Detection of bovine PNLIP DNA polymorphism and association study of the polymorphism with marbling trait

• Project/Area Number: 21580347
• Research Category: Grant-in-Aid for Scientific Research (C)
• Allocation Type: Single-year Grants
• Section: 一般
• Research Field: Applied animal science
• Research Institution: Niigata University
• Principal Investigator: YAMADA Takahisa 新潟大学, 自然科学系, 教授 (40253207)
• Project Period (FY): 2009 – 2011
• Project Status: Completed (Fiscal Year 2011)
• Budget Amount: ¥4,940,000 (Direct Cost: ¥3,800,000、Indirect Cost: ¥1,140,000); Fiscal Year 2011: ¥1,300,000 (Direct Cost: ¥1,000,000、Indirect Cost: ¥300,000); Fiscal Year 2010: ¥2,470,000 (Direct Cost: ¥1,900,000、Indirect Cost: ¥570,000); Fiscal Year 2009: ¥1,170,000 (Direct Cost: ¥900,000、Indirect Cost: ¥270,000)
• Keywords: 家畜ゲノム / 脂肪交雑 / 原因遺伝子 / PNLIP / DNA多型 / SNP / 相関解析 / 候補遺伝子 / 黒毛和種 / 侯補遺伝子 / EDG1 / RPL27A / プロモーター / レポーターアッセイ

Research Abstract

We showed that rs41648172、rs41648176 and rs41648178 SNPs have differences in allele frequency distribution between high-marbled and low-marbled cattle groups of Japanese Black breed, by performing detection of PNLIP polymorphism with direct-sequencing and establishment of genotyping method with PCR-RFLP. We further clarified that rs41648172 SNP is useful marker for marker-assisted selection to increase marbling level, using association study for individual SNP effect, analysis of comparison of allele frequency distribution between various cattle breeds, and association study for combined marker effect.

Research Products

• [Journal Article] Distribution of allele frequencies at TTN g. 231054C> T, RPL27A g. 3109537C> T and AKIRIN2 c. 188G> A between Japanese Black and four other cattle breeds with differing historical selection for marbling (2011)
  • Author(s): N. Watanabe, Y. Satoh, T. Fujita, T. Ohta, H. Kose, Y. Muramatsu, T. Yamamoto, T. Yamada
  • Journal Title: BMC Res. Notes Volume: 4 Pages: 10-10
  • NAID: 120006748892
  • Peer Reviewed
• [Journal Article] Quantitative trait gene responsible for intramuscular fat content in the rat (2011)
  • Author(s): H. Tanomura, T. Yamamoto, Y. Muramatsu, T. Ohta, T. Yamada
  • Journal Title: J. Anim. Vet. Adv. Volume: 10 Pages: 841-846
  • NAID: 120006748899
  • Peer Reviewed
• [Journal Article] Difference in PNLIP allele frequency distribution between high-marbled and low-marbled cattle (2011)
  • Author(s): H. Tanomura, Y. Muramatsu, T. Yamamoto, T. Ohta, H. Kose, T. Yamada
  • Journal Title: J. Anim. Vet. Adv. Volume: 10 Pages: 1714-1718
  • NAID: 120006748898
  • Peer Reviewed
• [Journal Article] The pancreatic lipase gene is associated with marbling in Japanese Black beef cattle (2011)
  • Author(s): H. Tanomura, T. Yamamoto, Y. Muramatsu, T. Ohta, H. Kose, T. Yamada
  • Journal Title: J. Anim. Vet. Adv. Volume: 10 Pages: 1719-1723
  • NAID: 120006748897
  • Peer Reviewed
• [Journal Article] Possible association of single nucleotide polymorphism in titin gene with growth-related trait in Japanese Black beef cattle (2011)
  • Author(s): T. Yamada, S. Sasaki, S. Sukegawa, Y. Takahagi, M. Morita, H. Murakami, F. Morimatsu, T. Fujita
  • Journal Title: J. Anim. Vet. Adv. Volume: 10 Pages: 2603-2606
  • NAID: 120006748896
  • Peer Reviewed
