Animal genetics最新文献

{"title":"Genomic Variants Associated With Oocyte and Embryo Production in Dairy Gir Cattle","authors":"Renata de Fatima Bretanha Rocha,&nbsp;Haniel Cedraz de Oliveira,&nbsp;Marta Fonseca Martins,&nbsp;Marco Antônio Machado,&nbsp;João Claudio do Carmo Panetto,&nbsp;Marcos Vinícius Barbosa da Silva,&nbsp;Simone Eliza Facioni Guimarães","doi":"10.1002/age.70098","DOIUrl":"10.1002/age.70098","url":null,"abstract":"<p>The use of in vitro fertilization protocols associated with genomic selection increases genetic gain in dairy cattle. The aims of this study were to uncover genetic variants in a specific interval on BTA7 and to investigate their effects on the number of oocytes and embryos in dairy Gir. Previous research uncovered a region on chromosome 7 (BTA7) associated with oocyte and embryo production. In the current study, genomic variants were investigated in this region for 12 sires with positive Predicted Transmission Ability for milk production, which are widely used in dairy herds to produce daughters for oocyte and embryo production. Several variants were identified and four variants were classified as lead SNPs. ANOVA was carried out for the daughters' genomic estimated breeding value (GEBV) and phenotypes according to the genotype of the bulls. Two lead SNPs were single-nucleotide substitutions and both resulted in premature stop codons in <i>XRCC4</i> and <i>HAPLN1</i> genes. A deletion of five thymines in an intergenic region occurred in the third lead SNP. The fourth lead SNP involves the deletion of one nucleotide in the <i>EDIL3</i> gene, causing a frameshift. All genotype groups were significantly different for GEBV and some for phenotype. In conclusion, the mutant alleles of each lead SNP were associated with the production of oocytes and embryos in the dairy Gir, leading to a decrease (rs518509552, rs438544900), an increase (rs450555472) when homozygous or a decrease (rs470818992) when heterozygous. Research is underway to investigate the association of such variants with dairy production and environmental resilience traits.</p>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":"57 2","pages":""},"PeriodicalIF":2.1,"publicationDate":"2026-04-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/age.70098","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147686096","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The ASIP Cys-98 Allele Is Not Associated With Black Coat Color in Water Buffaloes","authors":"Júlia Villane Santos de Moraes,&nbsp;Silel Vinicius Simões Andrade Maciel,&nbsp;Ingrid Pereira Pinto Oliveira,&nbsp;Beatriz Bastos Senes,&nbsp;Jackeline Santos Alves,&nbsp;Raphael Bermal Costa,&nbsp;Gregório Miguel Ferreira de Camargo","doi":"10.1002/age.70100","DOIUrl":"10.1002/age.70100","url":null,"abstract":"&lt;p&gt;Polymorphisms in the &lt;i&gt;ASIP&lt;/i&gt; gene are known to cause variations in coat color in domestic ruminants (Liang et al. &lt;span&gt;2020&lt;/span&gt;; Kumari et al. &lt;span&gt;2023&lt;/span&gt;; Trigo et al. &lt;span&gt;2021&lt;/span&gt;; Dimov et al. &lt;span&gt;2025&lt;/span&gt;; Guo et al. &lt;span&gt;2022&lt;/span&gt;; Fontanesi et al. &lt;span&gt;2010&lt;/span&gt;), as well as in various other livestock and wild species. In cattle, it has been reported that these polymorphisms lead to a darkening of the coat color (Trigo et al. &lt;span&gt;2021&lt;/span&gt;); in buffaloes, a transposition results in a white phenotype (Liang et al. &lt;span&gt;2020&lt;/span&gt;), while a non-synonymous SNP in exon 3 (XM_025263623.3:c.292C&gt;T) may be associated with black coat color (Kumari et al. &lt;span&gt;2023&lt;/span&gt;). Although the interactions between &lt;i&gt;MC1R&lt;/i&gt; and &lt;i&gt;ASIP&lt;/i&gt; have been extensively studied across species, it is noteworthy that the &lt;i&gt;MC1R&lt;/i&gt; gene exhibits no polymorphism among buffaloes with different coat colors (Cruz et al. &lt;span&gt;2020&lt;/span&gt;). This absence of polymorphism suggests a lack of epistasis with &lt;i&gt;ASIP&lt;/i&gt;, indicating a distinct genetic architecture in this species. Therefore, the aim of the present study was to perform fine mapping of exon 3 of the &lt;i&gt;ASIP&lt;/i&gt; gene, which has previously been suggested as a candidate influencing black coat color in buffaloes, in order to assess its association with coat color variation in the Murrah breed.