中山麻鸭群体遗传多样性与遗传结构

doi:10.17520/biods.2024592

生物多样性 ›› 2025, Vol. 33 ›› Issue (8): 24592. DOI: 10.17520/biods.2024592 cstr: 32101.14.biods.2024592

• 遗传多样性及保护专题 • 上一篇下一篇

中山麻鸭群体遗传多样性与遗传结构

薛瑞翔¹^,⁴, 马雪蓉¹^,⁴, 吴炯文¹^,⁴, 刘爱君¹^,⁴, 张细权¹^,⁴, 季从亮², 殷颖珊³, 朱炜健², 罗庆斌¹^,⁴^,^*()

¹ 华南农业大学动物科学学院, 广州 510642
² 云浮市云城温氏畜牧有限公司, 广东云浮 524000
³ 中山市农业科技推广中心, 广东中山 528400
⁴ 华南农业大学中山创新中心, 广东中山 528478

收稿日期:2024-12-31 接受日期:2025-05-04 出版日期:2025-08-20 发布日期:2025-09-17
通讯作者: *E-mail: qbluo@scau.edu.cn.
基金资助:
2024年省级乡村振兴战略专项资金种业振兴行动项目(2024-XPY-00-011)

Genetic diversity and genetic structure of Zhongshan partridge duck populations

Ruixiang Xue¹^,⁴, Xuerong Ma¹^,⁴, Jiongwen Wu¹^,⁴, Aijun Liu¹^,⁴, Xiquan Zhang¹^,⁴, Congliang Ji², Yingshan Yin³, Weijian Zhu², Qingbin Luo¹^,⁴^,^*()

¹ College of Animal Science, South China Agricultural University, Guangzhou 510642, China
² Yunfu Yuncheng Wenshi Livestock Co., Ltd., Yunfu, Guangdong 524000, China
³ Zhongshan Agricultural Science and Technology Extension Center, Zhongshan, Guangdong 528400, China
⁴ South China Agricultural University Zhongshan Innovation Center, Zhongshan, Guangdong 528478, China

Received:2024-12-31 Accepted:2025-05-04 Online:2025-08-20 Published:2025-09-17
Contact: *E-mail: qbluo@scau.edu.cn.
Supported by:
2024 Provincial Special Fund Project for the Revitalization of the Seed Industry under the Rural Revitalization Strategy(2024-XPY-00-011)

1. 附录.zip(280KB)

摘要/Abstract

摘要：

中山麻鸭是广东省唯一的地方鸭种, 是中山市最具代表性珍稀遗传资源。然而, 目前缺乏对中山麻鸭遗传多样性与遗传结构的全面认识, 限制了对中山麻鸭资源的保护与利用。本研究旨在利用全基因组重测序技术, 系统分析中山麻鸭的遗传多样性和遗传结构, 评估中山麻鸭保种场的保种效果, 并提出相应的遗传资源保护策略。本研究以包括中山麻鸭在内的22个鸭品种479个个体作为研究对象, 基于全基因组重测序技术, 进行群体遗传多样性与遗传结构相关分析。遗传多样性估算结果表明, 22个鸭品种的群体中中山麻鸭群体遗传多样性水平较高(Ne = 3.8656, Ho = 0.3382, He = 0.3313), 其中观测杂合度(Ho)在22个品种中是最高的, 期望杂合度(He)在22个品种中位于第7位也处于较高的水平。群体遗传结构研究中进化树与主成分分析结果均显示, 中山麻鸭与北京鸭、温氏麻鸭、枫叶鸭聚类较近。Admixture分析结果显示, 当K = 10时, 中山麻鸭遗传结构变得单一, 仅有一个祖先的遗传成分。最后以中山麻鸭为外群进行TreeMix分析, 结果中没有发现基因流从其他品种流向中山麻鸭, 以绿头野鸭为外群进行TreeMix分析, 结果显示也仅有从玉林麻鸭分化节点前到中山麻鸭这一次迁移事件与中山麻鸭相关。本研究明晰了中山麻鸭群体遗传多样性和遗传结构, 并提出了中山麻鸭遗传资源的保护策略, 有望能为中山麻鸭种质资源的保护提供理论基础与科学依据。

关键词: 遗传多样性, 群体遗传结构, 中山麻鸭, 基因流分析, 全基因组重测序

Abstract

Aims: The Zhongshan partridge duck is the only local duck breed in Guangdong Province and represents the most representative rare genetic resource in Zhongshan City. However, current research lacks a comprehensive understanding of the genetic diversity and genetic structure of Zhongshan partridge duck populations, limiting protection and resource utilization. The primary objectives of this study are to systematically analyze the genetic diversity and population structure of the Zhongshan partridge duck populations using whole-genome resequencing technology, evaluate the conservation effectiveness of its captive breeding programs in maintaining genetic integrity, and propose scientifically informed strategies for the protection of this genetic resource.