• [Journal Article] Distribution of allele frequencies at TTN g.231054C>T, RPL27A g.3109537C>T and AKIRJN2 c.*188G>A between Japanese Black and four other cattle breeds with differing historical selection for marbling (2011)
  • Author(s): Watanabe N, Satoh Y, Fujita T, Ohta T, Kose H, Muramatsu Y, Yamamoto T, Yamada T
  • Journal Title: BMC Research Notes Volume: 4 Issue: 1 Pages: 10-10
  • DOI: 10.1186/1756-0500-4-10
  • Peer Reviewed
• [Journal Article] Quantitative trait gene responsible for intramuscular fat content in the rat (2011)
  • Author(s): Tanomura H, Yamamoto T, Muramatsu Y, Ohta T, Yamada T
  • Journal Title: Journal of Animal and Veterinary Advances Volume: 10 Issue: 7 Pages: 841-846
  • DOI: 10.3923/javaa.2011.841.846
  • NAID: 120006748899
  • Peer Reviewed
• [Journal Article] Difference in PNLIP allele frequency distribution between high-marbled and low-marbled cattle (2011)
  • Author(s): Tanomura H, Muramatsu Y, Yamamoto T Ohta T, Kose H, Yamada T
  • Journal Title: Journal of Animal and Veterinary Advances Volume: 10 Issue: 13 Pages: 1714-1718
  • DOI: 10.3923/javaa.2011.1714.1718
  • NAID: 120006748898
  • Peer Reviewed
• [Journal Article] The pancreatic lipase gene is associated with marbling in Japanese Blackbeef cattle (2011)
  • Author(s): Tanomura H, Yamamoto T, Muramatsu Y, Ohta T, Kose H, Yamada T
  • Journal Title: Journal of Animal and Veterinary Advances Volume: 10 Issue: 13 Pages: 1719-1723
  • DOI: 10.3923/javaa.2011.1719.1723
  • NAID: 120006748897
  • Peer Reviewed
• [Journal Article] Possible association of single nucleotide polymorphism in titin gene with growth-related trait in Japanese Black beef cattle (2011)
  • Author(s): Yamada T, Sasaki S, Sukegawa S, Takahagi Y, Morita M, Murakami H, Morimatsu F, Fujita T
  • Journal Title: Journal of Animal and Veterinary Advances Volume: 10 Issue: 19 Pages: 2603-2606
  • DOI: 10.3923/javaa.2011.2603.2606
  • NAID: 120006748896
  • Peer Reviewed
• [Journal Article] Replicated association of the single nucleotide polymorphism in EDG1 with marbling in three general populations of Japanese Black beef cattle (2010)
  • Author(s): S. Sukegawa, T. Miyake, Y. Takahagi, H. Murakami, F. Morimatsu, T. Yamada, Y. Sasaki
  • Journal Title: BMC Res. Notes Volume: 3 Pages: 66-66
  • NAID: 120006748891
  • Peer Reviewed
• [Journal Article] The T allele at the g. 1471620G> T in the EDG1 gene associated with high marbling in Japanese Black cattle is at a low frequency in breeds not selected for marbling (2010)
  • Author(s): N. Watanabe, T. Yamada, S. Yoshioka, M. Itoh, Y. Satoh, M. Furuta, S. Komatsu, Y. Sumio, T. Fujita, Y. Sasaki
  • Journal Title: Anim. Sci. J. Volume: 81 Pages: 142-144
  • NAID: 10027888890
  • Peer Reviewed
• [Journal Article] Association study on marbling trait in Japanese Black beef cattle, based on extrapolation from rat study (2010)
  • Author(s): Y. Muramatsu, T. Yamada
  • Journal Title: Res. Adv. Anim. Sci. Volume: 1 Pages: 1-8
• [Journal Article] 佐賀県黒毛和種牛におけるAkirin2遺伝子の1塩基置換と枝肉形質との関連性 (2010)
  • Author(s): 林田瑠美子, 前田友香, 片渕直人, 大坪利豪, 山田宜永, 佐々木義之, 和田康彦
  • Journal Title: 日暖畜報 Volume: 53 Pages: 51-56
  • NAID: 130004555622
  • Peer Reviewed
• [Journal Article] The T allele at the g.1471620G>T in the EDGI gene associated with high marbling in Japanese Black cattle is at a low frequency in breeds not selected for marbling. (2010)
  • Author(s): Watanabe, et al.
