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Fetal transcriptome

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https://www.readbyqxmd.com/read/28626076/cardiac-fibroblast-transcriptome-analyses-support-a-role-for-interferogenic-profibrotic-and-inflammatory-genes-in-anti-ssa-ro-associated-congenital-heart-block
#1
Robert M Clancy, Androo J Markham, Tanisha Jackson, Sara E Rasmussen, Miroslav Blumenberg, Jill P Buyon
The signature lesion of SSA/Ro autoantibody-associated congenital heart block (CHB) is fibrosis and a macrophage infiltrate, supporting an experimental focus on cues influencing the fibroblast component. The transcriptomes of human fetal cardiac fibroblasts were analyzed using two complementary approaches. Cardiac injury conditions were simulated in vitro by incubating human fetal cardiac fibroblasts with supernatants from macrophages transfected with the SSA/Ro-associated hY3. The top ten upregulated transcripts in the stimulated fibroblasts reflected a type I interferon (IFN) response (e...
June 16, 2017: American Journal of Physiology. Heart and Circulatory Physiology
https://www.readbyqxmd.com/read/28625536/reconstructing-lineage-hierarchies-of-mouse-uterus-epithelial-development-using-single-cell-analysis
#2
Bingbing Wu, Chengrui An, Yu Li, Zi Yin, Lin Gong, Zhenli Li, Yixiao Liu, Boon Chin Heng, Dandan Zhang, Hongwei Ouyang, Xiaohui Zou
The endometrial layer comprises luminal and glandular epithelia that both develop from the same simple layer of fetal uterine epithelium. Mechanisms of uterine epithelial progenitor self-renewal and differentiation are unclear. This study aims to systematically analyze the molecular and cellular mechanisms of uterine epithelial development by single-cell analysis. An integrated set of single-cell transcriptomic data of uterine epithelial progenitors and their differentiated progenies is provided. Additionally the unique molecular signatures of these cells, characterized by sequential upregulation of specific epigenetic and metabolic activities, and activation of unique signaling pathways and transcription factors, were also investigated...
June 14, 2017: Stem Cell Reports
https://www.readbyqxmd.com/read/28596717/integration-of-metabolomic-and-transcriptomic-networks-in-pregnant-women-reveals-biological-pathways-and-predictive-signatures-associated-with-preeclampsia
#3
Rachel S Kelly, Damien C Croteau-Chonka, Amber Dahlin, Hooman Mirzakhani, Ann C Wu, Emily S Wan, Michael J McGeachie, Weiliang Qiu, Joanne E Sordillo, Amal Al-Garawi, Kathryn J Gray, Thomas F McElrath, Vincent J Carey, Clary B Clish, Augusto A Litonjua, Scott T Weiss, Jessica A Lasky-Su
INTRODUCTION: Preeclampsia is a leading cause of maternal and fetal mortality worldwide, yet its exact pathogenesis remains elusive. OBJECTIVES: This study, nested within the Vitamin D Antenatal Asthma Reduction Trial (VDAART), aimed to develop integrated omics models of preeclampsia that have utility in both prediction and in the elucidation of underlying biological mechanisms. METHODS: Metabolomic profiling was performed on first trimester plasma samples of 47 pregnant women from VDAART who subsequently developed preeclampsia and 62 controls with healthy pregnancies, using liquid-chromatography tandem mass-spectrometry...
January 2017: Metabolomics: Official Journal of the Metabolomic Society
https://www.readbyqxmd.com/read/28575308/spatial-temporal-transcriptional-dynamics-of-long-non-coding-rnas-in-human-brain
#4
Xiao-Qin Zhang, Ze-Lin Wang, Ming-Wai Poon, Jian-Hua Yang
The functional architecture of human brain is greatly determined by the temporal and spatial regulation of the transcription process. However, the spatial and temporal transcriptional landscape of long non-coding RNAs (lncRNAs) during human brain development remains poorly understood. Here, we report the genome-wide lncRNA transcriptional analysis in an extensive series of 1340 post-mortem human brain specimens collected from 16 regions spanning the period from early embryo development to late adulthood. We discovered that lncRNA transcriptome dramatically changed during fetal development, while transited to a surprisingly relatively stable state after birth till the late adulthood...
