{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,22]],"date-time":"2026-09-22T05:11:46Z","timestamp":1790053906925,"version":"4.0.1"},"reference-count":58,"publisher":"Wiley","issue":"5","license":[{"start":{"date-parts":[[2026,9,21]],"date-time":"2026-09-21T00:00:00Z","timestamp":1789948800000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/onlinelibrary.wiley.com\/termsAndConditions#vor"},{"start":{"date-parts":[[2026,9,21]],"date-time":"2026-09-21T00:00:00Z","timestamp":1789948800000},"content-version":"tdm","delay-in-days":0,"URL":"http:\/\/doi.wiley.com\/10.1002\/tdm_license_1.1"}],"content-domain":{"domain":["onlinelibrary.wiley.com"],"crossmark-restriction":true},"short-container-title":["Animal Genetics"],"published-print":{"date-parts":[[2026,10]]},"abstract":"<jats:title>ABSTRACT<\/jats:title>\n                  <jats:p>\n                    Indonesia is widely recognized as a megadiversity country, harboring a rich diversity of indigenous pig species that play significant roles in the cultural and religious practices of local communities. However, the limited availability of genomic and demographic data of these indigenous pigs has greatly impeded our understanding of their evolutionary history and population structure. To date, the genetic characteristics of indigenous pigs from Maluku, Southeast Sulawesi (Sultra), and East Nusa Tenggara (NTT) remain unknown. Here, we aimed to investigate the genetic diversity, population structure, and signatures of positive selection in indigenous pig populations from Maluku, Sultra, and NTT regions using whole\u2010genome sequencing. This study performed whole\u2010genome sequencing on 42 Indonesian indigenous pigs via Illumina HiSeq 4000, integrating datasets of Chinese domestic pigs, European domestic pigs, and wild boars for comparative genomic analysis. The results indicate that these pigs cluster phylogenetically with Southern Chinese breeds but are distinct from Northern Chinese and European pigs. Maluku pigs display genetic homogeneity, which indicates their purebred status. In contrast, Sultra and NTT pigs carry European alleles, suggesting historical introgression. The genetic diversity is higher in Sultra and NTT pigs than in Maluku pigs. Selective sweep analysis revealed predominantly population\u2010specific selection signals, highlighting the divergent evolution shaped by geographic isolation. Novel candidate genes for economic traits were identified, including\n                    <jats:italic>FBXO36<\/jats:italic>\n                    in Maluku pigs,\n                    <jats:italic>DIAPH3<\/jats:italic>\n                    in NTT pigs, and\n                    <jats:italic>GTPBP4<\/jats:italic>\n                    in Sultra pigs. This study provides crucial insights for conservation strategies and breeding programs, emphasizing the need to preserve these unique genetic resources.\n                  <\/jats:p>","DOI":"10.1002\/age.70209","type":"journal-article","created":{"date-parts":[[2026,9,22]],"date-time":"2026-09-22T04:58:32Z","timestamp":1790053112000},"update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":0,"title":["Genetic Diversity and Selection Signatures of Three Indonesian Indigenous Pig Populations From Eastern Indonesia Using Whole Genome Sequencing Data"],"prefix":"10.1002","volume":"57","author":[{"ORCID":"https:\/\/orcid.org\/0000-0001-8413-2729","authenticated-orcid":false,"given":"Bayu Dewantoro Putro","family":"Soewandi","sequence":"first","affiliation":[{"name":"College of Animal Science and Technology Huazhong Agricultural University  Wuhan Hubei People's Republic of China"},{"name":"Research Center for Animal Husbandry National Research and Innovation Agency (BRIN)  Bogor West Java Indonesia"},{"name":"Bioinformatics Research Center, Institute of Bioinformatics