  • Journal Title: Anim.Sci.J. Volume: 81 Pages: 142-144
  • Peer Reviewed
• [Journal Article] Characteristics of proliferation and differentiation-dependent C/EBP. PPARy and leptm gene expression patterns intrinsic to bovine mtramuscular, penrenal and subcutaneous preadipocytes. (2010)
  • Author(s): Yamamoto, et al.
  • Journal Title: J.Anim.Vet.Adv. Volume: 9 Pages: 1639-1645
  • Peer Reviewed
• [Journal Article] Replicated association of the single nucleotide polymorphism in EDG1 with marbling in three general populations of Japanese Black beef cattle. (2010)
  • Author(s): Sukegawa, et al.
  • Journal Title: BMC Res.Notes Volume: 3 Pages: 66-66
  • Peer Reviewed
• [Journal Article] Association of a single nucleotide polymorphism in ribosomal protein L27a gene with marbling in Japanese Black beef cattle (2009)
  • Author(s): T. Yamada, S. Sasaki, S. Sukegawa, T. Miyake, T. Fujita, H. Kose, M. Morita, Y. Takahagi, H. Murakami, F. Morimatsu, Y. Sasaki
  • Journal Title: Anim. Sci. J. Volume: 80 Pages: 631-635
  • NAID: 10027887826
  • Peer Reviewed
• [Journal Article] Association of a single nucleotide polymorphism in akirin2 gene with marbling in Japanese Black beef cattle (2009)
  • Author(s): S. Sasaki, T. Yamada, S. Sukegawa, T. Miyake, T. Fujita, M. Morita, T. Ohta, Y. Takahagi, H. Murakami, F. Morimatsu, Y. Sasaki
  • Journal Title: BMC Res. Notes Volume: 2 Pages: 131-131
  • NAID: 120006748890
  • Peer Reviewed
• [Journal Article] Association of a single nucleotide polymorphism in titin gene with marbling in Japanese Black beef cattle (2009)
  • Author(s): T. Yamada, S. Sasaki, S. Sukegawa, S. Yoshioka, Y. Takahagi, M. Morita, H. Murakami, F. Morimatsu, T. Fujita, T. Miyake, Y. Sasaki
  • Journal Title: BMC Res. Notes Volume: 2 Pages: 78-78
  • NAID: 120006748889
  • Peer Reviewed
• [Journal Article] Association of single nucleotide polymorphisms in the endothelial differentiation sphingolipid G-protein-coupled receptor 1 gene with marbling in Japanese Black beef cattle (2009)
  • Author(s): T. Yamada, M. Itoh, S. Nishimura, Y. Taniguchi, T. Miyake, S. Sasaki, S. Yoshioka, T. Fujita, K. Shiga, M. Morita, Y. Sasaki
  • Journal Title: Anim. Genet. Volume: 40 Pages: 209-216
  • Peer Reviewed
• [Journal Article] Novel SNP in 5' flanking region of EDG1 associated with marbling in Japanese Black beef cattle (2009)
  • Author(s): T. Yamada, S. Sasaki, S. Sukegawa, T. Miyake, T. Fujita, H. Kose, M. Morita, Y. Takahagi, H. Murakami, F. Morimatsu, Y. Sasaki
  • Journal Title: Anim. Sci. J. Volume: 80 Pages: 486-489
  • NAID: 10027887239
  • Peer Reviewed
• [Journal Article] The G allele at the c.-312A> G in the EDG1 gene associated with high marbling in Japanese Black cattle is at a low frequency in breeds not selected for marbling (2009)
  • Author(s): N. Watanabe, S. Yoshioka, M. Itoh, Y. Satoh, M. Furuta, S. Komatsu, Y. Sumio, T. Fujita, T. Yamada, Y. Sasaki
  • Journal Title: Anim. Genet. Volume: 40 Pages: 579-579
  • Peer Reviewed
• [Journal Article] 佐賀県黒毛和種牛におけるEDG1遺伝子の1塩基置換と枝肉形質との関連性 (2009)
  • Author(s): 和田康彦, 林田瑠美子, 礒兼妙子, 片渕直人, 大坪利豪, 山田宜永, 佐々木義之
  • Journal Title: 日暖畜報 Volume: 52 Pages: 37-41
  • Peer Reviewed
• [Journal Article] Association of single nucleotide polymorphisms in the endothelial differentiation sphingolipid G-protein-coupled receptor 1 gene with marbling in Japanese Black beef cattle. (2009)
  • Author(s): Yamada, et al.