May 31, 2017: Human Molecular Genetics
https://www.readbyqxmd.com/read/28554804/a-comparison-of-the-sexually-dimorphic-dexamethasone-transcriptome-in-mouse-cerebral-cortical-and-hypothalamic-embryonic-neural-stem-cells
#5
REVIEW
Krystle A Frahm, Jacob K Waldman, Soumya Luthra, Anthony C Rudine, A Paula Monaghan-Nichols, Uma R Chandran, Donald B DeFranco
Fetal exposure to synthetic glucocorticoids reprograms distinct neural circuits in the developing brain, often in a sex-specific manner, via mechanisms that remain poorly understood. To reveal whether such reprogramming is associated with select molecular signatures, we characterized the transcriptome of primary, embryonic mouse cerebral cortical and hypothalamic neural progenitor/stem cells derived from individual male and female embryos exposed to the synthetic glucocorticoid, dexamethasone. Gene expression profiling by RNA-Seq identified differential expression of common and unique genes based upon brain region, sex, and/or dexamethasone exposure...
May 26, 2017: Molecular and Cellular Endocrinology
https://www.readbyqxmd.com/read/28546318/an-environment-dependent-transcriptional-network-specifies-human-microglia-identity
#6
David Gosselin, Dylan Skola, Nicole G Coufal, Inge R Holtman, Johannes C M Schlachetzki, Eniko Sajti, Baptiste N Jaeger, Carolyn O'Connor, Conor Fitzpatrick, Martina P Pasillas, Monique Pena, Amy Adair, David G Gonda, Michael L Levy, Richard M Ransohoff, Fred H Gage, Christopher K Glass
Microglia play essential roles in central nervous system (CNS) homeostasis and influence diverse aspects of neuronal function. However, the transcriptional mechanisms that specify human microglia phenotypes are largely unknown. We examined the transcriptomes and epigenetic landscapes of human microglia isolated from surgically resected brain tissue ex vivo and following transition to an in vitro environment. Transfer to a tissue culture environment results in rapid and extensive downregulation of microglia-specific genes that are induced in primitive mouse macrophages following migration into the fetal brain...
May 25, 2017: Science
https://www.readbyqxmd.com/read/28467935/deciphering-pancreatic-islet-%C3%AE-cell-and-%C3%AE-cell-maturation-pathways-and-characteristic-features-at-the-single-cell-level
#7
Wei-Lin Qiu, Yu-Wei Zhang, Ye Feng, Lin-Chen Li, Liu Yang, Cheng-Ran Xu
Pancreatic β and α cells play essential roles in maintaining glucose homeostasis. However, the mechanisms by which these distinct cell populations are generated, expand, and mature during pancreas development remain unclear. In this study, we addressed this critical question by performing a single-cell transcriptomic analysis of mouse β and α cells sorted from fetal to adult stages. We discovered that β and α cells use different regulatory strategies for their maturation and that cell proliferation peaks at different developmental times...
May 2, 2017: Cell Metabolism
https://www.readbyqxmd.com/read/28463226/prospective-isolation-of-nkx2-1-expressing-human-lung-progenitors-derived-from-pluripotent-stem-cells
#8
Finn Hawkins, Philipp Kramer, Anjali Jacob, Ian Driver, Dylan C Thomas, Katherine B McCauley, Nicholas Skvir, Ana M Crane, Anita A Kurmann, Anthony N Hollenberg, Sinead Nguyen, Brandon G Wong, Ahmad S Khalil, Sarah Xl Huang, Susan Guttentag, Jason R Rock, John M Shannon, Brian R Davis, Darrell N Kotton
It has been postulated that during human fetal development, all cells of the lung epithelium derive from embryonic, endodermal, NK2 homeobox 1-expressing (NKX2-1+) precursor cells. However, this hypothesis has not been formally tested owing to an inability to purify or track these progenitors for detailed characterization. Here we have engineered and developmentally differentiated NKX2-1GFP reporter pluripotent stem cells (PSCs) in vitro to generate and isolate human primordial lung progenitors that express NKX2-1 but are initially devoid of differentiated lung lineage markers...
