The genome of Ensifer alkalisoli YIC4027 provides insights for host specificity and environmental adaptations

doi:10.1186/s12864-019-6004-7

CORC > 烟台海岸带研究所 > 中国科学院烟台海岸带研究所 > 海岸带生物学与生物资源利用重点实验室 > 海岸带生物学与生物资源利用所重点实验室

	The genome of Ensifer alkalisoli YIC4027 provides insights for host specificity and environmental adaptations
	Dang, XX ; Xie, ZH ; Liu, W ; Sun, Y ; Liu, XL ; Zhu, YQ ; Staehelin, C
刊名	BMC GENOMICS
	2019-08-12
卷号	20 期号:1 页码:643
关键词	Ensifer alkalisoli Complete genome sequencing Comparative genomics Host-specific symbiosis Environmental adaptation
ISSN号	1471-2164
DOI	10.1186/s12864-019-6004-7
产权排序	[Dang, Xiaoxiao ; Xie, Zhihong ; Liu, Wei ; Sun, Yu ; Liu, Xiaolin] Chinese Acad Sci, Yantai Inst Coastal Zone Res, Key Lab Coastal Biol & Bioresource Utilizat, Yantai, Peoples R China ; [Dang, Xiaoxiao ; Sun, Yu ; Liu, Xiaolin] Univ Chinese Acad Sci, Beijing, Peoples R China ; [Dang, Xiaoxiao ; Xie, Zhihong ; Liu, Wei ; Sun, Yu ; Liu, Xiaolin] Chinese Acad Sci, Ctr Ocean Mag Sci, Qingdao, Shandong, Peoples R China ; [Zhu, Yongqiang] Chinese Natl Human Genome Ctr Shanghai, Shanghai MOST Key Lab Hlth & Dis Genom, Shanghai 201203, Peoples R China ; [Staehelin, Christian] Sun Yat Sen Univ, Sch Life Sci, State Key Lab Biocontrol, Guangzhou 510006, Guangdong, Peoples R China ; [Staehelin, Christian] Sun Yat Sen Univ, Sch Life Sci, Guangdong Key Lab Plant Resources, Guangzhou 510006, Guangdong, Peoples R China
文献子类	Article
英文摘要	Background Ensifer alkalisoli YIC4027, a recently characterized nitrogen-fixing bacterium of the genus Ensifer, has been isolated from root nodules of the host plant Sesbania cannabina. This plant is widely used as green manure and for soil remediation. E. alkalisoli YIC4027 can grow in saline-alkaline soils and is a narrow-host-range strain that establishes a symbiotic relationship with S. cannabina. The complete genome of this strain was sequenced to better understand the genetic basis of host specificity and adaptation to saline-alkaline soils. Results E. alkalisoli YIC4027 was found to possess a 6.1-Mb genome consisting of three circular replicons: one chromosome (3.7 Mb), a chromid (1.9 Mb) and a plasmid (0.46 Mb). Genome comparisons showed that strain YIC4027 is phylogenetically related to broad-host-range Ensifer fredii strains. Synteny analysis revealed a strong collinearity between chromosomes of E. alkalisoli YIC4027 and those of the E. fredii NGR234 (3.9 Mb), HH103 (4.3 Mb) and USDA257 (6.48 Mb) strains. Notable differences were found for genes required for biosynthesis of nodulation factors and protein secretion systems, suggesting a role of these genes in host-specific nodulation. In addition, the genome analysis led to the identification of YIC4027 genes that are presumably related to adaptation to saline-alkaline soils, rhizosphere colonization and nodulation competitiveness. Analysis of chemotaxis cluster genes and nodulation tests with constructed che gene mutants indicated a role of chemotaxis and flagella-mediated motility in the symbiotic association between YIC4027 and S. cannabina. Conclusions This study provides a basis for a better understanding of host specific nodulation and of adaptation to a saline-alkaline rhizosphere. This information offers the perspective to prepare optimal E. alkalisoli inocula for agriculture use and soil remediation.
WOS关键词	III SECRETION SYSTEM ; SP. STRAIN NGR234 ; SOYBEAN SYMBIONT ; NODULATION SIGNALS ; SESBANIA-CANNABINA ; PROTEIN SECRETION ; ESCHERICHIA-COLI ; FREDII USDA257 ; NOD FACTORS ; RHIZOBIUM
WOS研究方向	Biotechnology & Applied Microbiology ; Genetics & Heredity
语种	英语
WOS记录号	WOS:000480528900001
资助机构	NSFC-Shandong Joint Fund Key Projects [U1806206] ; National Natural Science Foundation of ChinaNational Natural Science Foundation of China [31570063, 31870020] ; Key Deployment Project of Chinese Academy of Sciences [KFZD-SW-112] ; Shandong Key Research and Development Program [2017GSF17129] ; Shandong Key Scientific and Technological Innovation Program [2017CXGC0303]
内容类型	期刊论文
源URL	[http://ir.yic.ac.cn/handle/133337/24882]
专题	烟台海岸带研究所_海岸带生物学与生物资源利用所重点实验室
作者单位	1.Chinese Acad Sci, Yantai Inst Coastal Zone Res, Key Lab Coastal Biol & Bioresource Utilizat, Yantai, Peoples R China; 2.Univ Chinese Acad Sci, Beijing, Peoples R China; 3.Chinese Acad Sci, Ctr Ocean Mag Sci, Qingdao, Shandong, Peoples R China; 4.Chinese Natl Human Genome Ctr Shanghai, Shanghai MOST Key Lab Hlth & Dis Genom, Shanghai 201203, Peoples R China; 5.Sun Yat Sen Univ, Sch Life Sci, State Key Lab Biocontrol, Guangzhou 510006, Guangdong, Peoples R China; 6.Sun Yat Sen Univ, Sch Life Sci, Guangdong Key Lab Plant Resources, Guangzhou 510006, Guangdong, Peoples R China
推荐引用方式 GB/T 7714	Dang, XX,Xie, ZH,Liu, W,et al. The genome of Ensifer alkalisoli YIC4027 provides insights for host specificity and environmental adaptations[J]. BMC GENOMICS,2019,20(1):643.
APA	Dang, XX.,Xie, ZH.,Liu, W.,Sun, Y.,Liu, XL.,...&Staehelin, C.(2019).The genome of Ensifer alkalisoli YIC4027 provides insights for host specificity and environmental adaptations.BMC GENOMICS,20(1),643.
MLA	Dang, XX,et al."The genome of Ensifer alkalisoli YIC4027 provides insights for host specificity and environmental adaptations".BMC GENOMICS 20.1(2019):643.