gene-sox9-in-murine-embryonic-gonads
#11
Karin M Kirschner, Lina K Sciesielski, Katharina Krueger, Holger Scholz
The Wilms tumor protein 1 (WT1) has been implicated in the control of several genes in sexual development, but its function in gonad formation is still unclear. Here, we report that WT1 stimulates expression of Kdr, the gene encoding VEGF receptor 2, in murine embryonic gonads. We found that WT1 and KDR are co-expressed in Sertoli cells of the testes and somatic cells of embryonic ovaries. Vivo-morpholino-mediated WT1 knockdown decreased Kdr transcripts in cultured embryonic gonads at multiple developmental stages...
October 17, 2017: Journal of Biological Chemistry
https://www.readbyqxmd.com/read/29040751/epidenovo-a-platform-for-linking-regulatory-de-novo-mutations-to-developmental-epigenetics-and-diseases
#12
Fengbiao Mao, Qi Liu, Xiaolu Zhao, Haonan Yang, Sen Guo, Luoyuan Xiao, Xianfeng Li, Huajing Teng, Zhongsheng Sun, Yali Dou
De novo mutations (DNMs) have been shown to be a major cause of severe early-onset genetic disorders such as autism spectrum disorder and intellectual disability. Over one million DNMs have been identified in developmental disorders by next generation sequencing, but linking these DNMs to the genes that they impact remains a challenge, as the majority of them are embedded in non-coding regions. As most developmental diseases occur in the early stages of development or during childhood, it is crucial to clarify the details of epigenetic regulation in early development in order to interpret the mechanisms underlying developmental disorders...
October 10, 2017: Nucleic Acids Research
https://www.readbyqxmd.com/read/29040697/mapping-selection-within-drosophila-melanogaster-embryo-s-anatomy
#13
Irepan Salvador-Martínez, Marta Coronado-Zamora, David Castellano, Antonio Barbadilla, Isaac Salazar-Ciudad
We present a survey of selection across Drosophila melanogaster embryonic anatomy. Our approach integrates genomic variation, spatial gene expression patterns and development, with the aim of mapping adaptation over the entire embryo's anatomy. Our adaptation map is based on analyzing spatial gene expression information for 5,969 genes (from text-based annotations of in situ hybridization data directly from the BDGP database, Tomancak et al. 2007) and the polymorphism and divergence in these genes (from the project DGRP, Mackay et al...
October 10, 2017: Molecular Biology and Evolution
https://www.readbyqxmd.com/read/29040564/n-cadherin-identifies-human-endometrial-epithelial-progenitor-cells-by-in-vitro-stem-cell-assays
#14
Hong P T Nguyen, L Xiao, James A Deane, Ker-Sin Tan, Fiona L Cousins, Hirotaka Masuda, Carl N Sprung, Anna Rosamilia, Caroline E Gargett
STUDY QUESTION: Is there a specific surface marker that identifies human endometrial epithelial progenitor cells with adult stem cell activity using in vitro assays? SUMMARY ANSWER: N-cadherin isolates clonogenic, self-renewing human endometrial epithelial progenitor cells with high proliferative potential that differentiate into cytokeratin+ gland-like structures in vitro and identifies their location in some cells of gland profiles predominantly in basalis endometrium adjacent to the myometrium...
September 27, 2017: Human Reproduction
https://www.readbyqxmd.com/read/29040498/genome-stability-of-bovine-in-vivo-conceived-cleavage-stage-embryos-is-higher-compared-to-invitro-produced-embryos
#15
Olga Tšuiko, Maaike Catteeuw, Masoud Zamani Esteki, Aspasia Destouni, Osvaldo Bogado Pascottini, Urban Besenfelder, Vitezslav Havlicek, Katrien Smits, Ants Kurg, Andres Salumets, Thomas D'Hooghe, Thierry Voet, Ann Van Soom, Joris Robert Vermeesch
STUDY QUESTION: Is the rate and nature of chromosome instability (CIN) similar between bovine in vivo-derived and in vitro-cultured cleavage-stage embryos? SUMMARY ANSWER: There is a major difference regarding chromosome stability of in vivo-derived and in vitro-cultured embryos, as CIN is significantly lower in in vivo-derived cleavage-stage embryos compared to in vitro-cultured embryos. WHAT IS KNOWN ALREADY: CIN is common during in vitro embryogenesis and is associated with early embryonic loss in humans, but the stability of in vivo-conceived cleavage-stage embryos remains largely unknown...