June 1, 2017: Journal of Clinical Investigation
https://www.readbyqxmd.com/read/28455512/systematic-identification-and-characterization-of-cardiac-long-intergenic-noncoding-rnas-in-zebrafish
#9
Lei Wang, Xiao Ma, Xiaolei Xu, Yuji Zhang
Long intergenic noncoding RNAs (lincRNAs) are increasingly recognized as potential key regulators of heart development and related diseases, but their identities and functions remain elusive. In this study, we sought to identify and characterize the cardiac lincRNA transcriptome in the experimentally accessible zebrafish model by integrating bioinformatics analysis with experimental validation. By conducting genome-wide RNA sequencing profiling of zebrafish embryonic hearts, adult hearts, and adult muscle, we generated a high-confidence set of 813 cardiac lincRNA transcripts, 423 of which are novel...
April 28, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28436429/human-fetal-heart-specific-coexpression-network-involves-congenital-heart-disease-defect-candidate-genes
#10
Bo Wang, Guoling You, Qihua Fu
Heart development is a complex process requiring dynamic transcriptional regulation. Disturbance of this process will lead to severe developmental defects such as congenital heart disease/defect (CHD). CHD is a group of complex disorder with high genetic heterogeneity, common pathways associated with CHD remains largely unknown. In the manuscript, we focused on the tissue specific genes in human fetal heart samples to explore such pathways. We used the RNA microarray dataset of human fetal tissues from ENCODE project to identify genes with heart tissue specific expression...
April 24, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28432216/embryonic-cholecystitis-and-defective-gallbladder-contraction-in-the-sox17-haploinsufficient-mouse-model-of-biliary-atresia
#11
Hiroki Higashiyama, Aisa Ozawa, Hiroyuki Sumitomo, Mami Uemura, Ko Fujino, Hitomi Igarashi, Kenya Imaimatsu, Naoki Tsunekawa, Yoshikazu Hirate, Masamichi Kurohmaru, Yukio Saijoh, Masami Kanai-Azuma, Yoshiakira Kanai
The gallbladder excretes cytotoxic bile acids into the duodenum through the cystic duct and common bile duct system. Sox17 haploinsufficiency causes biliary atresia-like phenotypes and hepatitis in late organogenesis mouse embryos, but the molecular and cellular mechanisms underlying this remain unclear. In this study, transcriptomic analyses revealed the early onset of cholecystitis in Sox17(+/-) embryos, together with the appearance of ectopic cystic duct-like epithelia in their gallbladders. The embryonic hepatitis showed positive correlations with the severity of cholecystitis in individual Sox17(+/-) embryos...
May 15, 2017: Development
https://www.readbyqxmd.com/read/28426964/ipsc-derived-human-microglia-like-cells-to-study-neurological-diseases
#12
Edsel M Abud, Ricardo N Ramirez, Eric S Martinez, Luke M Healy, Cecilia H H Nguyen, Sean A Newman, Andriy V Yeromin, Vanessa M Scarfone, Samuel E Marsh, Cristhian Fimbres, Chad A Caraway, Gianna M Fote, Abdullah M Madany, Anshu Agrawal, Rakez Kayed, Karen H Gylys, Michael D Cahalan, Brian J Cummings, Jack P Antel, Ali Mortazavi, Monica J Carson, Wayne W Poon, Mathew Blurton-Jones
Microglia play critical roles in brain development, homeostasis, and neurological disorders. Here, we report that human microglial-like cells (iMGLs) can be differentiated from iPSCs to study their function in neurological diseases, like Alzheimer's disease (AD). We find that iMGLs develop in vitro similarly to microglia in vivo, and whole-transcriptome analysis demonstrates that they are highly similar to cultured adult and fetal human microglia. Functional assessment of iMGLs reveals that they secrete cytokines in response to inflammatory stimuli, migrate and undergo calcium transients, and robustly phagocytose CNS substrates...