Methods: We collected 91 samples from seven duck populations in Guangdong and Guangxi provinces and obtained resequencing data for 388 samples from 19 additional populations through the NCBI database, generating a combined dataset of 479 individuals representing 22 duck breeds. Population-level variant detection was conducted using the GenomicsDB method in GATK software. Genetic diversity parameters—including effective number of alleles (Ne), observed heterozygosity (Ho), expected heterozygosity (He), polymorphism information content (PIC), and nucleotide diversity (π)—were systematically calculated for all 22 populations using VCFtools. Population genetic structure was evaluated through neighbor-joining (NJ) tree construction, principal component analysis (PCA), and Bayesian clustering analysis. Gene flow dynamics between the Zhongshan partridge duck and other breeds were subsequently investigated using TreeMix analysis.

Results: Genetic diversity assessments revealed that the Zhongshan partridge duck population exhibited relatively elevated genetic diversity among the 22 analyzed breeds (Ne = 3.8656, Ho = 0.3382, He = 0.3313). Notably, its Ho ranked highest across all breeds, while its He occupied the seventh position, still reflecting a substantial level of genetic variation. Population genetic structure analyses, including phylogenetic tree reconstruction and principal component analysis (PCA), demonstrated close clustering of the Zhongshan partridge duck with the Beijing Duck, Wenshi partridge duck, and maple leaf duck. Admixture analysis identified the Zhongshan partridge duck as a distinct genetic cluster characterized by a single ancestral component at K = 10. TreeMix analysis with Zhongshan partridge duck designated as the outgroup failed to detect significant gene flow from other breeds into this population. Analyses utilizing the mallard (Anas platyrhynchos) as the outgroup revealed only one migration event associated with the Zhongshan partridge duck, originating from the ancestral node of the Yulin partridge duck prior to its divergence.

Conclusion: Population fluctuations constitute a critical determinant of genetic diversity in avian conservation genetics. Despite undergoing historical demographic bottlenecks characterized by severe population contractions, the Zhongshan partridge duck retains comparatively elevated genomic diversity, a conservation outcome attributable to coordinated ex situ management protocols implemented through the collaborative efforts of the Zhongshan Agricultural Technology Extension Center and South China Agricultural University. Population genomic structure analyses substantiate the conservation efficacy of the Wugui Mountain Conservation Farm, demonstrating successful maintenance of ancestral allelic variation. This investigation delineates the extant genetic architecture and population stratification patterns of the Zhongshan partridge duck, formulates empirically grounded strategies for conserving its evolutionary significant units (ESUs), and establishes a genomic-informed paradigm for safeguarding this agriculturally vital germplasm resource.

Key words: genetic diversity, population genetic structure, Zhongshan partridge duck, gene flow analysis, whole-genome resequencing

薛瑞翔, 马雪蓉, 吴炯文, 刘爱君, 张细权, 季从亮, 殷颖珊, 朱炜健, 罗庆斌 (2025) 中山麻鸭群体遗传多样性与遗传结构. 生物多样性, 33, 24592. DOI: 10.17520/biods.2024592.

Ruixiang Xue, Xuerong Ma, Jiongwen Wu, Aijun Liu, Xiquan Zhang, Congliang Ji, Yingshan Yin, Weijian Zhu, Qingbin Luo (2025) Genetic diversity and genetic structure of Zhongshan partridge duck populations. Biodiversity Science, 33, 24592. DOI: 10.17520/biods.2024592.

