A 1,681-locus consensus genetic map of cultivated cucumber including 67 NB-LRR resistance gene homolog and ten gene loci

doi:10.1186/1471-2229-13-53

	A 1,681-locus consensus genetic map of cultivated cucumber including 67 NB-LRR resistance gene homolog and ten gene loci
	Yang, Luming 1; Li, Dawei 1,2; Li, Yuhong 1,2; Gu, Xingfang 3; Huang, Sanwen 3; Garcia-Mas, Jordi 4; Weng, Yiqun 1,5
刊名	BMC PLANT BIOLOGY
	2013
卷号	13 页码:-
关键词	Cucumber Cucumis sativus NB-LRR Resistance gene homolog Genetic mapping Comparative mapping Map integration
ISSN号	1471-2229
DOI	10.1186/1471-2229-13-53
通讯作者	Yang, Luming
英文摘要	Background: Cucumber is an important vegetable crop that is susceptible to many pathogens, but no disease resistance (R) genes have been cloned. The availability of whole genome sequences provides an excellent opportunity for systematic identification and characterization of the nucleotide binding and leucine-rich repeat (NB-LRR) type R gene homolog (RGH) sequences in the genome. Cucumber has a very narrow genetic base making it difficult to construct high-density genetic maps. Development of a consensus map by synthesizing information from multiple segregating populations is a method of choice to increase marker density. As such, the objectives of the present study were to identify and characterize NB-LRR type RGHs, and to develop a high-density, integrated cucumber genetic-physical map anchored with RGH loci.Results: From the Gy14 draft genome, 70 NB-containing RGHs were identified and characterized. Most RGHs were in clusters with uneven distribution across seven chromosomes. In silico analysis indicated that all 70 RGHs had EST support for gene expression. Phylogenetic analysis classified 58 RGHs into two clades: CNL and TNL. Comparative analysis revealed high-degree sequence homology and synteny in chromosomal locations of these RGH members between the cucumber and melon genomes. Fifty-four molecular markers were developed to delimit 67 of the 70 RGHs, which were integrated into a genetic map through linkage analysis. A 1,681-locus cucumber consensus map including 10 gene loci and spanning 730.0 cM in seven linkage groups was developed by integrating three component maps with a bin-mapping strategy. Physically, 308 scaffolds with 193.2 Mbp total DNA sequences were anchored onto this consensus map that covered 52.6% of the 367 Mbp cucumber genome.Conclusions: Cucumber contains relatively few NB-LRR RGHs that are clustered and unevenly distributed in the genome. All RGHs seem to be transcribed and shared significant sequence homology and synteny with the melon genome suggesting conservation of these RGHs in the Cucumis lineage. The 1,681-locus consensus genetic-physical map developed and the RGHs identified and characterized herein are valuable genomics resources that may have many applications such as quantitative trait loci identification, map-based gene cloning, association mapping, marker-assisted selection, as well as assembly of a more complete cucumber genome.
学科主题	Plant Sciences ; PLANT SCIENCES
语种	英语
出版者	BIOMED CENTRAL LTD
WOS记录号	WOS:000317714900001
内容类型	期刊论文
源URL	[http://111.203.20.206/handle/2HMLN22E/101062]
专题	蔬菜花卉研究所_葫芦科研究室
作者单位	1.Univ Wisconsin, Dept Hort, Madison, WI 53706 USA 2.Northwest A&F Univ, Hort Coll, Yangling 712100, Peoples R China 3.Chinese Acad Agr Sci, Inst Vegetables & Flowers, Beijing 100018, Peoples R China 4.Ctr Res Agr Genom CSIC IRTA UAB UB, IRTA, Barcelona 08193, Spain 5.Univ Wisconsin, USDA ARS Vegetable Crops Res Unit, Dept Hort, Madison, WI 53706 USA
推荐引用方式 GB/T 7714	Yang, Luming,Li, Dawei,Li, Yuhong,et al. A 1,681-locus consensus genetic map of cultivated cucumber including 67 NB-LRR resistance gene homolog and ten gene loci[J]. BMC PLANT BIOLOGY,2013,13:-.
APA	Yang, Luming.,Li, Dawei.,Li, Yuhong.,Gu, Xingfang.,Huang, Sanwen.,...&Weng, Yiqun.(2013).A 1,681-locus consensus genetic map of cultivated cucumber including 67 NB-LRR resistance gene homolog and ten gene loci.BMC PLANT BIOLOGY,13,-.
MLA	Yang, Luming,et al."A 1,681-locus consensus genetic map of cultivated cucumber including 67 NB-LRR resistance gene homolog and ten gene loci".BMC PLANT BIOLOGY 13(2013):-.