scholarly journals Whole transcriptome analysis of adrenal glands from prenatal glucocorticoid programmed hypertensive rodents

2020 ◽  
Vol 10 (1) ◽  
Author(s):  
Sujeenthar Tharmalingam ◽  
Sandhya Khurana ◽  
Alyssa Murray ◽  
Jeremy Lamothe ◽  
T. C. Tai
Keyword(s):  
Gene Expression ◽  
Circadian Rhythm ◽  
Transcriptome Analysis ◽  
Molecular Mechanisms ◽  
Adrenal Glands ◽  
Genetic Model ◽  
Pathway Enrichment Analysis ◽  
Wistar Kyoto ◽  
Whole Transcriptome Analysis ◽  
Whole Transcriptome

Abstract Prenatal glucocorticoid exposure is associated with the development of hypertension in adults. We have previously demonstrated that antenatal dexamethosone (DEX) administration in Wistar-Kyoto dams results in offspring with increased blood pressure coupled with elevated plasma epinephrine levels. In order to elucidate the molecular mechanisms responsible for prenatal DEX-mediated programming of hypertension, a whole-transcriptome analysis was performed on DEX programmed WKY male adrenal glands using the Rat Gene 2.0 microarray. Differential gene expression (DEG) analysis of DEX-exposed offspring compared with saline-treated controls revealed 142 significant DEGs (109 upregulated and 33 downregulated genes). DEG pathway enrichment analysis demonstrated that genes involved in circadian rhythm signaling were most robustly dysregulated. RT-qPCR analysis confirmed the increased expression of circadian genes Bmal1 and Npas2, while Per2, Per3, Cry2 and Bhlhe41 were significantly downregulated. In contrast, gene expression profiling of Spontaneously Hypertensive (SHR) rats, a genetic model of hypertension, demonstrated decreased expression of Bmal1 and Npas2, while Per1, Per2, Per3, Cry1, Cry2, Bhlhe41 and Csnk1D were all upregulated compared to naïve WKY controls. Taken together, this study establishes that glucocorticoid programmed adrenals have impaired circadian signaling and that changes in adrenal circadian rhythm may be an underlying molecular mechanism responsible for the development of hypertension.

scholarly journals Alterations of Immune and Keratinization Gene Expression in Papulopustular Rosacea by Whole Transcriptome Analysis

2020 ◽  
Vol 140 (5) ◽  
pp. 1100-1103.e4 ◽  
Author(s):  
Yi-Hsien Shih ◽  
Jin Xu ◽  
Anusha Kumar ◽  
Rui Li ◽  
Anne Lynn S. Chang
Keyword(s):  
Gene Expression ◽  
Transcriptome Analysis ◽  
Whole Transcriptome Analysis ◽  
Whole Transcriptome

scholarly journals Regional heterogeneity in rat Peyer’s patches through whole transcriptome analysis

2020 ◽  
pp. 153537022097301
Author(s):  
Charles L Phillips ◽  
Bradley A Welch ◽  
Michael R Garrett ◽  
Bernadette E Grayson
Keyword(s):  
Gene Expression ◽  
Small Intestine ◽  
Transcriptome Analysis ◽  
Expression Patterns ◽  
Gene Expression Pattern ◽  
Peyer's Patches ◽  
Peyer’S Patches ◽  
Junction Protein ◽  
Whole Transcriptome Analysis ◽  
Whole Transcriptome

Peyer’s patches are gut-associated lymphoid tissue located throughout the intestinal wall. Peyer’s patches consist of highly organized ovoid-shaped follicles, classified as non-encapsulated lymphatic tissues, populated with B cells, T cells, macrophages, and dendritic cells and function as an organism’s intestinal surveillance. Limited work compares the gene profiles of Peyer’s patches derived from different intestinal regions. In the current study, we first performed whole transcriptome analysis using RNAseq to compare duodenal and ileal Peyer’s patches obtained from the small intestine of Long Evans rats. Of the 12,300 genes that were highly expressed, 18.5% were significantly different between the duodenum and ileum. Using samples obtained from additional subjects ( n = 10), we validated the novel gene expression patterns in Peyer’s patches obtained from the three regions of the small intestine. Rats had a significantly reduced number of Peyer’s patches in the duodenum in comparison to either the jejunum or ileum. Regional differences in structural, metabolic, and immune-related genes were validated. Genes such as alcohol dehydrogenase 1, gap junction protein beta 2, and serine peptidase inhibitor clade b, member 1a were significantly reduced in the ileum in comparison to other regions. On the other hand, genes such as complement C3d receptor type, lymphocyte cytosolic protein 1, and lysozyme C2 precursor were significantly lower in the duodenum. In summary, the gene expression pattern of Peyer’s patches is influenced by intestinal location and may contribute to its role in that segment.

scholarly journals Whole Transcriptome Analysis Provides Insights into Molecular Mechanisms for Molting in Litopenaeus vannamei

