ArticleBMC genomics2012
Identification of common carp (Cyprinus carpio) microRNAs and microRNA-related SNPs.
Article in BMC genomics, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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Who cites it
22 citing papers in PubMed, 56 citations in OpenAlex.
- Identification and expression analysis of sex biased miRNAs in chinese hook snout carpFrontiers in genetics · 2022Article
- Cross-species Exon Capture and Whole Exome Sequencing: Application, Utility and Challenges for Genomic Resource Development in Non-model Species.Marine biotechnology (New York, N.Y.) · 2021Article
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- Selection of reference genes for miRNA quantitative PCR and its application in miR-34a/Sirtuin-1 mediated energy metabolism in Megalobrama amblycephala.Fish physiology and biochemistry · 2019Article
- Effects of short-time exposure to atrazine on miRNA expression profiles in the gonad of common carp (Cyprinus carpio).BMC genomics · 2019Article
- Selection of suitable candidate genes for miRNA expression normalization in Yellow River Carp (Cyprinus carpio. var).Scientific reports · 2019Article
- Comparative expression analysis of let-7 microRNAs during ovary development in Megalobrama amblycephala.Fish physiology and biochemistry · 2019Article
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- Analysis of Expression and Single Nucleotide Polymorphisms ofBioMed research international · 2019Article
- Computational identification and characterization of miRNAs and their target genes from five cyprinidae fishes.Saudi journal of biological sciences · 2017Article
- Identification and profiling of Cyprinus carpio microRNAs during ovary differentiation by deep sequencing.BMC genomics · 2017Article
- Evolution of Fish Let-7 MicroRNAs and Their Expression Correlated to Growth Development in Blunt Snout Bream.International journal of molecular sciences · 2017Article
- The microRNA repertoire of Tibetan naked carp Gymnocypris przewalskii: A case study in Schizothoracinae fish on the Tibetan Plateau.PloS one · 2017Article
- Profilings of MicroRNAs in the Liver of Common Carp (Cyprinus carpio) Infected with Flavobacterium columnare.International journal of molecular sciences · 2016Article
- Gene Expression Variations of Red-White Skin Coloration in Common Carp (Cyprinus carpio).International journal of molecular sciences · 2015Article
- Identification of MicroRNA for Intermuscular Bone Development in Blunt Snout Bream (Megalobrama amblycephala).International journal of molecular sciences · 2015Article
- MicroRNA in teleost fish.Genome biology and evolution · 2014Review
- The transcriptomes of the crucian carp complex (Carassius auratus) provide insights into the distinction between unisexual triploids and sexual diploids.International journal of molecular sciences · 2014Article
- Identification and characterization of microRNAs in pearl oyster Pinctada martensii by Solexa deep sequencing.Marine biotechnology (New York, N.Y.) · 2014Article
Corrections and comments
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Authors and funding
9 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundMicroRNAs (miRNAs) exist pervasively across viruses, plants and animals and play important roles in the post-transcriptional regulation of genes. In the common carp, miRNA targets have not been investigated. In model species, single-nucleotide polymorphisms (SNPs) have been reported to impair or enhance miRNA regulation as well as to alter miRNA biogenesis. SNPs are often associated with diseases or traits. To date, no studies into the effects of SNPs on miRNA biogenesis and regulation in the common carp have been reported.
resultsUsing homology-based prediction combined with small RNA sequencing, we have identified 113 common carp mature miRNAs, including 92 conserved miRNAs and 21 common carp specific miRNAs. The conserved miRNAs had significantly higher expression levels than the specific miRNAs. The miRNAs were clustered into three phylogenetic groups. Totally 394 potential miRNA binding sites in 206 target mRNAs were predicted for 83 miRNAs. We identified 13 SNPs in the miRNA precursors. Among them, nine SNPs had the potential to either increase or decrease the energy of the predicted secondary structures of the precursors. Further, two SNPs in the 3' untranslated regions of target genes were predicted to either disturb or create miRNA-target interactions.
conclusionsThe common carp miRNAs and their target genes reported here will help further our understanding of the role of miRNAs in gene regulation. The analysis of the miRNA-related SNPs and their effects provided insights into the effects of SNPs on miRNA biogenesis and function. The resource data generated in this study will help advance the study of miRNA function and phenotype-associated miRNA identification.
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