April 19, 2017: Neuron
https://www.readbyqxmd.com/read/28410545/lps-stimulation-of-cord-blood-reveals-a-newborn-specific-neutrophil-transcriptomic-response-and-cytokine-production
#13
Brittany Mathias, Juan C Mira, Jonathan P Rehfuss, Jaimar C Rincon, Ricardo Ungaro, Dina C Nacionales, M Cecilia Lopez, Henry V Baker, Lyle L Moldawer, Shawn D Larson
BACKGROUND: The neonatal innate immune system differs to microbial infection both quantitatively and qualitatively when compared with adults. Here, we provide the first genome-wide ex-vivo expression profile of umbilical cord blood (UCB) neutrophils from full-term infants prior to and in response to whole-blood lipopolysaccharide (LPS) stimulation. Additionally, we provide cytokine expression prior to and following LPS stimulation. The genomic expression and cytokine profile are compared with LPS-stimulated whole blood from healthy adult subjects (HC)...
May 2017: Shock
https://www.readbyqxmd.com/read/28407805/revelation-of-mrnas-and-proteins-in-porcine-milk-exosomes-by-transcriptomic-and-proteomic-analysis
#14
Ting Chen, Qian-Yun Xi, Jia-Jie Sun, Rui-Song Ye, Xiao Cheng, Rui-Ping Sun, Song-Bo Wang, Gang Shu, Li-Na Wang, Xiao-Tong Zhu, Qing-Yan Jiang, Yong-Liang Zhang
BACKGROUND: Milk is a complex liquid that provides nutrition to newborns. Recent reports demonstrated that milk is enriched in maternal-derived exosomes that are involved in fetal physiological and pathological conditions by transmission of exosomal mRNAs, miRNAs and proteins. Until now, there is no such research relevant to exosomal mRNAs and proteins in porcine milk, therefore, we have attempted to investigate porcine milk exosomal mRNAs and proteins using RNA-sequencing and proteomic analysis...
April 13, 2017: BMC Veterinary Research
https://www.readbyqxmd.com/read/28404879/developmental-transcriptome-profiling-of-bovine-muscle-tissue-reveals-an-abundant-gosb-that-regulates-myoblast-proliferation-and-apoptosis
#15
Hui Li, Xuefeng Wei, Jiameng Yang, Dong Dong, Yongzhen Huang, Xianyong Lan, Martin Plath, Chuzhao Lei, Xinglei Qi, Yueyu Bai, Hong Chen
The formation of bovine skeletal muscle involves complex developmental and physiological processes that play a vital role in determining the quality of beef; however, the regulatory mechanisms underlying differences in meat quality are largely unknown. We conducted transcriptome analysis of bovine muscle tissues to compare gene expression profiles between embryonic and adult stages. Total RNAs from skeletal muscle of Qinchuan cattle at fetal and adult stages were used to construct libraries for Illumina next-generation sequencing using the Ribo-Zero RNA sequencing (RNA-Seq) method...
May 9, 2017: Oncotarget
https://www.readbyqxmd.com/read/28356702/appropriately-differentiated-arpe-19-cells-regain-phenotype-and-gene-expression-profiles-similar-to-those-of-native-rpe-cells
#16
William Samuel, Cynthia Jaworski, Olga A Postnikova, R Krishnan Kutty, Todd Duncan, Li Xuan Tan, Eugenia Poliakov, Aparna Lakkaraju, T Michael Redmond
PURPOSE: The RPE cell line ARPE-19 provides a dependable and widely used alternative to native RPE. However, replication of the native RPE phenotype becomes more difficult because these cells lose their specialized phenotype after multiple passages. Compounding this problem is the widespread use of ARPE-19 cells in an undifferentiated state to attempt to model RPE functions. We wished to determine whether suitable culture conditions and differentiation could restore the RPE-appropriate expression of genes and proteins to ARPE-19, along with a functional and morphological phenotype resembling native RPE...