导出引用管理器 EndNote|Ris|BibTeX

链接本文: https://www.biodiversity-science.net/CN/10.17520/biods.2024592

https://www.biodiversity-science.net/CN/Y2025/V33/I8/24592

图/表 5

表1 22个鸭品种的群体遗传参数表

Table 1 Genetic parameter table of population for 22 duck species/varieties

种类 Variety	有效等位基因数 Ne	观测杂合度 Ho	期望杂合度 He	多态信息含量 PIC	核苷酸多样 π
北京鸭 BJ	3.9826 ± 2.3280	0.2633 ± 0.1229	0.3221 ± 0.1335	0.2645 ± 0.0918	0.0030 ± 0.0024
斑嘴鸭 BZ	5.9716 ± 3.3542	0.1658 ± 0.1304	0.2389 ± 0.1392	0.2129 ± 0.1072	0.0034 ± 0.0028
东栏鸭 DL	4.1970 ± 2.6863	0.3091 ± 0.1863	0.3201 ± 0.1394	0.2938 ± 0.1224	0.0028 ± 0.0024
奉化鸭 FH	5.3629 ± 3.2577	0.1780 ± 0.1393	0.2661 ± 0.1437	0.2333 ± 0.1109	0.0028 ± 0.0023
枫叶鸭 FY	4.1817 ± 2.4431	0.2789 ± 0.1824	0.3138 ± 0.1376	0.2865 ± 0.1201	0.0020 ± 0.0020
广西小麻鸭 GX	4.2470 ± 2.6607	0.2902 ± 0.1591	0.3135 ± 0.1379	0.2708 ± 0.1035	0.0033 ± 0.0028
高邮鸭 GY	3.6321 ± 2.1210	0.2597 ± 0.1479	0.3399 ± 0.1251	0.2908 ± 0.0896	0.0018 ± 0.0015
金定鸭 JD	4.4242 ± 2.3207	0.1713 ± 0.1040	0.2865 ± 0.1272	0.2400 ± 0.0925	0.0001 ± 0.0001
靖西大麻鸭 JX	3.6073 ± 1.8445	0.3134 ± 0.1512	0.3364 ± 0.1254	0.2881 ± 0.0915	0.0032 ± 0.0027
连城白鸭 LC	4.6378 ± 2.3813	0.1771 ± 0.1074	0.2745 ± 0.1266	0.2317 ± 0.0926	0.0001 ± 0.0001
龙胜翠鸭 LS	3.5011 ± 1.6571	0.3160 ± 0.1638	0.3407 ± 0.1234	0.2995 ± 0.0948	0.0033 ± 0.0026
莆田黑鸭 PT	5.1533 ± 2.5464	0.1403 ± 0.1042	0.2495 ± 0.1241	0.2137 ± 0.0925	0.0001 ± 0.0001
融水香鸭 RS	4.5350 ± 3.0489	0.2930 ± 0.1835	0.3084 ± 0.1440	0.2803 ± 0.1242	0.0029 ± 0.0026
山麻鸭 SM	4.3646 ± 2.2142	0.1747 ± 0.0953	0.2863 ± 0.1241	0.2393 ± 0.0888	0.0001 ± 0.0001
绍兴鸭 SX	3.7232 ± 2.1620	0.2186 ± 0.1196	0.3358 ± 0.1284	0.2750 ± 0.0873	0.0020 ± 0.0016
温氏麻鸭 WMA	4.7271 ± 3.1733	0.3004 ± 0.1869	0.3009 ± 0.1460	0.2777 ± 0.1306	0.0034 ± 0.0029
文桥鸭 WQ	4.4776 ± 3.0149	0.2976 ± 0.1829	0.3108 ± 0.1432	0.2826 ± 0.1231	0.0032 ± 0.0027
温氏白鸭 WSB	4.3264 ± 2.9341	0.3048 ± 0.1847	0.3180 ± 0.1416	0.2897 ± 0.1266	0.0029 ± 0.0027
玉林麻鸭 YL	4.6123 ± 3.1255	0.2916 ± 0.1832	0.3070 ± 0.1460	0.2781 ± 0.1248	0.0030 ± 0.0026
樱桃谷鸭 YTG	4.0367 ± 2.3784	0.2378 ± 0.1587	0.3221 ± 0.1361	0.2799 ± 0.1034	0.0014 ± 0.0012
绿头野鸭 YY	4.5105 ± 2.5598	0.2350 ± 0.1284	0.2922 ± 0.1364	0.2437 ± 0.0954	0.0037 ± 0.0027
中山麻鸭 ZS	3.8656 ± 2.3322	0.3382 ± 0.1609	0.3313 ± 0.1329	0.2849 ± 0.1035	0.0032 ± 0.0029

