The genome of the extremophile crucifer Thellungiella parvula

被引：262

作者：

Dassanayake, Maheshi ^{[1
]}

Oh, Dong-Ha ^{[1
]}

Haas, Jeffrey S. ^{[1
,2
]}

Hernandez, Alvaro ^{[3
]}

Hong, Hyewon ^{[1
,4
]}

Ali, Shahjahan ^{[5
]}

Yun, Dae-Jin ^{[4
]}

Bressan, Ray A. ^{[4
,6
,7
]}

Zhu, Jian-Kang ^{[6
,7
]}

Bohnert, Hans J. ^{[1
,4
,7
,8
]}

Cheeseman, John M. ^{[1
]}

机构：

[1] Univ Illinois, Dept Plant Biol, Urbana, IL USA

[2] Univ Illinois, Off Networked Informat Technol, Sch Integrat Biol, Urbana, IL USA

[3] Univ Illinois, Ctr Comparat & Funct Genom, Urbana, IL USA

[4] Gyeongsang Natl Univ, Div Appl Life Sci, Program BK21, Jinju, South Korea

[5] King Abdullah Univ Sci & Technol, Biosci Core Lab Genom, Thuwal, Saudi Arabia

[6] Purdue Univ, Dept Hort & Landscape Architecture, W Lafayette, IN 47907 USA

[7] King Abdullah Univ Sci & Technol, Ctr Plant Stress Genom & Biotechnol, Thuwal, Saudi Arabia

[8] Univ Illinois, Dept Crop Sci, Urbana, IL USA

来源：

NATURE GENETICS | 2011年 / 43卷 / 09期

关键词：

COPY NUMBER VARIATION; ARABIDOPSIS-THALIANA; SALT TOLERANCE; SEQUENCE; STRESS; GENE; HALOPHYTE; EVOLUTION; BRASSICACEAE; MECHANISMS;

D O I：

10.1038/ng.889

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

Thellungiella parvula(1) is related to Arabidopsis thaliana and is endemic to saline, resource-poor habitats(2), making it a model for the evolution of plant adaptation to extreme environments. Here we present the draft genome for this extremophile species. Exclusively by next generation sequencing, we obtained the de novo assembled genome in 1,496 gap-free contigs, closely approximating the estimated genome size of 140 Mb. We anchored these contigs to seven pseudo chromosomes without the use of maps. We show that short reads can be assembled to a near-complete chromosome level for a eukaryotic species lacking prior genetic information. The sequence identifies a number of tandem duplications that, by the nature of the duplicated genes, suggest a possible basis for T. parvula's extremophile lifestyle. Our results provide essential background for developing genomically influenced testable hypotheses for the evolution of environmental stress tolerance.

引用

页码：913 / U137

页数：8

共 35 条

[1]

Al-Shehbaz Ihsan A., 1995, Novon, V5, P309, DOI 10.2307/3391953

[2] Limitations of next-generation genome sequence assembly [J].