The sunflower genome provides insights into oil metabolism, flowering and Asterid evolution

被引：612

作者：

Badouin, Helene ^{[1
]}

Gouzy, Jerome ^{[1
]}

Grassa, Christopher J. ^{[1
,2
,3
]}

Murat, Florent ^{[4
]}

Staton, S. Evan ^{[2
,3
]}

Cottret, Ludovic ^{[1
]}

Lelandais-Briere, Christine ^{[5
,6
]}

Owens, Gregory L. ^{[2
,3
]}

Carrere, Sebastien ^{[1
]}

Mayjonade, Baptiste ^{[1
]}

Legrand, Ludovic ^{[1
]}

Gill, Navdeep ^{[2
,3
]}

Kane, Nolan C. ^{[2
,3
,7
]}

Bowers, John E. ^{[8
]}

Hubner, Sariel ^{[2
,3
,9
,10
]}

Bellec, Arnaud ^{[11
]}

Berard, Aurelie ^{[12
]}

Berges, Helene ^{[11
]}

Blanchet, Nicolas ^{[1
]}

Boniface, Marie-Claude ^{[1
]}

Brunel, Dominique ^{[12
]}

Catrice, Olivier ^{[1
]}

Chaidir, Nadia ^{[2
,3
,13
]}

Claudel, Clotilde ^{[14
]}

Donnadieu, Cecile ^{[15
]}

Faraut, Thomas ^{[16
]}

Fievet, Ghislain ^{[1
]}

Helmstetter, Nicolas ^{[11
]}

King, Matthew ^{[2
,3
,17
]}

Knapp, Steven J. ^{[18
]}

Lai, Zhao ^{[19
,20
]}

Le Paslier, Marie-Christine ^{[12
]}

Lippi, Yannick ^{[1
]}

Lorenzon, Lolita ^{[1
]}

Mandel, Jennifer R. ^{[21
]}

Marage, Gwenola ^{[1
]}

Marchand, Gwenaelle ^{[1
]}

Marquand, Elodie ^{[12
]}

Bret-Mestries, Emmanuelle ^{[22
]}

Morien, Evan ^{[2
,3
]}

Nambeesan, Savithri ^{[23
]}

Thuy Nguyen ^{[2
,3
,24
]}

Pegot-Espagnet, Prune ^{[1
]}

Pouilly, Nicolas ^{[1
]}

Raftis, Frances ^{[2
,3
]}

Sallet, Erika ^{[1
]}

Schiex, Thomas ^{[25
]}

Thomas, Justine ^{[1
]}

Vandecasteele, Celine ^{[15
]}

Vares, Didier ^{[1
]}

机构：

[1] Univ Toulouse, INRA, CNRS, LIPM, Castanet Tolosan, France

[2] Univ British Columbia, Dept Bot, Vancouver, BC, Canada

[3] Univ British Columbia, Biodivers Res Ctr, Vancouver, BC, Canada

[4] INRA, UBP UMR GDEC 1095, F-63100 Clermont Ferrand, France

[5] Univ Paris Saclay, CNRS, Inst Plant Sci Paris Saclay IPS2, INRA, F-91405 Orsay, France

[6] Univ Paris Diderot, Inst Plant Sci Paris Saclay IPS2, CNRS, Sorbonne Paris Cite,INRA, F-91405 Orsay, France

[7] Univ Colorado, Dept Ecol & Evolutionary Biol, Boulder, CO 80309 USA

[8] Univ Georgia, Miller Plant Sci, Dept Plant Biol, Athens, GA 30602 USA

[9] Tel Hai Acad Coll, Dept Biotechnol, IL-12210 Upper Galilee, Israel

[10] MIGAL Galilee Res Inst, POB 831, IL-11016 Kiryat Shmona, Israel

[11] INRA, Ctr Natl Ressources Genom Vegetales, F-31326 Castanet Tolosan, France

[12] INRA, US EPGV CEA CNG 1279, Evry, France

[13] Dow AgroSci LLC, Indianapolis, IN 46268 USA

[14] Biogemma, F-31700 Mondonville, France

[15] INRA, GeT PlaGe, Genotoul, Castanet Tolosan, France

[16] INRA, Genet Physiol & Syst Elevage UMR1388, F-F31326 Castanet Tolosan, France

[17] DuPont Pioneer, Johnston, IA 50131 USA

[18] Univ Calif Davis, Dept Plant Sci, Davis, CA 95616 USA

[19] Indiana Univ, Dept Biol, Bloomington, IN 47405 USA

[20] Indiana Univ, Ctr Genom & Bioinformat, Bloomington, IN 47405 USA

[21] Univ Memphis, Dept Biol Sci, Memphis, TN 38512 USA

[22] TERRES INOVIA, UMR Arche INRA ENSAT, F-F31320 Castanet Tolosan, France

[23] Univ Georgia, Dept Hort, Athens, GA 30602 USA

[24] Wellcome Trust Sanger Inst, Hinxton CB10 1SA, England

[25] Univ Toulouse, INRA, MIAT, Castanet Tolosan, France

来源：

NATURE | 2017年 / 546卷 / 7656期

基金：

美国国家科学基金会;

