Sequencing and comparative analysis of a conserved syntenic segment in the solanaceae

doi:10.1534/genetics.108.087981

CORC > 武汉植物园 > 中国科学院武汉植物园

	Sequencing and comparative analysis of a conserved syntenic segment in the solanaceae
	Vrebalov, Julia 5,6; Wang, Ying 1,3; Giovannoni, James 5,6; Diehl, Adam 4; Siepel, Adam 2; Tanksley, Steven D.3; Wu, Feinan 3
刊名	GENETICS
	2008-09-01
卷号	180 期号:1 页码:391-408
ISSN号	1943-2631
DOI	10.1534/genetics.108.087981
英文摘要	Comparative genomics is a powerful tool for gaining insight into genomic function and evolution. However, in plants, sequence data that would enable detailed comparisons of both coding and noncoding regions have been limited in availability. Here we report the generation and analysis of sequences for an unduplicated conserved syntenic segment (CSS) in the genomes of five memebers of the agriculturally important plant family Solanaceae. This CSS includes a 105-kb region of tomato chromosome 2 and orthologous regions of the potato, eggplant, pepper, and petunia genomes. With a total neutral divergence of 0.73-0.78 substitutions/site, these sequences are similar enough that most noncoding regions can be aligned, yet divergent enough to be informative about evolutionary dynamics and selective pressures. The CSS contains 17 distinct genes with generally conserved order and orientation, but with numerous smallscale differences between species. Our analysis indicates that the last common ancestor of these species lived similar to 27-36 million years ago, that more than one-third of short genomic segments (5-15 bp) are under selection, and that more than two-thirds of selected bases fall in noncoding regions. In addition, we identify genes under positive selection and analyze hundreds of conserved noncoding elements. This analysis provides a window into 30 million years of plant evolution in the absence of polyploidization.
资助项目	National Science Foundation[DBI-0116076] ; National Science Foundation[0421634] ; National Institutes of Health[T32 GM007617-27]
WOS研究方向	Genetics & Heredity
语种	英语
出版者	GENETICS SOC AM
WOS记录号	WOS:000259758500032
内容类型	期刊论文
源URL	[http://202.127.146.157/handle/2RYDP1HH/1083]
专题	中国科学院武汉植物园
通讯作者	Siepel, Adam
作者单位	1.Chinese Acad Sci, Wuhan Bot Garden, Wuhan 430074, Hubei, Peoples R China 2.Cornell Univ, Dept Biol Stat & Computat Biol, Ithaca, NY 14853 USA 3.Cornell Univ, Dept Plant Breeding & Genet, Ithaca, NY 14853 USA 4.Cornell Univ, Grad Field Genet & Dev, Ithaca, NY 14853 USA 5.Cornell Univ, ARS, USDA, Plant Soil & Nutr Lab, Ithaca, NY 14853 USA 6.Cornell Univ, Boyce Thompson Inst Plant Res, Ithaca, NY 14853 USA
推荐引用方式 GB/T 7714	Vrebalov, Julia,Wang, Ying,Giovannoni, James,et al. Sequencing and comparative analysis of a conserved syntenic segment in the solanaceae[J]. GENETICS,2008,180(1):391-408.
APA	Vrebalov, Julia.,Wang, Ying.,Giovannoni, James.,Diehl, Adam.,Siepel, Adam.,...&Wu, Feinan.(2008).Sequencing and comparative analysis of a conserved syntenic segment in the solanaceae.GENETICS,180(1),391-408.
MLA	Vrebalov, Julia,et al."Sequencing and comparative analysis of a conserved syntenic segment in the solanaceae".GENETICS 180.1(2008):391-408.