Genome sequencing of biocontrol strain Bacillus amyloliquefaciens Bam1 and further analysis of its heavy metal resistance mechanism
Abstract Plant growth-promoting rhizobacteria (PGPR) or Biocontrol strains inevitably encounter heavy metal excess stress during the product’s processing and application. Bacillus amyloliquefaciens Bam1 was a potential biocontrol strain with strong heavy metal resistant ability. To understand its he...
| Main Authors: | , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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SpringerOpen
2022-07-01
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| Series: | Bioresources and Bioprocessing |
| Subjects: | |
| Online Access: | https://doi.org/10.1186/s40643-022-00563-x |
| _version_ | 1818192982058205184 |
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| author | Yuanchan Luo Lei Chen Zhibo Lu Weijian Zhang Wentong Liu Yuwei Chen Xinran Wang Wei Du Jinyan Luo Hui Wu |
| author_facet | Yuanchan Luo Lei Chen Zhibo Lu Weijian Zhang Wentong Liu Yuwei Chen Xinran Wang Wei Du Jinyan Luo Hui Wu |
| author_sort | Yuanchan Luo |
| collection | DOAJ |
| description | Abstract Plant growth-promoting rhizobacteria (PGPR) or Biocontrol strains inevitably encounter heavy metal excess stress during the product’s processing and application. Bacillus amyloliquefaciens Bam1 was a potential biocontrol strain with strong heavy metal resistant ability. To understand its heavy metal resistance mechanism, the complete genome of Bam1 had been sequenced, and the comparative genomic analysis of Bam1 and FZB42, an industrialized PGPR and biocontrol strain with relatively lower heavy metal tolerance, was conducted. The comparative genomic analysis of Bam1 and the other nine B. amyloliquefaciens strains as well as one Bacillus velezensis (genetically and physiologically very close to B. amyloliquefaciens) was also performed. Our results showed that the complete genome size of Bam1 was 3.95 Mb, 4219 coding sequences were predicted, and it possessed the highest number of unique genes among the eleven analyzed strains. Nine genes related to heavy metal resistance were detected within the twelve DNA islands of Bam1, while only two of them were detected within the seventeen DNA islands of FZB42. When compared with B. amyloliquefaciens type strain DSM7, Bam1 lacked contig L, whereas FZB42 lacked contig D and I, as well as just possessed contig B with a very small size. Our results could also deduce that Bam1 promoted its essential heavy metal resistance mainly by decreasing the import and increasing the export of heavy metals with the corresponding homeostasis systems, which are regulated by different metalloregulators. While Bam1 promoted its non-essential heavy metal resistance mainly by the activation of some specific or non-specific exporters responding to different heavy metals. The variation of the genes related to heavy metal resistance and the other differences of the genomes, including the different number and arrangement of contigs, as well as the number of the heavy metal resistant genes in Prophages and Genomic islands, led to the significant different resistance of Bam1 and FZB42 to heavy metals. Graphical Abstract |
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| institution | Directory Open Access Journal |
| issn | 2197-4365 |
| language | English |
| last_indexed | 2024-12-12T00:39:09Z |
| publishDate | 2022-07-01 |
| publisher | SpringerOpen |
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| series | Bioresources and Bioprocessing |
| spelling | doaj.art-a9f2d0c83ddc4426a28b46d768d6f2f82022-12-22T00:44:18ZengSpringerOpenBioresources and Bioprocessing2197-43652022-07-019112310.1186/s40643-022-00563-xGenome sequencing of biocontrol strain Bacillus amyloliquefaciens Bam1 and further analysis of its heavy metal resistance mechanismYuanchan Luo0Lei Chen1Zhibo Lu2Weijian Zhang3Wentong Liu4Yuwei Chen5Xinran Wang6Wei Du7Jinyan Luo8Hui Wu9Department of Applied Biology, School of Biotechnology, East China University of Science and TechnologyDepartment of Plant Quarantine, Shanghai Extension and Service Center of Agriculture TechnologyDepartment of Applied Biology, School of Biotechnology, East China University of Science and TechnologyDepartment of Applied Biology, School of Biotechnology, East China University of Science and TechnologyDepartment of Applied Biology, School of