干旱区生态环境知识资源中心(Arid): Genetic, Epigenetic and Phenotypic Diversity of Four Bacillus velezensis Strains Used for Plant Protection or as Probiotics

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DOI	10.3389/fmicb.2019.02610
	Genetic, Epigenetic and Phenotypic Diversity of Four Bacillus velezensis Strains Used for Plant Protection or as Probiotics
	Reva, Oleg N.1; Swanevelder, Dirk Z. H.2; Mwita, Liberata A.1,3; Mwakilili, Aneth David 4,5; Muzondiwa, Dillon 1; Joubert, Monique 1; Chan, Wai Yin 2,6,7; Lutz, Stefanie 8,9; Ahrens, Christian H.8,9; Avdeeva, Lylia, V 10; Kharkhota, Maksim A.10; Tibuhwa, Donatha 4; Lyantagaye, Sylvester 4; Vater, Joachim 11; Borriss, Rainer 12; Meijer, Johan 13
通讯作者	Reva, Oleg N.
来源期刊	FRONTIERS IN MICROBIOLOGY
ISSN	1664-302X
出版年	2019
卷号	10
英文摘要	Bacillus velezensis strains are applied as ecologically safe biopesticides, plant growth promoting rhizobacteria (PGPR), and in veterinary probiotics. They are abundant in various environments including soil, plants, marine habitats, the intestinal micro-flora, etc. The mechanisms underlying this adaptive plasticity and bioactivity are not well understood, nor is it clear why several strains outperform other same species isolates by their bioactivities. The main objective of this work was to demonstrate versatility of bioactivities and lifestyle strategies of the selected B. velezensis strains suitable to serve as model organisms in future studies. Here, we performed a comparative study of newly sequenced genomes of four B. velezensis isolates with distinct phenotypes and isolation origin, which were assessed by RNA sequencing under the effect of root exudate stimuli and profiled by epigenetic modifications of chromosomal DNA. Among the selected strains, UCMB5044 is an oligotrophic PGPR strain adapted to nutrient poor desert soils. UCMB5113 and At1 are endophytes that colonize plants and require nutrient rich media. In contrast, the probiotic strain, UCMB5007, is a copiotroph, which shows no propensity to colonize plants. PacBio and Illumina sequencing approaches were used to generate complete genome assemblies, tracing epigenetic modifications, and determine gene expression profiles. All sequence data was deposited at NCBI. The strains, UCMB5113 and At1, show 99% sequence identity and similar phenotypes despite being isolated from geographically distant regions. UCMB5007 and UCMB5044 represent another group of organisms with almost identical genomes but dissimilar phenotypes and plant colonization propensity. The two plant associated strains, UCMB5044 and UCMB5113, share 398 genes putatively associated with root colonization, which are activated by exposure to maize root exudates. In contrast, UCMB5007 did not respond to root exudate stimuli. It was hypothesized that alterations in the global methylation pattern and some other epigenetic modifications enable adaptation of strains to different habitats and therefore may be of importance in terms of the biotechnological applicability of these bacteria. Contrary, the ability to grow on root exudates as a sole source of nutrients or a strong antagonism against phytopathogens showed by the strains in vitro cannot be considered as good predictors of PGPR activities.
英文关键词	Bacillus velezensis biocontrol biopesticide comparative genomics epigenetics gene regulation genome sequencing plant growth promoting rhizobacteria
类型	Article
语种	英语
国家	South Africa ; Tanzania ; Sweden ; Switzerland ; Ukraine ; Germany
开放获取类型	Green Published, gold
收录类别	SCI-E
WOS记录号	WOS:000501023900001
WOS关键词	AMYLOLIQUEFACIENS FZB42 ; FUNCTIONAL-CHARACTERIZATION ; BIOCONTROL ; METHYLATION ; PHASE ; BIOSYNTHESIS ; METABOLITES ; ANNOTATION ; GENERATION ; BACILYSIN
WOS类目	Microbiology
WOS研究方向	Microbiology
EI主题词	2019-11-15
资源类型	期刊论文
条目标识符	http://119.78.100.177/qdio/handle/2XILL650/310889
作者单位	1.Univ Pretoria, Ctr Bioinformat & Computat Biol, Dept Biochem Genet & Microbiol, Pretoria, South Africa; 2.Agr Res Council, Biotechnol Platform, Pretoria, South Africa; 3.Muhimbili Univ Hlth & Allied Sci, Dept Pharmaceut Microbiol, Dar Es Salaam, Tanzania; 4.Univ Dar Es Salaam, Dept Mol Biol & Biotechnol, Dar Es Salaam, Tanzania; 5.Swedish Univ Agr Sci, Dept Plant Protect, Alnarp, Sweden; 6.Univ Pretoria, Dept Biochem Genet & Microbiol, Pretoria, South Africa; 7.Univ Pretoria, DST NRF Ctr Excellence Tree Hlth Biotechnol, Forestry & Agr Biotechnol Inst, Pretoria, South Africa; 8.Agroscope, Mol Diagnost Genom & Bioinformat, Wadenswil, Switzerland; 9.SIB, Wadenswil, Switzerland; 10.DK Zabolotny Inst Microbiol & Virol, Dept Antibiot, Kiev, Ukraine; 11.Robert Koch Inst, Berlin, Germany; 12.Humboldt Univ, Inst Biol, Berlin, Germany; 13.Swedish Univ Agr Sci, Linnean Ctr Plant Biol, Uppsala Bioctr, Dept Plant Biol, Uppsala, Sweden
推荐引用方式 GB/T 7714	Reva, Oleg N.,Swanevelder, Dirk Z. H.,Mwita, Liberata A.,et al. Genetic, Epigenetic and Phenotypic Diversity of Four Bacillus velezensis Strains Used for Plant Protection or as Probiotics[J],2019,10.
APA	Reva, Oleg N..,Swanevelder, Dirk Z. H..,Mwita, Liberata A..,Mwakilili, Aneth David.,Muzondiwa, Dillon.,...&Meijer, Johan.(2019).Genetic, Epigenetic and Phenotypic Diversity of Four Bacillus velezensis Strains Used for Plant Protection or as Probiotics.FRONTIERS IN MICROBIOLOGY,10.
MLA	Reva, Oleg N.,et al."Genetic, Epigenetic and Phenotypic Diversity of Four Bacillus velezensis Strains Used for Plant Protection or as Probiotics".FRONTIERS IN MICROBIOLOGY 10(2019).