PLoS ONE ◽  
2015 ◽  
Vol 10 (12) ◽  
pp. e0144350 ◽  
Author(s):  
Yi Gao ◽  
Xiaojun Zhang ◽  
Jiankai Wei ◽  
Xiaoqing Sun ◽  
Jianbo Yuan ◽  
...  
Keyword(s):  
Transcriptome Analysis ◽  
Litopenaeus Vannamei ◽  
Molecular Mechanisms ◽  
Whole Transcriptome Analysis ◽  
Whole Transcriptome

scholarly journals Transcriptome-Based Identification of Genes Responding to the Organophosphate Pesticide Phosmet in Danio rerio

Genes ◽  
2021 ◽  
Vol 12 (11) ◽  
pp. 1738
Author(s):  
Bala Murali Krishna Vasamsetti ◽  
Kyongmi Chon ◽  
Juyeong Kim ◽  
Jin-A Oh ◽  
Chang-Young Yoon ◽  
...  
Keyword(s):  
Transcriptome Analysis ◽  
Molecular Mechanisms ◽  
Sequencing Data ◽  
Developmental Abnormalities ◽  
Significant Enrichment ◽  
Spine Curvature ◽  
Pathway Regulation ◽  
Whole Transcriptome Analysis ◽  
Whole Transcriptome ◽  
Regulation Of Actin Cytoskeleton

Organophosphate pesticides (OPPs) are one of the most widely used insecticides. OPPs exert their neurotoxic effects by inhibiting acetylcholine esterase (AChE). Most of the gross developmental abnormalities observed in OPP-treated fish, on the other hand, may not be explained solely by AChE inhibition. To understand the overall molecular mechanisms involved in OPP toxicity, we used the zebrafish (ZF) model. We exposed ZF embryos to an OPP, phosmet, for 96 h, and then analyzed developmental abnormalities and performed whole transcriptome analysis. Phenotypic abnormalities, such as bradycardia, spine curvature, and growth retardation, were observed in phosmet-treated ZF (PTZF). Whole transcriptome analysis revealed 2190 differentially expressed genes (DEGs), with 822 and 1368 significantly up-and downregulated genes, respectively. System process and sensory and visual perception were among the top biological pathways affected by phosmet toxicity. Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway analysis revealed significant enrichment of metabolic pathways, calcium signaling pathway, regulation of actin cytoskeleton, cardiac muscle contraction, drug metabolism–other enzymes, and phototransduction. Quantitative real-time PCR results of six DEGs agreed with the sequencing data expression profile trend. Our findings provide insights into the consequences of phosmet exposure in ZF, as well as an estimate of the potential risk of OPPs to off-target species.

scholarly journals Whole-Transcriptome Analysis of Serum L1CAM-Captured Extracellular Vesicles Reveals Neural And Glycosylation Changes In Autism Spectrum Disorder

2021 ◽  
Author(s):  
Yannan Qin ◽  
Li Cao ◽  
Haiqing Zhang ◽  
Shuang Cai ◽  
Jinyuan Zhang ◽  
...  
Keyword(s):  
Extracellular Vesicles ◽  
Transcriptome Analysis ◽  
Molecular Mechanisms ◽  
Predictive Biomarkers ◽  
Autism Spectrum ◽  
Spectrum Disorder ◽  
Serum Samples ◽  
Bioactive Substances ◽  
Whole Transcriptome Analysis ◽  
Whole Transcriptome

Abstract The pathophysiology of autistic spectrum disorder (ASD) is not fully understood and there are no diagnostic or predictive biomarkers. Extracellular vesicles (EVs) are cell-derived nano-sized vesicles, carrying nucleic acids, proteins, lipids and other bioactive substances. As reported, serum neural cell adhesion molecule L1 (L1CAM)-captured EVs (LCEVs) can provide reliable biomarkers for neurological diseases; however, little is known about the LCEVs in children with ASD. In this study, serum samples were collected from 100 ASD children and 60 age-matched typically developed (TD) children. LCEVs were isolated and characterized meticulously. Whole-transcriptome of LCEVs was analyzed by lncRNA microarray and RNA-Sequencing. All raw data was submitted on GEO Profiles, and GEO accession numbers is GSE186493. RNAs expressed differently in LCEVs from ASD sera vs. TD sera were screened, analyzed, and further validated. A total of 1418 mRNAs, 1745 lncRNAs and 11 miRNAs were differentially expressed, and most of them were down-regulated in ASD. Most RNAs were involved in neuron- and glycan-related networks implicated in ASD. The levels of EDNRA, SLC17A6, HTR3A, OSTC, TMEM165, PC-5p-139289_26, and hsa-miR-193a-5p changed significantly in ASD. In conclusion, whole-transcriptome analysis of serum LCEVs reveals neural and glycosylation changes in ASD, which may help detect predictive biomarkers and molecular mechanisms of ASD, and provide reference for diagnoses and therapeutic management of the disease.

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