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Registro Completo |
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Biblioteca(s): |
Embrapa Agricultura Digital; Embrapa Pecuária Sudeste. |
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Data corrente: |
17/06/2016 |
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Data da última atualização: |
20/03/2017 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Autoria: |
URBINATI, I.; STAFUZZA, N. B.; OLIVEIRA, M. T.; CHUD, T. C. S.; HIGA, R. H.; REGITANO, L. C. de A.; ALENCAR, M. M. de; BUZANSKAS, M. E.; MUNARI, D. P. |
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Afiliação: |
ISMAEL URBINATI, Unesp Jaboticabal; NEDENIA BONVINO STAFUZZA, Unesp Jaboticabal; MARCOS TÚLIO OLIVEIRA, Unesp Jaboticabal; TATIANE CRISTINA SELEGUIM CHUD, Unesp Jaboticabal; ROBERTO HIROSHI HIGA, CNPTIA; LUCIANA CORREIA DE ALMEIDA REGITANO, CPPSE; MAURICIO MELLO DE ALENCAR, CPPSE; MARCOS ELI BUZANSKAS, Unesp Jaboticabal; DANÍSIO PRADO MUNARI, Unesp Jaboticabal. |
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Título: |
Selection signatures in Canchim beef cattle |
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Ano de publicação: |
2016 |
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Fonte/Imprenta: |
Journal of Animal Science and Biotechnology, v. 7, p. 1-9, 2016. |
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DOI: |
10.1186/s40104-016-0089-5 |
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Idioma: |
Inglês |
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Notas: |
Na publicação: Luciana Correia de Almeida Regitano. |
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Conteúdo: |
Background: Recent technological advances in genomics have allowed the genotyping of cattle through single nucleotide polymorphism (SNP) panels. High-density SNP panels possess greater genome coverage and are useful for the identification of conserved regions of the genome due to selection, known as selection signatures (SS). The SS are detectable by different methods, such as the extended haplotype homozygosity (EHH); and the integrated haplotype score (iHS), which is derived from the EHH. The aim of this study was to identify SS regions in Canchim cattle (composite breed), genotyped with high-density SNP panel. Results: A total of 687,655 SNP markers and 396 samples remained for SS analysis after the genotype quality control. The iHS statistic for each marker was transformed into piHS for better interpretation of the results. Chromosomes BTA5 and BTA14 showed piHS>5, with 39 and nine statistically significant SNPs (P<0.00001), respectively. For the candidate selection regions, iHS values were computed across the genome and averaged within non-overlapping windows of 500 Kb. We have identified genes that play an important role in metabolism, melanin biosynthesis (pigmentation), and embryonic and bone development. Conclusions: The observation of SS indicates that the selection processes performed in Canchim, as well as in the founder breeds (i.e. Charolais), are maintaining specific genomic regions, particularly on BTA5 and BTA14. These selection signatures regions could be associated with Canchim characterization. MenosBackground: Recent technological advances in genomics have allowed the genotyping of cattle through single nucleotide polymorphism (SNP) panels. High-density SNP panels possess greater genome coverage and are useful for the identification of conserved regions of the genome due to selection, known as selection signatures (SS). The SS are detectable by different methods, such as the extended haplotype homozygosity (EHH); and the integrated haplotype score (iHS), which is derived from the EHH. The aim of this study was to identify SS regions in Canchim cattle (composite breed), genotyped with high-density SNP panel. Results: A total of 687,655 SNP markers and 396 samples remained for SS analysis after the genotype quality control. The iHS statistic for each marker was transformed into piHS for better interpretation of the results. Chromosomes BTA5 and BTA14 showed piHS>5, with 39 and nine statistically significant SNPs (P<0.00001), respectively. For the candidate selection regions, iHS values were computed across the genome and averaged within non-overlapping windows of 500 Kb. We have identified genes that play an important role in metabolism, melanin biosynthesis (pigmentation), and embryonic and bone development. Conclusions: The observation of SS indicates that the selection processes performed in Canchim, as well as in the founder breeds (i.e. Charolais), are maintaining specific genomic regions, particularly on BTA5 and BTA14. These selection signatures regions could be a... Mostrar Tudo |
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Palavras-Chave: |
Extended haplotype homozygosity; Genômica; Polimorfismo de nucleotídeo único; SNP. |
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Thesagro: |
Cruzamento; Cruzamento Animal; Gado de corte; Genótipo. |
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Thesaurus Nal: |
Beef cattle; Composite breeds; Genomics; Quantitative trait loci; Single nucleotide polymorphism. |
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Categoria do assunto: |
G Melhoramento Genético
X Pesquisa, Tecnologia e Engenharia |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/153785/1/AP-Selection-Urbinati.pdf
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/144539/1/Urbinati-JASB-2016.pdf
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Marc: |
LEADER 02707naa a2200397 a 4500
001 2061492
005 2017-03-20
008 2016 bl uuuu u00u1 u #d
024 7 $a10.1186/s40104-016-0089-5$2DOI
100 1 $aURBINATI, I.
