Identification of cis-sQTL demonstrates genetic associations and functional implications of inflammatory processes in Nelore cattle muscle tissue

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Autor(es): dc.contributorUniversidade Professor Edson Antônio Velano (UNIFENAS)-
Autor(es): dc.contributorUniversidade Estadual Paulista (UNESP)-
Autor(es): dc.contributorConselho Nacional de Desenvolvimento Científico e Tecnológico-
Autor(es): dc.contributorCentro Nacional de Pesquisa em Energia e Materiais (CNPEM)-
Autor(es): dc.contributorUniversidade Federal de Alfenas (UNIFAL)-
Autor(es): dc.contributorUOGELPH-
Autor(es): dc.creatorDos Santos, Thaís Cristina Ferreira-
Autor(es): dc.creatorSilva, Evandro Neves-
Autor(es): dc.creatorFrezarim, Gabriela Bonfá-
Autor(es): dc.creatorSalatta, Bruna Maria-
Autor(es): dc.creatorBaldi, Fernando-
Autor(es): dc.creatorFonseca, Larissa Fernanda Simielli-
Autor(es): dc.creatorAlbuquerque, Lucia Galvão De-
Autor(es): dc.creatorMuniz, Maria Malane Magalhães-
Autor(es): dc.creatorSilva, Danielly Beraldo Dos Santos-
Data de aceite: dc.date.accessioned2025-08-21T17:27:39Z-
Data de disponibilização: dc.date.available2025-08-21T17:27:39Z-
Data de envio: dc.date.issued2025-04-29-
Data de envio: dc.date.issued2025-03-01-
Fonte completa do material: dc.identifierhttp://dx.doi.org/10.1007/s00335-024-10100-0-
Fonte completa do material: dc.identifierhttps://hdl.handle.net/11449/299017-
Fonte: dc.identifier.urihttp://educapes.capes.gov.br/handle/11449/299017-
Descrição: dc.descriptionThis study aimed to identify splicing quantitative trait loci (cis-sQTL) in Nelore cattle muscle tissue and explore the involvement of spliced genes (sGenes) in immune system-related biological processes. Genotypic data from 80 intact male Nelore cattle were obtained using SNP-Chip technology, while RNA-Seq analysis was performed to measure gene expression levels, enabling the integration of genomic and transcriptomic datasets. The normalized expression levels of spliced transcripts were associated with single nucleotide polymorphisms (SNPs) through an analysis of variance using an additive linear model with the MatrixEQTL package. A permutation analysis then assessed the significance of the best SNPs for each spliced transcript. Functional enrichment analysis was performed on the sGenes to investigate their roles in the immune system. In total, 3,187 variants were linked to 3,202 spliced transcripts, with 83 sGenes involved in immune system processes. Of these, 31 sGenes were enriched for five transcription factors. Most cis-sQTL effects were found in intronic regions, with 27 sQTL variants associated with disease susceptibility and resistance in cattle. Key sGenes identified, such as GSDMA, NLRP6, CASP6, GZMA, CASP4, CASP1, TREM2, NLRP1, and NAIP, were related to inflammasome formation and pyroptosis. Additionally, genes like PIDD1, OPTN, NFKBIB, STAT1, TNIP3, and TREM2 were involved in regulating the NF-kB pathway. These findings lay the groundwork for breeding disease-resistant cattle and enhance our understanding of genetic mechanisms in immune responses.-
Descrição: dc.descriptionFundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)-
Descrição: dc.descriptionCoordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)-
Descrição: dc.descriptionConselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)-
Descrição: dc.descriptionUniversidade Professor Edson Antônio Velano (UNIFENAS), Rodovia 179, Km 0, MG-
Descrição: dc.descriptionFaculdade de Ciências Agrárias e Veterinárias (FCAV-UNESP), SP-
Descrição: dc.descriptionConselho Nacional de Desenvolvimento Científico e Tecnológico, DF-
Descrição: dc.descriptionCentro Nacional de Pesquisa em Energia e Materiais (CNPEM), SP-
Descrição: dc.descriptionUniversidade Federal de Alfenas (UNIFAL), MG-
Descrição: dc.descriptionUniversity of Guelph UOGELPH-
Descrição: dc.descriptionFaculdade de Ciências Agrárias e Veterinárias (FCAV-UNESP), SP-
Descrição: dc.descriptionFAPESP: #2017/10630-2-
Descrição: dc.descriptionCAPES: Finance Code 001-
Formato: dc.format106-117-
Idioma: dc.languageen-
Relação: dc.relationMammalian Genome-
???dc.source???: dc.sourceScopus-
Palavras-chave: dc.subjectBiological processes-
Palavras-chave: dc.subjectCis-regulation-
Palavras-chave: dc.subjectImmune system-
Palavras-chave: dc.subjectSplicing quantitative trait loci (sQTL)-
Título: dc.titleIdentification of cis-sQTL demonstrates genetic associations and functional implications of inflammatory processes in Nelore cattle muscle tissue-
Tipo de arquivo: dc.typelivro digital-
Aparece nas coleções:Repositório Institucional - Unesp

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