  • Journal Title: Animal Genetics 40 Pages: 209-216
  • Peer Reviewed
• [Journal Article] Association of a single nucleotide polymorphism in titin gene with marbling in Japanese Black beef cattle. (2009)
  • Author(s): Yamada, et al.
  • Journal Title: BMC Research Notes 2 Pages: 78-78
  • NAID: 120006748889
  • Peer Reviewed
• [Journal Article] Novel SNP in 5' flanking region of EDG1 associated with marbling in Japanese Black beef cattle. (2009)
  • Author(s): Yamada, et al.
  • Journal Title: Animal Science Journal 80 Pages: 486-489
  • NAID: 10027887239
  • Peer Reviewed
• [Journal Article] Association of single nucleotide polymorphism in pancreatic lipase gene with growth-related traits in Japanese Black beef cattle
  • Author(s): H. Tanomura, Y. Muramatsu, T. Yamamoto, T. Ohta, H. Kose, T. Yamada
  • Journal Title: J. Anim. Vet. Adv. Volume: (in press)
  • Peer Reviewed
• [Journal Article] Distribution of allele frequency at PNLIP rs41648172 between Japanese Black and four other cattle breeds with differing historical selection for marbling
  • Author(s): H. Tanomura, Y. Muramatsu, T. Yamamoto, T. Ohta, H. Kose, T. Yamada
  • Journal Title: J. Anim. Vet. Adv. Volume: (in press)
  • Peer Reviewed
• [Presentation] 新潟県黒毛和種集団における脂肪交雑関連EDG1多型のアリル頻度分布 (2012)
  • Author(s): 福家成美,日水唯衣,山田宜永,波田野雅人,小林英和,加藤博幸
  • Organizer: 第50回北信越畜産学会新潟県分会
  • Place of Presentation: 新潟市
  • Year and Date: 2012-03-16
• [Presentation] OLETFラットを用いた筋肉内脂肪蓄積に関わる遺伝子の探索:ポジショナルキャンディデートの探索 (2011)
  • Author(s): 田之村秀樹,山本卓司,村松陽治,山田宜永
  • Organizer: 第60回北信越畜産学会大会
  • Place of Presentation: 長野市
  • Year and Date: 2011-11-11
• [Presentation] OLETFを用いた筋肉内脂肪蓄積に関わる遺伝子の探索:ポジショナルキャン.ギイデートの探索 (2011)
  • Author(s): 田之村, ら
  • Organizer: 第50回北信越畜産学会新潟県分会
  • Place of Presentation: 新潟大学
  • Year and Date: 2011-03-17
• [Presentation] Association of single nucleotide polymorphisms in Pnlip with marbling in Japanese Black beef cattle. (2009)
  • Author(s): Muramatsu, Yamada, et al.
  • Organizer: 第32回日本分子生物学会年会
  • Place of Presentation: パシフィコ横浜
  • Year and Date: 2009-12-11