ArticleBMC genomics2010
Small RNA expression and strain specificity in the rat.
Article in BMC genomics, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 41 papers.
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Who cites it
41 citing papers in PubMed.
- The relationship of human tissue MicroRNAs with those from cerebrospinal fluid, tear, sweat, semen, and saliva.Scientific reports · 2025Article
- MicroRNAs in adipose tissue fibrosis: Mechanisms and therapeutic potential.Genes & diseases · 2025Review
- MicroRNA Significance in Cancer: An Updated Review on Diagnostic, Prognostic, and Therapeutic Perspectives.EJIFCC · 2024Review
- miRNA Profiling of Developing Rat Retina in the First Three Postnatal Weeks.Cellular and molecular neurobiology · 2023Article
- Oral Delivery of miR-320-3p with Lipidic Aminoglycoside Derivatives at Mid-Lactation Alters miR-320-3p Endogenous Levels in the Gut and Brain of Adult Rats According to Early or Regular Weaning.International journal of molecular sciences · 2022Article
- Study of Small Non-Coding RNA (miRNA) Expression Pattern of Fertile/Infertile Male Semen.Acta informatica medica : AIM : journal of the Society for Medical Informatics of Bosnia & Herzegovina : casopis Drustva za medicinsku informatiku BiH · 2022Article
- Review
- Signaling Proteins That Regulate Spermatogenesis Are the Emerging Target of Toxicant-Induced Male Reproductive Dysfunction.Frontiers in endocrinology · 2021Review
- A microRNA cluster in the Fragile-X region expressed during spermatogenesis targets FMR1.EMBO reports · 2019Article
- MicroRNA-410-5p exacerbates high-fat diet-induced cardiac remodeling in mice in an endocrine fashion.Scientific reports · 2018Article
- Rescue of PFOS-induced human Sertoli cell injury by overexpressing a p-FAK-Y407E phosphomimetic mutant.Scientific reports · 2017Article
- Genome-wide profiling and differential expression of microRNA in rat pluripotent stem cells.Scientific reports · 2017Article
- Estimation of the human postmortem interval using an established rat mathematical model and multi-RNA markers.Forensic science, medicine, and pathology · 2017Article
- An Integrated Analysis of miRNAs and Methylated Genes Encoding mRNAs and lncRNAs in Sheep Breeds with Different Fecundity.Frontiers in physiology · 2017Article
- Article
- Substantial and robust changes in microRNA transcriptome support postnatal development of the hypothalamus in rat.Scientific reports · 2016Article
- Beyond miR-122: Identification of MicroRNA Alterations in Blood During a Time Course of Hepatobiliary Injury and Biliary Hyperplasia in Rats.Toxicological sciences : an official journal of the Society of Toxicology · 2016Article
- Identification and Analysis of the Porcine MicroRNA in Porcine Cytomegalovirus-Infected Macrophages Using Deep Sequencing.PloS one · 2016Article
- Review
- Partial depletion of yolk during zebrafish embryogenesis changes the dynamics of methionine cycle and metabolic genes.BMC genomics · 2015Article
Corrections and comments
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Authors and funding
4 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundDigital gene expression (DGE) profiling has become an established tool to study RNA expression. Here, we provide an in-depth analysis of small RNA DGE profiles from two different rat strains (BN-Lx and SHR) from six different rat tissues (spleen, liver, brain, testis, heart, kidney). We describe the expression patterns of known and novel micro (mi)RNAs and piwi-interacting (pi)RNAs.
resultsWe confirmed the expression of 588 known miRNAs (54 in antisense orientation) and identified 56 miRNAs homologous to known human or mouse miRNAs, as well as 45 new rat miRNAs. Furthermore, we confirmed specific A to I editing in brain for mir-376a/b/c and identified mir-377 as a novel editing target. In accordance with earlier findings, we observed a highly tissue-specific expression pattern for all tissues analyzed. The brain was found to express the highest number of tissue-specific miRNAs, followed by testis. Notably, our experiments also revealed robust strain-specific differential miRNA expression in the liver that is caused by genetic variation between the strains. Finally, we identified two types of germline-specific piRNAs in testis, mapping either to transposons or in strand-specific clusters.
conclusionsTaken together, the small RNA compendium described here advances the annotation of small RNAs in the rat genome. Strain and tissue-specific expression patterns furthermore provide a strong basis for studying the role of small RNAs in regulatory networks as well as biological process like physiology and neurobiology that are extensively studied in this model system.
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