Indonesia  Malang East Java Indonesia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jonathan A.","family":"Lase","sequence":"additional","affiliation":[{"name":"Research Center for Animal Husbandry National Research and Innovation Agency (BRIN)  Bogor West Java Indonesia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Marchie Astrid","family":"Da Costa","sequence":"additional","affiliation":[{"name":"Research Center for Animal Husbandry National Research and Innovation Agency (BRIN)  Bogor West Java Indonesia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tike","family":"Sartika","sequence":"additional","affiliation":[{"name":"Research Center for Animal Husbandry National Research and Innovation Agency (BRIN)  Bogor West Java Indonesia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-5281-7042","authenticated-orcid":false,"given":"Franciscus","family":"Rudi","sequence":"additional","affiliation":[{"name":"Research Center for Animal Husbandry National Research and Innovation Agency (BRIN)  Bogor West Java Indonesia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-7949-9777","authenticated-orcid":false,"given":"Ferdy","family":"Saputra","sequence":"additional","affiliation":[{"name":"Research Center for Animal Husbandry National Research and Innovation Agency (BRIN)  Bogor West Java Indonesia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nurul","family":"Pratiwi","sequence":"additional","affiliation":[{"name":"Research Center for Animal Husbandry National Research and Innovation Agency (BRIN)  Bogor West Java Indonesia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"family":"Latifah","sequence":"additional","affiliation":[{"name":"Research Center for Animal Husbandry National Research and Innovation Agency (BRIN)  Bogor West Java Indonesia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tatan","family":"Kostaman","sequence":"additional","affiliation":[{"name":"Research Center for Animal Husbandry National Research and Innovation Agency (BRIN)  Bogor West Java Indonesia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tuti","family":"Haryati","sequence":"additional","affiliation":[{"name":"Research Center for Animal Husbandry National Research and Innovation Agency (BRIN)  Bogor West Java Indonesia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5095-3852","authenticated-orcid":false,"given":"Bram","family":"Brahmantiyo","sequence":"additional","affiliation":[{"name":"Research Center for Animal Husbandry National Research and Innovation Agency (BRIN)  Bogor West Java Indonesia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0001-6158-6530","authenticated-orcid":false,"given":"Derek Johan","family":"Polakitan","sequence":"additional","affiliation":[{"name":"Research Center for Animal Husbandry National Research and Innovation Agency (BRIN)  Bogor West Java Indonesia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Darwin","family":"Taulabi","sequence":"additional","affiliation":[{"name":"Directorate of Scientific Collection Management National Research and Innovation Agency (BRIN)  Bogor West Java Indonesia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Maria Tarsisia","family":"Luju","sequence":"additional","affiliation":[{"name":"Animal Husbandry Study Program Universitas Katolik Indonesia Santu Paulus  Manggarai East Nusa Tenggara Indonesia"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-1579-2939","authenticated-orcid":false,"given":"Xialong","family":"Qi","sequence":"additional","affiliation":[{"name":"Yazhouwan National Laboratory  Sanya China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jinyu","family":"Chu","sequence":"additional","affiliation":[{"name":"College of Animal Science and Technology Huazhong Agricultural University  Wuhan Hubei People's Republic of