Elucidation of Land plant evolution by draft genome sequencing and genetic map construction of Chara braunii
| Project/Area Number |
24370095
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| Research Category |
Grant-in-Aid for Scientific Research (B)
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| Allocation Type | Partial Multi-year Fund |
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| Section | 一般 |
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| Research Field |
Evolutionary biology
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| Research Institution | Kanazawa University |
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Principal Investigator |
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| Co-Investigator(Kenkyū-buntansha) |
SAKAYAMA Hidetoshi 神戸大学, 大学院理学研究科, 准教授 (60391108)
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| Research Collaborator |
MIYATA daisuke 神戸大学, 大学院理学研究科, 大学院生
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| Project Period (FY) |
2012-04-01 – 2016-03-31
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| Project Status |
Completed (Fiscal Year 2015)
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| Budget Amount *help |
¥17,940,000 (Direct Cost: ¥13,800,000、Indirect Cost: ¥4,140,000)
Fiscal Year 2014: ¥2,600,000 (Direct Cost: ¥2,000,000、Indirect Cost: ¥600,000)
Fiscal Year 2013: ¥10,270,000 (Direct Cost: ¥7,900,000、Indirect Cost: ¥2,370,000)
Fiscal Year 2012: ¥5,070,000 (Direct Cost: ¥3,900,000、Indirect Cost: ¥1,170,000)
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| Keywords | シャジクモ / ストレプトファイツ類 / 全ゲノムシーケンス / 遺伝学的地図 / ゲノム / ゲノムアセンブリー / アノテーション / PCR-RFLP / アセンブリー / 多型 / SNPマーカー |
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| Outline of Final Research Achievements |
A draft genome sequence of Chara braunii was determined. Chara braunii is a relatively small monoeicous alga in Charales, which we can culture in lab condition and induce reproductive organs in a short time. The draft genome consisted of 1.75 Gbp in 11,808 scaffolds. Half of the sequence is contained in 234 scafolds at least 2.26 Mb long and 90% is contained in 813 scaffolds at least 551,793 bp long. Gene prediction using RNA-seq data and homology to plant proteomes resulted in 36,887 gene models in 35,883 loci. Further to establish the chromosome scale super scaffold, genetic cross between two accessions were performed. PCR-RFLP primers were designed based on SNP data and progeny derived from out-crossing were determined. Random sequencing of the progeny are performed to construct genetic map based superscaffolds.
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Report
(5 results)
Research Products
(18 results)
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[Journal Article] Molecular and biochemical analysis of the first ARA6 homolog, a Rab5 GTPase, from green algae2013
Author(s)
Hoepflinger, M., Geretschlaeger, A., Hoeftberger, M., Sommer, A., Nishiyama, T., Sakayama, Hammerl, P., H., Tenhaken, R., Ueda, T., Foissner I.
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Journal Title
J. Exp. Bot.
Volume: 64
Issue: 18
Pages: 5553-68
DOI
Related Report
Peer Reviewed
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[Presentation] Evolutional analysis of phosphate transport mechanism in plant cells2016
Author(s)
Hitomi Fujiwara, Miwa Ohnishi, Hidetoshi Sakayama, Kimitsune Ishizaki, Koichi Toyokura, Tatsuaki Goh, Hiroyuki Sekimoto, Tomoaki Nishiyama, Hisato Ikegaya, Satamoi Kanno, Atsushi Nagano, Keiko Kosuge, Hidehiro Fukaki, Tetsuro Mimura
Organizer
第５７回日本植物生理学会年会
Place of Presentation
盛岡
Year and Date
2016-03-18
Related Report
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[Presentation] The Chara braunii Genome2015
Author(s)
Tomoaki Nishiyama, Atsushi Toyoda, Yutaka Suzuki, Asao Fujiyama, Stefan A. Rensing, Hidetoshi Sakayama
Organizer
International Symposium on Genome Science 2015, “Expanding Frontiers of Genome Science”
Place of Presentation
一橋講堂，東京都千代田区
Year and Date
2015-01-20 – 2015-01-21
Related Report
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[Presentation] The Chara braunii Genome2015
Author(s)
Tomoaki Nishiyama, Atsushi Toyoda, Yutaka Suzuki, Asao Fujiyama, Stefan A. Rensing, Hidetoshi Sakayama
Organizer
Plant & Animal Genomes XXIII
Place of Presentation
Town&Country Hotel, 米国サンディエゴ
Year and Date
2015-01-10
Related Report
Invited
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