245 $aSelection signatures in Canchim beef cattle$h[electronic resource]
260 $c2016
500 $aNa publicação: Luciana Correia de Almeida Regitano.
520 $aBackground: Recent technological advances in genomics have allowed the genotyping of cattle through single nucleotide polymorphism (SNP) panels. High-density SNP panels possess greater genome coverage and are useful for the identification of conserved regions of the genome due to selection, known as selection signatures (SS). The SS are detectable by different methods, such as the extended haplotype homozygosity (EHH); and the integrated haplotype score (iHS), which is derived from the EHH. The aim of this study was to identify SS regions in Canchim cattle (composite breed), genotyped with high-density SNP panel. Results: A total of 687,655 SNP markers and 396 samples remained for SS analysis after the genotype quality control. The iHS statistic for each marker was transformed into piHS for better interpretation of the results. Chromosomes BTA5 and BTA14 showed piHS>5, with 39 and nine statistically significant SNPs (P<0.00001), respectively. For the candidate selection regions, iHS values were computed across the genome and averaged within non-overlapping windows of 500 Kb. We have identified genes that play an important role in metabolism, melanin biosynthesis (pigmentation), and embryonic and bone development. Conclusions: The observation of SS indicates that the selection processes performed in Canchim, as well as in the founder breeds (i.e. Charolais), are maintaining specific genomic regions, particularly on BTA5 and BTA14. These selection signatures regions could be associated with Canchim characterization.
650 $aBeef cattle
650 $aComposite breeds
650 $aGenomics
650 $aQuantitative trait loci
650 $aSingle nucleotide polymorphism
650 $aCruzamento
650 $aCruzamento Animal
650 $aGado de corte
650 $aGenótipo
653 $aExtended haplotype homozygosity
653 $aGenômica
653 $aPolimorfismo de nucleotídeo único
653 $aSNP
700 1 $aSTAFUZZA, N. B.
700 1 $aOLIVEIRA, M. T.
700 1 $aCHUD, T. C. S.
700 1 $aHIGA, R. H.
700 1 $aREGITANO, L. C. de A.
700 1 $aALENCAR, M. M. de
700 1 $aBUZANSKAS, M. E.
700 1 $aMUNARI, D. P.
773 $tJournal of Animal Science and Biotechnology$gv. 7, p. 1-9, 2016.
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Registro original: |
Embrapa Agricultura Digital (CNPTIA) |
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| 1. |  | URBINATI, I.; STAFUZZA, N. B.; OLIVEIRA, M. T.; CHUD, T. C. S.; HIGA, R. H.; REGITANO, L. C. de A.; ALENCAR, M. M. de; BUZANSKAS, M. E.; MUNARI, D. P. Selection signatures in Canchim beef cattle Journal of Animal Science and Biotechnology, v. 7, p. 1-9, 2016. Na publicação: Luciana Correia de Almeida Regitano.| Tipo: Artigo em Periódico Indexado | Circulação/Nível: B - 3 |
| Biblioteca(s): Embrapa Agricultura Digital; Embrapa Pecuária Sudeste. |
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