表1 22个鸭品种的群体遗传参数表

Table 1 Genetic parameter table of population for 22 duck species/varieties

种类 Variety	有效等位基因数 Ne	观测杂合度 Ho	期望杂合度 He	多态信息含量 PIC	核苷酸多样 π
北京鸭 BJ	3.9826 ± 2.3280	0.2633 ± 0.1229	0.3221 ± 0.1335	0.2645 ± 0.0918	0.0030 ± 0.0024
斑嘴鸭 BZ	5.9716 ± 3.3542	0.1658 ± 0.1304	0.2389 ± 0.1392	0.2129 ± 0.1072	0.0034 ± 0.0028
东栏鸭 DL	4.1970 ± 2.6863	0.3091 ± 0.1863	0.3201 ± 0.1394	0.2938 ± 0.1224	0.0028 ± 0.0024
奉化鸭 FH	5.3629 ± 3.2577	0.1780 ± 0.1393	0.2661 ± 0.1437	0.2333 ± 0.1109	0.0028 ± 0.0023
枫叶鸭 FY	4.1817 ± 2.4431	0.2789 ± 0.1824	0.3138 ± 0.1376	0.2865 ± 0.1201	0.0020 ± 0.0020
广西小麻鸭 GX	4.2470 ± 2.6607	0.2902 ± 0.1591	0.3135 ± 0.1379	0.2708 ± 0.1035	0.0033 ± 0.0028
高邮鸭 GY	3.6321 ± 2.1210	0.2597 ± 0.1479	0.3399 ± 0.1251	0.2908 ± 0.0896	0.0018 ± 0.0015
金定鸭 JD	4.4242 ± 2.3207	0.1713 ± 0.1040	0.2865 ± 0.1272	0.2400 ± 0.0925	0.0001 ± 0.0001
靖西大麻鸭 JX	3.6073 ± 1.8445	0.3134 ± 0.1512	0.3364 ± 0.1254	0.2881 ± 0.0915	0.0032 ± 0.0027
连城白鸭 LC	4.6378 ± 2.3813	0.1771 ± 0.1074	0.2745 ± 0.1266	0.2317 ± 0.0926	0.0001 ± 0.0001
龙胜翠鸭 LS	3.5011 ± 1.6571	0.3160 ± 0.1638	0.3407 ± 0.1234	0.2995 ± 0.0948	0.0033 ± 0.0026
莆田黑鸭 PT	5.1533 ± 2.5464	0.1403 ± 0.1042	0.2495 ± 0.1241	0.2137 ± 0.0925	0.0001 ± 0.0001
融水香鸭 RS	4.5350 ± 3.0489	0.2930 ± 0.1835	0.3084 ± 0.1440	0.2803 ± 0.1242	0.0029 ± 0.0026
山麻鸭 SM	4.3646 ± 2.2142	0.1747 ± 0.0953	0.2863 ± 0.1241	0.2393 ± 0.0888	0.0001 ± 0.0001
绍兴鸭 SX	3.7232 ± 2.1620	0.2186 ± 0.1196	0.3358 ± 0.1284	0.2750 ± 0.0873	0.0020 ± 0.0016
温氏麻鸭 WMA	4.7271 ± 3.1733	0.3004 ± 0.1869	0.3009 ± 0.1460	0.2777 ± 0.1306	0.0034 ± 0.0029
文桥鸭 WQ	4.4776 ± 3.0149	0.2976 ± 0.1829	0.3108 ± 0.1432	0.2826 ± 0.1231	0.0032 ± 0.0027
温氏白鸭 WSB	4.3264 ± 2.9341	0.3048 ± 0.1847	0.3180 ± 0.1416	0.2897 ± 0.1266	0.0029 ± 0.0027
玉林麻鸭 YL	4.6123 ± 3.1255	0.2916 ± 0.1832	0.3070 ± 0.1460	0.2781 ± 0.1248	0.0030 ± 0.0026
樱桃谷鸭 YTG	4.0367 ± 2.3784	0.2378 ± 0.1587	0.3221 ± 0.1361	0.2799 ± 0.1034	0.0014 ± 0.0012
绿头野鸭 YY	4.5105 ± 2.5598	0.2350 ± 0.1284	0.2922 ± 0.1364	0.2437 ± 0.0954	0.0037 ± 0.0027
中山麻鸭 ZS	3.8656 ± 2.3322	0.3382 ± 0.1609	0.3313 ± 0.1329	0.2849 ± 0.1035	0.0032 ± 0.0029

图1 479只鸭个体系统进化树图。ZS: 中山麻鸭; BJ: 北京鸭; LC: 连城白鸭; WMA: 温氏麻鸭; WSB: 温氏白鸭; GX: 广西小麻鸭; JX: 靖西大麻鸭; YY: 绿头野鸭; BZ: 斑嘴鸭; FY: 枫叶鸭; YTG: 樱桃谷鸭; SX: 绍兴鸭; FH: 奉化鸭; GY: 高邮鸭; SM: 山麻鸭; JD: 金定鸭; PT: 莆田黑鸭; LS: 龙胜翠鸭; DL: 东栏鸭; RS: 融水香鸭; WQ: 文桥鸭; YL: 玉林麻鸭。

Fig. 1 Phylogenetic tree of 479 duck individuals. ZS, Zhongshan partridge duck; BJ, Beijing duck; LC, Liancheng white duck; WMA, Wenshi partridge duck; WSB, Wenshi white duck; GX, Guangxi small partridge duck; JX, Jingxi large partridge duck; YY, Mallard (Anas platyrhynchos); BZ, Spot-billed duck (Anas poecilorhyncha); FY, Maple leaf duck; YTG, Cherry valley duck; SX, Shaoxing duck; FH, Fenghua duck; GY, Gaoyou duck; SM, Mountain partridge duck; JD, Jinding duck; PT, Putian black duck; LS, Longsheng emerald duck; DL, Donglan duck; RS, Rongshui Xiang duck; WQ, Wenqiao duck; YL, Yulin partridge duck.