China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jianlin","family":"Han","sequence":"additional","affiliation":[{"name":"Yazhouwan National Laboratory  Sanya China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9892-3887","authenticated-orcid":false,"given":"Yunlong","family":"Ma","sequence":"additional","affiliation":[{"name":"College of Animal Science and Technology Huazhong Agricultural University  Wuhan Hubei People's Republic of China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Shuhong","family":"Zhao","sequence":"additional","affiliation":[{"name":"College of Animal Science and Technology Huazhong Agricultural University  Wuhan Hubei People's Republic of China"},{"name":"Yazhouwan National Laboratory  Sanya China"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"311","published-online":{"date-parts":[[2026,9,21]]},"reference":[{"issue":"9","key":"e_1_2_11_2_1","doi-asserted-by":"crossref","first-page":"1655","DOI":"10.1101\/gr.094052.109","article-title":"Fast Model\u2010Based Estimation of Ancestry in Unrelated Individuals","volume":"19","author":"Alexander D. H.","year":"2009","journal-title":"Genome Research"},{"key":"e_1_2_11_3_1","unstructured":"Andrews S.2010.FastQC: A Quality Control Tool for High Throughput Sequence Data."},{"issue":"4","key":"e_1_2_11_4_1","doi-asserted-by":"crossref","first-page":"642","DOI":"10.4038\/tar.v26i4.8126","article-title":"Genetic Diversity and Relationship of Indonesian Indigenous Chickens Inferred From Microsatellite DNA Markers","volume":"26","author":"Ashari H.","year":"2015","journal-title":"Tropical Agricultural Research"},{"key":"e_1_2_11_5_1","unstructured":"Badan Pusat Statistik.2024.Peternakan Dalam Angka 2024."},{"issue":"15","key":"e_1_2_11_6_1","doi-asserted-by":"crossref","first-page":"2114","DOI":"10.1093\/bioinformatics\/btu170","article-title":"Trimmomatic: A Flexible Trimmer for Illumina Sequence Data","volume":"30","author":"Bolger A. M.","year":"2014","journal-title":"Bioinformatics"},{"key":"e_1_2_11_7_1","doi-asserted-by":"publisher","DOI":"10.1186\/1471\u20102156\u201015\u201085"},{"issue":"2","key":"e_1_2_11_8_1","doi-asserted-by":"crossref","first-page":"80","DOI":"10.4161\/fly.19695","article-title":"A Program for Annotating and Predicting the Effects of Single Nucleotide Polymorphisms, SnpEff: SNPs in the Genome of \n                     Drosophila melanogaster\n                   Strain w1118; Iso\u20102; Iso\u20103","volume":"6","author":"Cingolani P.","year":"2012","journal-title":"Fly"},{"issue":"15","key":"e_1_2_11_9_1","doi-asserted-by":"crossref","first-page":"2156","DOI":"10.1093\/bioinformatics\/btr330","article-title":"The Variant Call Format and VCFtools","volume":"27","author":"Danecek P.","year":"2011","journal-title":"Bioinformatics"},{"issue":"30","key":"e_1_2_11_10_1","first-page":"1","article-title":"Candidate Genes Related to Growth and Milk Production in Three Anatolian Goats Revealed by GWAS","volume":"37","author":"Demir E.","year":"2026","journal-title":"Mammalian Genome"},{"issue":"1","key":"e_1_2_11_11_1","doi-asserted-by":"crossref","first-page":"79","DOI":"10.1080\/10495398.2020.1772802","article-title":"A Molecular Marker of Milk Composition Traits in NCAM2 Gene of Chinese Holstein","volume":"33","author":"Ding X.","year":"2022","journal-title":"Animal Biotechnology"},{"issue":"1","key":"e_1_2_11_12_1","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1186\/s12711-024-00879-6","article-title":"Ancestral Alleles Defined for 70 Million Cattle Variants Using a Population\u2010Based Likelihood Ratio Test","volume":"56","author":"Dorji J.","year":"2024","journal-title":"Genetics, Selection, Evolution"},{"key":"e_1_2_11_13_1","article-title":"The 1000 Chinese Indigenous Pig Genomes Project Provides Insights Into the Genomic Architecture of Pigs","volume":"15","author":"Du