关键词：

HELIANTHUS-ANNUUS; PHOSPHATIDATE PHOSPHATASE; CULTIVATED SUNFLOWER; ANNOTATION; SEQUENCE; GENES; WILD; ACID; DOMESTICATION; ASTERACEAE;

D O I：

10.1038/nature22380

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

070301 [无机化学]; 070403 [天体物理学]; 070507 [自然资源与国土空间规划学]; 090105 [作物生产系统与生态工程];

摘要：

The domesticated sunflower, Helianthus annuus L., is a global oil crop that has promise for climate change adaptation, because it can maintain stable yields across a wide variety of environmental conditions, including drought(1). Even greater resilience is achievable through the mining of resistance alleles from compatible wild sunflower relatives(2,3), including numerous extremophile species(4). Here we report a high-quality reference for the sunflower genome (3.6 gigabases), together with extensive transcriptomic data from vegetative and floral organs. The genome mostly consists of highly similar, related sequences(5) and required single-molecule real-time sequencing technologies for successful assembly. Genome analyses enabled the reconstruction of the evolutionary history of the Asterids, further establishing the existence of a whole-genome triplication at the base of the Asterids II clade(6) and a sunflower-specific whole-genome duplication around 29 million years ago(7). An integrative approach combining quantitative genetics, expression and diversity data permitted development of comprehensive gene networks for two major breeding traits, flowering time and oil metabolism, and revealed new candidate genes in these networks. We found that the genomic architecture of flowering time has been shaped by the most recent whole-genome duplication, which suggests that ancient paralogues can remain in the same regulatory networks for dozens of millions of years. This genome represents a cornerstone for future research programs aiming to exploit genetic diversity to improve biotic and abiotic stress resistance and oil production, while also considering agricultural constraints and human nutritional needs(8,9).

引用

页码：148 / +

页数：14

共 56 条

[1]

ShortStack: Comprehensive annotation and quantification of small RNA genes [J].

Axtell, Michael J. .

RNA, 2013, 19 (06) :740-751

[2]

Multiple Paleopolyploidizations during the Evolution of the Compositae Reveal Parallel Patterns of Duplicate Gene Retention after Millions of Years [J].

Barker, Michael S. ;

Kane, Nolan C. ;

Matvienko, Marta ;

Kozik, Alexander ;

Michelmore, W. ;

Knapp, Steven J. ;

Rieseberg, Loren H. .

MOLECULAR BIOLOGY AND EVOLUTION, 2008, 25 (11) :2445-2455

[3]

Most Compositae (Asteraceae) are descendants of a paleohexaploid and all share a paleotetraploid ancestor with the Calyceraceae [J].

Barker, Michael S. ;

Li, Zheng ;

Kidder, Thomas I. ;

Reardon, Chris R. ;

Lai, Zhao ;

Oliveira, Luiz O. ;

Scascitelli, Moira ;

Rieseberg, Loren H. .

AMERICAN JOURNAL OF BOTANY, 2016, 103 (07) :1203-1211

[4]

Genome scans reveal candidate domestication and improvement genes in cultivated sunflower, as well as post-domestication introgression with wild relatives [J].

Baute, Gregory J. ;

Kane, Nolan C. ;

Grassa, Christopher J. ;

Lai, Zhao ;

Rieseberg, Loren H. .

NEW PHYTOLOGIST, 2015, 206 (02) :830-838

[5]

Assembling large genomes with single-molecule sequencing and locality-sensitive hashing [J].

Berlin, Konstantin ;

Koren, Sergey ;

Chin, Chen-Shan ;

Drake, James P. ;

Landolin, Jane M. ;

Phillippy, Adam M. .

NATURE BIOTECHNOLOGY, 2015, 33 (06) :623-+

[6]

Contributions of Flowering Time Genes to Sunflower Domestication and Improvement [J].

Blackman, Benjamin K. ;

Rasmussen, David A. ;

Strasburg, Jared L. ;

Raduski, Andrew R. ;

Burke, John M. ;

Knapp, Steven J. ;

Michaels, Scott D. ;

Rieseberg, Loren H. .

GENETICS, 2011, 187 (01) :271-287

[7]

Plant genome sequencing - applications for crop improvement [J].

Bolger, Marie E. ;

Weisshaar, Bernd ;

Scholz, Uwe ;

Stein, Nils ;

Usadel, Bjoern ;

Mayer, Klaus F. X. .

CURRENT OPINION IN BIOTECHNOLOGY, 2014, 26 :31-37

[8]

FLOR-ID: an interactive database of flowering-time gene networks in Arabidopsis thaliana [J].

Bouche, Frederic ;

Lobet, Guillaume ;

Tocquin, Pierre ;

Perilleux, Claire .

NUCLEIC ACIDS RESEARCH, 2016, 44 (D1) :D1167-D1171

[9]

Roles of phosphatidate phosphatase enzymes in lipid metabolism [J].

Carman, George M. ;

Han, Gil-Soo .

TRENDS IN BIOCHEMICAL SCIENCES, 2006, 31 (12) :694-699

[10]

Crops and climate change: progress, trends, and challenges in simulating impacts and informing adaptation [J].

Challinor, Andrew J. ;

Ewert, Frank ;

Arnold, Steve ;

Simelton, Elisabeth ;

Fraser, Evan .

JOURNAL OF EXPERIMENTAL BOTANY, 2009, 60 (10) :2775-2789

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