图2 479只鸭个体的主成分分析(PCA)图。ZS: 中山麻鸭; BJ: 北京鸭; LC: 连城白鸭; WMA: 温氏麻鸭; WSB: 温氏白鸭; GX: 广西小麻鸭; JX: 靖西大麻鸭; YY: 绿头野鸭; BZ: 斑嘴鸭; FY: 枫叶鸭; YTG: 樱桃谷鸭; SX: 绍兴鸭; FH: 奉化鸭; GY: 高邮鸭; SM: 山麻鸭; JD: 金定鸭; PT: 莆田黑鸭; LS: 龙胜翠鸭; DL: 东栏鸭; RS: 融水香鸭; WQ: 文桥鸭; YL: 玉林麻鸭。

Fig. 2 Principal component analysis (PCA) plot of 479 duck individuals based on PC1 and PC2. Letters in the diagram represent abbreviations of duck breed names (ZS, Zhongshan partridge duck; BJ, Beijing duck; LC, Liancheng white duck; WMA, Wenshi partridge duck; WSB, Wenshi white duck; GX, Guangxi small partridge duck; JX, Jingxi large partridge duck; YY, Mallard (Anas platyrhynchos); BZ, Spot-billed duck (Anas poecilorhyncha); FY, Maple leaf duck; YTG, Cherry valley duck; SX, Shaoxing duck; FH, Fenghua duck; GY, Gaoyou duck; SM, Mountain partridge duck; JD, Jinding duck; PT, Putian black duck; LS, Longsheng emerald duck; DL, Donglan duck; RS, Rongshui Xiang duck; WQ, Wenqiao duck; YL, Yulin partridge duck).

图3 21个鸭品种的Admixture分析图(K = 2至K = 10)。ZS: 中山麻鸭; BJ: 北京鸭; LC: 连城白鸭; WMA: 温氏麻鸭; WSB: 温氏白鸭; GX: 广西小麻鸭; JX: 靖西大麻鸭; YY: 绿头野鸭; BZ: 斑嘴鸭; FY: 枫叶鸭; YTG: 樱桃谷鸭; SX: 绍兴鸭; FH: 奉化鸭; GY: 高邮鸭; SM: 山麻鸭; JD: 金定鸭; PT: 莆田黑鸭; LS: 龙胜翠鸭; DL: 东栏鸭; RS: 融水香鸭; WQ: 文桥鸭; YL: 玉林麻鸭。

Fig. 3 Admixture analysis plot of 21 duck breeds from K = 2 to K = 10. ZS, Zhongshan partridge duck; BJ, Beijing duck; LC, Liancheng white duck; WMA, Wenshi partridge duck; WSB, Wenshi white duck; GX, Guangxi small partridge duck; JX, Jingxi large partridge duck; YY, Mallard (Anas platyrhynchos); BZ, Spot-billed duck (Anas poecilorhyncha); FY, Maple leaf duck; YTG, Cherry valley duck; SX, Shaoxing duck; FH, Fenghua duck; GY, Gaoyou duck; SM, Mountain partridge duck; JD, Jinding duck; PT, Putian black duck; LS, Longsheng emerald duck; DL, Donglan duck; RS, Rongshui Xiang duck; WQ, Wenqiao duck; YL, Yulin partridge duck.

图4 22个鸭品种的TreeMix分析图。(a)以中山麻鸭为外群迁移次数为10的最大似然进化树(ML)。(b)以中山麻鸭为外群迁移次数为24的ML进化树。(c)以绿头野鸭为外群迁移次数为6的最大似然进化树。(d)以绿头野鸭为外群迁移次数为30的ML进化树。图中字母代表鸭品种名缩写(ZS: 中山麻鸭; BJ: 北京鸭; LC: 连城白鸭; WMA: 温氏麻鸭; WSB: 温氏白鸭; GX: 广西小麻鸭; JX: 靖西大麻鸭; YY: 绿头野鸭; BZ: 斑嘴鸭; FY: 枫叶鸭; YTG: 樱桃谷鸭; SX: 绍兴鸭; FH: 奉化鸭; GY: 高邮鸭; SM: 山麻鸭; JD: 金定鸭; PT: 莆田黑鸭; LS: 龙胜翠鸭; DL: 东栏鸭; RS: 融水香鸭; WQ: 文桥鸭; YL: 玉林麻鸭)。

Fig. 4 TreeMix analysis plots of 22 duck breeds. (a) Maximum likelihood (ML) phylogenetic tree with Zhongshan partridge duck as the outgroup and 10 migration events. (b) ML phylogenetic tree with Zhongshan partridge duck as the outgroup and 24 migration events. (c) Maximum likelyhood phylogenetic tree with Mallard (Anas platyrhynchos) as the outgroup and 6 migration events. (d) ML phylogenetic tree with Mallard (Anas platyrhynchos) as the outgroup and 30 migration events. ZS, Zhongshan partridge duck; BJ, Beijing duck; LC, Liancheng white duck; WMA, Wenshi partridge duck; WSB, Wenshi white duck; GX, Guangxi small partridge duck; JX, Jingxi large partridge duck; YY, Mallard (Anas platyrhynchos); BZ, Spot-billed duck (Anas poecilorhyncha); FY, Maple leaf duck; YTG, Cherry valley duck; SX, Shaoxing duck; FH, Fenghua duck; GY, Gaoyou duck; SM, Mountain partridge duck; JD, Jinding duck; PT, Putian black duck; LS, Longsheng emerald duck; DL, Donglan duck; RS, Rongshui Xiang duck; WQ, Wenqiao duck; YL, Yulin partridge duck.

