Bacillus velenzensis S3-1基因组中表面活性素、伊枯草菌素和丰原素合成基因簇的定位与分析
|
摘要
通过Gen Bank数据库寻找能产生表面活性素、伊枯草菌素或丰原素并在基因组中其合成基因已得到注释的芽胞杆菌,经过BLAST比对序列初步确定这三类脂肽类抗菌肽的合成基因簇的位置,再运用anti SMASH进行其合成基因簇的最终定位.对表面活性素、伊枯草菌素和丰原素的结构及相关的合成酶结构域进行了预测与分析.
In this study,the Gen Bank database was used to search for Bacillus which could produce surfactin,iturin or fengycin and its synthetic genes were annotated in the genome. The location of the synthetic gene clusters of these three lipopeptide antibiotics were determined by BLAST alignment. Then anti SMASH was used to determine the final location of the synthetic gene clusters. Further,we predicted and analyzed the structure and related synthetase domains of the surfactin,iturin and fengycin.
In this study,the Gen Bank database was used to search for Bacillus which could produce surfactin,iturin or fengycin and its synthetic genes were annotated in the genome. The location of the synthetic gene clusters of these three lipopeptide antibiotics were determined by BLAST alignment. Then anti SMASH was used to determine the final location of the synthetic gene clusters. Further,we predicted and analyzed the structure and related synthetase domains of the surfactin,iturin and fengycin.
引文
[1]王文学.浅析果树病虫害防治中的农药污染及治理措施[J].农业工程技术,2017(6):77.Wang W X.Analysis of pesticide pollution and control measures in pest control of fruit trees[J].Agricultural Engineering Technology,2017(6):77.
[2]徐潮.化学农药对环境的污染及防控对策[J].农业与技术,2016,36(24):251.Xu C.Environmental pollution caused by chemical pesticides and countermeasures for prevention and control[J].Agriculture and Technology,2016,36(24):251.
[3]岑天江.生物技术在保基乡水稻病虫害防控中的作用[J].农技服务,2017,34(1):68.Cen T J.Role of biotechnology in prevention and control of rice diseases and pests in Baoji Township[J].Agricultural Technology Services,2017,34(1):68.
[4]司方毅.一株高效抗病菌株的筛选和应用及其抗病机制的研究[D].上海:上海师范大学,2014.Si F Y.Selection and application of a high-resistance strain with its study of resistance mechanism[D].Shanghai:Shanghai Normal University,2014.
[5]艾昕燕.解淀粉芽胞杆菌S3-1对番茄的抗病促生作用及其活性成分的分离[D].上海;上海师范大学,2016.Ai X Y.Effect of Bacillus amyloliquefaciens S3-1 on diseases control and growth-promotion of tomato and the separation of its active ingredients[D].Shanghai:Shanghai Normal University,2016.
[6]Leclere V,Bechet M,Adam A,et al.Mycosubtilin overproduction by Bacillus subtilis BBG100 enhances the organism's antagonistic and biocontrol activities[J].Applied and Environmental Microbiology,2005,71(8):4577-4584.
[7]Pratap S S,Seema G,Neetu P,et al.Surfactin:A review on novel microbial surfactant[J].International Journal of Bioassays,2013,2(5):740-745.
[8]Das P,Mukherjee S,Sen R.Genetic regulations of the biosynthesis of microbial surfactants:An overview[J].Biotechnology and Genetic Engineering Reviews,2008,25(1):165-186.
[9]Hwang Y H,Kim M S,Song I B,et al.Subacute(28 day)toxicity of surfactin C,a lipopeptide produced by Bacillus subtilis,in rats[J].Journal of Health Science,2009,55(3):351-355.
[10]Weber T,Marahiel M A.Exploring the domain structure of modular nonribosomal peptide synthetases[J].Structure,2001,9(1):R3-R9.
[11]Savadogo A,Tapi A,Chollet M,et al.Identification of surfactin producing strains in Soumbala and Bikalga fermented condiments using polymerase chain reaction and matrix assisted laser desorption/ionization-mass spectrometry methods[J].International Journal of Food Microbiology,2011,151(3):299-306.
[12]Koglin A,Lohr F,Bernhard F,et al.Structural basis for the selectivity of the external thioesterase of the surfactin synthetase[J].Nature,2008,454(7206):907-911.
[13]Monabel M N A.Sequence analysis of putative swr W gene required for surfactant serrawettin W1 production from Serratia marcescens[J].African Journal of Biotechnology,2012,11(57):12040-12044.
[14]Satpute S K,Bhuyan S S,Pardesi K R,et al.Molecular genetics of biosurfactant synthesis in microorganisms[J].Advances in Experimental Medicine and Biology,2010,672(672):14-41.
[15]Hsieh F C,Li M C,Lin T C,et al.Rapid detection and characterization of surfactin-producing Bacillus subtilis and closely related species based on PCR[J].Current Microbiology,2004,49(3):186-191.