Biotechnology, East China University of Science and TechnologyDepartment of Applied Biology, School of Biotechnology, East China University of Science and TechnologyDepartment of Applied Biology, School of Biotechnology, East China University of Science and TechnologyAgricultural Technology Extension Station of NingxiaDepartment of Plant Quarantine, Shanghai Extension and Service Center of Agriculture TechnologyDepartment of Applied Biology, School of Biotechnology, East China University of Science and TechnologyAbstract Plant growth-promoting rhizobacteria (PGPR) or Biocontrol strains inevitably encounter heavy metal excess stress during the product’s processing and application. Bacillus amyloliquefaciens Bam1 was a potential biocontrol strain with strong heavy metal resistant ability. To understand its heavy metal resistance mechanism, the complete genome of Bam1 had been sequenced, and the comparative genomic analysis of Bam1 and FZB42, an industrialized PGPR and biocontrol strain with relatively lower heavy metal tolerance, was conducted. The comparative genomic analysis of Bam1 and the other nine B. amyloliquefaciens strains as well as one Bacillus velezensis (genetically and physiologically very close to B. amyloliquefaciens) was also performed. Our results showed that the complete genome size of Bam1 was 3.95 Mb, 4219 coding sequences were predicted, and it possessed the highest number of unique genes among the eleven analyzed strains. Nine genes related to heavy metal resistance were detected within the twelve DNA islands of Bam1, while only two of them were detected within the seventeen DNA islands of FZB42. When compared with B. amyloliquefaciens type strain DSM7, Bam1 lacked contig L, whereas FZB42 lacked contig D and I, as well as just possessed contig B with a very small size. Our results could also deduce that Bam1 promoted its essential heavy metal resistance mainly by decreasing the import and increasing the export of heavy metals with the corresponding homeostasis systems, which are regulated by different metalloregulators. While Bam1 promoted its non-essential heavy metal resistance mainly by the activation of some specific or non-specific exporters responding to different heavy metals. The variation of the genes related to heavy metal resistance and the other differences of the genomes, including the different number and arrangement of contigs, as well as the number of the heavy metal resistant genes in Prophages and Genomic islands, led to the significant different resistance of Bam1 and FZB42 to heavy metals. Graphical Abstracthttps://doi.org/10.1186/s40643-022-00563-xBacillus amyloliquefaciensHeavy metal resistance mechanismComparative genomic analysisResistance to essential heavy metalsResistance to non-essential heavy metals |
| spellingShingle | Yuanchan Luo Lei Chen Zhibo Lu Weijian Zhang Wentong Liu Yuwei Chen Xinran Wang Wei Du Jinyan Luo Hui Wu Genome sequencing of biocontrol strain Bacillus amyloliquefaciens Bam1 and further analysis of its heavy metal resistance mechanism Bioresources and Bioprocessing Bacillus amyloliquefaciens Heavy metal resistance mechanism Comparative genomic analysis Resistance to essential heavy metals Resistance to non-essential heavy metals |
| title | Genome sequencing of biocontrol strain Bacillus amyloliquefaciens Bam1 and further analysis of its heavy metal resistance mechanism |
| title_full | Genome sequencing of biocontrol strain Bacillus amyloliquefaciens Bam1 and further analysis of its heavy metal resistance mechanism |
| title_fullStr | Genome sequencing of biocontrol strain Bacillus amyloliquefaciens Bam1 and further analysis of its heavy metal resistance mechanism |
| title_full_unstemmed | Genome sequencing of biocontrol strain Bacillus amyloliquefaciens Bam1 and further analysis of its heavy metal resistance mechanism |
| title_short | Genome sequencing of biocontrol strain Bacillus amyloliquefaciens Bam1 and further analysis of its heavy metal resistance mechanism |
| title_sort | genome sequencing of biocontrol strain bacillus amyloliquefaciens bam1 and further analysis of its heavy metal resistance mechanism |
| topic | Bacillus amyloliquefaciens Heavy metal resistance mechanism Comparative genomic analysis Resistance to essential heavy metals Resistance to non-essential heavy metals |
| url | https://doi.org/10.1186/s40643-022-00563-x |
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