The complete mitochondrial genome and molecular phylogeny of Lueyang black-bone chicken     

T. Zhang  H. Liu  L.-K. Yang  Y.-J. Yin  H.-Z. Lu  L. Wang 《British poultry science》2018,59(6):618-623

ABSTRACT

1. The objectives of the current study were to investigate the mitochondrial genome and molecular phylogeny of Lueyang black-bone chicken, and provide molecule base to preserve and explore the specific chicken strain.

2. Based on sequencing and clustering, the complete mitochondrial DNA map and sequences of Lueyang black-bone chicken were revealed, and two phylogenetic trees of Lueyang black-bone chickens based on D-loop sequences and the mitochondrial genome were constructed.

3. The results showed that the complete mitochondrial genome of Lueyang black-bone chickens is 16,784bp in size, consisting of 22 transfer RNA genes, two ribosomal RNA genes, 13 protein-coding genes, and one non-coding control region. The base composition of the complete mtDNA sequence is 30.28% for A, 23.78% for T, 32.42% for C, 13.52% for G. Additionally, 10 haplotypes of D-loop sequences in 32 Lueyang black-bone chickens were detected, which were distributed into 4 clades (A, B, C and E).

4. It was concluded that genetic diversity is wide in Lueyang black-bone chickens, and this strain has multiple maternal origins from different regions in China and neighbouring regions.  相似文献   

Phylogenetic analysis of Myanmar indigenous chickens using mitochondrial D-loop sequence reveals their characteristics as a genetic resource     

Su Lai Yee Mon  Moe Lwin  Aye Aye Maw  Lat Lat Htun  Saw Bawm  Kotaro Kawabe  Yasuhiko Wada  Shin Okamoto  Takeshi Shimogiri 《Animal Science Journal》2021,92(1):e13647

Myanmar indigenous chickens play important roles in food, entertainment, and farm business for the people of Myanmar. In this study, complete mitochondrial D-loop sequences (1232 bp) were analyzed using 176 chickens, including three indigenous breeds, two fighting cock populations, and three indigenous populations to elucidate genetic diversity and accomplish a phylogenetic analysis of Myanmar indigenous chickens. The average haplotype and nucleotide diversities were 0.948 ± 0.009 and 0.00814 ± 0.00024, respectively, exhibiting high genetic diversity of Myanmar indigenous chickens. Sixty-four haplotypes were classified as seven haplogroups, with the majority being haplogroup F. The breeds and populations except Inbinwa had multiple maternal haplogroups, suggesting that they experienced no recent purifying selection and bottleneck events. All breeds and populations examined shared haplogroup F. When 232 sequences belonging to haplogroup F (79 from Myanmar and 153 deposited sequences from other Asian countries/region) were analyzed together, the highest genetic diversity was observed in Myanmar indigenous chickens. Furthermore, Myanmar indigenous chickens and red junglefowls were observed in the center of the star-like median-joining network of 37 F-haplotypes, suggesting that Myanmar is one of the origins of haplogroup F. These findings revealed the unique genetic characteristic of Myanmar indigenous chickens as important genetic resources.  相似文献   

陇东地方牛种遗传多样性研究     

赵生国  周艳红  李文彬  陈富国  李三禄  张长庆  吴建平 《中兽医医药杂志》2012,31(5):14-17

对陇东地方牛种及其与秦川牛和南德温牛杂交群体共计113个个体线粒体D-loop区461 bp序列进行多态性分析,结果表明,3个群体该区域A+T含量(64.2%)明显高于G+C含量(35.8%),表现出明显的碱基偏倚;3个群体核苷酸变异率介于0.42%和3.27%之间,陇东牛和南德温牛杂交群体核苷酸变异率最高;核苷酸变异类型以转换为主,转换占核苷酸多态位点的90.94%,其次为颠换,占4.59%,同样表现出明显的碱基替换偏倚;3个群体核苷酸岐异度介于0.008 95和0.029 06之间,遗传距离介于0.000 15和0.008 36之间,陇东地方牛及其与秦川牛的杂交群体核苷酸歧异度和遗传距离最小。  相似文献   

贵州威宁黄牛线粒体DNA D-loop区全序列分析     

刘若余  杨公社  夏先林  刘培琼  张明忠  雷初朝 《中国牛业科学》2006,33(1):14-16

为了解贵州威宁黄牛的遗传多样性及遗传背景，我们分析测定了19个个体线粒体DNA D-loop区序列。结果检测到8种单倍型，7种为普通牛血统的单倍型，1种为瘤牛血统的单倍型，表明威宁黄牛同时受普通牛和瘤牛的影响。本研究同时构建了19个威宁黄牛个体的系统发生树，结果发现它们明显分为普通牛血统单倍型组和瘤牛血统单倍型组两组。  相似文献   

