Abuzahra Mutasem, Wijayanti Dwi, Effendi Mustofa Helmi, Mustofa Imam, Munyaneza Jean Pierre, Moses Ikechukwu Benjamin
Doctoral Program in Veterinary Science, Faculty of Veterinary Medicine, Airlangga University, Surabaya, Indonesia.
Department of Animal Science, Perjuangan University of Tasikmalaya, West Java, Tasikmalaya 46115, Indonesia.
Vet Med Int. 2025 Apr 21;2025:7778088. doi: 10.1155/vmi/7778088. eCollection 2025.
Reproductive traits, particularly the litter size, are crucial for sheep husbandry. Molecular genetic selection methods, including single-nucleotide polymorphism (SNP) analyses, offer potential avenues for enhancing these traits. This study investigated the association between TGIF1 SNPs and litter size in thin-tailed Indonesian sheep. A total of 47 sheep were sampled, and their genomic DNA was analyzed. Bioinformatics, sequencing, and statistical analyses were conducted to identify SNPs, assess genetic parameters, and examine their association with litter size. Nine SNPs, including nonsynonymous variants, were successfully identified through targeted sequencing and Sanger sequencing within exon 3 of TGIF1. Noteworthy polymorphisms at g. 42725867 G>A, g. 42725886 G>A, g. 42725932 A>C, g. 42725950 A>G, g. 42726009 G>A, g.42726036 C>T, g.42726042 A>C, g. 42726051 A>G, and g. 42726059 G>A were revealed. Genetic parameter assessments indicated moderate diversity although no significant association was observed between the TGIF1 SNPs and litter size. This lack of association highlights the potential influence of environmental factors, polygenic effects, or the need for larger sample sizes in future studies. In addition, linkage disequilibrium analysis highlighted strong interconnectivity among six of the nine TGIF1 SNPs, designating them as potential Tag SNPs. Data analysis further demonstrated that the haplotype combination of H3 and Hap 6 within the identified blocks exhibited the highest litter size. This study unveils novel TGIF1 SNPs in thin-tailed Indonesian sheep, prompting the need for additional research to unravel their functional implications and potential impacts on reproductive traits. While no significant associations were found, these findings contribute to the growing body of knowledge on genetic factors influencing litter size and underscore the need for broader investigations, including whole-genome sequencing and validation in larger populations. This investigation provides valuable insights into the genetic factors that influence litter size in this breed and lays the foundation for future genetic improvement strategies.
繁殖性状，尤其是产仔数，对养羊业至关重要。分子遗传选择方法，包括单核苷酸多态性（SNP）分析，为改善这些性状提供了潜在途径。本研究调查了TGIF1基因单核苷酸多态性与印尼细尾绵羊产仔数之间的关联。共采集了47只绵羊的样本，并对其基因组DNA进行了分析。通过生物信息学、测序和统计分析来识别单核苷酸多态性、评估遗传参数并检验它们与产仔数的关联。通过靶向测序和桑格测序，在TGIF1基因第3外显子内成功鉴定出9个单核苷酸多态性，包括非同义变异。在g.42725867 G>A、g.42725886 G>A、g.42725932 A>C、g.42725950 A>G、g.42726009 G>A、g.42726036 C>T、g.42726042 A>C、g.42726051 A>G和g.42726059 G>A处发现了显著的多态性。遗传参数评估表明存在中等程度的多样性，尽管未观察到TGIF1基因单核苷酸多态性与产仔数之间存在显著关联。这种缺乏关联突出了环境因素、多基因效应或未来研究中需要更大样本量的潜在影响。此外，连锁不平衡分析突出了9个TGIF1基因单核苷酸多态性中的6个之间的强相互关联性，将它们指定为潜在的标签单核苷酸多态性。数据分析进一步表明，在已识别的区域内，H3和单倍型6的单倍型组合表现出最高的产仔数。本研究揭示了印尼细尾绵羊中新型的TGIF1基因单核苷酸多态性，促使需要进行更多研究以阐明其功能意义以及对繁殖性状的潜在影响。虽然未发现显著关联，但这些发现有助于增加对影响产仔数的遗传因素的了解，并强调需要进行更广泛的调查，包括全基因组测序和在更大群体中的验证。本研究为影响该品种产仔数的遗传因素提供了有价值的见解，并为未来的遗传改良策略奠定了基础。
