寿光鸡遗传多样性及其起源进化的研究
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摘要
为了更好地对寿光鸡种质资源进行保护和开发利用,以线粒体基因组(mitochondrial genome,mt DNA) D-loop区为分子标记,检测了58只寿光鸡的遗传多样性,同时探讨了寿光鸡在5个红色原鸡亚种的进化地位。结果显示:寿光鸡mt DNA D-loop区全长1 231～1 232 bp,核苷酸多样性(Pi)为(0. 005 3±0. 001 35),单倍型多样性(Hd)为(0. 864±0. 018),平均核苷酸差异(K)为6. 525;群体共发现23处单核苷酸变异位点,并由此界定了8种单倍型;系统发育分析发现,寿光鸡主要分布在A、B、C和E 4个进化分支,构成比分别为43. 1%、36. 2%、12. 1%和8. 6%。结果表明:寿光鸡在线粒体水平上具有很高的遗传多样性,有4个母系来源,本研究为寿光鸡种质资源遗传评估、有效保种和选育利用提供了理论依据。
This study was to investigate the genetic diversity and evolution of Shouguang chickens. The genetic diversity of a total of 58 individuals belonging to Shouguang chicken breed was assayed by genetic mt DNA markers,and the phylogenitic status was explored among five Red Junglefowl( Gallus gallus) subspecies. The D-loop region of Shouguang chickens was 1 231 ～ 1 232 bp in length. The average haplotype diversity,nucleotide diversity and nucleotide differences were( 0. 864±0. 018),( 0. 005 3±0. 001 35),and 6. 525,respectively. Twentythree variable sites that defined 8 haplotypes were observed. Phylogenetic analysis showed that Shouguang chickens were clustered into four clades( A,B,C and E),and the percentages of A,B,C,and E were 43. 1%,36. 2%,12. 1% and 8. 6%,respectively. It could be concluded that Shouguang chickens were of high polymorphisms at mitochondrial levels and had four maternal origins. Thus,the present study might provide reference for further evaluation,preservation and improvement of Shouguang chickens as genetic resources.
This study was to investigate the genetic diversity and evolution of Shouguang chickens. The genetic diversity of a total of 58 individuals belonging to Shouguang chicken breed was assayed by genetic mt DNA markers,and the phylogenitic status was explored among five Red Junglefowl( Gallus gallus) subspecies. The D-loop region of Shouguang chickens was 1 231 ～ 1 232 bp in length. The average haplotype diversity,nucleotide diversity and nucleotide differences were( 0. 864±0. 018),( 0. 005 3±0. 001 35),and 6. 525,respectively. Twentythree variable sites that defined 8 haplotypes were observed. Phylogenetic analysis showed that Shouguang chickens were clustered into four clades( A,B,C and E),and the percentages of A,B,C,and E were 43. 1%,36. 2%,12. 1% and 8. 6%,respectively. It could be concluded that Shouguang chickens were of high polymorphisms at mitochondrial levels and had four maternal origins. Thus,the present study might provide reference for further evaluation,preservation and improvement of Shouguang chickens as genetic resources.
引文
[1]国家畜禽遗传资源委员会.中国畜禽遗传资源志:家禽志[M].北京:中国农业出版社,2011.
[2] Gao Y S,Jia X X,Tang X J,et al. The genetic diversity of chicken breeds from Jiangxi,assessed with BCDO2 and the complete mitochondrial DNA D-loop region[J]. PLoS One, 2017, 12(3):e0173192.
[3] Miao Y W,Peng M S,Wu G S,et al. Chicken domestication:an updated perspective based on mitochondrial genomes[J]. Heredity,2013,110(3):277.
[4] Liu Y P,Wu G S,Yao Y G,et al. Multiple maternal origins of chickens:out of the Asian jungles[J]. Mol Phylogenet Evol,2006,38(1):12-19.
[5]陈红菊,岳永生,樊新忠,等.利用微卫星标记分析山东地方鸡品种的遗传多样性[J].遗传学报,2003,30(9):855-860.
[6]赵东伟,李春苗,黎寿丰,等. 13个地方鸡品种6个微卫星座位遗传多样性分析[J].扬州大学学报(农业与生命科学版),2017,38(4):39-45.
[7]宋春红,陈红菊,马月辉,等.中国6个地方鸡品种的母系起源[J].畜牧兽医学报,2007,38(7):735-740.
[8] Jia X X,Tang X J,Lu J X,et al. The investigation of genetic diversity and evolution of Daweishan Mini chicken based on the complete mitochondrial(mt)DNA D-loop region sequence[J]. Mitochond DNA,2016,27(4):3001.
