Comprehensive analysis of lncRNAs and mRNAs in skeletal muscle of rainbow trout (Oncorhynchus mykiss) exposed to estradiol

Wang, Jian; Koganti, Prasanthi P.; Yao, Jianbo; Wei, Shuo; Cleveland, Beth M.

doi:10.1038/s41598-017-12136-6

Cited by 12 publications

(9 citation statements)

References 73 publications

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“…In this context, rapid glucocorticoid effects on the regulation of focal adhesion in mammalian skeletal muscle has been previously reported (6). In addition, protocols of exogenous administration of another steroid-family hormone (estradiol) in rainbow trout reveal the strong regulation of several genes involved in focal adhesion processes in the skeletal muscle (43). To date, diverse focal adhesion-related genes have been identified as glucocorticoidresponsive genes, suggesting a critical role of this process in the adaptive stress response in mammals (21,24).…”

Section: Discussionmentioning

confidence: 89%

Early transcriptomic responses associated with the membrane-initiated action of cortisol in the skeletal muscle of rainbow trout (Oncorhynchus mykiss)

Aedo

Zuloaga

Bastías-Molina

et al. 2019

Physiological Genomics

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Cortisol is a critical neuroendocrine regulator of the stress response in fish. Cortisol practically affects all tissues by interacting with an intracellular receptor and modulating target gene expression. However, cortisol also interacts with components of the plasma membrane in a nongenomic process that activates rapid signaling. Until now, the implication of this novel cortisol signaling for the global transcriptional response has not been explored. In the present work, we evaluated the effects of the membrane-initiated actions of cortisol on the in vivo transcriptome of rainbow trout ( Oncorhynchus mykiss) skeletal muscle. RNA-Seq analyses were performed to examine the transcriptomic changes in rainbow trout stimulated by physiological concentrations of cortisol and cortisol coupled with bovine serum albumin (cortisol-BSA), a membrane-impermeable analog of cortisol. A total of 660 million paired-ends reads were generated. Reads mapped onto the reference genome revealed that 1,737; 897; and 1,012 transcripts were differentially expressed after 1, 3, and 9 h of cortisol-BSA treatment, respectively. Gene Ontology analysis showed that this novel action of cortisol modulates several biological processes, such as mRNA processing, ubiquitin-dependent protein catabolic processes, and transcription regulation. In addition, a KEGG analysis revealed that focal adhesion was the main signaling pathway that was upregulated at all the times tested. Taking these results together, we propose that the membrane-initiated cortisol action contributes significantly in the regulation of stress-mediated gene expression.

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Section: Discussionmentioning

confidence: 89%

Early transcriptomic responses associated with the membrane-initiated action of cortisol in the skeletal muscle of rainbow trout (Oncorhynchus mykiss)

Aedo

Zuloaga

Bastías-Molina

et al. 2019

Physiological Genomics

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show abstract

“…RNA-seq is an effective method to identify novel genes and their potential functional properties. Recent studies have confirmed the contribution of transcriptome analysis at the molecular level [ 18 , 19 , 25 ]. The current results indicated the accuracy and high quality of sequencing data, which were then used for subsequent research.…”

Section: Discussionmentioning

confidence: 92%

Transcriptome analysis reveals differential gene expression in intramuscular adipose tissues of Jinhua and Landrace pigs

Miao

Wei

Khan

et al. 2018

The Journal of Veterinary Medical Science

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Meat is a rich source of protein, fatty acids and carbohydrates for human needs. In addition to necessary nutrients, high fat contents in pork increase the tenderness and juiciness of the meat, featuring diverse application in various dishes. This study investigated the transcriptomic profiles of intramuscular adipose tissues in Jinhua and Landrace pigs by employing advanced RNA sequencing. Results showed significant interesting to note that there were significant differences in the expression of genes. 1,632 genes showed significant differential expression, 837 genes were up-regulated and 195 genes were down-regulated. Variations in genes responsible for cell aggregation, extracellular matrix formation, cellular lipid catabolic process, and fatty acid binding strongly supported that both pig breeds feature variable fat and muscle metabolism. Certain differentially expressed genes are included in the pathway of mitogen-activated protein kinase signaling pathway, Ras signaling pathway and insulin pathway. Results from real-time quantitative polymerase chain reaction also validated the differential expression of 17 mRNAs between meats of the two pig breeds. Overall, these findings reveal significant differences in fat and protein metabolism of intramuscular adipose tissues of two pig breeds at the transcriptomic level and suggest diversification at the genetic level between breeds of the same species.

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“…Increased expression of genes involved in ubiquitin conjugating enzyme complex was observed in our previous study (WANG et al 2017). Our current findings and these observations together implicate DNA methylation as a major regulator of ubiquitin conjugating enzyme complex gene expression.…”

Section: Genes With Differentially Methylated Regionssupporting

confidence: 87%

Comprehensive Analyses of miRNA and DNA Methylation in 17beta-Estradiol Exposed Juvenile Rainbow Trout Skeletal Muscle

Koganti¹

Self Cite

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Overall these observations indicate the role of small RNA and epigenetic mechanism particularly DNA methylation involvement in regulation of rainbow trout skeletal myogenesis under the influence of E2. These gene regulations were observed within 24 hours of E2 treatment indicating rapid molecular changes to external stimuli. v DEDICATION To my husband T. V. R. Chowdari, you encouraged me to pursue my dream. You believed in me more than I did and never let me give up. Your sacrifices and constant support helped in achieving my goals. To my friend Swamy Krishna Tripurani. Your trust in me indeed lead to the position I am in today. Thank you. To my mom and dad. Your love and valuable life lessons made me the person I am. Thank you. vi ACKNOWLEDGEMENTS I am very fortunate to be guided and supported by many people during my graduate studies and I take this opportunity to express my gratitude. I feel privileged to have Dr. Jianbo Yao as my mentor. I would like to acknowledge his constant encouragement, guidance and teachings. He has provided opportunities to pursue various projects and made this journey thoughtful and rewarding. His optimism and kindness helped me grow personally and professionally. I am fortunate to work with such a wonderful teacher and role model. I am very grateful to Dr. Vagner Benedito for his scientific advice, training and suggestions. His love for teaching and enthusiasm are inspiring. I am thankful to Dr. Beth Cleveland who had been my primary resource and also instrumental in devising my research questions. I would like to extend my gratitude to Dr. P Brett Kenney for his constant help and insightful discussions. He always reminds me the importance of 'big picture'. I am also thankful to Dr. Kenneth Blemings for his lively, enthusiastic and energetic interactions.

show abstract

Comprehensive analysis of lncRNAs and mRNAs in skeletal muscle of rainbow trout (Oncorhynchus mykiss) exposed to estradiol

Cited by 12 publications

References 73 publications

Early transcriptomic responses associated with the membrane-initiated action of cortisol in the skeletal muscle of rainbow trout (Oncorhynchus mykiss)

Early transcriptomic responses associated with the membrane-initiated action of cortisol in the skeletal muscle of rainbow trout (Oncorhynchus mykiss)

Transcriptome analysis reveals differential gene expression in intramuscular adipose tissues of Jinhua and Landrace pigs

Comprehensive Analyses of miRNA and DNA Methylation in 17beta-Estradiol Exposed Juvenile Rainbow Trout Skeletal Muscle

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