2017: Molecular Vision
https://www.readbyqxmd.com/read/28322282/maternal-immune-activation-dysregulation-of-the-fetal-brain-transcriptome-and-relevance-to-the-pathophysiology-of-autism-spectrum-disorder
#17
M V Lombardo, H M Moon, J Su, T D Palmer, E Courchesne, T Pramparo
Maternal immune activation (MIA) via infection during pregnancy is known to increase risk for autism spectrum disorder (ASD). However, it is unclear how MIA disrupts fetal brain gene expression in ways that may explain this increased risk. Here we examine how MIA dysregulates rat fetal brain gene expression (at a time point analogous to the end of the first trimester of human gestation) in ways relevant to ASD-associated pathophysiology. MIA downregulates expression of ASD-associated genes, with the largest enrichments in genes known to harbor rare highly penetrant mutations...
March 21, 2017: Molecular Psychiatry
https://www.readbyqxmd.com/read/28292546/novel-insights-into-host-responses-and-reproductive-pathophysiology-of-porcine-reproductive-and-respiratory-syndrome-caused-by-prrsv-2
#18
REVIEW
John C S Harding, Andrea Ladinig, Predrag Novakovic, Susan E Detmer, Jamie M Wilkinson, Tianfu Yang, Joan K Lunney, Graham S Plastow
A large challenge experiment using North American porcine reproductive and respiratory virus (PRRSV-2) provided new insights into the pathophysiology of reproductive PRRS. Deep phenotyping of dams and fetuses identified maternal and fetal predictors of PRRS severity and resilience. PRRSV infection resulted in dramatic decreases in all leukocyte subsets by 2days post inoculation. Apoptosis in the interface region was positively related to endometrial vasculitis, viral load in endometrium and fetal thymus, and odds of meconium staining...
March 2, 2017: Veterinary Microbiology
https://www.readbyqxmd.com/read/28274610/retinoic-acid-signaling-is-dispensable-for-somatic-development-and-function-in-the-mammalian-ovary
#19
Anna Minkina, Robin E Lindeman, Micah D Gearhart, Anne-Amandine Chassot, Marie-Christine Chaboissier, Norbert B Ghyselinck, Vivian J Bardwell, David Zarkower
Retinoic acid (RA) is a potent inducer of cell differentiation and plays an essential role in sex-specific germ cell development in the mammalian gonad. RA is essential for male gametogenesis and hence fertility. However, RA can also disrupt sexual cell fate in somatic cells of the testis, promoting transdifferentiation of male Sertoli cells to female granulosa-like cells when the male sexual regulator Dmrt1 is absent. The feminizing ability of RA in the Dmrt1 mutant somatic testis suggests that RA might normally play a role in somatic cell differentiation or cell fate maintenance in the ovary...
April 15, 2017: Developmental Biology
https://www.readbyqxmd.com/read/28251419/transcriptome-profile-of-the-human-placenta
#20
Marta Majewska, Aleksandra Lipka, Lukasz Paukszto, Jan Pawel Jastrzebski, Kamil Myszczynski, Marek Gowkielewicz, Marcin Jozwik, Mariusz Krzysztof Majewski
The human placenta is a particular organ that inseparably binds the mother and the fetus. The proper development and survival of the conceptus relies on the essential interplay between maternal and fetal factors involved in cooperation within the placenta. In our study, high-throughput sequencing (RNA-seq) was applied to analyze the global transcriptome of the human placenta during uncomplicated pregnancies. The RNA-seq was utilized to identify the global pattern of the gene expression in placentas (N = 4) from women in single and twin pregnancies...
March 1, 2017: Functional & Integrative Genomics
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