Abstract
Bacillus spp. have been widely described for their potentials to protect plants against pathogens. Here, we reported the whole genome sequence of Bacillus velezensis ZF2, which was isolated from the stem of a healthy cucumber plant. Strain ZF2 showed a broad spectrum of antagonistic activities against many plant bacterial and fungal pathogens, including the cucumber leaf spot fungus Corynespora cassiicola. The complete genome of B. velezensis ZF2 contained a 3,931,418-bp circular chromosome, with an average G + C content of 46.50%. Genome comparison revealed closest similarity between ZF2 and other B. velezensis strains. Genes homologous to 14 gene clusters for biosynthesis of secondary metabolites were identified in the ZF2 genome. Also identified were a number of genes involved in bacterial colonization, including the genes for motility, biofilm formation, flagella biosynthesis, and capsular biosynthesis. Numerous genes associated with plant–bacteria interactions, including cellulase or protease biosynthesis, and plant growth promotion were also identified in the ZF2 genome. Overall, our data will aid future studies of the biocontrol mechanisms of B. velezensis ZF2 and promote its application in vegetable disease control.
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References
Abdellaziz L, Chollet M, Abderrahmani A, Béchet M, Yaici L, Chataigné G, Arias AA, Leclère V, Jacques P (2018) Lipopeptide biodiversity in antifungal Bacillus strains isolated from Algeria. Arch Microbiol 6:1–12. https://doi.org/10.1007/s00203-018-1537-8
Adnan N, Shahid M, Shashidar A, Sarosh B, Johan M, Erik BR (2014) Genome Analysis of Bacillus amyloliquefaciens Subsp plantarum UCMB5113: A Rhizobacterium That Improves Plant Growth and Stress Management. PLoS ONE 9:e104651. https://doi.org/10.1371/journal.pone.0104651
Alvarez F, Castro M, Príncipe A, Borioli G, Fischer S, Mori G, Jofré E (2015) The plant-associated Bacillus amyloliquefaciens strains MEP2 18 and ARP2 3 capable of producing the cyclic lipopeptides iturin or surfactin and fengycin are effective in biocontrol of sclerotinia stem rot disease. J Appl Microbiol 112:159–174. https://doi.org/10.1111/j.1365-2672.2011.05182.x
Arndt D, Grant JR, Marcu A, Sajed T, Pon A, Liang Y, Wishart DS (2016) PHASTER: a better, faster version of the PHAST phage search tool. Nucleic Acids Res 44:W16–W21. https://doi.org/10.1093/nar/gkw387
Aziz RK, Bartels D, Best AA, DeJongh M, Disz T, Edwards RA, Formsma K, Gerdes S, Glass EM, Kubal M (2008) The RAST Server: rapid annotations using subsystems technology. BMC Genomics 9:75. https://doi.org/10.1186/1471-2164-9-75
Ben F, Hua CX, Anto B, Wilfrid B, Joachim V, Rainer BJ (2011) Efficient colonization of plant roots by the plant growth promoting bacterium Bacillus amyloliquefaciens FZB42, engineered to express green fluorescent protein. J Biotechnol 151:303–311. https://doi.org/10.1016/j.jbiotec.2010.12.022
Bendtsen JD, Nielsen H, von Heijne G, Brunak SJ (2004) Improved prediction of signal peptides: SignalP 30. J Mol Biol 340:783–795. https://doi.org/10.1016/j.jmb.2004.05.028