H.","year":"2024","journal-title":"Nature Communications"},{"issue":"1","key":"e_1_2_11_14_1","doi-asserted-by":"crossref","DOI":"10.1186\/s12864-024-11119-y","article-title":"Deciphering Genetic Characteristics of South China and North China Indigenous Pigs Through Selection Signatures","volume":"25","author":"Gao Y.","year":"2024","journal-title":"BMC Genomics"},{"issue":"8","key":"e_1_2_11_15_1","doi-asserted-by":"crossref","first-page":"1176","DOI":"10.1093\/bioinformatics\/bts115","article-title":"Rehh\u2009: An R Package to Detect Footprints of Selection in Genome\u2010Wide SNP Data From Haplotype Structure","volume":"28","author":"Gautier M.","year":"2012","journal-title":"Bioinformatics"},{"issue":"5","key":"e_1_2_11_16_1","doi-asserted-by":"crossref","first-page":"898","DOI":"10.5713\/ab.24.0643","article-title":"Whole\u2010Genome Resequencing Reveals Genetic Differentiation and Selection Signatures Among Wild, Local and Commercial Duck Populations","volume":"38","author":"Huang Z.","year":"2025","journal-title":"Animal Bioscience"},{"issue":"8","key":"e_1_2_11_17_1","doi-asserted-by":"crossref","first-page":"1877","DOI":"10.1093\/molbev\/mst089","article-title":"Genetic Signatures Reveal High\u2010Altitude Adaptation in a Set of Ethiopian Populations","volume":"30","author":"Huerta\u2010S\u00e1nchez E.","year":"2013","journal-title":"Molecular Biology and Evolution"},{"issue":"12","key":"e_1_2_11_18_1","doi-asserted-by":"crossref","DOI":"10.3390\/vetsci11120627","article-title":"The Evolution and Role of Molecular Tools in Measuring Diversity and Genomic Selection in Livestock Populations (Traditional and up\u2010To\u2010Date Insights): A Comprehensive Exploration","volume":"11","author":"Husien H. M.","year":"2024","journal-title":"Veterinary Sciences"},{"key":"e_1_2_11_19_1","doi-asserted-by":"crossref","DOI":"10.3389\/fgene.2022.910998","article-title":"The Impact of Using Different Ancestral Reference Populations in Assessing Crossbred Population Admixture and Influence on Performance","volume":"13","author":"Jaafar M. A.","year":"2022","journal-title":"Frontiers in Genetics"},{"issue":"246","key":"e_1_2_11_20_1","doi-asserted-by":"crossref","DOI":"10.1186\/1471-2164-15-246","article-title":"Selection for Complex Traits Leaves Little or no Classic Signatures of Selection","volume":"15","author":"Kemper K. E.","year":"2014","journal-title":"BMC Genomics"},{"issue":"1","key":"e_1_2_11_21_1","first-page":"1","article-title":"The Genome Landscape of Indigenous African Cattle","volume":"18","author":"Kim J.","year":"2017","journal-title":"Genome Biology"},{"key":"e_1_2_11_22_1","unstructured":"Kolde R.2019.pheatmap: Pretty Heatmaps."},{"issue":"4","key":"e_1_2_11_23_1","doi-asserted-by":"crossref","first-page":"1359","DOI":"10.1111\/1755-0998.13326","article-title":"Pixy: Unbiased Estimation of Nucleotide Diversity and Divergence in the Presence of Missing Data","volume":"21","author":"Korunes K. L.","year":"2021","journal-title":"Molecular Ecology Resources"},{"issue":"1","key":"e_1_2_11_24_1","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1186\/s40575-020-00085-9","article-title":"Variation in Breeding Practices and Geographic Isolation Drive Subpopulation Differentiation, Contributing to the Loss of Genetic Diversity Within Dog Breed Lineages","volume":"7","author":"Lampi S.","year":"2020","journal-title":"Canine Medicine and Genetics"},{"issue":"12","key":"e_1_2_11_25_1","doi-asserted-by":"crossref","first-page":"4834","DOI":"10.1073\/pnas.0607753104","article-title":"Phylogeny and Ancient DNA of Sus Provides Insights Into Neolithic Expansion in Island Southeast Asia and Oceania","volume":"104","author":"Larson G.","year":"2007","journal-title":"Proceedings of the National Academy of Sciences of the United States of America"},{"issue":"1","key":"e_1_2_11_26_1","article-title":"Germplasm