&lt;/p&gt;&lt;p&gt;A total of 57 Murrah buffaloes were used in this study, including four coat colors: brown (&lt;i&gt;n&lt;/i&gt; = 28), black (&lt;i&gt;n&lt;/i&gt; = 24), white (&lt;i&gt;n&lt;/i&gt; = 3), and smoke (&lt;i&gt;n&lt;/i&gt; = 2) (Figure 1). Among these, 10 dam–offspring pairs were sequenced, one sharing the same color (brown × brown) and nine of different colors, in addition to thirty-seven unrelated individuals. DNA was extracted from hair follicles. The Ethics Committee on Animal Use of EMVZ-UFBA approved the project (81/2018). Animals were genotyped using PCR–sequencing, with the primer pair previously described (Kumari et al. &lt;span&gt;2023&lt;/span&gt;). Furthermore, Fisher's exact test was performed in R software to evaluate whether there was an association between the detected SNPs and coat color.&lt;/p&gt;&lt;p&gt;Sequence analysis of the third coding exon of the &lt;i&gt;ASIP&lt;/i&gt; gene detected a non-synonymous SNP at position XM_025263623.3:c.292C&gt;T (XP_025119408.3:p.Arg98Cys) and a synonymous SNP at XM_025263623.3:c.300C&gt;T (XP_025119408.3:p.Ser100). The sequences were deposited in GenBank (accession number: PX549776). Genotypic and allelic frequencies by coat color are presented in Table 1.&lt;/p&gt;&lt;p&gt;The distribution of genotypic frequencies of the detected SNPs among coat color classes and the absence of association (&lt;i&gt;p&lt;/i&gt; = 0.54) indicate no evidence of influence of these SNPs on coat color determination. Kumari et al. (&lt;span&gt;2023&lt;/span&gt;), Fontanesi et al. (&lt;span&gt;2010&lt;/span&gt;) suggested that the high frequency of the TT genotype at c.292 in the Nili-Ravi and Murrah breeds—both characterized by an intense black coat—could indicate a potentia","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":"57 2","pages":""},"PeriodicalIF":2.1,"publicationDate":"2026-04-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13069159/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147653608","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Impact of Body Weight on the Intestinal Microbiome of Cage-Cultured Oyster Pompano (Trachinotus anak)","authors":"Sang Van Vu,&nbsp;Shantanu Kundu,&nbsp;Kim Hyun Woo,&nbsp;Toungporn Uttarotai,&nbsp;Hien Van Doan","doi":"10.1002/age.70092","DOIUrl":"10.1002/age.70092","url":null,"abstract":"<div>\u0000 \u0000 <p>Oyster pompano (<i>Trachinotus anak</i>) is a commercially valuable marine species widely farmed in Southeast Asia, yet growth heterogeneity remains a persistent challenge in cage aquaculture. To investigate whether body weight influences the intestinal microbiota of this species, we compared the gut microbial communities of small and large <i>T. anak</i> using high-throughput 16S rRNA gene sequencing. The intestinal microbiota was dominated by <i>Pseudomonadota</i> (<i>Proteobacteria</i>) and <i>Mycoplasmatota</i>, together accounting for nearly 80% of total sequences, with additional contributions from minor phyla such as <i>Spirochaetota</i>, <i>Thermodesulfo bacteriota</i>, and <i>Bacteroidota</i>. While alpha- and beta-diversity analyses revealed no significant differences between groups, community composition and structure varied. Smaller fish harbored a more heterogeneous assemblage at the class level and a broader suite of core taxa, including <i>Acinetobacter</i>, <i>Aeromonas</i>, <i>Bdellovibrio</i>, and <i>Comamonas</i>. In contrast, larger fish were dominated by fewer classes, with <i>Photobacterium</i> and <i>Brevinema</i> emerging as distinctive core members. LEfSe analysis identified discriminant taxa between groups, although these trends were not statistically significant after multiple-testing correction. Network analysis highlighted striking differences in microbial interactions: smaller fish exhibited highly modular, densely connected networks with potential keystone taxa such as <i>Paracidovorax</i> and <i>Ensifer</i>, whereas larger fish displayed simpler, less structured networks indicative of reduced ecological stability. Together, these findings demonstrate that body weight is associated with subtle but ecologically meaningful shifts in microbiota composition, core membership, and interaction networks in cage-cultured <i>T. anak</i>. This work underscores the potential of microbiome-informed management strategies to mitigate growth variability and enhance the sustainability of marine aquaculture.</p>\u0000 </div>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":"57 2","pages":""},"PeriodicalIF":2.1,"publicationDate":"2026-04-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147621361","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Mining Key Genes Associated With Mature Body Size and Weight Traits in Huameng Meat Sheep Based on GWAS and ROH Islands Identification","authors":"Y. F. Wang,&nbsp;Y. M. Gong,&nbsp;H. S. Chen,&nbsp;Y. F. Wang,&nbsp;Q. J. Chen,&nbsp;K. Chen,&nbsp;Y. Z. Song,&nbsp;Z. Meng,&nbsp;G. Q. Zhang,&nbsp;H. Li,&nbsp;M. X. Chu,&nbsp;R. Di","doi":"10.1002/age.70085","DOIUrl":"10.1002/age.70085","url":null,"abstract":"<div>\u0000 \u0000 <p>Mature body size and weight of sheep are important traits that significantly influence