A lost Sorraia maternal lineage found in the Lusitano horse breed     

C. Luís  C. Bastos-Silveira  J. Costa-Ferreira  E.G. Cothran  & M.M. Oom 《Zeitschrift für Tierzüchtung und Züchtungsbiologie》2006,123(6):399-402

A common female founder individual of the Portuguese horse breeds Sorraia and Lusitano was found while conducting research on the variation of the Lusitano mitochondrial DNA lineages in relation to studbook information. We obtained 416‐bp control region sequences from 16 descendents of a female Sorraia founder (Pomba) still represented in the living population of the Lusitano, according to the most recent edition of this breed's studbook. The same haplotype was found for all analysed samples and belongs to the haplogroup described by several authors as having predominantly Iberian, South American and North African haplotypes bringing new insights on the relationship between the Sorraia and the other Iberian breeds. This work illustrates how weak the boundary of breed establishment can be, especially at the same geographical region. Using the same founders in different breeds is surely one of the explanations to frequently shared haplotypes among recent breeds, resulting in a lack of consistency between mtDNA sequences and breeds and/or geographical regions.  相似文献   

中国部分山羊品种线粒体DNA D-loop序列遗传多样性分析   总被引：4，自引：2，他引：4  

刘益平  曹少先  傅泽红  徐敏  刘铁铮 《畜牧兽医学报》2007,38(4):313-320

分析了中国部分本地山羊品种(18个品种200个体)以及在中国饲养的引入品种(4个品种25个体)线粒体DNA控制区(D-loop)的全序列,结合已报道的世界其它地方的山羊(15个品种77个体)以及2只野山羊的线粒体DNA控制区(D-loop)全序列共304个体,研究结果表明:山羊线粒体DNA控制区约为1 212 bp,检测到228个变异位点,203种单倍型,单倍型多样度为0.993±0.001;核苷酸多样度0.018±0.001。中国部分山羊的变异类型主要为类型A和B,而在巴基斯坦山羊中还检测到类型C和D。比较分析结果表明中国山羊遗传多样性和基因交流比中国黄牛品种要高。  相似文献   

基于线粒体DNA D-loop区的肉鸡品种遗传多样性和起源分析     

唐修君  樊艳凤  贾晓旭  葛庆联  陆俊贤  唐梦君  韩威  高玉时 《中国农业科学》2021,54(24):5302-5315

【目的】探讨不同生长速度鸡品种（配套系）线粒体DNA D-loop区全序列遗传多样性和起源特性,为肉鸡品种选育和溯源提供理论依据。【方法】以不同生长速度的8个黄羽肉鸡配套系（中快速型5个、慢速型3个）、2个地方鸡种（固始鸡、藏鸡）、2个引进鸡种（隐性白羽鸡、安卡鸡）、1个白羽肉鸡（罗斯308）、817杂交肉鸡以及1个高产蛋鸡配套系（大午褐壳蛋鸡）共计15个鸡种为研究对象,采集血液提取DNA后进行PCR扩增,对15个鸡种共683个个体mtDNA D-loop区全序列进行测序,使用DnaSP 5.10软件分析各个鸡种遗传多样性和单倍型特点,使用MEGA 4.0软件计算种间遗传距离,构建不同单倍型与红色原鸡之间NJ系统发育树,分析起源和亲缘关系。【结果】15个鸡种线粒体D-loop区全序列大小为1 231—1 232bp,序列长度为1 231 bp的个体在859 bp处存在C碱基缺失。683个个体共检测到45个变异位点,组合为53个单倍型,可以分为A、B、C和E共4个单倍型群,其中中快速型肉鸡、817杂交肉鸡以及高产蛋鸡均是E单倍型为优势单倍型（≥48.89%）;慢速型黄羽肉鸡中鸿光黑鸡优势单倍型为B单倍型,京海黄鸡优势单倍型为A单倍型,雪山鸡4种单倍型相对均衡,3个慢速型黄羽肉鸡配套系E单倍型比例≤38.46%;地方鸡种中固始鸡的单倍型为A和C型,藏鸡的单倍型为A和B型。15个鸡种单倍型多样度（Hd）分布在0.496—0.853,核苷酸多样度（Pi）分布在0.00146—0.00673,遗传多样性相对丰富的品种（配套系）是新兴矮脚黄鸡、雪山鸡、京海黄鸡和罗斯308;遗传多样性程度相对较低的品种（配套系）是藏鸡、高产蛋鸡、安卡鸡、新兴麻鸡4号和墟岗黄鸡1号。15个鸡种Kiumura双参数距离范围为0.0016—0.0113,其中罗斯308种内遗传距离最大,而817杂交肉鸡和高产蛋鸡的种内遗传距离最小;种间遗传距离最大为高产蛋鸡与藏鸡之间,最小为高产蛋鸡与817杂交肉鸡之间;中快速型黄羽肉鸡配套系相互之间遗传距离相对较小,而与慢速型黄羽肉鸡配套系以及地方鸡种之间遗传距离相对较大;京海黄鸡和鸿光黑鸡均是与藏鸡遗传距离最小。聚类分析显示,A、B单倍型群与红色原鸡滇南亚种交叉聚为一枝;E单倍型与红色原鸡印度亚种交叉聚为一枝;C单倍型群与红色原鸡印度亚种、滇南亚种、指名亚种以及印尼亚种交叉聚为一枝。【结论】不同生长速度鸡种之间线粒体D-loop区遗传多样性程度差异较大;E单倍型与肉鸡生长速度具有较强的相关性,中快速型群体均以E单倍型为优势单倍型,而慢速型群体E单倍型比例均低于40%;我国家鸡群体具有多个红色原鸡母系起源,显示其在中性选择下被驯化。研究结果为肉鸡品种选育和溯源以及资源化开发利用提供了理论依据。  相似文献   

