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 phylogenomics

International Journal of Systematic and Evolutionary Microbiology

Volumn 66, Issue 3, 2016, Pages 1212-1217

  Dunlap, Christopher A ^a   Kim, Soo Jin ^a,b   Kwon, Soon Wo ^b   Rooney, Alejandro P ^a  

^a NATIONAL CENTER FOR AGRICULTURAL UTILIZATION RESEARCH   (United States)

^b National Institute of Agricultural Science   (South Korea)

Author keywords

[No Author keywords available]

Indexed keywords

RNA 16S;

ARTICLE; BACILLUS; BACILLUS AMYLOLIQUEFACIENS; BACILLUS AMYLOLIQUEFACIENS SUBSP. PLANTARUM; BACILLUS METHYLOTROPHICUS; BACILLUS ORYZICOLA; BACILLUS SIAMENSIS; BACILLUS SUBTILIS; BACILLUS VELEZENSIS; BACTERIAL GENOME; BACTERIAL STRAIN; BACTERIUM ISOLATION; CHEMOTAXONOMY; DNA BASE COMPOSITION; DNA DNA HYBRIDIZATION; GENOMICS; GENOTYPE; GREENHOUSE; MOLECULAR PHYLOGENY; NEXT GENERATION SEQUENCING; NONHUMAN; PHENOTYPE; PHYLOGENETIC TREE; PHYLOGENOMICS; PRIORITY JOURNAL; RICE; SINGLE NUCLEOTIDE POLYMORPHISM;

EID: 84962050686     PISSN: 14665026     EISSN: None     Source Type: Journal    
DOI: 10.1099/ijsem.0.000858     Document Type: Article

References (18)

1. Auch, A. F., von Jan, M., Klenk, H. P. & Goker, M. (2010). Digital DNA-DNA hybridization for microbial species delineation by means of genome-to-genome sequence comparison. Stand Genomic Sci 2, 117–134.
2. Borriss, R., Chen, X. H., Rueckert, C., Blom, J., Becker, A., Baumgarth, B., Fan, B., Pukall, R. & Schumann, P. & other authors (2011). Relationship of Bacillus amyloliquefaciens clades associated with strains DSM 7T and FZB42T: a proposal for Bacillus amyloliquefaciens subsp. amyloliquefaciens subsp. nov. and Bacillus amyloliquefaciens subsp. plantarum subsp. nov. based on complete genome sequence comparisons. Int J Syst Evol Microbiol 61, 1786–1801.
3. Chung, E. J., Hossain, M. T., Khan, A., Kim, K. H., Jeon, C. O. & Chung, Y. R. (2015). Bacillus oryzicola sp. nov., an endophytic bacterium isolated from the roots of rice with antimicrobial, plant growth promoting, and systemic resistance inducing activities in rice. Plant Pathol J 31, 152–164.
4. Dunlap, C. A. (2015). Phylogenomic analysis shows that ‘Bacillus vanillea’ is a later heterotypic synonym of Bacillus siamensis. Int J Syst Evol Microbiol 65, 3507–3510.
5. Dunlap, C. A., Kim, S.-J., Kwon, S.-W. & Rooney, A. P. (2015). Phylogenomic analysis shows that Bacillus amyloliquefaciens subsp. plantarum is a later heterotypic synonym of Bacillus methylotrophicus. Int J Syst Evol Microbiol 65, 2104–2109.
6. Goris, J., Konstantinidis, K. T., Klappenbach, J. A., Coenye, T., Vandamme, P. & Tiedje, J. M. (2007). DNA-DNA hybridization values and their relationship to whole-genome sequence similarities. In Int J Syst Evol Microbiol 57, 81–91.
7. Jeong, H., Park, S. H. & Choi, S. K. (2015). Genome sequence of antibiotic-producing Bacillus amyloliquefaciens strain KCTC 13012. Genome Announc 3, e01121–e01115.
8. Jolley, K. A. & Maiden, M. C. (2010). BIGSdb: Scalable analysis of bacterial genome variation at the population level. BMC Bioinformatics 11, 595.
9. Kim, O. S., Cho, Y. J., Lee, K., Yoon, S. H., Kim, M., Na, H., Park, S. C., Jeon, Y. S., Lee, J. H. & other authors (2012). Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 62, 716–721.
10. Ma, L., Cao, Y. H., Cheng, M. H., Huang, Y., Mo, M. H., Wang, Y., Yang, J. Z. & Yang, F. X. (2013). Phylogenetic diversity of bacterial endophytes of Panax notoginseng with antagonistic characteristics towards pathogens of root-rot disease complex. Antonie van Leeuwenhoek 103, 299–312.
11. Madhaiyan, M., Poonguzhali, S., Kwon, S. W. & Sa, T. M. (2010). Bacillus methylotrophicus sp. nov., a methanol-utilizing, plantgrowth-promoting bacterium isolated from rice rhizosphere soil. Int J Syst Evol Microbiol 60, 2490–2495.
12. Meier-Kolthoff, J. P., Auch, A. F., Klenk, H.-P. & Göker, M. (2013). Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinformatics 14, 60.
13. Meier-Kolthoff, J. P., Klenk, H.-P. & Göker, M. (2014). Taxonomic use of DNA G+C content and DNA-DNA hybridization in the genomic age. Int J Syst Evol Microbiol 64, 352–356.
14. Ruiz-García, C., Béjar, V., Martínez-Checa, F., Llamas, I. & Quesada, E. (2005). Bacillus velezensis sp. nov., a surfactantproducing bacterium isolated from the river Vélez in Málaga, southern Spain. Int J Syst Evol Microbiol 55, 191–195.
15. Tamura, K. & Nei, M. (1993). Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. In Mol Biol Evol 10, 512–526.
16. 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.
17. Wang, L. T., Lee, F. L., Tai, C. J. & Kuo, H. P. (2008). Bacillus velezensis is a later heterotypic synonym of Bacillus amyloliquefaciens. Int J Syst Evol Microbiol 58, 671–675.
18. Wayne, L. G., Brenner, D. J., Colwell, R. R., Grimont, P. A. D., Kandler, O., Krichevsky, M. I., Moore, L. H., Moore, W. E. C. & Murray, R. G. E. & other authors (1987). International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37, 463–464.