Proposal to Transfer to the Genus as comb. nov

Cohn F (1872) Untersuchungen über Bakterien. Beitr Biol Pflanzen 1:127–224. https://doi.org/10.1007/BF01928656

Article  Google Scholar 

Gupta RS, Patel S, Saini N, Chen S (2020) Robust demarcation of 17 distinct Bacillus species clades, proposed as novel Bacillaceae genera, by phylogenomics and comparative genomic analyses: description of Robertmurraya kyonggiensis sp. nov. and proposal for an emended genus Bacillus limiting it only to the members of the Subtilis and Cereus clades of species. Int J Syst Evol Microbiol 70(11):5753–5798. https://doi.org/10.1099/ijsem.0.004475

Article  CAS  PubMed  Google Scholar 

Parte AC, Sardà Carbasse J, Meier-Kolthoff JP, Reimer LC, Göker M (2020) List of prokaryotic names with standing in nomenclature (LPSN) moves to the DSMZ. Int J Syst Evol Microbiol 70(11):5607–5612. https://doi.org/10.1099/ijsem.0.004332

Article  PubMed  PubMed Central  Google Scholar 

Lim JM, Jeon CO, Lee JC, Ju YJ, Park DJ, Kim CJ (2006) Bacillus koreensis sp. nov., a spore-forming bacterium, isolated from the rhizosphere of willow roots in Korea. Int J Syst Evol Microbiol. https://doi.org/10.1099/ijs.0.63701-0

Article  PubMed  Google Scholar 

Oren A, Arahal DR, Göker M, Moore ERB, Rossello-Mora R, Sutcliffe IC (2023) International code of nomenclature of prokaryotes. Prokaryotic Code (2022 Revision). Int J Syst Evol Microbiol. https://doi.org/10.1099/ijsem.0.005585

Article  PubMed  Google Scholar 

Gupta RS (2023) Update on the genus Robertmurraya: a bacterial genus honoring Dr. Robert G.E. Murray (with some personal reminiscences). Can J Microbiol 69(10):387–392. https://doi.org/10.1139/cjm-2023-0070

Article  CAS  PubMed  Google Scholar 

Xu X, Yu L, Xu G, Wang Q, Wei S, Tang X (2020) Bacillus yapensis sp. nov., a novel piezotolerant bacterium isolated from deep-sea sediment of the Yap Trench, Pacific Ocean. Antonie van Leeuwenhoek 113(3):389–396. https://doi.org/10.1007/s10482-019-01348-7

Article  CAS  PubMed  Google Scholar 

Oren A, Göker M (2025) Validation List no. 221: valid publication of new names and new combinations effectively published outside the IJSEM. IJSEM Int J Syst Evol Microbiol. https://doi.org/10.1099/ijsem.0.006562

Article  PubMed  Google Scholar 

Parks DH, Imelfort M, Skennerton CT, Hugenholtz P, Tyson GW (2015) CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes. Genome Res 25(7):1043–1055. https://doi.org/10.1101/gr.186072.114

Article  CAS  PubMed  PubMed Central  Google Scholar 

Seemann T (2013) barrnap 0.9: rapid ribosomal RNA prediction. https://github.com/tseemann/barrnap

Yoon SH, Ha SM, Kwon S, Lim J, Kim Y, Seo H, Chun J (2017) Introducing EzBioCloud: a taxonomically united database of 16S rRNA gene sequences and whole-genome assemblies. Int J Syst Evol Microbiol 67(5):1613–1617. https://doi.org/10.1099/ijsem.0.001755

Article  CAS  PubMed  PubMed Central  Google Scholar 

Felsenstein J (1981) Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17(6):368–376. https://doi.org/10.1007/bf01734359

Article  CAS  PubMed  Google Scholar 

Kumar S, Stecher G, Tamura K (2016) MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 33(7):1870–1874. https://doi.org/10.1093/molbev/msw054

Article  CAS  PubMed  PubMed Central  Google Scholar 

Thompson JD, Higgins DG, Gibson TJ (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22(22):4673–4680. https://doi.org/10.1093/nar/22.22.4673