of Indonesia Local Pig: Potential, Threat of Extinction, and Conservation Strategy","volume":"1292","author":"Lase J. A.","year":"2024","journal-title":"IOP Conference Series: Earth and Environmental Science"},{"issue":"10","key":"e_1_2_11_27_1","doi-asserted-by":"crossref","first-page":"2798","DOI":"10.1093\/molbev\/msv150","article-title":"FastME 2.0: A Comprehensive, Accurate, and Fast Distance\u2010Based Phylogeny Inference Program","volume":"32","author":"Lefort V.","year":"2015","journal-title":"Molecular Biology and Evolution"},{"issue":"10","key":"e_1_2_11_28_1","doi-asserted-by":"crossref","first-page":"1508","DOI":"10.5713\/ab.23.0049","article-title":"Characterization Analysis of Rongchang Pig Population Based on the Zhongxin\u20101 Porcine Breeding Array PLUS","volume":"36","author":"Leng D.","year":"2023","journal-title":"Animal Bioscience"},{"issue":"1","key":"e_1_2_11_29_1","doi-asserted-by":"crossref","first-page":"W78","DOI":"10.1093\/nar\/gkae268","article-title":"Interactive Tree of Life (iTOL) v6: Recent Updates to the Phylogenetic Tree Display and Annotation Tool","volume":"52","author":"Letunic I.","year":"2024","journal-title":"Nucleic Acids Research"},{"key":"e_1_2_11_30_1","unstructured":"Li H.2013.\u201cAligning Sequence Reads Clone Sequences and Assembly Contigs With BWA\u2010MEM.\u201d(arXiv:1303.3997). arXiv.https:\/\/doi.org\/10.48550\/arXiv.1303.3997."},{"issue":"16","key":"e_1_2_11_31_1","doi-asserted-by":"crossref","first-page":"2078","DOI":"10.1093\/bioinformatics\/btp352","article-title":"The Sequence Alignment\/Map Format and SAMtools","volume":"25","author":"Li H.","year":"2009","journal-title":"Bioinformatics"},{"issue":"22","key":"e_1_2_11_32_1","doi-asserted-by":"crossref","DOI":"10.3390\/ani12223214","article-title":"Revealing Genetic Diversity and Population Structure of Endangered Altay White\u2010Headed Cattle Population Using 100 k SNP Markers","volume":"12","author":"Liu B.","year":"2022","journal-title":"Animals"},{"issue":"1","key":"e_1_2_11_33_1","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1038\/s41598-021-86154-w","article-title":"Detection of Selection Signatures in Farmed Coho Salmon (\n                     Oncorhynchus kisutch\n                  ) Using Dense Genome\u2010Wide Information","volume":"11","author":"L\u00f3pez M. E.","year":"2021","journal-title":"Scientific Reports"},{"issue":"1","key":"e_1_2_11_34_1","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1186\/s12711-021-00628-z","article-title":"Genetic Diversity in Global Chicken Breeds in Relation to Their Genetic Distances to Wild Populations","volume":"53","author":"Malomane D. K.","year":"2021","journal-title":"Genetics Selection Evolution"},{"key":"e_1_2_11_35_1","doi-asserted-by":"crossref","first-page":"1297","DOI":"10.1101\/gr.107524.110","article-title":"The Genome Analysis Toolkit: A MapReduce Framework for Analyzing Next\u2010Generation DNA Sequencing Data","volume":"20","author":"McKenna A.","year":"2010","journal-title":"Genome Research"},{"issue":"3","key":"e_1_2_11_36_1","doi-asserted-by":"crossref","first-page":"457","DOI":"10.55730\/1300-0128.4216","article-title":"Investigating Genetic Diversity of Indonesian Native Cattle Breeds Using mitochondrialDNA 16S rRNA Gene","volume":"46","author":"Misrianti R.","year":"2022","journal-title":"Turkish Journal of Veterinary and Animal Sciences"},{"issue":"2","key":"e_1_2_11_37_1","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0030619","article-title":"NGS QC Toolkit: A Toolkit for Quality Control of Next Generation Sequencing Data","volume":"7","author":"Patel R. K.","year":"2012","journal-title":"PLoS One"},{"issue":"3","key":"e_1_2_11_38_1","doi-asserted-by":"crossref","first-page":"559","DOI":"10.1086\/519795","article-title":"PLINK: A Tool Set for