参考文献 21

[1]	Chen SF, Zhou YQ, Chen YR, Gu J (2018) Fastp: An ultra-fast all-in-one FASTQ preprocessor. Bioinformatics, 34, i884-i890.
[2]	Chen ZJ, Wan YL, Zhong WJ, Chen SW, Zhou YH, Shi SJ, Jiang L, Ji PC, Yang ZH, Mao ZX, Mou FS (2021) Development and application of soybean in del markers based on whole-genome resequencing datasets. Journal of Plant Genetic Resources, 22, 815-833. (in Chinese with English abstract)
	[陈正杰, 宛永璐, 钟文娟, 陈四维, 周永航, 石盛佳, 蒋理, 戢沛城, 杨泽湖, 毛正轩, 牟方生 (2021) 基于大豆基因组重测序的InDel标记开发及应用. 植物遗传资源学报, 22, 815-833.] DOI
[3]	Danecek P, Auton A, Abecasis G, Albers CA, Banks E, DePristo MA, Handsaker RE, Lunter G, Marth GT, Sherry ST, McVean G, Durbin R, Group GPA (2011) The variant call format and VCFtools. Bioinformatics, 27, 2156-2158. DOI PMID
[4]	Groenen MAM, Archibald AL, Uenishi H, Tuggle CK, Takeuchi Y, Rothschild MF, Rogel-Gaillard C, Park C, Milan D, Megens HJ, Li ST, Larkin DM, Kim H, Frantz LAF, Caccamo M, Ahn H, Aken BL, Anselmo A, Anthon C, Auvil L, Badaoui B, Beattie CW, Bendixen C, Berman D, Blecha F, Blomberg J, Bolund L, Bosse M, Botti S, Zhan BJ, Bystrom M, Capitanu B, Carvalho-Silva D, Chardon P, Chen C, Cheng R, Choi SH, Chow W, Clark RC, Clee C, Crooijmans RPMA, Dawson HD, Dehais P, De Sapio F, Dibbits B, Drou N, Du ZQ, Eversole K, Fadista J, Fairley S, Faraut T, Faulkner GJ, Fowler KE, Fredholm M, Fritz E, Gilbert JGR, Giuffra E, Gorodkin J, Griffin DK, Harrow JL, Hayward A, Howe K, Hu ZL, Humphray SJ, Hunt T, Hornshøj H, Jeon JT, Jern P, Jones M, Jurka J, Kanamori H, Kapetanovic R, Kim J, Kim JH, Kim KW, Kim TH, Larson G, Lee K, Lee KT, Leggett R, Lewin HA, Li YR, Liu WS, Loveland JE, Lu Y, Lunney JK, Ma J, Madsen O, Mann K, Matthews L, McLaren S, Morozumi T, Murtaugh MP, Narayan J, Nguyen DT, Ni PX, Oh SJ, Onteru S, Panitz F, Park EW, Park HS, Pascal G, Paudel Y, Perez-Enciso M, Ramirez-Gonzalez R, Reecy JM, Rodriguez-Zas S, Rohrer GA, Rund L, Sang YM, Schachtschneider K, Schraiber JG, Schwartz J, Scobie L, Scott C, Searle S, Servin B, Southey BR, Sperber G, Stadler P, Sweedler JV, Tafer H, Thomsen B, Wali R, Wang J, Wang J, White S, Xu X, Yerle M, Zhang GJ, Zhang JG, Zhang J, Zhao SH, Rogers J, Churcher C, Schook LB (2012) Analyses of pig genomes provide insight into porcine demography and evolution. Nature, 491, 393-398. DOI
[5]	Li HF, Xu WJ, Zhu WQ, Xue SM, Chen KW (2008) Genetic diversity and evolution of Fujian domestic duck breeds. Biodiversity Science, 16, 607-612. (in Chinese with English abstract) DOI
	[李慧芳, 徐文娟, 朱文奇, 薛素美, 陈宽维 (2008) 福建省家鸭的遗传多样性及其与野鸭的亲缘关系. 生物多样性, 16, 607-612.] DOI
[6]	Lin RY, Li JQ, Yang Y, Yang YH, Chen JM, Zhao FL, Xiao TF (2022) Genome-wide population structure analysis and genetic diversity detection of four Chinese indigenous duck breeds from Fujian Province. Animals, 12, 2302. DOI URL
[7]	Lin Y, Huang M, Li XJ, Zhang XM, Huang YM, Tian YB, Wu ZP (2023) Uncovering genome-wide copy number variations in 8 duck breeds using whole genome resequencing data. Acta Veterinaria et Zootechnica Sinica, 54, 3700-3709. (in Chinese with English abstract) DOI
	[林燕, 黄敏, 李秀金, 张续勐, 黄运茂, 田允波, 伍仲平 (2023) 利用全基因组重测序数据检测8个鸭品种基因组拷贝数变异. 畜牧兽医学报, 54, 3700-3709.] DOI
[8]	Liu Z, Sun H, Lai W, Hu M, Zhang Y, Bai C, Liu J, Ren H, Li F, Yan S (2022) Genome-wide re-sequencing reveals population structure and genetic diversity of Bohai black cattle. Animal Genetics, 53, 133-136. DOI URL