September 23, 2017: Human Reproduction
https://www.readbyqxmd.com/read/29040332/the-developmental-programme-for-genesis-of-the-entire-kidney-is-recapitulated-in-wilms-tumour
#16
Ryuji Fukuzawa, Matthew R Anaka, Ian M Morison, Anthony E Reeve
Wilms tumour (WT) is an embryonal tumour that recapitulates kidney development. The normal kidney is formed from two distinct embryological origins: the metanephric mesenchyme (MM) and the ureteric bud (UB). It is generally accepted that WT arises from precursor cells in the MM; however whether UB-equivalent structures participate in tumorigenesis is uncertain. To address the question of the involvement of UB, we assessed 55 Wilms tumours for the molecular features of MM and UB using gene expression profiling, immunohistochemsitry and immunofluorescence...
2017: PloS One
https://www.readbyqxmd.com/read/29038942/fitting-structure-to-function-in-gene-regulatory-networks
#17
Ellen V Rothenberg
Cascades of transcriptional regulation are the common source of the forward drive in all developmental systems. Increases in complexity and specificity of gene expression at successive stages are based on the collaboration of varied combinations of transcription factors already expressed in the cells to turn on new genes, and the logical relationships between the transcription factors acting and becoming newly expressed from stage to stage are best visualized as gene regulatory networks. However, gene regulatory networks used in different developmental contexts underlie processes that actually operate through different sets of rules, which affect the kinetics, synchronicity, and logical properties of individual network nodes...
October 16, 2017: History and Philosophy of the Life Sciences
https://www.readbyqxmd.com/read/29038881/downregulated-sox4-expression-suppresses-cell-proliferation-migration-and-induces-apoptosis-in-osteosarcoma-in-vitro-and-in-vivo
#18
Dong Chen, Chuanzhen Hu, Gen Wen, Qingcheng Yang, Changqing Zhang, Huilin Yang
The SOX4 transcription factor is involved in various cellular processes, such as embryonic development and differentiation. Deregulated expression of Sox4 in several human cancers has been reported to date, but its biological functions in the progression of osteosarcoma remain unclear. In this study, we found that the expression levels of SOX4 protein were significantly higher in high-grade osteosarcoma tissues and metastatic osteosarcoma tissues. Its overexpression was associated with poor prognosis in osteosarcoma...
October 16, 2017: Calcified Tissue International
https://www.readbyqxmd.com/read/29037607/dynamic-organization-of-lncrna-and-circular-rna-regulators-collectively-controlled-cardiac-differentiation-in-humans
#19
Yongsheng Li, Jinwen Zhang, Caiqin Huo, Na Ding, Junyi Li, Jun Xiao, Xiaoyu Lin, Benzhi Cai, Yunpeng Zhang, Juan Xu
Advances in developmental cardiology have increased our understanding of the early aspects of heart differentiation. However, understanding noncoding RNA (ncRNA) transcription and regulation during this process remains elusive. Here, we constructed transcriptomes for both long noncoding RNAs (lncRNAs) and circular RNAs (circRNAs) in four important developmental stages ranging from early embryonic to cardiomyocyte based on high-throughput sequencing datasets, which indicate the high stage-specific expression patterns of two ncRNA types...
September 18, 2017: EBioMedicine
https://www.readbyqxmd.com/read/29036702/a-hyperdynamic-h3-3-nucleosome-marks-promoter-regions-in-pluripotent-embryonic-stem-cells
#20
Sharon Schlesinger, Binyamin Kaffe, Shai Melcer, Jose D Aguilera, Divya M Sivaraman, Tommy Kaplan, Eran Meshorer
Histone variants and their chaperones are key regulators of eukaryotic transcription, and are critical for normal development. The histone variant H3.3 has been shown to play important roles in pluripotency and differentiation, and although its genome-wide patterns have been investigated, little is known about the role of its dynamic turnover in transcriptional regulation. To elucidate the role of H3.3 dynamics in embryonic stem cell (ESC) biology, we generated mouse ESC lines carrying a single copy of a doxycycline (Dox)-inducible HA-tagged version of H3...
September 25, 2017: Nucleic Acids Research
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