Bochow H, El-Sayed SF, Junge H, Stavropoulou A, Schmiedeknecht G (2001) Use of Bacillus subtilis as biocontrol agent IV Salt-stress tolerance induction by Bacillus subtilis FZB24 seed treatment in tropical vegetable field crops, and its mode of action / Die Verwendung von Bacillus subtilis zur biologischen Bekämpfung IV I. J Plant Dis Protect 108:21–30. https://doi.org/10.1614/0890-037X(2001)015[0190:EOIAPO]2.0.CO;2
Cai XC, Liu CH, Wang BT, Xue YR (2017) Genomic and metabolic traits endow Bacillus velezensis CC09 with a potential biocontrol agent in control of wheat powdery mildew disease. Microbiol Res 196:89–94. https://doi.org/10.1016/j.micres.2016.12.007
Caulier S, Gillis A, Colau G, Licciardi F, Liépin M, Desoignies N, Modrie P, Legrève A, Mahillon J, Bragard C (2018) Versatile antagonistic activities of soil-borne Bacillus spp. and Pseudomonas spp. against Phytophthora infestans and other potato pathogens. Front Microbiol 9:143. https://doi.org/10.3389/fmicb.2018.00143
Chatterjee A, Cui Y, Liu Y, Dumenyo CK, Chatterjee AK (1995) Inactivation of rsmA leads to overproduction of extracellular pectinases, cellulases, and proteases in Erwinia carotovora subsp carotovora in the absence of the starvation/cell density-sensing signal, N-(3-oxohexanoyl)-L-homoserine lactone. Appl Environ Microbiol 61:1959–1967. https://doi.org/10.1002/bit.260460313
Chen XH, Koumoutsi A, Scholz R, Schneider K, Vater J, Süssmuth R, Piel J, Borriss R (2008) Genome analysis of Bacillus amyloliquefaciens FZB42 reveals its potential for biocontrol of plant pathogens. J Biotechnol 140:27–37. https://doi.org/10.1016/j.jbiotec.2008.10.011
Chen XH, Scholz R, Borriss M, Junge H, Mögel G, Kunz S, Borriss R (2009) Difficidin and bacilysin produced by plant-associated Bacillus amyloliquefaciens are efficient in controlling fire blight disease. J Biotechnol 140:38–44. https://doi.org/10.1016/j.jbiotec.2008.10.015
Chen L, Shi H, Heng J, Wang D, Bian K (2019) Antimicrobial, plant growth-promoting and genomic properties of the peanut endophyte Bacillus velezensis LDO2. Microbiol Res 218:41–48. https://doi.org/10.1016/j.micres.2018.10.002
Christian R, Jochen B, Xiaohua C, Oleg R, Rainer B (2011) Genome sequence of B amyloliquefaciens type strain DSM7(T) reveals differences to plant-associated B amyloliquefaciens FZB42. J Biotechnol 155:78–85. https://doi.org/10.1016/j.jbiotec.2011.01.006(Epub 2011 Jan 22)
Chulze S (2016) Bacillus velezensis RC 218 as a biocontrol agent to reduce Fusarium head blight and deoxynivalenol accumulation: Genome sequencing and secondary metabolite cluster profiles. Microbiol Res 192:30–36. https://doi.org/10.1016/j.micres.2016.06.002
Cristina RG, Victoria B, Fernando MC, Inmaculada L, Emilia Q (2005) Bacillus velezensis sp nov, a surfactant-producing bacterium isolated from the river Vélez in Málaga, southern Spain. Int J Syst Evol Microbiol 55:191–195. https://doi.org/10.1099/ijs.0.63310-0
Dardanelli M, Gonzalez P, Ma GN (2000) Synthesis, accumulation and hydrolysis of trehalose during growth of peanut rhizobia in hyperosmotic media. J Basic Microbiol 40:149. https://doi.org/10.1002/1521-4028(200007)40:3%3c149:AID-JOBM149%3e3.0.CO;2-Y
Das R, Li G, Mai B, An T (2018) Spore cells from BPA degrading bacteria Bacillus sp. GZB displaying high laccase activity and stability for BPA degradation. Sci Total Environ 640–641:798–806. https://doi.org/10.1016/j.scitotenv.2018.05.379
