Development of microsatellite markers using next-generation sequencing for the fish Colossoma macropomum

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dc.citation.issue1
dc.citation.volume45
dc.contributor.authorAriede, Raquel Belini
dc.contributor.authorFreitas, Milena Vieira
dc.contributor.authorHata, Milene Elissa
dc.contributor.authorMastrochirico-Filho, Vito Antonio
dc.contributor.authorUtsunomia, Ricardo
dc.contributor.authorMendonça, Fernando Fernandes [UNIFESP]
dc.contributor.authorForesti, Fausto
dc.contributor.authorPorto-Foresti, Fabio
dc.contributor.authorHashimoto, Diogo Teruo
dc.contributor.institutionUniversidade Federal de São Paulo (UNIFESP)
dc.coverageDordrecht
dc.date.accessioned2020-07-08T13:09:50Z
dc.date.available2020-07-08T13:09:50Z
dc.date.issued2018
dc.description.abstractTambaqui (Colossoma macropomum) is a fish species from the Amazon and Orinoco Rivers, with favorable characteristics to the cultivation system and great market acceptance in South America. However, the construction of a genetic map for the genetic improvement of this species is limited by the low number of molecular markers currently described. Thus, this study aimed to validate gene-associated and anonymous (non-genic) microsatellites obtained by next generation sequencing (RNA-seq and whole genome shotgun-WGS, respectively), for future construction of a genetic map and search for quantitative trait loci (QTL) in this species. In the RNA-seq data, the observed and expected heterozygosity (H-o and H-e) ranged from 0.09 to 0.73, and 0.09 to 0.85, respectively. In the WGS data, H-o and H-e ranged from 0.33 to 0.95, and 0.28 to 0.92, respectively. In general, the evaluation of 200 markers resulted in 45 polymorphic loci, of which 14 were gene-associated (RNA-Seq) and 31 were anonymous (WGS). Moreover, some markers were related to genes of the immune system, biological regulation/control and biogenesis. This study contributes to increase the number of molecular markers available for genetic studies in C. macropomum, which will allow the development of breeding programs assisted by molecular markers.en
dc.description.affiliationUniv Estadual Paulista, Ctr Aquicultura, UNESP, Jaboticabal, SP, Brazil
dc.description.affiliationUniv Estadual Paulista, Dept Morfol, IBB, Botucatu, SP, Brazil
dc.description.affiliationUniv Fed Sao Paulo, Inst Mar, UNIFESP, Santos, SP, Brazil
dc.description.affiliationUniv Estadual Paulista, Dept Ciencias Biol, FC, Bauru, SP, Brazil
dc.description.affiliationUnifespUniv Fed Sao Paulo, Inst Mar, UNIFESP, Santos, SP, Brazil
dc.description.sourceWeb of Science
dc.description.sponsorshipPROPE/UNESPpt
dc.description.sponsorshipConselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)pt
dc.description.sponsorshipFundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)pt
dc.description.sponsorshipIDPROPE/UNESP [07/2015]pt
dc.description.sponsorshipIDCNPq 446779/2014-8pt
dc.description.sponsorshipIDFAPESP 2014/03772-7pt
dc.description.sponsorshipIDCNPq: 305916/2015-7pt
dc.format.extentset/18
dc.identifierhttps://dx.doi.org/10.1007/s11033-017-4134-z
dc.identifier.citationMolecular Biology Reports. Dordrecht, v. 45, n. 1, p. 43344, 2018.
dc.identifier.doi10.1007/s11033-017-4134-z
dc.identifier.issn0301-4851
dc.identifier.urihttps://repositorio.unifesp.br/handle/11600/54234
dc.identifier.wosWOS:000419919100002
dc.language.isoeng
dc.publisherSpringer
dc.relation.ispartofMolecular Biology Reports
dc.rightsinfo:eu-repo/semantics/restrictedAccess
dc.subjectNGSen
dc.subjectAquacultureen
dc.subjectSSR gene-associateden
dc.subjectTambaquien
dc.titleDevelopment of microsatellite markers using next-generation sequencing for the fish Colossoma macropomumen
dc.typeinfo:eu-repo/semantics/article
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