[16]王大威,刘永建,林忠平,等.一株产生脂肽的枯草芽孢杆菌的分离鉴定及脂肽对原油的作用[J].微生物学报,2008,48(3):304-311.Wang D W,Liu Y J,Lin Z P,et al.Isolation and identification of surfactin producing Bacillus subtilis strain and its effect of surfactin on crude oil[J].Acta Microbiologica Sinica,2008,48(3):304-311.
[17]Zhao P,Quan C,Jin L,et al.Sequence characterization and computational analysis of the non-ribosomal peptide synthetases controlling biosynthesis of lipopeptides,fengycins and bacillomycin D,from Bacillus amyloliquefaciens Q-426[J].Biotechnology Letters,2013,35(12):2155-2163.
[18]Moyne A L,Cleveland T E,Tuzun S.Molecular characterization and analysis of the operon encoding the antifungal lipopeptide bacillomycin D[J].Fems Microbiology Letters,2004,234(1):43-49.
[19]Deleu M,Lorent J,Lins L,et al.Effects of surfactin on membrane models displaying lipid phase separation[J].Biochimica et Biophysica Acta-Biomembranes,2013,1828(2):801-815.
[20]Wu C Y,Chen C L,Lee Y H,et al.Nonribosomal synthesis of fengycin on an enzyme complex formed by fengycin synthetases[J].The Journal of Biological Chemistry,2007,282(8):5608-5616.
[21]Yaseen Y,Gancel F,Drider D,et al.Influence of promoters on the production of fengycin in Bacillus spp.[J].Research in Microbiology,2016,167(4):272-281.
[22]Samel S A,Wagner B,Marahiel M A,et al.The thioesterase domain of the fengycin biosynthesis cluster:a structural base for the macrocyclization of a non-ribosomal lipopeptide[J].Journal of Molecular Biology,2006,359(4):876-889.
[23]Tapi A,Chollet-Imbert M,Scherens B,et al.New approach for the detection of non-ribosomal peptide synthetase genes in Bacillus strains by polymerase chain reaction[J].Applied Microbiology and Biotechnology,2010,85(5):1521-1531.
[24]Dunlap C A,Bowman M J,Schisler D A.Genomic analysis and secondary metabolite production in Bacillus amyloliquefaciens AS 43.3:A biocontrol antagonist of Fusarium head blight[J].Biological Control,2013,64(2):166-175.
[25]Stevens B W,Lilien R H,Georgiev I,et al.Redesigning the Phe A domain of gramicidin synthetase leads to a new understanding of the enzyme's mechanism and selectivity[J].Biochemistry,2006,45(51):15495-15504.
[26]Hur G H,Vickery C R,Burkart M D.Explorations of catalytic domains in non-ribosomal peptide synthetase enzymology[J].Natural Product Reports,2012,29(10):1074-1098.
[27]金清,肖明.新型抗菌肽——表面活性素、伊枯草菌素和丰原素[J].微生物与感染,2018,13(1):56-64.Jin Q,Xiao M.Novel antimicrobial peptides:Surfactin,iturin and fengycin[J].Journal of Microbes and Infections,2018,13(1):56-64.
[2]徐潮.化学农药对环境的污染及防控对策[J].农业与技术,2016,36(24):251.Xu C.Environmental pollution caused by chemical pesticides and countermeasures for prevention and control[J].Agriculture and Technology,2016,36(24):251.
[3]岑天江.生物技术在保基乡水稻病虫害防控中的作用[J].农技服务,2017,34(1):68.Cen T J.Role of biotechnology in prevention and control of rice diseases and pests in Baoji Township[J].Agricultural Technology Services,2017,34(1):68.
[4]司方毅.一株高效抗病菌株的筛选和应用及其抗病机制的研究[D].上海:上海师范大学,2014.Si F Y.Selection and application of a high-resistance strain with its study of resistance mechanism[D].Shanghai:Shanghai Normal University,2014.
[5]艾昕燕.解淀粉芽胞杆菌S3-1对番茄的抗病促生作用及其活性成分的分离[D].上海;上海师范大学,2016.Ai X Y.Effect of Bacillus amyloliquefaciens S3-1 on diseases control and growth-promotion of tomato and the separation of its active ingredients[D].Shanghai:Shanghai Normal University,2016.
[6]Leclere V,Bechet M,Adam A,et al.Mycosubtilin overproduction by Bacillus subtilis BBG100 enhances the organism's antagonistic and biocontrol activities[J].Applied and Environmental Microbiology,2005,71(8):4577-4584.
[7]Pratap S S,Seema G,Neetu P,et al.Surfactin:A review on novel microbial surfactant[J].International Journal of Bioassays,2013,2(5):740-745.