Diego R, Claudio A, Richard L, Roberto K (2010) Amyloid fibers provide structural integrity to Bacillus subtilis biofilms. Proc Natl Acad Sci 107:2230–2234. https://doi.org/10.1073/pnas.0910560107
Dion HW, Woo PWK, Willmer NE, Kern DL, Fusari SA (1972) Butirosin, a New Aminoglycosidic Antibiotic Complex: Isolation and Characterization. Antimicrob Agents Chemother 2:84–88. https://doi.org/10.1128/aac.2.2.84
Domka J, Lee J, Bansal T, Wood TK (2007) Temporal gene-expression in Escherichia coli K-12 biofilms. Environ Microbiol 9:332–346. https://doi.org/10.1111/j.1462-2920.2006.01143.x
Dunlap CA, Kim SJ, Kwon SW, Rooney AP (2015) Bacillus velezensis is not a later heterotypic synonym of Bacillus amyloliquefaciens; Bacillus methylotrophicus, Bacillus amyloliquefaciens subsp plantarum and 'Bacillus oryzicola' are later heterotypic synonyms of Bacillus velezensis based on phylogenomic. Int J Syst Evol Microbiol 66:1212–1217. https://doi.org/10.1099/ijsem.0.000858
Déon M, Fumanal B, Gimenez S, Bieysse D, Oliveira RR, Shuib SS, Breton F, Elumalai S, Vida JB, Seguin M (2014) Diversity of the cassiicolin gene in Corynespora cassiicola and relation with the pathogenicity in Hevea brasiliensis. Fungal Biol 118:32–47. https://doi.org/10.1016/j.funbio.2013.10.011
Emilia G, Sara S, Mara C, Gueye SA, Francesco C, Sonia S (2012) Contribution of surfactin and SwrA to flagellin expression, swimming, and surface motility in Bacillus subtilis. Appl Environ Microbiol 78:6540–6544. https://doi.org/10.1128/AEM.01341-12
Fan B, Blom J, Klenk HP, Borriss R (2017a) Bacillus amyloliquefaciens, Bacillus velezensis, and Bacillus siamensis Form an "Operational Group B amyloliquefaciens" within the B subtilis Species Complex. Front Microbiol 8:22. https://doi.org/10.3389/fmicb.2017.00022
Fan H, Zhanwei Z, Yan L, Xun Z, Yongming D, Microbiology WQ (2017b) c Antibacterial Activity and Colonization. Front Microbiol 8:1973. https://doi.org/10.3389/fmicb.2017.01973
Field D, Garrity G, Gray T, Morrison N, Selengut J, Sterk P, Tatusova T, Thomson N, Allen MJ, Angiuoli SV et al (2008) The minimum information about a genome sequence (MIGS) specification. Nat Biotechnol 26:541–547. https://doi.org/10.1038/nbt1360
Fujikawa T, Sawada H (2016) Genome analysis of the kiwifruit canker pathogen Pseudomonas syringae pv actinidiae biovar 5. Sci Rep 6:21399. https://doi.org/10.1038/srep21399
Grossman AD, Lewis T, Levin N, Devivo R (1992) Suppressors of a spo0A missense mutation and their effects on sporulation in Bacillus subtilis. Biochimie 74:679–688. https://doi.org/10.1016/0300-9084(92)90140-A
Harwood Wipat CRA (1996) Sequencing and functional analysis of the genome of Bacillus subtilis strain 168. Febs Lett 389:84–87. https://doi.org/10.1016/0014-5793(96)00524-8
He P, Hao K, Blom J, Rückert C, Vater J, Mao Z, Wu Y, Hou M, He P, He Y (2013) Genome sequence of the plant growth promoting strain Bacillus amyloliquefaciens subsp. plantarum B9601–Y2 and expression of mersacidin and other secondary metabolites. J Biotechnol 164:281–291. https://doi.org/10.1016/j.jbiotec.2012.12.014
Hua CX, Alexandra K, Romy S, Andreas E, Kathrin S, Isabelle H, Burkhard M, Hess WR, Oleg R et al (2007) Comparative analysis of the complete genome sequence of the plant growth-promoting bacterium Bacillus amyloliquefaciens FZB42. Nat Biotechnol 25:1007–1014. https://doi.org/10.1038/nbt1325
