Identification of genomic regions associated with prezygotic reproductive isolation in Asteraceae species

• Project/Area Number: 18K14778
• Research Category: Grant-in-Aid for Early-Career Scientists
• Allocation Type: Multi-year Fund
• Review Section: Basic Section 45030:Biodiversity and systematics-related
• Research Institution: Kyoto University
• Principal Investigator: Sakaguchi Shota 京都大学, 地球環境学堂, 助教 (50726809)
• Project Period (FY): 2018-04-01 – 2021-03-31
• Project Status: Completed (Fiscal Year 2020)
• Budget Amount: ¥4,160,000 (Direct Cost: ¥3,200,000、Indirect Cost: ¥960,000); Fiscal Year 2020: ¥390,000 (Direct Cost: ¥300,000、Indirect Cost: ¥90,000); Fiscal Year 2019: ¥1,170,000 (Direct Cost: ¥900,000、Indirect Cost: ¥270,000); Fiscal Year 2018: ¥2,600,000 (Direct Cost: ¥2,000,000、Indirect Cost: ¥600,000)
• Keywords: 平行進化 / ゲノム / 開花期 / キク科 / 環境適応 / 生態的種分化 / 生殖隔離 / ゲノム分析 / 種分化 / 生態型 / アキノキリンソウ

Outline of Final Research Achievements

Parallel adaptation can occur by repeated use of identical genetic variations or involvement of different variations. A polymorphic plant of Eurasian goldenrod includes ecotypic populations which in common shows early-flowering in alpine and serpentine habitats. This study aimed to identify genomic regions associated with the early-flowering habit of two ecotypes to gain insights into the process of parallel evolution. Genome scan analysis detected two candidate flowering-time genes that showed significant signals for serpentine populations, but not for alpine populations. Common garden experiment detected some genetic differentiation in flowering times between the two early-flowering ecotypes, which was further confirmed by time-series transcriptome analysis. These evidences suggest that the early-flowering habits likely evolved based on different genetic variations, selected independently in alpine and serpentine habitats.

Academic Significance and Societal Importance of the Research Achievements

本研究では高い生態的多様性を示す植物を対象として，平行的な環境適応現象のゲノム基盤を調査した．その結果，同じように早期開花性を示す集団であっても，別個の遺伝変異が開花期の変化に関与した可能性を示すことができた．この成果は，生物が新規環境に遭遇した際の進化可能性を理解するうえで重要な貢献となる．