mutton yield and economic benefits of sheep farming. The exploration for key genes underlying these traits will facilitate the advancement of molecular breeding in meat sheep. In this study, key candidate genes for five body size traits and the body weight were identified in mature Huameng meat sheep through GWAS and ROH analysis. After quality control, 451 individuals and 16 751 761 variants were analyzed using EMMAX software in a linear mixed model (LMM). A total of 3 genome-wide and 35 chromosome-wide significant SNPs were identified, respectively. Several key candidate genes have been uncovered, including <i>ZFAT</i>, <i>ACSL3</i>, and <i>GRID2</i> for cannon bone circumference; <i>UNC5C</i> and <i>BMPR1B</i> for body weight and chest girth; <i>PCDH15</i> and <i>NUP93</i> for hip width; and <i>PTPRD</i> for body height. ROH analysis revealed a high-frequency ROH hotspot region on chrX. In addition, ROH analysis suggested that inbreeding may lead to a significant depression in body height of sheep. This study provides important clues for revealing the molecular mechanisms underlying sheep body morphological traits and identifies key candidate genes for molecular breeding in meat sheep.</p>\u0000 </div>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":"57 2","pages":""},"PeriodicalIF":2.1,"publicationDate":"2026-04-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147589453","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Genome-Wide Association Study Identifies Novel Loci Influencing Growth Traits in Pigs.","authors":"Li-Shi Xie, Shu-Run Zhang, Chang-Gai Mu, Ming Yuan, Man Wang, Xuan-Yu Gao, Xian Shi, Yun Gao, Jia-Kun Deng, Ting-Ting Yin, Ru-Nian Wu, Li-Gang Wang, Jian-Bo Li, Ya-Ping Zhang","doi":"10.1002/age.70097","DOIUrl":"10.1002/age.70097","url":null,"abstract":"<p><p>Growth traits in pigs are governed by complex polygenic architectures, with most associated loci residing in non-coding regions that exert substantial influence on economically relevant phenotypes. However, the molecular mechanisms underlying these regulatory elements remain poorly characterized. In this study, a non-coding mutation-designated as NR2C2 recognition motif sequence variation (NRMSV), located 2083 bp upstream of the HMGA1 gene-was identified as a functional modulator of growth traits in a three-generation Eurasian hybrid pig population. NR2C2 is a nuclear receptor implicated in skeletal development and metabolic regulation, while HMGA1 is a key determinant of body size across mammalian species. In embryonic fibroblasts, where NR2C2 is abundantly expressed, the mutant NRMSV suppressed transcriptional activity, functioning as a silencer. In contrast, in bone marrow mesenchymal stem cells, characterized by low NR2C2 expression, the same allele acted as a robust transcriptional enhancer. Knockdown of NR2C2 in embryonic fibroblasts abrogated this repression and restored enhancer activity, confirming the context-dependent, bidirectional regulatory effect of NRMSV on HMGA1 expression. These findings establish the NR2C2-NRMSV-HMGA1 pathway as a novel regulatory mechanism underpinning phenotypic variation in pig growth traits, offering mechanistic insights into mammalian developmental regulation and informing targeted genomic selection for improved productivity in porcine breeding programs.</p>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":"57 2","pages":"e70097"},"PeriodicalIF":2.1,"publicationDate":"2026-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147643597","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Regulation of Horn Development in Hu Sheep Involves RXFP2 Expression and Hormonal Signaling Independent of the 1.78-kb Insertion Genotype.","authors":"Haitao Wang, Tingting Li, Jieran Chen, Limin Wang, Xia Li, Yuting Zhang, Na Zhang, Zhichao Zhang, Runlin Ma, Daxiang Wang, Xun Huang, Qiuyue Liu","doi":"10.1002/age.70106","DOIUrl":"https://doi.org/10.1002/age.70106","url":null,"abstract":"<p><p>The RXFP2 gene is a key regulator of horn morphology in sheep (Ovis aries Linnaeus), with a 1.78-kb insertion in its 3'-untranslated region (UTR) previously linked to the polled phenotype. However, horned individuals homozygous for this insertion (1.78 kb⁺/⁺) have been observed in typically polled breeds such as Hu sheep, suggesting additional regulatory mechanisms. In this study, a significant horn-associated quantitative trait locus (QTL) on chromosome 10 was identified through genome-wide association analysis which was consistent with a previous study. We found that the 1.78-kb insertion in the 3'-UTR of RXFP2 is associated with horn status across sheep breeds, and that elevated RXFP2 expression correlates with horn development even in 1.78 kb⁺/⁺ individuals, as revealed by expression analyses in multiple breeds. RNA-seq and hormonal profiling further demonstrated that the INSL3/RXFP2 signaling axis, particularly its interactions with hormones such as testosterone, plays a central role in horn morphogenesis. These results indicate that horn development is modulated not only by structural variations in RXFP2, but also through its transcriptional and hormonal regulation, providing new insights into the polygenic basis of horn formation and informing breeding strategies for polled sheep.