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(Reference retrieved automatically from Web of Science through information on FAPESP grant and its corresponding number as mentioned in the publication by the authors.)

Differential expression of miRNAs in the presence of B chromosome in the cichlid fish Astatotilapia latifasciata

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Author(s):
Nascimento-Oliveira, Jordana Inacio [1] ; Fantinatti, Bruno Evaristo Almeida [2] ; Wolf, Ivan Rodrigo [1] ; Cardoso, Adauto Lima [1] ; Ramos, Erica [1] ; Rieder, Nathalie [3] ; de Oliveira, Rogerio [4] ; Martins, Cesar [1]
Total Authors: 8
Affiliation:
[1] Sao Paulo State Univ UNESP, Inst Biosci Botucatu, Dept Struct & Funct Biol, BR-18618689 Botucatu, SP - Brazil
[2] Univ Ninth July UNINOVE, Sch Med, Bauru, SP - Brazil
[3] Univ Bonn, Fac Math & Nat Sci, Bonn - Germany
[4] Sao Paulo State Univ UNESP, Inst Biosci Botucatu, Dept Biostat Plant Biol Parasitol & Zool, Botucatu, SP - Brazil
Total Affiliations: 4
Document type: Journal article
Source: BMC Genomics; v. 22, n. 1 MAY 12 2021.
Web of Science Citations: 0
Abstract

BackgroundB chromosomes (Bs) are extra elements observed in diverse eukaryotes, including animals, plants and fungi. Although Bs were first identified a century ago and have been studied in hundreds of species, their biology is still enigmatic. Recent advances in omics and big data technologies are revolutionizing the B biology field. These advances allow analyses of DNA, RNA, proteins and the construction of interactive networks for understanding the B composition and behavior in the cell. Several genes have been detected on the B chromosomes, although the interaction of B sequences and the normal genome remains poorly understood.ResultsWe identified 727 miRNA precursors in the A. latifasciata genome, 66% which were novel predicted sequences that had not been identified before. We were able to report the A. latifasciata-specific miRNAs and common miRNAs identified in other fish species. For the samples carrying the B chromosome (B+), we identified 104 differentially expressed (DE) miRNAs that are down or upregulated compared to samples without B chromosome (B-) (p <0.05). These miRNAs share common targets in the brain, muscle and gonads. These targets were used to construct a protein-protein-miRNA network showing the high interaction between the targets of differentially expressed miRNAs in the B+ chromosome samples. Among the DE-miRNA targets there are protein-coding genes reported for the B chromosome that are present in the protein-protein-miRNA network. Additionally, Gene Ontology (GO) terms related to nuclear matrix organization and response to stimulus are exclusive to DE miRNA targets of B+ samples.ConclusionsThis study is the first to report the connection of B chromosomes and miRNAs in a vertebrate species. We observed that the B chromosome impacts the miRNAs expression in several tissues and these miRNAs target several mRNAs involved with important biological processes. (AU)

FAPESP's process: 15/16661-1 - Sex and B chromosome enigmas: model systems for the study of chromosome and genome evolution
Grantee:César Martins
Support Opportunities: Research Projects - Thematic Grants
FAPESP's process: 17/25193-7 - PiRNA actuation in transposable elements silencing on B chromosome presence of the Astatotilapia latifasciata (Cichlidae)
Grantee:Jordana Inácio Nascimento Oliveira
Support Opportunities: Scholarships in Brazil - Doctorate
FAPESP's process: 16/09320-6 - Integrated analysis differential expression of miRNAs and mRNA associated with B chromosomes in Astatotilapia latifasciata cichlid
Grantee:Jordana Inácio Nascimento Oliveira
Support Opportunities: Scholarships in Brazil - Master