基本情報
- 所属
- 日本獣医生命科学大学 応用生命科学部 動物科学科 講師
- 学位
- 博士(農学)(2015年3月 筑波大学)
- 研究者番号
- 80879627
- ORCID ID
- https://orcid.org/0000-0002-7364-0194
- J-GLOBAL ID
- 202001019617098678
- researchmap会員ID
- R000002520
学歴
1-
2003年4月 - 2007年3月
論文
18-
BioRxiv 2024年8月7日 筆頭著者責任著者Summary When retroviruses infect germ cells and are transmitted to offspring, they become endogenous retroviruses (ERVs), whose insertions influence the expression of nearby genes. This study aimed to identify the genomic loci of ERVs in commercial broiler (Ross308), Tosa-Jidori, and Yakido chickens as well as to elucidate their impact on neighboring gene expression. Whole-genome data were obtained using next-generation sequencing, and candidate ERV loci were identified using the RetroSeq software. The Integrative Genomics Viewer tool was used to confirm target site duplications (TSDs) as evidence of ERV insertions. All reads within 200 bp of these TSDs were extracted to create contigs, confirming the presence of ERV sequences in the contigs using BLASTN. Gene expression levels were estimated by focusing on genes located near the 172 identified ERV loci. Among these, 119 loci were detected in broiler chickens, 80 in Tosa-Jidori chickens, and 86 in Yakido chickens, with 28 loci shared among them. Moreover, of these 172 loci, 75 were located within or near genes. Significant differences in gene expression were observed for N-acetylated alpha-linked acidic dipeptidase 2, glypican 6, and phospholipid scramblase family member 5 depending on the presence of ERV insertions. These results suggest that ERV insertions may influence the expression of certain genes, providing insights into the genetic diversity and evolutionary background of commercial and indigenous chickens. Understanding the effects of ERV insertions on gene expression can inform future genetic research and poultry breeding programs aimed at improving health and productivity. Author Summary Recently, endogenous retroviruses (ERVs) have gained significant attention as valuable markers for understanding genetic relationships and evolutionary processes among species. In this study, we investigated the loci and characteristics of ERVs in commercial and traditional Japanese chickens. ERVs are genetic remnants of ancient viral infections that can provide insights into avian evolution. We identified a total of 172 ERV loci in broiler, Tosa-Jidori, and Yakido chickens. Each chicken breed exhibited unique ERV insertion patterns. Notably, we found that ERV insertions near certain genes may influence gene expression. Our research enhances the understanding of how chickens have acquired traits, particularly through genetic mechanisms influenced by ERVs. These insights significantly contribute to our knowledge of biological evolution and the overall biodiversity of birds.
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Effects of Cyclic High Ambient Temperature on Muscle Imidazole Dipeptide Content in Broiler ChickensThe Journal of Poultry Science 61 n/a-n/a 2024年 査読有り
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The Journal of Poultry Science 60(2) 2023年7月 査読有り
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Scientific Reports 13(7380) 2023年5月6日 査読有り筆頭著者責任著者Abstract Endogenous retroviruses (ERVs) are genetic elements present in the genome that retain traces of past viral infections. Characterization of ERVs can provide crucial insights into avian evolution. This study aimed to identify novel long terminal repeat (LTR) loci derived from ERVs (ERV-LTRs) absent in the reference genome using whole-genome sequencing data of red junglefowl, gray junglefowl, Ceylon junglefowl, and green junglefowl. In total, 835 ERV-LTR loci were identified across the four Gallus species. The numbers of ERV-LTRs loci detected in red junglefowl and its subspecies gray junglefowl, Ceylon junglefowl, and green junglefowl were 362, 216, 193, and 128, respectively. The phylogenetic tree was congruent with previously reported trees, suggesting the potential for inferring relationships among past junglefowl populations from the identified ERV-LTR loci. Of the detected loci, 306 ERV-LTRs were identified near or within the genes, and some were associated with cell adhesion. The detected ERV-LTR sequences were classified as endogenous avian retrovirus family, avian leukosis virus subgroup E, Ovex-1, and murine leukemia virus-related ERVs. In addition, the sequence of the EAV family was divided into four patterns by combining the U3, R, and U5 regions. These findings contribute to a more comprehensive understanding of the characteristics of junglefowl ERVs.
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The Journal of Poultry Science 60(2) n/a-n/a 2023年 査読有り
MISC
9-
bioRxiv 2023年1月25日 筆頭著者責任著者Abstract Chickens harbor two primary families of endogenous retroviruses (ERVs): the avian leukosis virus (ALV) and endogenous avian retrovirus (EAV) families. Characterization of ERVs can provide crucial insights into avian evolution. This study aimed to identify novel ERV loci absent in the reference genome using whole-genome sequencing data of red junglefowl, gray junglefowl, Ceylon junglefowl, and green junglefowl. A total of 837 ERV loci were identified across the four Gallus species. The number of ERV loci detected in red junglefowl with its subspecies, gray junglefowl, Ceylon junglefowl, and green junglefowl, was 363, 217, 194, and 129 loci, respectively. The phylogenetic tree was congruent with previously reported trees, suggesting the potential for inferring relationships among past junglefowl populations from the identified ERV loci. Of the detected loci, 306 ERVs were identified near or within the genes, and some were associated with cell adhesion. The detected ERV sequences was in the long terminal repeat region and were classified as EAV-family, ALV-E, Ovex-1, and murine leukemia virus related ERVs. In addition, the sequence of the EAV family was divided into four patterns by combining the U3, R, and U5 regions. These findings contribute to a more comprehensive understanding of the characteristics of chicken ERVs.
所属学協会
2-
2018年8月 - 現在
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2016年12月 - 現在
共同研究・競争的資金等の研究課題
3-
日本学術振興会 科学研究費助成事業 若手研究 2022年4月 - 2025年3月
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伊藤記念財団 伊藤記念財団令和3年度研究助成 2021年 - 2022年3月
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日本学術振興会 科学研究費助成事業 2009年 - 2011年