</p>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":"57 2","pages":"e70106"},"PeriodicalIF":2.1,"publicationDate":"2026-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147721570","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Genotype-By-Environment Interaction for Scrotal Circumference in Young Nellore Bulls Under Pasture and Feedlot Conditions and Its Correlation With Days to Calving.","authors":"Christiane A Silva, Annaiza B Bignardi, Joslaine N S G Cyrillo, Maria E Z Mercadante, Mário L Santana","doi":"10.1002/age.70105","DOIUrl":"10.1002/age.70105","url":null,"abstract":"<p><p>Scrotal circumference (SC) is a key reproductive indicator in beef cattle and an important predictor of male puberty and correlated female fertility. In this study, we evaluated young Nellore bulls raised under combinations of pasture and feedlot environments and modeled SC using a \"double\" reaction norm model. Additive genetic variance for SC increased from approximately 1.3 cm² under the poorest environmental combinations to about 3.5 cm² under the most favorable conditions, while heritability rose from roughly 0.30-0.33 to 0.60-0.63 across the same gradient. The genetic (co)variance structure indicated that most genetic variation was associated with the intercept, whereas pasture- and feedlot-specific slopes represented smaller yet relevant components of environmental sensitivity. Positive correlations between the intercept and both slopes (0.21 for pasture and 0.50 for feedlot) showed that bulls with higher baseline SC tended to express stronger responses across environments, particularly under feedlot conditions. Conversely, the negative correlation between pasture and feedlot slopes (-0.64) revealed an antagonistic pattern or a trade-off between sensitivities to these two axes. Genetic correlations for SC across environments were predominantly high and positive (≥ 0.80), declining only under the most divergent combinations. Correlations between SC and days to calving were consistently negative, ranging from -0.051 to -0.112 for approximated estimates and from -0.127 to -0.192 for partial estimates. Overall, the \"double\" reaction norm approach proved effective for dissecting genotype-by-environment interactions and guiding selection strategies aimed at improving reproductive efficiency in tropical beef cattle.</p>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":"57 2","pages":"e70105"},"PeriodicalIF":2.1,"publicationDate":"2026-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13086520/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147697121","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Haematopoietic Traits in Indigenous and Modern Pig Breeds Are Modulated by Housing System and Developmental Stage.","authors":"Kanishka Kapoor, Michael Oster, Henry Reyer, Cornelia C Metges, Eduard Muráni, Siriluck Ponsuksili, Klaus Wimmers","doi":"10.1002/age.70103","DOIUrl":"10.1002/age.70103","url":null,"abstract":"<p><p>Haematological parameters are important indicators of health, physiological status and resilience. In pigs, these parameters are influenced by both exogenous factors, such as feeding, housing and weaning age and intrinsic factors, including physiological maturity and genetic background. In this study, complete blood counts from 512 German Landrace (GL) and German Saddleback (GS) piglets kept in conventional (CON) and organic (ORG) housing systems were analysed throughout four developmental stages until day 70 of life. The GS consistently showed significantly higher counts of red and white blood cells, alongside higher counts of leukocyte subsets such as lymphocytes and monocytes, indicating a potentially efficient immune profile compared to GL. In contrast, GL exhibited larger erythrocytes with higher haemoglobin content as reflected via higher MCV and MCH levels, potentially endowing GL pigs to cope with the high metabolic demands for growth and performance. Housing effects were observed at day 70, where pigs kept in ORG showed reduced HCT and MCV, but higher MCHC levels, which might be attributed to feed components in ORG husbandry, potentially reflecting dietary limitations in methionine. Notably, platelet counts were higher in GL compared to GS piglets under ORG conditions, implying a breed-dependent haematopoietic response. In summary, these findings indicate a trade-off between erythrocyte quantity and haemoglobin-loading capacity, with potential implications for breed-specific myoglobin characteristics. The leukocytes profile further suggests breed-related differences in immune resilience which need to be validated by functional analyses to inform housing and management strategies for weaning in both modern and indigenous pig breeds.