Short Communication: Genetic diversity and phylogenetic analysis of two Indonesian local cattle breeds based on cytochrome b gene sequences

Hartatik T, Hariyono DNH, Adinata Y. 2019. Genetic diversity and phylogenetic analysis of two Indonesian local cattle breeds based on cytochrome b gene sequences. Biodiversitas 20: 17-22. Genetic diversity and phylogenetic relationships of two Indonesian local cattle breeds (Pasundan and Pacitan cat...

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Autores principales:	TETY HARTATIK, DWI NUR HAPPY HARIYONO, YUDI ADINATA
Formato:	article
Lenguaje:	EN
Publicado:	MBI & UNS Solo 2018
Materias:	cytochrome b genetic diversity indonesian cattle mtdna phylogenetic analysis Biology (General) QH301-705.5
Acceso en línea:	https://doaj.org/article/8e7b14b2bf3e48939c55eabfa65e622b
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spelling	oai:doaj.org-article:8e7b14b2bf3e48939c55eabfa65e622b2021-11-16T14:06:32ZShort Communication: Genetic diversity and phylogenetic analysis of two Indonesian local cattle breeds based on cytochrome b gene sequences1412-033X2085-472210.13057/biodiv/d200103https://doaj.org/article/8e7b14b2bf3e48939c55eabfa65e622b2018-12-01T00:00:00Zhttps://smujo.id/biodiv/article/view/3249https://doaj.org/toc/1412-033Xhttps://doaj.org/toc/2085-4722Hartatik T, Hariyono DNH, Adinata Y. 2019. Genetic diversity and phylogenetic analysis of two Indonesian local cattle breeds based on cytochrome b gene sequences. Biodiversitas 20: 17-22. Genetic diversity and phylogenetic relationships of two Indonesian local cattle breeds (Pasundan and Pacitan cattle) were investigated using mitochondrial DNA (mtDNA) cytochrome b (cyt b) gene analysis. Partial sequences of cyt b gene, 404 bp in length, were determined for 21 individuals from the two breeds. Genetic diversity of the breeds was assessed based on the number of polymorphic sites, number of haplotypes, haplotype diversity, nucleotide diversity and average number of differences. In addition, a neighbour-joining (NJ) haplotype tree was constructed based on Kimura’s two-parameter model. Among the two breeds, haplotype and nucleotide diversity of Pacitan cattle were the highest with values of 0.3778 and 0.00099, respectively. In contrast, Pasundan cattle had the lowest value for haplotype (0.1818) and nucleotide (0.00045) diversity. Four haplotypes (Hap_16, Hap_17, Hap_18 and Hap_19) were found across the two breeds and around 85.71% of investigated individuals were classified as Hap_16. Phylogenetic analysis with the inclusion of the cyt b sequences from 39 cattle breeds from Genbank database, showed that Indonesian cattle made a separated lineage together with Bos javanicus, B. bison, and B. bonasus. Pasundan and Pacitan cattle were considered from the same lineage based on haplotype distribution as well as phylogenetic analysis. This study may help the future researchers and livestock breeders for designing a breeding program based on a better understanding of the genetic diversity and history of local breeds.TETY HARTATIKDWI NUR HAPPY HARIYONOYUDI ADINATAMBI & UNS Soloarticlecytochrome bgenetic diversityindonesian cattlemtdnaphylogenetic analysisBiology (General)QH301-705.5ENBiodiversitas, Vol 20, Iss 1, Pp 17-22 (2018)
institution	DOAJ
collection	DOAJ
language	EN
topic	cytochrome b genetic diversity indonesian cattle mtdna phylogenetic analysis Biology (General) QH301-705.5
spellingShingle	cytochrome b genetic diversity indonesian cattle mtdna phylogenetic analysis Biology (General) QH301-705.5 TETY HARTATIK DWI NUR HAPPY HARIYONO YUDI ADINATA Short Communication: Genetic diversity and phylogenetic analysis of two Indonesian local cattle breeds based on cytochrome b gene sequences
description	Hartatik T, Hariyono DNH, Adinata Y. 2019. Genetic diversity and phylogenetic analysis of two Indonesian local cattle breeds based on cytochrome b gene sequences. Biodiversitas 20: 17-22. Genetic diversity and phylogenetic relationships of two Indonesian local cattle breeds (Pasundan and Pacitan cattle) were investigated using mitochondrial DNA (mtDNA) cytochrome b (cyt b) gene analysis. Partial sequences of cyt b gene, 404 bp in length, were determined for 21 individuals from the two breeds. Genetic diversity of the breeds was assessed based on the number of polymorphic sites, number of haplotypes, haplotype diversity, nucleotide diversity and average number of differences. In addition, a neighbour-joining (NJ) haplotype tree was constructed based on Kimura’s two-parameter model. Among the two breeds, haplotype and nucleotide diversity of Pacitan cattle were the highest with values of 0.3778 and 0.00099, respectively. In contrast, Pasundan cattle had the lowest value for haplotype (0.1818) and nucleotide (0.00045) diversity. Four haplotypes (Hap_16, Hap_17, Hap_18 and Hap_19) were found across the two breeds and around 85.71% of investigated individuals were classified as Hap_16. Phylogenetic analysis with the inclusion of the cyt b sequences from 39 cattle breeds from Genbank database, showed that Indonesian cattle made a separated lineage together with Bos javanicus, B. bison, and B. bonasus. Pasundan and Pacitan cattle were considered from the same lineage based on haplotype distribution as well as phylogenetic analysis. This study may help the future researchers and livestock breeders for designing a breeding program based on a better understanding of the genetic diversity and history of local breeds.
format	article
author	TETY HARTATIK DWI NUR HAPPY HARIYONO YUDI ADINATA
author_facet	TETY HARTATIK DWI NUR HAPPY HARIYONO YUDI ADINATA
author_sort	TETY HARTATIK
title	Short Communication: Genetic diversity and phylogenetic analysis of two Indonesian local cattle breeds based on cytochrome b gene sequences
title_short	Short Communication: Genetic diversity and phylogenetic analysis of two Indonesian local cattle breeds based on cytochrome b gene sequences
title_full	Short Communication: Genetic diversity and phylogenetic analysis of two Indonesian local cattle breeds based on cytochrome b gene sequences
title_fullStr	Short Communication: Genetic diversity and phylogenetic analysis of two Indonesian local cattle breeds based on cytochrome b gene sequences
title_full_unstemmed	Short Communication: Genetic diversity and phylogenetic analysis of two Indonesian local cattle breeds based on cytochrome b gene sequences
title_sort	short communication: genetic diversity and phylogenetic analysis of two indonesian local cattle breeds based on cytochrome b gene sequences
publisher	MBI & UNS Solo
publishDate	2018
url	https://doaj.org/article/8e7b14b2bf3e48939c55eabfa65e622b
work_keys_str_mv	AT tetyhartatik shortcommunicationgeneticdiversityandphylogeneticanalysisoftwoindonesianlocalcattlebreedsbasedoncytochromebgenesequences AT dwinurhappyhariyono shortcommunicationgeneticdiversityandphylogeneticanalysisoftwoindonesianlocalcattlebreedsbasedoncytochromebgenesequences AT yudiadinata shortcommunicationgeneticdiversityandphylogeneticanalysisoftwoindonesianlocalcattlebreedsbasedoncytochromebgenesequences
_version_	1718426371069313024

Short Communication: Genetic diversity and phylogenetic analysis of two Indonesian local cattle breeds based on cytochrome b gene sequences

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