淮北灰驴mtDNA D-loop区遗传多样性及起源分析     

夏晶晶  贾羽晴  税斐  高伟凤  涂小璐  程智中  许大双 《安徽农业大学学报》2022,49(4):578

为分析淮北灰驴遗传多样性与母系起源,从大群中随机选择10匹淮北灰驴,对其mtDNA D-loop区部分序列进行测序,与GenBank已公布的一些驴品种的mtDNA D-loop区序列进行比对分析,并探讨淮北灰驴的遗传多样性与母系起源。结果显示,在获得的407 bp D-loop碱基序列中,共检测出28处变异位点,8处碱基对的转换以及1处颠换,其核苷酸多样性（Pi）为0.021 95,单倍型多样性（Hd）为0.778,平均核苷酸差异（K）为8.911,显示淮北灰驴较为丰富的遗传多样性。从D-loop区核苷酸序列的5种单倍型分析,发现淮北灰驴可能有2个母系起源,遗传距离表明,淮北灰驴与克罗地亚家驴之间的遗传距离较近。研究结果从分子水平上为淮北灰驴的遗传资源保护和开发利用提供了参考。  相似文献   

不同品种绵羊D-loop区遗传多样性研究     

肖帆  张利平  朗侠  吴建平  张筱艳  靳继鹏 《西北农业学报》2021,(8):1122-1129

线粒体DNA（Mitochondria DNA,mtDNA）D-loop区的进化速度快且多态性丰富, 因此在生物的遗传多样性和起源进化研究中具有重要意义。采用PCR扩增和基因测序的方法分析甘肃高山细毛羊（G）、欧拉羊（O）、杜泊羊（D）、蒙古羊（M）、小尾寒羊（S）和湖羊（H）的线粒体DNA D-loop区遗传多样性和进化关系。结果显示,试验羊D-loop区中GC含量低于AT含量,共检测到171 个变异位点,单一多态位点58 个,简约信息位点113 个,共87 个单倍型,单倍型多样度（H_d）分别为 0.993、1.000、0.968、1.000、0.933和1.000,核苷酸多样度（P_i）分别为 0.022 37、0.014 63、0.011 93、0.017 47、0.021 40和0.023 48,湖羊的平均核苷酸差异度最大（K=31.622）,而杜泊羊最小（K=15.995）。蒙古羊和杜泊羊的核苷酸平均差异数K_xy最大,蒙古羊和欧拉羊的核苷酸平均差异数K_xy最小。核苷酸歧异度D_xy与核苷酸平均差异数K_xy结果一致。系统发育树结果显示,湖羊与小尾寒羊先聚集在一起,然后与杜泊羊聚为一类;欧拉羊与蒙古羊先聚为一类,然后与甘肃高山细毛羊聚为一大类,说明湖羊与小尾寒羊遗传差异小。  相似文献   

剑尾鱼线粒体DNA D-环及侧翼tRNA↑（thr）和tRNA↑（pro）序列与结构分析   总被引：4，自引：0，他引：4       下载免费PDF全文

白俊杰  劳海华  叶星  简清  吴淑勤 《中国水产科学》2003,10(2):89-92

采用PCR方法从剑尾鱼(Xiphophorus helleri)线粒体基因组中扩增到1段约15．5kb的片段，测定了其中627个碱基的序列。经测序分析表明，该扩增片段包括486bp的D—环的部分序列以及D—环5端的tRNA^trh和tRNA^pro基因的完整序列。其中486bpD环序列包含3段保守的终止相关序列TAS、与TAS互补的序列以及类似其他鱼类线粒体CSB序列。tRNA^trh由线粒体DNA的H链编码，长度为72bp。tRNA^pro由线粒体DNA的L链编码，长度为69bp。并绘制了这2种tRNA的二级结构图。本研究所测定的基因序列已登录国际GenBank数据库，序号为AF489918。  相似文献