</p>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":"57 2","pages":"e70103"},"PeriodicalIF":2.1,"publicationDate":"2026-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13087205/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147697133","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Haplotype-Resolved Genome Assemblies for Norwegian Red Cattle.","authors":"Thea Johanna Hettasch, Matthew Peter Kent, Arne Bjørke Gjuvsland, Mariann Árnyasi, Dag Inge Våge","doi":"10.1002/age.70087","DOIUrl":"10.1002/age.70087","url":null,"abstract":"<p><p>Norwegian Red (NR) cattle are the main dairy breed in Norway, bred according to a broad breeding goal including health and fertility since the 1970s. Genomic studies on NR cattle have relied on the public Hereford reference, thus increasing the risk of missing or misrepresenting NR breed-specific variation. Moreover, the Hereford reference is a pseudohaploid assembly, representing homologous chromosomes in a collapsed manner, which results in loss of haplotype-specific alleles and misrepresentation of complex variants. To develop more refined NR-specific resources, we utilised long-read sequencing (PacBio HiFi + ONT) and trio-binning to construct six new haplotype-resolved assemblies representing NR genomes. These six NR2025 assemblies show high completeness (BUSCO: 95.82%-98.11%) and contiguity (N₅₀: 73.8-88.5 Mb) and are accurately phased (hamming error rate: 0.46%-2.52%). Most autosomes have been assembled into the acrocentric centromere, and mapping of bovine satellite sequences reveals distinct organisational patterns of different satellite units across this highly repetitive region. The NR2025 assemblies provide a valuable resource for identification of novel variants and haplotypes in the NR population, which will enable more accurate association studies of genotype-to-phenotype relations and genomic predictions in NR cattle, ultimately enhancing the efficacy of selection for desirable traits.</p>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":"57 2","pages":"e70087"},"PeriodicalIF":2.1,"publicationDate":"2026-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13071349/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147669215","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Transmission Ratio Distortion Detection Using Microsatellite and Single Nucleotide Polymorphism Markers in Hanwoo of Gyeongnam Province.","authors":"Ji-Yeong Kim, Ho-Chan Kang, Cheol-Hyun Myung, Hyun-Tae Lim","doi":"10.1002/age.70099","DOIUrl":"10.1002/age.70099","url":null,"abstract":"<p><p>This study aimed to identify and compare transmission ratio distortion (TRD) patterns using microsatellite (MS) markers and single nucleotide polymorphism (SNP) markers in a Hanwoo population from Gyeongnam Province. The objective was to construct parent-offspring trios and investigate TRD patterns that may influence mortality and economic traits. MS marker data were obtained from 98,244 individuals, while SNP genotype data were collected from 392 individuals. TRD detection was performed using Bayesian statistical methods, with a threshold of log₁₀(BF) ≥ 2 (BF ≥ 100) to indicate strong evidence. Using MS markers, allelic TRD was detected at ETH225, ETH3, TGLA227, and TGLA53, whereas genotypic TRD was observed across all 11 markers. Using SNP markers, five TRD regions met the strong-evidence threshold. Functional enrichment analysis was performed on positional candidate genes, but no Gene Ontology terms remained significant after false discovery rate correction (≤ 0.05), likely due to limited statistical power from the small candidate gene set. TRD patterns observed with MS markers were not consistently replicated in the SNP markers, highlighting differences in signal detection across platforms and underscoring the need for refined, integrated analyses. Overall, our results identify genomic regions warranting follow-up validation in larger datasets and functional assays, rather than supporting pathway-level conclusions.</p>","PeriodicalId":7905,"journal":{"name":"Animal genetics","volume":"57 2","pages":"e70099"},"PeriodicalIF":2.1,"publicationDate":"2026-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13082912/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147687912","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}