[8]Das P,Mukherjee S,Sen R.Genetic regulations of the biosynthesis of microbial surfactants:An overview[J].Biotechnology and Genetic Engineering Reviews,2008,25(1):165-186.
[9]Hwang Y H,Kim M S,Song I B,et al.Subacute(28 day)toxicity of surfactin C,a lipopeptide produced by Bacillus subtilis,in rats[J].Journal of Health Science,2009,55(3):351-355.
[10]Weber T,Marahiel M A.Exploring the domain structure of modular nonribosomal peptide synthetases[J].Structure,2001,9(1):R3-R9.
[11]Savadogo A,Tapi A,Chollet M,et al.Identification of surfactin producing strains in Soumbala and Bikalga fermented condiments using polymerase chain reaction and matrix assisted laser desorption/ionization-mass spectrometry methods[J].International Journal of Food Microbiology,2011,151(3):299-306.
[12]Koglin A,Lohr F,Bernhard F,et al.Structural basis for the selectivity of the external thioesterase of the surfactin synthetase[J].Nature,2008,454(7206):907-911.
[13]Monabel M N A.Sequence analysis of putative swr W gene required for surfactant serrawettin W1 production from Serratia marcescens[J].African Journal of Biotechnology,2012,11(57):12040-12044.
[14]Satpute S K,Bhuyan S S,Pardesi K R,et al.Molecular genetics of biosurfactant synthesis in microorganisms[J].Advances in Experimental Medicine and Biology,2010,672(672):14-41.
[15]Hsieh F C,Li M C,Lin T C,et al.Rapid detection and characterization of surfactin-producing Bacillus subtilis and closely related species based on PCR[J].Current Microbiology,2004,49(3):186-191.
[16]王大威,刘永建,林忠平,等.一株产生脂肽的枯草芽孢杆菌的分离鉴定及脂肽对原油的作用[J].微生物学报,2008,48(3):304-311.Wang D W,Liu Y J,Lin Z P,et al.Isolation and identification of surfactin producing Bacillus subtilis strain and its effect of surfactin on crude oil[J].Acta Microbiologica Sinica,2008,48(3):304-311.
[17]Zhao P,Quan C,Jin L,et al.Sequence characterization and computational analysis of the non-ribosomal peptide synthetases controlling biosynthesis of lipopeptides,fengycins and bacillomycin D,from Bacillus amyloliquefaciens Q-426[J].Biotechnology Letters,2013,35(12):2155-2163.
[18]Moyne A L,Cleveland T E,Tuzun S.Molecular characterization and analysis of the operon encoding the antifungal lipopeptide bacillomycin D[J].Fems Microbiology Letters,2004,234(1):43-49.
[19]Deleu M,Lorent J,Lins L,et al.Effects of surfactin on membrane models displaying lipid phase separation[J].Biochimica et Biophysica Acta-Biomembranes,2013,1828(2):801-815.
[20]Wu C Y,Chen C L,Lee Y H,et al.Nonribosomal synthesis of fengycin on an enzyme complex formed by fengycin synthetases[J].The Journal of Biological Chemistry,2007,282(8):5608-5616.
[21]Yaseen Y,Gancel F,Drider D,et al.Influence of promoters on the production of fengycin in Bacillus spp.[J].Research in Microbiology,2016,167(4):272-281.
[22]Samel S A,Wagner B,Marahiel M A,et al.The thioesterase domain of the fengycin biosynthesis cluster:a structural base for the macrocyclization of a non-ribosomal lipopeptide[J].Journal of Molecular Biology,2006,359(4):876-889.
[23]Tapi A,Chollet-Imbert M,Scherens B,et al.New approach for the detection of non-ribosomal peptide synthetase genes in Bacillus strains by polymerase chain reaction[J].Applied Microbiology and Biotechnology,2010,85(5):1521-1531.
[24]Dunlap C A,Bowman M J,Schisler D A.Genomic analysis and secondary metabolite production in Bacillus amyloliquefaciens AS 43.3:A biocontrol antagonist of Fusarium head blight[J].Biological Control,2013,64(2):166-175.
[25]Stevens B W,Lilien R H,Georgiev I,et al.Redesigning the Phe A domain of gramicidin synthetase leads to a new understanding of the enzyme's mechanism and selectivity[J].Biochemistry,2006,45(51):15495-15504.
[26]Hur G H,Vickery C R,Burkart M D.Explorations of catalytic domains in non-ribosomal peptide synthetase enzymology[J].Natural Product Reports,2012,29(10):1074-1098.
[27]金清,肖明.新型抗菌肽——表面活性素、伊枯草菌素和丰原素[J].微生物与感染,2018,13(1):56-64.Jin Q,Xiao M.Novel antimicrobial peptides:Surfactin,iturin and fengycin[J].Journal of Microbes and Infections,2018,13(1):56-64.