ArticleSaudi journal of biological sciences2016
Computational prediction of candidate miRNAs and their potential functions in biomineralization in pearl oyster Pinctada martensii.
Article in Saudi journal of biological sciences, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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13 citing papers in PubMed, 28 citations in OpenAlex.
- Integrated mRNA and miRNA transcriptomic analysis reveals the response ofComputational and structural biotechnology journal · 2023Article
- Identification and Characterization of miRNAs and Their Predicted mRNAs in the Larval Development of Pearl Oyster Pinctada fucata.Marine biotechnology (New York, N.Y.) · 2022Article
- Discovery and functional understanding of MiRNAs in molluscs: a genome-wide profiling approach.RNA biology · 2021Article
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- Digging into bivalve miRNAomes: between conservation and innovation.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2021Review
- Identification of shell-color-related microRNAs in the Manila clam Ruditapes philippinarum using high-throughput sequencing of small RNA transcriptomes.Scientific reports · 2021Article
- A species-specific miRNA participates in biomineralization by targeting CDS regions of Prisilkin-39 and ACCBP in Pinctada fucata.Scientific reports · 2020Article
- Identification and Characterization of microRNAs and Their Predicted Functions in Biomineralization in the Pearl Oyster (Biology · 2019Article
- Improved annotation ofPeerJ · 2019Article
- Transcriptome Dynamics During Turbot Spermatogenesis Predicting the Potential Key Genes Regulating Male Germ Cell Proliferation and Maturation.Scientific reports · 2018Article
- Molecular modularity and asymmetry of the molluscan mantle revealed by a gene expression atlas.GigaScience · 2018Article
- Understanding microRNA Regulation Involved in the Metamorphosis of the Veined Rapa Whelk (G3 (Bethesda, Md.) · 2017Article
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7 authors at 1 institution in 1 country.
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Abstract
MicroRNAs (miRNAs) are a class of non-coding RNA molecules with presumed post-transcriptional regulatory activity in various biological processes, such as development and biomineralization. Pinctada martensii is one of the main species cultured for marine pearl production in China and Japan. In our previous research, 258 pm-miRNAs had been identified by solexa deep sequencing in P. martensii, while it is far from the number of miRNAs found in other species. In this study, based on the transcriptome database of pearl sac, we identified 30 candidate pm-miRNAs by computational prediction. Among the obtained 30 pm-miRNAs, 13 pm-miRNAs were generated from the complementary strand of protein-coding mRNAs, and 17 pm-miRNAs could not be annotated using blastx and tblastn analysis. Notably, 10 of the 30 pm-miRNAs, such as pm-miR-1b, pm-miR-205b and pm-miR-375b, were homologous with the reported pm-miRNAs, respectively. To validate the existence of the identified pm-miRNAs, eight randomly selected pm-miRNAs were tested by stem loop quantitative RT-PCR analyses using 5.8S as the internal reference gene. Target prediction between the obtained pm-miRNAs and biomineralization-related genes by microTar, miRanda and RNA22 indicated pm-miR-2386 and pm-miR-13b may be the key factors in the regulation network by regulating the formation of organic matrix or the differentiation of mineralogenic cell during shell formation. Thus, this study enriched miRNA databases of pearl oyster and provided a new way to understand biomineralization.
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