Organization, evolution and function of fengycin biosynthesis gene clusters in the Bacillus amyloliquefaciens group

Abstract The Bacillus velezensis strain PG12, belonging to the Bacillus amyloliquefaciens group, is an endophytic bacterium known for its antimicrobial activities against crop pathogens. However, our knowledge of the molecular basis underlying its biocontrol activity and the relatedness of different...

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Autores principales:	Qingchao Zeng, Jianbo Xie, Yan Li, Xinyi Chen, Xiaofei Gu, Panlei Yang, Guangcan Hu, Qi Wang
Formato:	article
Lenguaje:	EN
Publicado:	BMC 2021
Materias:	Bacillus amyloliquefaciens Biocontrol Comparative genomic Evolution Genome sequencing Plant culture SB1-1110
Acceso en línea:	https://doaj.org/article/10db5c3785944397b20adc63391b506c
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spelling	oai:doaj.org-article:10db5c3785944397b20adc63391b506c2021-11-14T12:43:23ZOrganization, evolution and function of fengycin biosynthesis gene clusters in the Bacillus amyloliquefaciens group10.1186/s42483-021-00103-z2524-4167https://doaj.org/article/10db5c3785944397b20adc63391b506c2021-11-01T00:00:00Zhttps://doi.org/10.1186/s42483-021-00103-zhttps://doaj.org/toc/2524-4167Abstract The Bacillus velezensis strain PG12, belonging to the Bacillus amyloliquefaciens group, is an endophytic bacterium known for its antimicrobial activities against crop pathogens. However, our knowledge of the molecular basis underlying its biocontrol activity and the relatedness of different strains in the Bacillus amyloliquefaciens group is limited. Here, we sequenced and analyzed the genome of PG12 to test its taxonomic affiliation and identified genes involved in the biocontrol activity. The phylogenomic analysis results indicate that PG12 belongs to B. velezensis, a subgroup of the B. amyloliquefaciens group. By comparing the genomes of 22 strains in this group, we confirmed that it comprises three different phylogenetic lineages: B. amyloliquefaciens, B. velezensis and B. siamensis. Three secondary metabolism gene clusters related to the production of lipopeptides, namely fengycin, iturin and surfactin, were identified in the genomes of the B. amyloliquefaciens group. The core genome of B. velezensis is enriched in secondary metabolism genes compared with B. siamensis and B. amyloliquefaciens. Three of the five genes pertaining to the gene cluster responsible for fengycin biosynthesis (fenBCD) were found in B. velezensis and B. siamensis, but not in B. amyloliquefaciens. Phenotypic analysis showed that the ∆fenA mutant of PG12 displayed significantly decreased biofilm formation and swarming motility, which indicates that fengycin contributes to the colonization and pathogen control abilities of PG12. Our results also suggest that B. siamensis and B. velezensis have acquired the fenBCD genes from Paenibacillus spp. by horizontal gene transfer (HGT). Taken together, the results provide insights into the evolutionary pattern of the B. amyloliquefaciens group strains and will promote further researches on their taxonomy and functional genomics.Qingchao ZengJianbo XieYan LiXinyi ChenXiaofei GuPanlei YangGuangcan HuQi WangBMCarticleBacillus amyloliquefaciensBiocontrolComparative genomicEvolutionGenome sequencingPlant cultureSB1-1110ENPhytopathology Research, Vol 3, Iss 1, Pp 1-12 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Bacillus amyloliquefaciens Biocontrol Comparative genomic Evolution Genome sequencing Plant culture SB1-1110
spellingShingle	Bacillus amyloliquefaciens Biocontrol Comparative genomic Evolution Genome sequencing Plant culture SB1-1110 Qingchao Zeng Jianbo Xie Yan Li Xinyi Chen Xiaofei Gu Panlei Yang Guangcan Hu Qi Wang Organization, evolution and function of fengycin biosynthesis gene clusters in the Bacillus amyloliquefaciens group
description	Abstract The Bacillus velezensis strain PG12, belonging to the Bacillus amyloliquefaciens group, is an endophytic bacterium known for its antimicrobial activities against crop pathogens. However, our knowledge of the molecular basis underlying its biocontrol activity and the relatedness of different strains in the Bacillus amyloliquefaciens group is limited. Here, we sequenced and analyzed the genome of PG12 to test its taxonomic affiliation and identified genes involved in the biocontrol activity. The phylogenomic analysis results indicate that PG12 belongs to B. velezensis, a subgroup of the B. amyloliquefaciens group. By comparing the genomes of 22 strains in this group, we confirmed that it comprises three different phylogenetic lineages: B. amyloliquefaciens, B. velezensis and B. siamensis. Three secondary metabolism gene clusters related to the production of lipopeptides, namely fengycin, iturin and surfactin, were identified in the genomes of the B. amyloliquefaciens group. The core genome of B. velezensis is enriched in secondary metabolism genes compared with B. siamensis and B. amyloliquefaciens. Three of the five genes pertaining to the gene cluster responsible for fengycin biosynthesis (fenBCD) were found in B. velezensis and B. siamensis, but not in B. amyloliquefaciens. Phenotypic analysis showed that the ∆fenA mutant of PG12 displayed significantly decreased biofilm formation and swarming motility, which indicates that fengycin contributes to the colonization and pathogen control abilities of PG12. Our results also suggest that B. siamensis and B. velezensis have acquired the fenBCD genes from Paenibacillus spp. by horizontal gene transfer (HGT). Taken together, the results provide insights into the evolutionary pattern of the B. amyloliquefaciens group strains and will promote further researches on their taxonomy and functional genomics.
format	article
author	Qingchao Zeng Jianbo Xie Yan Li Xinyi Chen Xiaofei Gu Panlei Yang Guangcan Hu Qi Wang
author_facet	Qingchao Zeng Jianbo Xie Yan Li Xinyi Chen Xiaofei Gu Panlei Yang Guangcan Hu Qi Wang
author_sort	Qingchao Zeng
title	Organization, evolution and function of fengycin biosynthesis gene clusters in the Bacillus amyloliquefaciens group
title_short	Organization, evolution and function of fengycin biosynthesis gene clusters in the Bacillus amyloliquefaciens group
title_full	Organization, evolution and function of fengycin biosynthesis gene clusters in the Bacillus amyloliquefaciens group
title_fullStr	Organization, evolution and function of fengycin biosynthesis gene clusters in the Bacillus amyloliquefaciens group
title_full_unstemmed	Organization, evolution and function of fengycin biosynthesis gene clusters in the Bacillus amyloliquefaciens group
title_sort	organization, evolution and function of fengycin biosynthesis gene clusters in the bacillus amyloliquefaciens group
publisher	BMC
publishDate	2021
url	https://doaj.org/article/10db5c3785944397b20adc63391b506c
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Organization, evolution and function of fengycin biosynthesis gene clusters in the Bacillus amyloliquefaciens group

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