Ibtissem G, Gilles V, Christine P (2008) CRISPRcompar: a website to compare clustered regularly interspaced short palindromic repeats. Nucleic Acids Res 36:145–148. https://doi.org/10.1093/nar/gkn228
Idris EE, Iglesias DJ, Talon M, Borriss R (2007) Tryptophan-dependent production of indole-3-acetic acid (IAA) affects level of plant growth promotion by Bacillus amyloliquefaciens FZB42. Mol Plant Microbe Interact 20:619–626. https://doi.org/10.1094/MPMI-20-6-0619
Jaruchoktaweechai C, Suwanborirux K, Tanasupawatt S, Kittakoop P, Menasveta P (2000) New macrolactins from a marine Bacillus sp. Sc026. J Nat Prod 63:984–986. https://doi.org/10.1021/np990605c
Karlovsky P, Thomashow LS, Bonsall RF, Weller DM, Reuben S, Bhinu VS, Swarup S, Ferluga S, Steindler L, Venturi V (2008) Secondary metabolites in soil ecology. Heidelberg, Berlin. https://doi.org/10.1111/j.1439-0434.2009.01592.x
Kong Q, Shan S, Liu Q, Wang X, Yu F (2010) Biocontrol of Aspergillus flavus on peanut kernels by use of a strain of marine Bacillus megaterium. Int J Food Microbiol 139:31–35. https://doi.org/10.1016/j.ijfoodmicro.2010.01.036
Krogh A, Larsson B, Von Heijne G, Sonnhammer EL (2001) Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes. J Mol Biol 305:567–580. https://doi.org/10.1006/jmbi.2000.4315
Lagesen K, Hallin P, Rodland E, Staerfeldt H, Rognes T, Ussery D (2007) RNAmmer: consistent and rapid annotation of ribosomal RNA genes. Nucleic Acids Res 35:3100–3108. https://doi.org/10.1093/nar/gkm160
Li W, Jaroszewski L, Godzik A (2002) Tolerating some redundancy significantly speeds up clustering of large protein databases. Bioinformatics 18:77–82. https://doi.org/10.1093/bioinformatics/18.1.77
Lim SM, Yoon MY, Choi GJ, Choi YH, Jang KS, Shin TS, Park HW, Yu NH, Kim YH, Kim JC (2017) Diffusible and Volatile Antifungal Compounds Produced by an Antagonistic Bacillus velezensis G341 against Various Phytopathogenic Fungi. Plant Pathol 33:488–498. https://doi.org/10.5423/PPJ.OA.04.2017.0073
Liu G, Kong Y, Fan Y, Geng C, Peng D, Sun M (2017) Whole-genome sequencing of Bacillus velezensis LS69, a strain with a broad inhibitory spectrum against pathogenic bacteria. J Biotechnol 249:20–24. https://doi.org/10.1016/j.jbiotec.2017.03.018
Lowe TM, Chan PP (2016) tRNAscan-SE On-line: integratign text for analysis of transfer RNA genes. Nucleic Acids Res 44:W54–W57. https://doi.org/10.1039/nar/gwk413
Mandic-Mulec I, Doukhan L, Smith I (1995) The Bacillus subtilis SinR protein is a repressor of the key sporulation gene spo0A. J Bacteriol 177:4619–4627. https://doi.org/10.1128/jb.177.16.4619-4627
Martínez-Raudales I, De La Cruz-Rodríguez Y, Alvarado-Gutiérrez A, Vega-Arreguín J, Fraire-Mayorga A, Alvarado-Rodríguez M, Balderas-Hernández V, Fraire-Velázquez S (2017) Draft genome sequence of Bacillus velezensis 2A–2B strain: a rhizospheric inhabitant of Sporobolus airoides (Torr) Torr, with antifungal activity against root rot causing phytopathogens. Stand Genomic Sci 12:73. https://doi.org/10.1186/s40793-017-0289-4
Mathiyazhagan S, Kavitha K, Nakkeeran S, Chandrasekar G, Manian K, Renukadevi P, Krishnamoorthy AS, Fernando AGD (2004) PGPR mediated management of stem blight of Phyllanthus amarus (Schum and Thonn) caused by Corynespora cassiicola (Berk and Curt) Wei. Arch Phytopathol Plant Protect 37:183-199. https://doi.org/10.1080/03235400410001730658