Article  CAS  PubMed  PubMed Central  Google Scholar 

Kimura M (1980) A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16(2):111–120. https://doi.org/10.1007/BF01731581

Article  CAS  PubMed  Google Scholar 

Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39(4):783–791. https://doi.org/10.1111/j.1558-5646.1985.tb00420.x

Article  PubMed  Google Scholar 

Eren AM, Esen ÖC, Quince C, Vineis JH, Morrison HG, Sogin ML, Delmont TO (2015) Anvi’o: an advanced analysis and visualization platform for ’omics data. PeerJ 3:e1319. https://doi.org/10.7717/peerj.1319

Article  PubMed  PubMed Central  Google Scholar 

Eren AM, Kiefl E, Shaiber A, Veseli I, Miller SE, Schechter MS, Fink I, Pan JN, Yousef M, Fogarty EC, Trigodet F, Watson AR, Esen ÖC, Moore RM, Clayssen Q, Lee MD, Kivenson V, Graham ED, Merrill BD, Karkman A, Blankenberg D, Eppley JM, Sjödin A, Scott JJ, Vázquez-Campos X, McKay LJ, McDaniel EA, Stevens SLR, Anderson RE, Fuessel J, Fernandez-Guerra A, Maignien L, Delmont TO, Willis AD (2021) Community-led, integrated, reproducible multi-omics with anvi’o. Nat Microbiol 6(1):3–6. https://doi.org/10.1038/s41564-020-00834-3

Article  CAS  PubMed  PubMed Central  Google Scholar 

Price MN, Dehal PS, Arkin AP (2010) FastTree 2–approximately maximum-likelihood trees for large alignments. PLoS ONE 5(3):e9490. https://doi.org/10.1371/journal.pone.0009490

Article  CAS  PubMed  PubMed Central  Google Scholar 

Hyatt D, Chen GL, Locascio PF, Land ML, Larimer FW, Hauser LJ (2010) Prodigal: prokaryotic gene recognition and translation initiation site identification. BMC Bioinform 11:119. https://doi.org/10.1186/1471-2105-11-119

Article  CAS  Google Scholar 

Eddy SR (2011) Accelerated profile HMM searches. PLoS Comput Biol 7(10):e1002195. https://doi.org/10.1371/journal.pcbi.1002195

Article  CAS  PubMed  PubMed Central  Google Scholar 

Lee MD (2019) GToTree: a user-friendly workflow for phylogenomics. Bioinformatics 35(20):4162–4164. https://doi.org/10.1093/bioinformatics/btz188

Article  CAS  PubMed  PubMed Central  Google Scholar 

Edgar RC (2004) MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32(5):1792–1797. https://doi.org/10.1093/nar/gkh340

Article  CAS  PubMed  PubMed Central  Google Scholar 

Pritchard L, Glover RH, Humphris S, Elphinstone JG, Toth IK (2016) Genomics and taxonomy in diagnostics for food security: soft-rotting enterobacterial plant pathogens. Anal Methods 8(1):12–24. https://doi.org/10.1039/C5AY02550H

Article  Google Scholar 

Konstantinidis KT, Rosselló-Móra R, Amann R (2017) Uncultivated microbes in need of their own taxonomy. ISME J 11(11):2399–2406. https://doi.org/10.1038/ismej.2017.113

Article  PubMed  PubMed Central  Google Scholar 

Richter M, Rosselló-Móra R (2009) Shifting the genomic gold standard for the prokaryotic species definition. Proc Natl Acad Sci USA 106(45):19126–19131. https://doi.org/10.1073/pnas.0906412106

Article  PubMed  PubMed Central  Google Scholar 

Goris J, Konstantinidis KT, Klappenbach JA, Coenye T, Vandamme P, Tiedje JM (2007) DNA-DNA hybridization values and their relationship to whole-genome sequence similarities. Int J Syst Evol Microbiol 57(Pt 1):81–91. https://doi.org/10.1099/ijs.0.64483-0

Article  CAS  PubMed  Google Scholar 

Comments (0)

No login
gif