{
    "abstract": "Genetic resources are essential components of biodiversity. As national strategy, the conservation of genetic resources is crucial not only for biodiversity but also for sustainable agriculture and cultural heritage. However, the exact origin of most local breeds remains unclear at the genomic level. The conservation efforts are becoming more challenging as local breeds are currently experiencing genetic drift and admixture, which may be further complicated by historical hybridizations. A typical example is the Beijing-You chicken, a local breed renowned for its excellent meat flavor and unique appearance. With a relatively recent history (~\u2009300 years), it displays mixed phenotypes which may have resulted from genomic admixture, with its exact origin yet to be determined.\nThrough comprehensive genomic similarity analysis, we identified 12 genetic donor breeds for the Beijing-You chicken and quantified their genetic contributions, with the highest ancestry proportion coming from Henan chickens. The local ancestry components and genomic structure analyses of the Beijing-You chicken suggest recent hybridization in the formation of this breed. Furthermore, we innovatively used ancestry components as new material for genetic evaluation and selection signature detection, demonstrating that conservation efforts over the past decade have been effective. Analysis of selection signatures revealed genes and regions associated with polydactyly, egg production, intramuscular fat, and spermatogenesis.\nBy integrating various analytical strategies, we developed a novel framework for genetic traceability and evaluation. Our results highlight the effectiveness of ancestry components in genetic assessment and offer valuable insights for the conservation, improvement, and sustainable utilization of local breeds.",
    "authors": [
        {
            "affiliation": "State Key Laboratory of Animal Biotech Breeding, College of Biological Sciences, China Agricultural University, Beijing, 100193, China.",
            "firstname": "Yuan",
            "initials": "Y",
            "lastname": "Kong"
        },
        {
            "affiliation": "State Key Laboratory of Animal Biotech Breeding, College of Biological Sciences, China Agricultural University, Beijing, 100193, China.",
            "firstname": "Zilong",
            "initials": "Z",
            "lastname": "Wen"
        },
        {
            "affiliation": "State Key Laboratory of Animal Biotech Breeding, College of Biological Sciences, China Agricultural University, Beijing, 100193, China.",
            "firstname": "Xinyu",
            "initials": "X",
            "lastname": "Cai"
        },
        {
            "affiliation": "State Key Laboratory of Animal Biotech Breeding, College of Biological Sciences, China Agricultural University, Beijing, 100193, China.",
            "firstname": "Lizhi",
            "initials": "L",
            "lastname": "Tan"
        },
        {
            "affiliation": "State Key Laboratory of Animal Biotech Breeding, College of Biological Sciences, China Agricultural University, Beijing, 100193, China.",
            "firstname": "Zexuan",
            "initials": "Z",
            "lastname": "Liu"
        },
        {
            "affiliation": "State Key Laboratory of Animal Nutrition, Institute of Animal Sciences of Chinese Academy of Agricultural Sciences, Beijing, 100193, China.",
            "firstname": "Qiao",
            "initials": "Q",
            "lastname": "Wang"
        },
        {
            "affiliation": "State Key Laboratory of Animal Nutrition, Institute of Animal Sciences of Chinese Academy of Agricultural Sciences, Beijing, 100193, China.",
            "firstname": "Qinghe",
            "initials": "Q",
            "lastname": "Li"
        },
        {
            "affiliation": "National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, Beijing, 100193, China.",
            "firstname": "Ning",
            "initials": "N",
            "lastname": "Yang"
        },
        {
            "affiliation": "National Engineering Laboratory for Animal Breeding, College of Animal Science and Technology, China Agricultural University, Beijing, 100193, China. yuzhanwang@cau.edu.cn.\nNational Research Facility for Phenotypic and Genotypic Analysis of Model Animals (Beijing), China Agricultural University, Beijing, 100193, China. yuzhanwang@cau.edu.cn.",
            "firstname": "Yuzhan",
            "initials": "Y",
            "lastname": "Wang"
        },
        {
            "affiliation": "State Key Laboratory of Animal Biotech Breeding, College of Biological Sciences, China Agricultural University, Beijing, 100193, China. yiqiangz@cau.edu.cn.\nNational Research Facility for Phenotypic and Genotypic Analysis of Model Animals (Beijing), China Agricultural University, Beijing, 100193, China. yiqiangz@cau.edu.cn.",
            "firstname": "Yiqiang",
            "initials": "Y",
            "lastname": "Zhao"
        }
    ],
    "conclusions": null,
    "copyrights": "\u00a9 2025. The Author(s).",
    "doi": "10.1186/s12864-025-11563-4",
    "journal": "BMC genomics",
    "keywords": [
        "Ancestry analysis",
        "Beijing-You chicken",
        "Conservation effectiveness",
        "Genetic traceability",
        "Selection signatures"
    ],
    "methods": null,
    "publication_date": "2025-04-25",
    "pubmed_id": "40275158\n22827351\n14970822\n23121696\n22837841\n30828377\n30205843\n38012268\n22061927\n35513520\n35137239\n30783571\n32581344\n33951611\n38701629\n36845483\n29016641\n35391799\n36541281\n27142387\n31034467\n28431039\n32312230\n35505888\n33424922\n32627575\n32703156\n35290380\n36830540\n33127969\n17701901\n36038559\n17194218\n29562307\n26130081\n30931475\n21653522\n22960212\n23535385\n23910464\n25706129\n28341652\n31975167\n24952747\n32642779\n30321304\n29335644\n28563791\n17943131\n25015648\n22728672\n22455463\n10961910\n16650944\n28489934\n35941697\n26496356\n28676534\n29026539\n12464017\n30818062\n38560995\n38909873\n33101376\n37229885\n24274750\n33510156\n34713212\n39152103\n39095706\n38810566\n39212228",
    "results": "Through comprehensive genomic similarity analysis, we identified 12 genetic donor breeds for the Beijing-You chicken and quantified their genetic contributions, with the highest ancestry proportion coming from Henan chickens. The local ancestry components and genomic structure analyses of the Beijing-You chicken suggest recent hybridization in the formation of this breed. Furthermore, we innovatively used ancestry components as new material for genetic evaluation and selection signature detection, demonstrating that conservation efforts over the past decade have been effective. Analysis of selection signatures revealed genes and regions associated with polydactyly, egg production, intramuscular fat, and spermatogenesis.",
    "title": "Genetic traceability, conservation effectiveness, and selection signatures analysis based on ancestral information: a case study of Beijing-You chicken.",
    "xml": "<Element 'PubmedArticle' at 0x788502f3b650>"
}