Godinez Cyrill John P, Nishibori Masahide, Matsunaga Megumi, Espina Dinah M
Department of Animal Science, Visayas State University, Visca, Baybay City, Leyte, Philippines.
Graduate School of Biosphere Science, Hiroshima University, Higashi-Hiroshima 739-8528, Japan.
J Poult Sci. 2019 Oct 25;56(4):237-244. doi: 10.2141/jpsa.0180131.
A study was conducted to provide genetic information on the matrilineal phylogeny and genetic diversity of Red junglefowl (RJF) and native chickens in Samar Island, Philippines and to identify the genetic distance between Philippine junglefowls and other RJF species in Southeast Asia using complete mitochondrial DNA D-loop sequences. A total of 5 RJFs and 43 native chickens from Samar Island were included in this study. The results showed that Samar RJFs had a nucleotide diversity of 0.0050±0.0016, which was lower than those of three subspecies of , and . Meanwhile, Samar native chickens showed lower nucleotide diversity (0.0056±0.0004) than domestic fowls in some neighboring Southeast Asian countries, but higher than those in African and European countries. Phylogenetic analysis showed that 3 haplotypes of Samar RJFs clustered to haplogroup D1, and that 2 haplotypes clustered to haplogroup D2. Chickens native to Samar Island showed 100% resemblance to those in the haplogroup shared by domestic chickens and RJFs. Haplogroups A and B and sub-haplogroups D1 and E1 were the more widely distributed matrilineal lineages in Samar Island. Phylogenetic analysis of Samar RJFs showed that they were closely related to Myanmar RJFs (99.6%), Indonesia RJFs (99.5%), and Thailand RJFs (99.1%). This study is an initial investigation estimating the matrilineal phylogeny and genetic diversity of chicken populations in Samar Island, Philippines for developing strategies aimed at the future conservation and improvement of valuable genetic resources.
本研究旨在提供菲律宾萨马岛红原鸡（RJF）和本地鸡母系系统发育及遗传多样性的遗传信息，并利用完整的线粒体DNA D环序列确定菲律宾丛林鸡与东南亚其他RJF物种之间的遗传距离。本研究共纳入了5只来自萨马岛的红原鸡和43只本地鸡。结果显示，萨马岛红原鸡的核苷酸多样性为0.0050±0.0016，低于原鸡的三个亚种。同时，萨马岛本地鸡的核苷酸多样性（0.0056±0.0004）低于一些东南亚邻国的家鸡，但高于非洲和欧洲国家的家鸡。系统发育分析表明，萨马岛红原鸡的3个单倍型聚类到D1单倍群，2个单倍型聚类到D2单倍群。萨马岛的本地鸡与家鸡和红原鸡共有的单倍群中的鸡有100%的相似性。A和B单倍群以及D1和E1亚单倍群是萨马岛分布更广泛的母系谱系。对萨马岛红原鸡的系统发育分析表明，它们与缅甸红原鸡（99.6%）、印度尼西亚红原鸡（99.5%）和泰国红原鸡（99.1%）密切相关。本研究是对菲律宾萨马岛鸡种群母系系统发育和遗传多样性的初步调查，旨在制定未来保护和改良宝贵遗传资源的策略。