[9] Thompson J D,Gibson T J,Plewniak F,et al. The ClustalX windows interface:flexible strategies for multiple sequence alignment aided by quality analysis tools[J]. Nucleic Acids Res,1997,25(25):4876-4882.
[10] Rozas J,Sánchezdelbarrio J C,Messeguer X,et al. Dna SP,DNA polymorphism analyses by the coalescent and other methods[J].Bioinformatics,2003,19(18):2496-2497.
[11] Tamura K,Stecher G,Peterson D,et al. MEGA6:Molecular evolutionary genetics analysis,version 6. 0[J]. Mol Biol Evol,2013,30(12):2725-2729.
[12] Bandelt H J,Forster P,R9hl A. Median-joining networks for inferring intraspecific phylogenies[J]. Mol Biol Evol, 1999, 16(1):37.
[13]王继文.动物线粒体假基因的识别及其在进化生物学中的应用[J].动物学杂志,2004(3):103-108.
[14] Osman S A,Yonezawa T,Nishibori M. Origin and genetic diversity of Egyptian native chickens based on complete sequence of mitochondrial DNA D-loop region[J]. Poult Sci,2016,95(6):1248.
[15] Oka T,Ino Y,Nomura K,et al. Analysis of mt DNA sequences shows Japanese native chickens have multiple origins[J]. Anim Genet,2007,38(3):287-293.
[16] Jia X X,Lu J X,Tang X J,et al. Genetic diversity of Jiangsu native chicken breeds assessed with the mitochondrial DNA D-loop region[J]. Brit Poultry Sci,2018,59(1):34-39.
[2] Gao Y S,Jia X X,Tang X J,et al. The genetic diversity of chicken breeds from Jiangxi,assessed with BCDO2 and the complete mitochondrial DNA D-loop region[J]. PLoS One, 2017, 12(3):e0173192.
[3] Miao Y W,Peng M S,Wu G S,et al. Chicken domestication:an updated perspective based on mitochondrial genomes[J]. Heredity,2013,110(3):277.
[4] Liu Y P,Wu G S,Yao Y G,et al. Multiple maternal origins of chickens:out of the Asian jungles[J]. Mol Phylogenet Evol,2006,38(1):12-19.
[5]陈红菊,岳永生,樊新忠,等.利用微卫星标记分析山东地方鸡品种的遗传多样性[J].遗传学报,2003,30(9):855-860.
[6]赵东伟,李春苗,黎寿丰,等. 13个地方鸡品种6个微卫星座位遗传多样性分析[J].扬州大学学报(农业与生命科学版),2017,38(4):39-45.
[7]宋春红,陈红菊,马月辉,等.中国6个地方鸡品种的母系起源[J].畜牧兽医学报,2007,38(7):735-740.
[8] Jia X X,Tang X J,Lu J X,et al. The investigation of genetic diversity and evolution of Daweishan Mini chicken based on the complete mitochondrial(mt)DNA D-loop region sequence[J]. Mitochond DNA,2016,27(4):3001.
[9] Thompson J D,Gibson T J,Plewniak F,et al. The ClustalX windows interface:flexible strategies for multiple sequence alignment aided by quality analysis tools[J]. Nucleic Acids Res,1997,25(25):4876-4882.
[10] Rozas J,Sánchezdelbarrio J C,Messeguer X,et al. Dna SP,DNA polymorphism analyses by the coalescent and other methods[J].Bioinformatics,2003,19(18):2496-2497.
[11] Tamura K,Stecher G,Peterson D,et al. MEGA6:Molecular evolutionary genetics analysis,version 6. 0[J]. Mol Biol Evol,2013,30(12):2725-2729.
[12] Bandelt H J,Forster P,R9hl A. Median-joining networks for inferring intraspecific phylogenies[J]. Mol Biol Evol, 1999, 16(1):37.
[13]王继文.动物线粒体假基因的识别及其在进化生物学中的应用[J].动物学杂志,2004(3):103-108.
[14] Osman S A,Yonezawa T,Nishibori M. Origin and genetic diversity of Egyptian native chickens based on complete sequence of mitochondrial DNA D-loop region[J]. Poult Sci,2016,95(6):1248.
[15] Oka T,Ino Y,Nomura K,et al. Analysis of mt DNA sequences shows Japanese native chickens have multiple origins[J]. Anim Genet,2007,38(3):287-293.
[16] Jia X X,Lu J X,Tang X J,et al. Genetic diversity of Jiangsu native chicken breeds assessed with the mitochondrial DNA D-loop region[J]. Brit Poultry Sci,2018,59(1):34-39.
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