[9]	Luo W (2021) Genetic Diversity of Genome of Local Chicken Breeds in China and Analysis of Selection Imprint of Cockfighting and Antlers’ Crown Populations. PhD dissertation, South China Agricultural University, Guangzhou. (in Chinese with English abstract)
	[罗威 (2021) 中国家鸡地方品种基因组遗传多样性及斗鸡、鹿角冠群体的选择印记分析. 博士毕业论文, 华南农业大学, 广州.]
[10]	Luo W, Luo CL, Wang M, Guo LJ, Chen XL, Li ZH, Zheng M, Folaniyi BS, Luo W, Shu DM, Song LL, Fang MX, Zhang XQ, Qu H, Nie QH (2020) Genome diversity of Chinese indigenous chicken and the selective signatures in Chinese gamecock chicken. Scientific Reports, 10, 14532. DOI PMID
[11]	Mishra S, Sarkar U, Taraphder S, Datta S, Swain D, Saikhom R, Sasmita P, Menalsh L (2017) Multivariate statistical data analysis—Principal component analysis (PCA). International Journal of Livestock Research, 7, 60-78.
[12]	Pickrell JK, Pritchard JK (2012) Inference of population splits and mixtures from genome-wide allele frequency data. PLoS Genetics, 8, e1002967.
[13]	Tubelyte V, Švažas S, Sruoga A, Butkauskas D, Paulauskas A, Baublys V, Viksne J, Grishanov G, Kozulin A (2011) Genetic diversity of tufted ducks (Aythya fuligula, Anatidae) in Eastern Europe. Open Life Sciences, 6, 1044-1053. DOI URL
[14]	Wang R, Sun JL, Han H, Huang YF, Chen T, Yang MM, Wei Q, Wan HF, Liao YY (2021) Whole-genome resequencing reveals genetic characteristics of different duck breeds from the Guangxi region in China. G3: Genes, Genomes, Genetics, 11, jkab054.
[15]	Wang TM, Guo QX, Bai H, Chang GB, Chen GH (2021) Analysis of population structure of different duck genetic resources based on whole-genome resequencing. Chinese Journal of Animal Science, 57(11), 78-81. (in Chinese with English abstract)
	[王统苗, 郭其新, 白皓, 常国斌, 陈国宏 (2021) 基于全基因组重测序对不同鸭遗传资源进行群体结构分析. 中国畜牧杂志, 57(11), 78-81.]
[16]	Weir BS, Cockerham CC (1984) Estimating F-statistics for the analysis of population structure. Evolution, 38, 1358-1370. DOI PMID
[17]	Wu PX, Wang K, Yang Q, Zhou J, Chen DJ, Liu YH, Ma JD, Tang QZ, Jin L, Xiao WH, Lou PE, Jiang AN, Jiang YZ, Zhu L, Li MZ, Li XW, Tang GQ (2019) Whole-genome re-sequencing association study for direct genetic effects and social genetic effects of six growth traits in large white pigs. Scientific Reports, 9, 9667. DOI PMID
[18]	Zhang L (2019) Genome Sequencing and Research of Bama Mini-Pig. PhD dissertation, Guangxi University, Nanning. (in Chinese with English abstract)
	[张笠 (2019) 广西巴马小型猪全基因组测序及分析研究. 博士学位论文, 广西大学, 南宁.]
[19]	Zhang Y (2014) Genetic Diversity and Population Structure Analysis of Some Local Duck Breeds in China. PhD dissertation, Yangzhou University, Yangzhou, Jiangsu. (in Chinese with English abstract)
	[张扬 (2014) 我国部分地方鸭品种遗传多样性与群体结构分析. 博士学位论文, 扬州大学, 江苏扬州.]
[20]	Zhang YH, Jia HX, Wang ZB, Sun P, Cao DM, Hu JJ (2019) Genetic diversity and population structure of Populus yunnanensis. Biodiversity Science, 27, 355-365. (in Chinese with English abstract) DOI URL
	[张亚红, 贾会霞, 王志彬, 孙佩, 曹德美, 胡建军 (2019) 滇杨种群遗传多样性与遗传结构. 生物多样性, 27, 355-365.] DOI
[21]	Zhang ZB (2018) Study on Selection Signal and Domestication Time of Domestic Ducks by Genome-wide Resequencing. PhD dissertation, China Agricultural University, Beijing. (in Chinese with English abstract)
	[张泽宾 (2018) 利用全基因组重测序研究家鸭驯化的选择信号及驯化时间. 博士学位论文, 中国农业大学, 北京.]