Meier-Kolthoff JP, Klenk H-P, Goeker M, Auch AF (2013) Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformat 14:60. https://doi.org/10.1186/1471-2105-14-60
Meng Q, Jiang H, Hao J (2016) Effects of Bacillus velezensis strain BAC03 in promoting plant growth. Biol Control 98:18–26. https://doi.org/10.1016/j.biocontrol.2016.03.010
Michael R, Ramon RM (2009) Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci USA 106:19126–19131. https://doi.org/10.1073/pnas.0906412106
Miyamoto T, Ishii H, Seko T, Kobori S, Tomita Y (2010) Occurrence of Corynespora cassiicola isolates resistant to boscalid on cucumber in Ibaraki Prefecture, Japan. Plant Pathol 58:1144–1151. https://doi.org/10.1111/j.1365-3059.2009.02151.x
Mondol M, Shin HJ, Islam MT (2013) Diversity of Secondary Metabolites from Marine Bacillus Species: Chemistry and Biological Activity. Mar Drugs 11:2846–2872. https://doi.org/10.3390/md11082846
Mordini S, Osera C, Marini S, Scavone F, Bellazzi R, Galizzi A, Calvio C (2013) The role of SwrA, DegU and P(D3) in fla/che expression in B subtilis. PLoS ONE 8:e85065. https://doi.org/10.1371/journal.pone.0085065
Murata H, McEvoy JL, Chatterjee A, Collmer A, Chatterjee AK (1991) Molecular cloning of an aepA gene that activates production of extracellular pectolytic, cellulolytic, and proteolytic enzymes in Erwinia carotovora subsp carotovora. Mol Plant Microbe Interact 4:239–246
Nakamura L, Roberts MS, Cohan FM (1999) Note: Relationship of Bacillus subtilis clades associated with strains 168 and W23: A proposal for Bacillus subtilis subsp subtilis subsp nov and Bacillus subtilis subsp spizizenii subsp nov. Int J Syst Evol Microbiol 49:1211–1215. https://doi.org/10.1099/00207713-49-3-1211
Nicholson WL (2008) The Bacillus subtilis ydjL (bdhA) gene encodes acetoin reductase/2,3-butanediol dehydrogenase. Appl Environ Microbiol 74:6832–6838. https://doi.org/10.1128/AEM.00881-08
Omura S, Ikeda H, Ishikawa J, Hanamoto A, Takahashi C, Shinose M, Takahashi Y, Horikawa H, Nakazawa H, Osonoe T (2001) Genome sequence of an industrial microorganism Streptomyces avermitilis: deducing the ability of producing secondary metabolites. Proc Natl Acad Sci USA 98:12215–12220. https://doi.org/10.1073/pnas.211433198
Palazzini JM, Dunlap CA, Bowman MJ, Chulze SN (2016) Bacillus velezensis RC 218 as a biocontrol agent to reduce Fusarium head blight and deoxynivalenol accumulation: Genome sequencing and secondary metabolite cluster profiles. Microbiol Res 192:30–36. https://doi.org/10.1016/j.micres.2016.06.002
Pandin C, Coq DL, Deschamps J, Védie R, Rousseau T, Aymerich S, Briandet R (2018) Complete genome sequence of Bacillus velezensis QST713: a biocontrol agent that protects Agaricus bisporus crops against the green mould disease. J Biotechnol 278:10–19. https://doi.org/10.1016/j.jbiotec.2018.04.014
Peypoux F, Bonmatin JM, Wallach J (1999) Recent trends in the biochemistry of surfactin. Appl Microbiol Biotechnol 51:553–563. https://doi.org/10.1007/s002530051432
Rampelotto PH (2010) Resistance of microorganisms to extreme environmental conditions and its contribution to astrobiology. Sustain Basel 2:1602–1623. https://doi.org/10.3390/su2061602