Whole\u2010Genome Association and Population\u2010Based Linkage Analyses","volume":"81","author":"Purcell S.","year":"2007","journal-title":"American Journal of Human Genetics"},{"key":"e_1_2_11_39_1","doi-asserted-by":"crossref","DOI":"10.1186\/1471-2164-12-318","article-title":"Application of Site and Haplotype\u2010Frequency Based Approaches for Detecting Selection Signatures in Cattle","volume":"12","author":"Qanbari S.","year":"2011","journal-title":"BMC Genomics"},{"issue":"11","key":"e_1_2_11_40_1","doi-asserted-by":"crossref","DOI":"10.1111\/cpr.70017","article-title":"Decoding the Molecular Landscape of Prepubertal Oocyte Maturation: GTPBP4 as a Key Driver of in Vitro Developmental Competence","volume":"58","author":"Qin J.","year":"2025","journal-title":"Cell Proliferation"},{"issue":"1","key":"e_1_2_11_41_1","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1038\/s41598-025-98346-9","article-title":"Uncovering Genomic Diversity and Signatures of Selection in Red Angus \u00d7 Chinese Red Steppe Crossbred Cattle Population","volume":"15","author":"Rostamzadeh Mahdabi E.","year":"2025","journal-title":"Scientific Reports"},{"key":"e_1_2_11_42_1","doi-asserted-by":"crossref","first-page":"1888","DOI":"10.1111\/2041-210X.13659","article-title":"Unbiased Population Heterozygosity Estimates From Genome\u2010Wide Sequence Data","volume":"12","author":"Schmidt T. L.","year":"2021","journal-title":"Methods in Ecology and Evolution"},{"key":"e_1_2_11_43_1","first-page":"175","volume-title":"Proceedings of the Recent Progress in Swine Breeding and Raising Technologies","author":"Siagian P. H.","year":"2014"},{"key":"e_1_2_11_44_1","doi-asserted-by":"crossref","first-page":"1","DOI":"10.3389\/fgene.2019.00928","article-title":"Whole Genome Mapping Reveals Novel Genes and Pathways Involved in Milk Production Under Heat Stress in US Holstein Cows","volume":"10","author":"Sigdel A.","year":"2019","journal-title":"Frontiers in Genetics"},{"key":"e_1_2_11_45_1","volume-title":"Ilmu Ternak Babi","author":"Sihombing D. T. H.","year":"1997"},{"issue":"1","key":"e_1_2_11_46_1","first-page":"39","article-title":"Pengembangan Ternak Babi Lokal di Indonesia","volume":"25","author":"Soewandi B. D. P.","year":"2015","journal-title":"Wartazoa"},{"issue":"6","key":"e_1_2_11_47_1","doi-asserted-by":"crossref","DOI":"10.1016\/j.ygeno.2025.111127","article-title":"F\u2010Box Only Protein (FBXO) Family Genes in Cattle (\n                     Bos taurus\n                  ): Genome\u2010Wide Identification and Functions in the Skeletal Muscle Development","volume":"117","author":"Song F.","year":"2025","journal-title":"Genomics"},{"issue":"3","key":"e_1_2_11_48_1","doi-asserted-by":"crossref","first-page":"169","DOI":"10.14710\/jitaa.48.3.169-181","article-title":"Haplotype and Phylogenetic Diversity Using Mitochondrial 12S rRNA Gene Marker in Bali Cattle","volume":"48","author":"Suselowati T.","year":"2023","journal-title":"Journal of the Indonesian Tropical Animal Agriculture"},{"issue":"4","key":"e_1_2_11_49_1","doi-asserted-by":"crossref","DOI":"10.3390\/genes12040480","article-title":"Genome\u2010Wide Analyses Reveal Genetic Convergence of Prolificacy Between Goats and Sheep","volume":"12","author":"Tao L.","year":"2021","journal-title":"Genes"},{"key":"e_1_2_11_50_1","volume-title":"Python Reference Manual","author":"Van Rossum G.","year":"1995"},{"issue":"3","key":"e_1_2_11_51_1","doi-asserted-by":"crossref","first-page":"446","DOI":"10.1371\/journal.pbio.0040072","article-title":"A Map of Recent Positive Selection in the Human Genome","volume":"4","author":"Voight B. F.","year":"2006","journal-title":"PLoS Biology"},{"key":"e_1_2_11_52_1","unstructured":"Walugembe M. F.Bertolini C. M. B.Dematawewa et\u00a0al.2018.Genomic analysis of chicken ecotypes from Brazil Sri Lanka and Egypt\u2009: impact of different environmental conditionsProceedings of the World Congress on Genetics Applied to Livestock Production."