Selection signatures in Canchim beef cattle.
Selection signature (SS) was assessed in this study by means of the integrated haplotype score (iHS) method, which determines the decay of homozygosity in the surroundings of a core single nucleotide polymorphism (SNP) marker. Canchim breed animals were genotyped using the Illumina BovineHD BeadChip; which has almost 800 thousand SNP markers. Genotype quality control (QC) was applied to exclude SNP with genotype calling score lower than 0.20; SNP with minor allele frequency lower than 0.01; and call rate for SNP and samples which were lower than 0.95 and 0.90, respectively. Only autosomal SNPs with known genome position were used. After the QC, 687,655 SNPs and 396 samples remained for SS analysis. Signals of SS were detected on chromosomes 5, 6, 8, and 14, indicating that these regions are conserved through recent generations.
Main Authors: | , , , , , , |
---|---|
Other Authors: | |
Format: | Separatas biblioteca |
Language: | pt_BR por |
Published: |
2014-08-29
|
Subjects: | EHH, IHS, REHH PACKAGE, |
Online Access: | http://www.alice.cnptia.embrapa.br/alice/handle/doc/993734 |
Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
id |
dig-alice-doc-993734 |
---|---|
record_format |
koha |
spelling |
dig-alice-doc-9937342017-08-15T23:34:28Z Selection signatures in Canchim beef cattle. URBITANI, I. BUZANSKAS, M. E. CHUD, T. C. S. MORKRY, F. B HIGA, R. H. REGITANO, L. C. de A. MUNARI, D. P. ISMAEL URBINATI, UNESP/FCAV/JABOTICABAL; MARCOS E. BUZANSKAS, UNESP/JABOTICABAL; UNSP/FCAV/JABOTICABAL; FABIANA BARICHELLO MORKRY, UFSCar/SÃO CARLOS, SP; ROBERTO HIROSHI HIGA, CNPTIA; LUCIANA CORREIA DE ALMEIDA REGITANO, CPPSE; PROF. UNES/FCAV/JABOTICABAL. EHH IHS REHH PACKAGE Selection signature (SS) was assessed in this study by means of the integrated haplotype score (iHS) method, which determines the decay of homozygosity in the surroundings of a core single nucleotide polymorphism (SNP) marker. Canchim breed animals were genotyped using the Illumina BovineHD BeadChip; which has almost 800 thousand SNP markers. Genotype quality control (QC) was applied to exclude SNP with genotype calling score lower than 0.20; SNP with minor allele frequency lower than 0.01; and call rate for SNP and samples which were lower than 0.95 and 0.90, respectively. Only autosomal SNPs with known genome position were used. After the QC, 687,655 SNPs and 396 samples remained for SS analysis. Signals of SS were detected on chromosomes 5, 6, 8, and 14, indicating that these regions are conserved through recent generations. 2014-08-29T11:11:11Z 2014-08-29T11:11:11Z 2014-08-29 2014 2015-10-22T11:11:11Z Separatas In:WORLD CONGRESS OF GENETICS APPLIED TO LIVESTOCK PRODUCTION, 10., 2014, Vancouver. Proceedings...Vancouver: WCGALP: Amarican Society of Animal Science, 2014. http://www.alice.cnptia.embrapa.br/alice/handle/doc/993734 pt_BR por openAccess |
institution |
EMBRAPA |
collection |
DSpace |
country |
Brasil |
countrycode |
BR |
component |
Bibliográfico |
access |
En linea |
databasecode |
dig-alice |
tag |
biblioteca |
region |
America del Sur |
libraryname |
Sistema de bibliotecas de EMBRAPA |
language |
pt_BR por |
topic |
EHH IHS REHH PACKAGE EHH IHS REHH PACKAGE |
spellingShingle |
EHH IHS REHH PACKAGE EHH IHS REHH PACKAGE URBITANI, I. BUZANSKAS, M. E. CHUD, T. C. S. MORKRY, F. B HIGA, R. H. REGITANO, L. C. de A. MUNARI, D. P. Selection signatures in Canchim beef cattle. |
description |
Selection signature (SS) was assessed in this study by means of the integrated haplotype score (iHS) method, which determines the decay of homozygosity in the surroundings of a core single nucleotide polymorphism (SNP) marker. Canchim breed animals were genotyped using the Illumina BovineHD BeadChip; which has almost 800 thousand SNP markers. Genotype quality control (QC) was applied to exclude SNP with genotype calling score lower than 0.20; SNP with minor allele frequency lower than 0.01; and call rate for SNP and samples which were lower than 0.95 and 0.90, respectively. Only autosomal SNPs with known genome position were used. After the QC, 687,655 SNPs and 396 samples remained for SS analysis. Signals of SS were detected on chromosomes 5, 6, 8, and 14, indicating that these regions are conserved through recent generations. |
author2 |
ISMAEL URBINATI, UNESP/FCAV/JABOTICABAL; MARCOS E. BUZANSKAS, UNESP/JABOTICABAL; UNSP/FCAV/JABOTICABAL; FABIANA BARICHELLO MORKRY, UFSCar/SÃO CARLOS, SP; ROBERTO HIROSHI HIGA, CNPTIA; LUCIANA CORREIA DE ALMEIDA REGITANO, CPPSE; PROF. UNES/FCAV/JABOTICABAL. |
author_facet |
ISMAEL URBINATI, UNESP/FCAV/JABOTICABAL; MARCOS E. BUZANSKAS, UNESP/JABOTICABAL; UNSP/FCAV/JABOTICABAL; FABIANA BARICHELLO MORKRY, UFSCar/SÃO CARLOS, SP; ROBERTO HIROSHI HIGA, CNPTIA; LUCIANA CORREIA DE ALMEIDA REGITANO, CPPSE; PROF. UNES/FCAV/JABOTICABAL. URBITANI, I. BUZANSKAS, M. E. CHUD, T. C. S. MORKRY, F. B HIGA, R. H. REGITANO, L. C. de A. MUNARI, D. P. |
format |
Separatas |
topic_facet |
EHH IHS REHH PACKAGE |
author |
URBITANI, I. BUZANSKAS, M. E. CHUD, T. C. S. MORKRY, F. B HIGA, R. H. REGITANO, L. C. de A. MUNARI, D. P. |
author_sort |
URBITANI, I. |
title |
Selection signatures in Canchim beef cattle. |
title_short |
Selection signatures in Canchim beef cattle. |
title_full |
Selection signatures in Canchim beef cattle. |
title_fullStr |
Selection signatures in Canchim beef cattle. |
title_full_unstemmed |
Selection signatures in Canchim beef cattle. |
title_sort |
selection signatures in canchim beef cattle. |
publishDate |
2014-08-29 |
url |
http://www.alice.cnptia.embrapa.br/alice/handle/doc/993734 |
work_keys_str_mv |
AT urbitanii selectionsignaturesincanchimbeefcattle AT buzanskasme selectionsignaturesincanchimbeefcattle AT chudtcs selectionsignaturesincanchimbeefcattle AT morkryfb selectionsignaturesincanchimbeefcattle AT higarh selectionsignaturesincanchimbeefcattle AT regitanolcdea selectionsignaturesincanchimbeefcattle AT munaridp selectionsignaturesincanchimbeefcattle |
_version_ |
1756019851842813952 |