Renna MC, Najimudin N, Winik LR, Zahler SA (1993) Regulation of the Bacillus subtilis alsS, alsD, and alsR genes involved in post-exponential-phase production of acetoin. J Bacteriol 175:3863–3875. https://doi.org/10.1128/jb.175.12.3863-3875.1993
Rückert C, Blom J, Chen X, Reva O, Borriss R (2011) Genome sequence of B amyloliquefaciens type strain DSM7T reveals differences to plant-associated B amyloliquefaciens FZB42. J Biotechnol 155:78–85. https://doi.org/10.1016/j.jbiotec.2011.01.006(Epub 2011 Jan 22)
Sang YK, Sang YL, Weon HY, Sang MK, Song J (2017) Complete genome sequence of Bacillus velezensis M75, a biocontrol agent against fungal plant pathogens, isolated from cotton waste. J Biotechnol 241:112–115. https://doi.org/10.1016/j.jbiotec.2016.11.023
Santner A, Calderon-Villalobos L, Estelle M (2009) Plant hormones are versatile chemical regulators of plant growth. Nat Chem Biol 5:301–307. https://doi.org/10.1038/nchembio.165
Shah VK, Brill WJ (1977) Isolation of an iron-molybdenum cofactor from nitrogenase. P Natl Acad Sci USA 74:3249–3253. https://doi.org/10.2307/66916
Shao J, Li S, Zhang N, Cui X, Zhou X, Zhang G, Shen Q, Zhang R (2015) Analysis and cloning of the synthetic pathway of the phytohormone indole-3-acetic acid in the plant-beneficial Bacillus amyloliquefaciens SQR9. Microb Cell Fact 14:130. https://doi.org/10.1186/s12934-015-0323-4
Sigler WV, Turco RF (2002) The impact of chlorothalonil application on soil bacterial and fungal populations as assessed by denaturing gradient gel electrophoresis. Appl Soil Ecol 21:107–118. https://doi.org/10.1016/S0929-1393(02)00088-4
Stanke M, Diekhans M, Baertsch R, Haussler D (2008) Using native and syntenically mapped cDNA alignments to improve de novo gene finding. Bioinformatics 24:637–644. https://doi.org/10.1093/bioinformatics/btn013
Stöver AG, Driks A (1999) Secretion, localization, and antibacterial activity of TasA, a Bacillus subtilis spore-associated protein. J Bacteriol 181:1664–1672
Sun P, Cui J, Jia X, Wang W (2017) Isolation and Characterization of Bacillus Amyloliquefaciens L-1 for Biocontrol of Pear Ring Rot. Hortic Plant J 3:10–16. https://doi.org/10.1016/j.hpj.2017.10.004
Tamura K, Stecher G, Peterson D, Filipski A, Kumar S (2013) MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30:2725–2729. https://doi.org/10.1093/molbev/mst197
Tatusov RL, Galperin MY, Natale DA, Koonin EV (2000) The COG database: a tool for genome-scale analysis of protein functions and evolution. Nucleic Acids Res 28:33–36. https://doi.org/10.1093/nar/28.1.33
Tatusova T, Dicuccio M, Badretdin A, Chetvernin V, Nawrocki EP, Zaslavsky L, Lomsadze A, Pruitt KD, Borodovsky M, Ostell J (2016) NCBI prokaryotic genome annotation pipeline. Nucleic Acids Res 44:6614–6624. https://doi.org/10.1093/nar/gwk569
Vanittanakom N, Loeffler W, Koch U, Jung G (1986) Fengycin–a novel antifungal lipopeptide antibiotic produced by Bacillus subtilis F-29-3. J Antibiot 39:888. https://doi.org/10.7164/antibiotics.39.888
Velusamy P, Gnanamanickam SS (2008) The effect of bacterial secondary metabolites on bacterial and fungal pathogens of rice. Second Metab Soil Ecol. https://doi.org/10.1007/978-3-540-74543-3_5
Virginie M, Masaya F, Jensen ST, Patrick E, González-Pastor JE, Liu JS, Richard L (2010) The Spo0A regulon of Bacillus subtilis. Mol Microbiol 50:1683–1701. https://doi.org/10.1046/j.1365-2958.2003.03818.x