中山麻鸭群体遗传多样性与遗传结构

Genetic diversity and genetic structure of Zhongshan partridge duck populations

RichHTML

PDF (PC)

补充材料

可视化

摘要/Abstract

引用本文

使用本文

图/表 5

参考文献 21

相关文章 15

编辑推荐

Metrics

本文评价

[1]	范平, 温知新, 宋刚. 气候因子和人类活动对两栖及哺乳动物不同遗传多样性指标的影响[J]. 生物多样性, 2025, 33(8): 25022-.
[2]	范平, 王欢, 温知新, 宋刚, 雷富民. 气候因子对鸟类遗传多样性与物种分布面积关系的影响[J]. 生物多样性, 2025, 33(8): 25072-.
[3]	周智成, 曹天玲, 刘如垚, 丁琪琪, 马轲, 杨丽萍, 周传江, 聂国兴, 汤永涛. 基于线粒体COI基因的黄河流域麦穗鱼种群遗传多样性与遗传结构[J]. 生物多样性, 2025, 33(8): 24501-.
[4]	王儒晓, 史博洋, 潘达, 孙红英. 中国特有华溪蟹属淡水蟹多样性格局及其保护空缺[J]. 生物多样性, 2025, 33(8): 25123-.
[5]	王嘉陈, 徐汤俊, 许唯, 张高季, 尤艺瑾, 阮宏华, 刘宏毅. 城市景观格局对大蚰蜒种群遗传结构的影响[J]. 生物多样性, 2025, 33(1): 24251-.
[6]	李庆多, 栗冬梅. 全球蝙蝠巴尔通体流行状况分析[J]. 生物多样性, 2023, 31(9): 23166-.
[7]	冯晨, 张洁, 黄宏文. 统筹植物就地保护与迁地保护的解决方案: 植物并地保护(parallel situ conservation)[J]. 生物多样性, 2023, 31(9): 23184-.
[8]	齐海玲, 樊鹏振, 王跃华, 刘杰. 中国北方六省区胡桃的遗传多样性和群体结构[J]. 生物多样性, 2023, 31(8): 23120-.
[9]	景昭阳, 程可光, 舒恒, 马永鹏, 刘平丽. 全基因组重测序方法在濒危植物保护中的应用[J]. 生物多样性, 2023, 31(5): 22679-.
[10]	熊飞, 刘红艳, 翟东东, 段辛斌, 田辉伍, 陈大庆. 基于基因组重测序的长江上游瓦氏黄颡鱼群体遗传结构[J]. 生物多样性, 2023, 31(4): 22391-.
[11]	蒲佳佳, 杨平俊, 戴洋, 陶可欣, 高磊, 杜予州, 曹俊, 俞晓平, 杨倩倩. 长江下游外来生物福寿螺的种类及其种群遗传结构[J]. 生物多样性, 2023, 31(3): 22346-.
[12]	何艺玥, 刘玉莹, 张富斌, 秦强, 曾燏, 吕振宇, 杨坤. 梯级水利工程背景下的嘉陵江干流蛇鮈群体遗传多样性和遗传结构[J]. 生物多样性, 2023, 31(11): 23160-.
[13]	罗瑞, 陈娅, 张汉马. 芸薹属植物全基因组重测序研究进展[J]. 生物多样性, 2023, 31(10): 23237-.
[14]	孙维悦, 舒江平, 顾钰峰, 莫日根高娃, 杜夏瑾, 刘保东, 严岳鸿. 基于保护基因组学揭示荷叶铁线蕨的濒危机制[J]. 生物多样性, 2022, 30(7): 21508-.
[15]	陶克涛, 白东义, 图格琴, 赵若阳, 安塔娜, 铁木齐尔·阿尔腾齐米克, 宝音德力格尔, 哈斯, 芒来, 韩海格. 基于基因组SNPs对东亚家马不同群体遗传多样性的评估[J]. 生物多样性, 2022, 30(5): 21031-.