Abstract
Gram-stain-positive, aerobic, non-spore-forming strains CCNWLXL 1-35T, CCNWLXL 12-2 and CCNWLXL 21-a, were isolated from wheat rhizosphere from Yangling, Shaanxi Province, China. Comparison of the 16S rRNA gene sequences showed that they belonged to the genus Arthrobacter and were closely related to Arthrobacter globiformis NBRC 12137T (97.95% similarity). Genomic relatedness analyses based on the average nucleotide identity and the genome-to-genome distance showed these strains constituted a single species. The major fatty acids was anteiso-C15:0. The polar lipids consist of diphosphatidylglycerol, phsophatidylethanolamine, phosphatidylglycerol, phosphatidylinositol and glycolipid. The predominant menaquinone was MK-9. The peptidoglycan type was A4α. Thus, these strains were classified as representing a novel species in the genus Arthrobacter, for which the name Arthrobacter rhizosphaerae sp. nov. is proposed. The type strain is CCNWLXL 1-35T (=JCM 34638T, =CCTCC AB 2021087T) and additional strains are CCNWLXL 12–2 (=JCM 35018, =CCTCC AB 2021546), CCNWLXL 21-a (=JCM 35019, =CCTCC AB 2021545).
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References
Busse HJ (2016) Review of the taxonomy of the genus Arthrobacter, emendation of the genus Arthrobacter sensu lato, proposal to reclassify selected species of the genus Arthrobacter in the novel genera Glutamicibacter gen. nov., Paeniglutamicibacter gen. nov., Pseudoglutamicibacter gen. nov., Paenarthrobacter gen. nov. And Pseudarthrobacter gen. nov., and emended description of Arthrobacter roseus. Int J Syst Evol Microbiol 66:9–37. https://doi.org/10.1099/ijsem.0.000702
Conn HJ, Dimmick I (1947) Soil bacteria similar in morphology to Mycobacterium and Corynebacterium. J Bacteriol 54:291–303. https://doi.org/10.1128/jb.54.3.291-303.1947
Conn HJ, Bartholomew JW, Jennison MW (1957) Staining methods society of American bacteriologists. Manual of microbial methods. McGraw-Hill, New York, pp 30–36
Felsenstein J (1981) Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376. https://doi.org/10.1007/bf01734359
Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791. https://doi.org/10.1111/j.1558-5646.1985.tb00420.x
Isoprenoid quinone analyses in bacterial classification and identification (1984). In: Goodfellow M, Minnikin DE (eds) Chemical methods in bacterial systematics. Academic Press, London, pp 267–284. https://doi.org/10.2323/jgam.30.197
Koch C, Schumann P, Stackebrandt E (1995) Reclassification of Micrococcus agilis (Ali-Cohen 1889) to the genus Arthrobacter as Arthrobacter agilis comb. nov. and emendation of the genus Arthrobacter. Int J Syst Bacteriol 45:837–839. https://doi.org/10.1099/00207713-45-4-837
Kumar S, Stecher G, Li M, Knyaz C, Tamura K (2018) MEGA X: molecular evolutionary genetics analysis across computing platforms. Mol Biol Evol 35:1547–1549. https://doi.org/10.1093/molbev/msy096
Lane DJ (1991) 16S/23S rRNA sequencing. In: Stackebrandt E, Goodfellow M (eds) Nucleic acid techniques in bacterial systematics. Wiley, Hoboken. https://doi.org/10.1016/j.ijfoodmicro.2020.108818
Lin P, Yan ZF, Li CT (2020) Arthrobacter sedimenti sp. nov., isolated from river sediment in Yuantouzhu park China. Arch Microbiol 202:2551–2556. https://doi.org/10.1007/s00203-020-01968-y
Meier-Kolthoff JP, Auch AF, Klenk HP, Göker M (2013) Genome sequence-based species delimitation with confidence intervals and improved distance functions. BMC Bioinform 60:14–60. https://doi.org/10.1186/1471-2105-14-60
Minnikin DE, O’Donnell AG, Goodfellow M, Alderson G, Athalye M, Schaal A, Parlett JH (1984) An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 2:233–241. https://doi.org/10.1016/0167-7012(84)90018-6
Richter M, Rosselló-Móra R (2009) Shifting the genomic gold standard or the prokaryotic species definition. Proc Natl Acad Sci USA 106:19126–19131. https://doi.org/10.1073/pnas.0906412106
Richter M, Rosselló-Móra R, Oliver Glöckner F, Peplies J (2016) JSpeciesWS: a web server for prokaryotic species circumscription based on pairwise genome comparison. Bioinformatics 32:929–931. https://doi.org/10.1093/bioinformatics/btv681
Saitou N, Nei M (1987) The neighbor-joining method: a new method forrecon structing phylogenetic trees. Mol Biol Evol 4:406–425. https://doi.org/10.1093/oxfordjournals.molbev.a040454
Schleifer KH, Kandler O (1972) Peptidoglycan types of bacterial cell walls and their taxonomic implications. Bacteriol Rev 36:407–477. https://doi.org/10.1128/br.36.4.407-477.1972
Schumann P (2011) Peptidoglycan structure. Methods Microbiol 38:101–129. https://doi.org/10.1016/B978-0-12-387730-7.00005-X
Smibert RM, Krieg NR (1994) Phenotypic characterization. In: Gerhardt P, Murray RGE, Wood WA, Krieg NR (eds) Methods for general and molecular bacteriology. American Society for Microbiology, Washington, DC, pp 607–654. https://doi.org/10.1002/food.19960400226
Xiang W, Liu C, Wang X, Du J, Xi L, Huang Y (2011) Actinoalloteichus nanshanensis sp. nov., isolated from the rhizosphere of a fig tree (Ficus religiosa). Int J Syst Evol Microbiol 61:1165–1169. https://doi.org/10.1099/ijs.0.023283-0
Yan R, Fu YS, Liu DL, Jiang SW, Ju HX, Guo XH, Guo XW, Wang XJ, Zhang J, Xiang WS (2018) Arthrobacter silvisoli sp. nov., isolated from forest soil. Int J Syst Evol Microbiol 68:3892–3896. https://doi.org/10.1099/ijsem.0.003085
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 67:1613–1617. https://doi.org/10.1099/ijsem.0.001755
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This work was supported by the National Key Research & Development Program of China (2018YFD0200404, 2016YFD0200308).
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PS and GW: designed the experiments with equal contribution. XL and SL: performed most of the experiments, including morphology, physiology, and biochemical experiments. XL, YW and JL: analyzed the data. PX: isolated the strain from the wheat rhizosphere. XL: wrote the article with the help of other authors. All authors read and approved the final manuscript.
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Li, X., Li, S., Wu, Y. et al. Arthrobacter rhizosphaerae sp. nov., isolated from wheat rhizosphere. Arch Microbiol 204, 543 (2022). https://doi.org/10.1007/s00203-022-03150-y
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DOI: https://doi.org/10.1007/s00203-022-03150-y