Genetic assessment of BoLA-DRB3 polymorphisms by comparing Bangladesh, Ethiopian, and Korean cattle
Attributable to their major function in pathogen recognition, the use of bovine leukocyte antigens (BoLA) as disease markers in immunological traits in cattle is well established. However, limited report exists on polymorphism of the BoLA g...
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doaj-7188ac90d4fa4110b6fbe2eed66c7d8b2021-04-15T01:46:06ZengKorean Society of Animal Sciences and TechnologyJournal of Animal Science and Technology2672-01912055-03912021-03-0163224826110.5187/jast.2021.e37jast-63-2-248Genetic assessment of BoLA-DRB3 polymorphisms by comparing Bangladesh, Ethiopian, and Korean cattleAyele Mandefro0Tesfaye Sisay1Zewdu Edea2Md. Rasel Uzzaman3Kwan-Suk Kim4Hailu Dadi5Department of Biotechnology, Addis Ababa Science and Technology University, Institute of Biotechnology, Addis Ababa University, Department of Animal Science, Chungbuk National University, Department of Animal Science, Chungbuk National University, Department of Animal Science, Chungbuk National University, Ethiopian Biotechnology Institute, Attributable to their major function in pathogen recognition, the use of bovine leukocyte antigens (BoLA) as disease markers in immunological traits in cattle is well established. However, limited report exists on polymorphism of the BoLA gene in zebu cattle breeds by high resolution typing methods. Thus, we used a polymerase chain reaction sequence-based typing (PCR-SBT) method to sequence exon 2 of the BoLA class II DRB3 gene from 100 animals (Boran, n = 13; Sheko, n = 20; Fogera, n = 16; Horro, n = 19), Hanwoo cattle (n = 18) and Bangladesh Red Chittagong zebu (n = 14). Out of the 59 detected alleles, 43 were already deposited under the Immuno Polymorphism Database for major histocompatibility complex (IPD-MHC) while 16 were unique to this study. Assessment of the level of genetic variability at the population and sequence levels with genetic distance in the breeds considered in this study showed that Zebu breeds had a gene diversity score greater than 0.752, nucleotide diversity score greater than 0.152, and mean number of pairwise differences higher than 14, being very comparable to those investigated for other cattle breeds. Regarding neutrality tests analyzed, we investigated that all the breeds except Hanwoo had an excess number of alleles and could be expected from a recent population expansion or genetic hitchhiking. Howbeit, the observed heterozygosity was not significantly (p < 0.05) higher than the expected heterozygosity. The Hardy Weinberg equilibrium (HWE) analysis revealed non-significant excess of heterozygote animals, indicative of plausible over-dominant selection. The pairwise FST values suggested a low genetic variation among all the breeds (FST = 0.056; p < 0.05), besides the rooting from the evolutionary or domestication history of the cattle. No detached clade was observed in the evolutionary divergence study of the BoLA-DRB3 gene, inferred from the phylogenetic tree based on the maximum likelihood model. The investigation herein indicated the clear differences in BoLA-DRB3 gene variability between African and Asian cattle breeds.http://www.ejast.org/archive/view_article?pid=jast-63-2-248bola-drb3cattle breedssequence based typing (sbt)genetic diversityalleles |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Ayele Mandefro Tesfaye Sisay Zewdu Edea Md. Rasel Uzzaman Kwan-Suk Kim Hailu Dadi |
spellingShingle |
Ayele Mandefro Tesfaye Sisay Zewdu Edea Md. Rasel Uzzaman Kwan-Suk Kim Hailu Dadi Genetic assessment of BoLA-DRB3 polymorphisms by comparing Bangladesh, Ethiopian, and Korean cattle Journal of Animal Science and Technology bola-drb3 cattle breeds sequence based typing (sbt) genetic diversity alleles |
author_facet |
Ayele Mandefro Tesfaye Sisay Zewdu Edea Md. Rasel Uzzaman Kwan-Suk Kim Hailu Dadi |
author_sort |
Ayele Mandefro |
title |
Genetic assessment of BoLA-DRB3 polymorphisms by comparing
Bangladesh, Ethiopian, and Korean cattle |
title_short |
Genetic assessment of BoLA-DRB3 polymorphisms by comparing
Bangladesh, Ethiopian, and Korean cattle |
title_full |
Genetic assessment of BoLA-DRB3 polymorphisms by comparing
Bangladesh, Ethiopian, and Korean cattle |
title_fullStr |
Genetic assessment of BoLA-DRB3 polymorphisms by comparing
Bangladesh, Ethiopian, and Korean cattle |
title_full_unstemmed |
Genetic assessment of BoLA-DRB3 polymorphisms by comparing
Bangladesh, Ethiopian, and Korean cattle |
title_sort |
genetic assessment of bola-drb3 polymorphisms by comparing
bangladesh, ethiopian, and korean cattle |
publisher |
Korean Society of Animal Sciences and Technology |
series |
Journal of Animal Science and Technology |
issn |
2672-0191 2055-0391 |
publishDate |
2021-03-01 |
description |
Attributable to their major function in pathogen recognition, the use of bovine
leukocyte antigens (BoLA) as disease markers in immunological traits in cattle
is well established. However, limited report exists on polymorphism of the BoLA
gene in zebu cattle breeds by high resolution typing methods. Thus, we used a
polymerase chain reaction sequence-based typing (PCR-SBT) method to sequence
exon 2 of the BoLA class II DRB3 gene from 100 animals (Boran, n = 13; Sheko, n
= 20; Fogera, n = 16; Horro, n = 19), Hanwoo cattle (n = 18) and Bangladesh Red
Chittagong zebu (n = 14). Out of the 59 detected alleles, 43 were already
deposited under the Immuno Polymorphism Database for major histocompatibility
complex (IPD-MHC) while 16 were unique to this study. Assessment of the level of
genetic variability at the population and sequence levels with genetic distance
in the breeds considered in this study showed that Zebu breeds had a gene
diversity score greater than 0.752, nucleotide diversity score greater than
0.152, and mean number of pairwise differences higher than 14, being very
comparable to those investigated for other cattle breeds. Regarding neutrality
tests analyzed, we investigated that all the breeds except Hanwoo had an excess
number of alleles and could be expected from a recent population expansion or
genetic hitchhiking. Howbeit, the observed heterozygosity was not significantly
(p < 0.05) higher than the expected heterozygosity.
The Hardy Weinberg equilibrium (HWE) analysis revealed non-significant excess of
heterozygote animals, indicative of plausible over-dominant selection. The
pairwise FST values suggested a low genetic variation among all the breeds (FST
= 0.056; p < 0.05), besides the rooting from the
evolutionary or domestication history of the cattle. No detached clade was
observed in the evolutionary divergence study of the BoLA-DRB3 gene, inferred
from the phylogenetic tree based on the maximum likelihood model. The
investigation herein indicated the clear differences in BoLA-DRB3 gene
variability between African and Asian cattle breeds. |
topic |
bola-drb3 cattle breeds sequence based typing (sbt) genetic diversity alleles |
url |
http://www.ejast.org/archive/view_article?pid=jast-63-2-248 |
work_keys_str_mv |
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