Research Products

• [Journal Article] Genetic consequences of being a dwarf: Do evolutionary changes in life-history traits influence gene flow patterns in populations of the world’s smallest goldenrod? (2020)
  • Author(s): Sakaguchi, S., Nagano, J.A., Yasugi, M., Kudoh, H., Ishikawa, N., and Ito, M.
  • Journal Title: Annals of Botany Volume: － Issue: 1 Pages: 163-177
  • DOI: 10.1093/aob/mcaa062
  • Peer Reviewed
• [Journal Article] Functional traits divergence in parallelly evolved rheophytic populations of Solidago virgaurea L. complex (Asteraceae) (2020)
  • Author(s): Sakaguchi, S., Abe, A., Nagasawa, K., Takahashi, D., Setoguchi, H., Maki, M., Kyan, R., Nishino, T., Ishikawa, N. and Ito, M.
  • Journal Title: Acta Phytotaxonomica et Geobotanica Volume: －
  • Peer Reviewed
• [Journal Article] A global forum on ultramafic ecosystems: from ultramafic ecology to rehabilitation of degraded environments (2018)
  • Author(s): Echevarria Guillaume、Baker Alan J. M.、Boyd Robert S.、van der Ent Antony、Mizuno Takafumi、Rajakaruna Nishanta、Sakaguchi Shota、Bani Aida
  • Journal Title: Ecological Research Volume: 33 Issue: 3 Pages: 517-522
  • DOI: 10.1007/s11284-018-1611-3
  • Peer Reviewed / Open Access / Int'l Joint Research
• [Journal Article] Maintenance of soil ecotypes of Solidago virgaurea in close parapatry via divergent flowering time and selection against immigrants (2018)
  • Author(s): Sakaguchi Shota, Horie Kenji, Ishikawa Naoko, Nishio Sae, Worth James R. P., Fukushima Keitaro, Yamasaki Michimasa, Ito Motomi
  • Journal Title: Journal of Ecology Volume: 107 Issue: 1 Pages: 418-435
  • DOI: 10.1111/1365-2745.13034
  • Peer Reviewed / Int'l Joint Research
• [Journal Article] Phylogeographic analysis of the East Asian goldenrod (Solidago virgaurea complex, Asteraceae) reveals hidden ecological diversification with recurrent formation of ecotypes (2017)
  • Author(s): Sakaguchi Shota、Kimura Takuma、Kyan Ryuta、Maki Masayuki、Nishino Takako、Ishikawa Naoko、Nagano Atsushi J、Honjo Mie N、Yasugi Masaki、Kudoh Hiroshi、Li Pan、Choi Hyeok Jae、Chernyagina Olga A、Ito Motomi
  • Journal Title: Annals of Botany Volume: 121 Issue: 3 Pages: 489-500
  • DOI: 10.1093/aob/mcx182
  • Peer Reviewed / Int'l Joint Research
• [Presentation] 全ゲノム分析によるアキノキリンソウ土壌生態型の隔離遺伝子の特定 (2021)
  • Author(s): 阪口翔太, 堀江健二, 石川直子, 重信秀治, 山口勝司, 長谷部光泰, 三木綾乃, 瀬戸口浩彰, 永野惇, 久保田渉誠, 倉島治, 福島慶太郎, 陶山佳久, 廣田峻, 牧雅之, 木村拓真, 喜屋武隆太, 伊藤元己
  • Organizer: 日本生態学会
• [Presentation] アキノキリンソウの平行的な渓流適応における形質の収斂と分化 (2021)
  • Author(s): 阪口翔太, 阿部篤志 , 長澤耕樹 , 髙橋大樹 , 瀬戸口浩彰, 牧雅之, 喜屋武隆太, 西野貴子, 石川直子, 廣田 峻, 陶山佳久, 伊藤元己
  • Organizer: 日本植物分類学会
• [Presentation] アキノキリンソウの平行的な土壌適応に関わる隔離遺伝子群の進化 (2019)
  • Author(s): 阪口翔太, 堀江健二, 石川直子, 重信秀治, 山口勝司, 長谷部光泰, 永野惇, 瀬戸口浩彰, 久保田渉誠, 倉島治, 牧雅之, 木村拓真, 喜屋武隆太, 伊藤元己
  • Organizer: 第19回日本植物分類学会
• [Presentation] 超苦鉄質土壌内外におけるアキノキリンソウ(キク科)の Mg2+イオン輸送体遺伝子変異 (2019)
  • Author(s): 三木綾乃, 瀬戸口浩彰, 堀江健二, 石川直子, 伊藤元己, 阪口翔太
  • Organizer: 第19回日本植物分類学会
• [Presentation] 多様な開花期を示すアキノキリンソウ生態型の時系列トランスクリプトーム解析 (2019)
  • Author(s): 阪口翔太, 永野 惇, 石川 直子, 堀江 健二, 瀬戸口浩彰, 伊藤元己
  • Organizer: 第67回日本生態学会
• [Presentation] 寒い高山と暑い蛇紋岩地で平行進化した早咲きアキノキリンソウのゲノム解析 (2019)
  • Author(s): 阪口翔太，堀江健二，重信秀治，山口勝司，長谷部光泰，瀬戸口浩彰，石川直子，久保田渉誠，倉島治，牧雅之，木村拓真，喜屋武隆太，伊藤元己
  • Organizer: 第66回日本生態学会
• [Presentation] 秋に咲かないアキノキリンソウの生態遺伝研究 (2018)
  • Author(s): 阪口翔太
  • Organizer: 第20回日本進化学会
  • Invited
• [Presentation] Phylogeographic analysis of East Asian goldenrod (Solidago virgaurea) uncovered independent colonization to the Japanese islands and parallel ecotypic diversification (2018)
  • Author(s): Sakaguchi, S., Takuma Kimura, Ryuta Kyan, Masayuki Maki, Takako Nishino, Naoko Ishikawa, Atsushi J. Nagano, Mie N. Honjo, Masaki Yasugi, Hiroshi Kudoh, Pan Li, Hyeok Jae Choi, Olga A Chernyagina, Motomi Ito
  • Organizer: The 2nd International Academic Conference on the Formation Mechanism of Plant Diversity and Conservation of Endangered Plants in East Asia
  • Int'l Joint Research / Invited
• [Presentation] アキノキリンソウ群における平行的な生態的多様化, (2018)
  • Author(s): 阪口翔太
  • Organizer: 第50回種生物学会
  • Int'l Joint Research / Invited