Vollenbroich D, Pauli G, Ozel M, Vater J (1997) Antimycoplasma properties and application in cell culture of surfactin, a lipopeptide antibiotic from Bacillus subtilis. Appl Environ Microbiol 63:44–49. https://doi.org/10.1007/s11136-005-4325-2
Wang LT, Lee FL, Tai CJ, Kuo HP (2008) Bacillus velezensis is a later heterotypic synonym of Bacillus amyloliquefaciens. Int J Syst Evol Microbiol 58:671–675. https://doi.org/10.1099/ijs.0.65191-0
Wu L, Wu HJ, Qiao J, Gao X, Borriss R (2015) Novel Routes for Improving Biocontrol Activity of Bacillus Based Bioinoculants. Front Microbiol 6:1395. https://doi.org/10.3389/fmicb.2015.01395
Yu SBC, Wang L, Hou Y, Mo X, Fu Z, Xia L (2007) Study on Fermentation Medium of Bacillus thuringiensis. Life Sci Res. https://doi.org/10.16605/j.cnki.1007-7847.2007.04.007
Zhang Y, Fan Q, Loria R (2016) A re-evaluation of the taxonomy of phytopathogenic genera Dickeya and Pectobacterium using whole-genome sequencing data. Sys Appl Microbiol 39:252–259. https://doi.org/10.1016/j.syapm.2016.04.001
Zimmerman SB, Schwartz CD, Monaghan RL, Pelak BA, Weissberger B, Gilfillan EC, Mochales S, Hernandez S, Currie SA, Tejera E (1987) Difficidin and oxydifficidin: novel broad spectrum antibacterial antibiotics produced by Bacillus subtilis I Production, taxonomy and antibacterial activity. J Antibiol 40:1692–1697. https://doi.org/10.7164/antibiotics.40.1677
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This work was performed with the support of the National Key Research & Development (R&D) plan (2016YFD0201000); the Science and Technology Innovation Program, Chinese Academy of Agricultural Sciences (CAAS-ASTIP-IVFCAAS); the Key Laboratory of Horticultural Crops Genetic Improvement, Ministry of Agriculture in China (IVF2019ZF01); and the Modern Agro-industry Technology Research System (CARS-25).
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SX, XWX, LL, and BJL conceived and designed the experiments. SX, XWX, YRZ, and LL performed the experiments and analyzed the data. SX, LL, and BJL wrote the manuscript. YXS and ALC revised manuscript. All authors have read and approved the final version of the manuscript.
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The complete genome sequence of Bacillus velezensis ZF2 has been deposited in NCBI under the GenBank accession number CP032154.1. The strain has also been deposited in the China General Microbiological Culture Collection Center (CGMCC) for Type Culture Collection under the accession number 16013.The complete genome sequence of Bacillus velezensis ZF2 has been deposited in NCBI under the GenBank accession number CP032154.1. The strain has also been deposited in the China General Microbiological Culture Collection Center (CGMCC) for Type Culture Collection under the accession number 16013.
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Xu, S., Xie, X., Zhao, Y. et al. Whole-genome analysis of bacillus velezensis ZF2, a biocontrol agent that protects cucumis sativus against corynespora leaf spot diseases. 3 Biotech 10, 186 (2020). https://doi.org/10.1007/s13205-020-2165-y
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DOI: https://doi.org/10.1007/s13205-020-2165-y