},{"issue":"3","key":"e_1_2_11_53_1","doi-asserted-by":"crossref","first-page":"518","DOI":"10.1111\/jeb.12315","article-title":"Marker\u2010Based Estimates of Relatedness and Inbreeding Coefficients: An Assessment of Current Methods","volume":"27","author":"Wang J.","year":"2014","journal-title":"Journal of Evolutionary Biology"},{"key":"e_1_2_11_54_1","first-page":"1","article-title":"VCF2Dis: An Ultra\u2010Fast and Efficient Tool to Calculate Pairwise Genetic Distance and Construct Population Phylogeny From VCF Files","volume":"14","author":"Xu L.","year":"2025","journal-title":"GigaScience"},{"issue":"1","key":"e_1_2_11_55_1","doi-asserted-by":"crossref","first-page":"76","DOI":"10.1016\/j.ajhg.2010.11.011","article-title":"GCTA: A Tool for Genome\u2010Wide Complex Trait Analysis","volume":"88","author":"Yang J.","year":"2011","journal-title":"American Journal of Human Genetics"},{"key":"e_1_2_11_56_1","doi-asserted-by":"crossref","first-page":"1","DOI":"10.3389\/fgene.2022.910521","article-title":"Genetic Diversity and Population Structure of Tongcheng Pigs in China Using Whole\u2010Genome SNP Chip","volume":"13","author":"Yuan J.","year":"2022","journal-title":"Frontiers in Genetics"},{"issue":"11","key":"e_1_2_11_57_1","doi-asserted-by":"crossref","first-page":"499","DOI":"10.17221\/4254-CJAS","article-title":"Implications for the Use of Horse Hair Roots as a DNA Source for Microsatellite Typing","volume":"50","author":"Z\u0105bek T.","year":"2005","journal-title":"Czech Journal of Animal Science"},{"issue":"10","key":"e_1_2_11_58_1","doi-asserted-by":"crossref","first-page":"1","DOI":"10.3390\/biology14101424","article-title":"Microsatellite Markers Developed Based on Transcriptomic Data Reveal the Genetic Diversity and Population Genetic Structure of Angulyagra Polyzonata in Guangxi, China","volume":"14","author":"Zhang S.","year":"2025","journal-title":"Biology"},{"issue":"24","key":"e_1_2_11_59_1","doi-asserted-by":"crossref","first-page":"3326","DOI":"10.1093\/bioinformatics\/bts606","article-title":"A High\u2010Performance Computing Toolset for Relatedness and Principal Component Analysis of SNP Data","volume":"28","author":"Zheng X.","year":"2012","journal-title":"Bioinformatics"}],"container-title":["Animal Genetics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/onlinelibrary.wiley.com\/doi\/pdf\/10.1002\/age.70209","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/onlinelibrary.wiley.com\/doi\/full-xml\/10.1002\/age.70209","content-type":"application\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/onlinelibrary.wiley.com\/doi\/pdf\/10.1002\/age.70209","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,9,22]],"date-time":"2026-09-22T04:58:45Z","timestamp":1790053125000},"score":1,"resource":{"primary":{"URL":"https:\/\/onlinelibrary.wiley.com\/doi\/10.1002\/age.70209"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,9,21]]},"references-count":58,"journal-issue":{"issue":"5","published-print":{"date-parts":[[2026,10]]}},"alternative-id":["10.1002\/age.70209"],"URL":"https:\/\/doi.org\/10.1002\/age.70209","archive":["Portico"],"relation":{},"ISSN":["0268-9146","1365-2052"],"issn-type":[{"value":"0268-9146","type":"print"},{"value":"1365-2052","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,9,21]]},"assertion":[{"value":"2026-05-30","order":0,"name":"received","label":"Received","group":{"name":"publication_history","label":"Publication History"}},{"value":"2026-09-08","order":2,"name":"accepted","label":"Accepted","group":{"name":"publication_history","label":"Publication History"}},{"value":"2026-09-21","order":3,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}],"article-number":"e70209"}}