Flaviflagellibacter deserti gen. nov., sp. nov., a novel member of the order Rhizobiales isolated from a desert soil

  • Lei Dong
  • Ming-Xian Han
  • Dong Wang
  • Feng Liu
  • Mipeshwaree Devi Asem
  • Jian-Yu Jiao
  • Min Xiao
  • Nimaichand SalamEmail author
  • Wen-Jun LiEmail author
Original Paper


A motile, rod-shaped and yellow coloured proteobacterium, designated strain SYSU D60017T, was isolated from a desert soil sample. The bacterium was found to be an obligately aerobic, mesophilic and neutrophilic chemo-heterotroph. Cells were observed to be Gram-stain negative, catalase positive and oxidase positive. The major cellular fatty acids were identified as C19:0ω8c cyclo and Summed Feature 8 (C18:1ω7c and/or C18:1ω6c). The main respiratory quinone identified was ubiquinone-10. The DNA G + C content was determined to be 63.8% based on draft genome sequence data. The polar lipids detected were identified as diphosphatidylglycerol, phosphatidylcholine, phosphatidylethanolamine, phosphatidylglycerol and five unidentified polar lipids. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain SYSU D60017T is a member of the order Rhizobiales, but forms a distinct phylogenetic lineage. The differences in the phenotypic characteristics from members of related genera and its distinct phylogenetic position suggested that the isolate SYSU D60017T represents a novel species of a novel genus within the order Rhizobiales, for which the name Flaviflagellibacter deserti gen. nov., sp. nov. is proposed. The type strain of the new taxon is SYSU D60017T (= CGMCC 1.16444T = NBRC 112958T).


Flaviflagellibacter deserti gen. nov., sp. nov. Rhizobiales Desert sample 



This research was partly funded by the National Natural Science Foundation of China (Project No. 31850410475) and Natural Science Foundation of Guangdong Province, China (Project No. 2016A030312003). WJL is also supported by Guangdong Province Higher Vocational Colleges and Schools Pearl River Scholar Funded Scheme (2014).

Compliance with ethical standards

Conflict of interest

The authors declare that they have no conflict of interest.

Human and animal rights statement

This article does not contain any study with human participants or animals performed by any of the authors.

Supplementary material

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Supplementary material 1 (DOCX 2365 kb)


  1. Buck JD (1982) Nonstaining (KOH) method for determination of gram reactions of marine bacteria. Appl Environ Microbiol 44:992–993PubMedCentralGoogle Scholar
  2. Chu JN, Arun AB, Chen WM, Chou JH, Shen FT, Rekha PD, Kämpfer P, Young LS, Lin SY, Young CC (2010) Agaricicola taiwanensis gen. nov., sp. nov., an alphaproteobacterium isolated from the edible mushroom Agaricus blazei. Int J Syst Evol Microbiol 60:2032–2035. CrossRefGoogle Scholar
  3. Collins MD, Jones D (1980) Lipids in the classification and identification of coryneform bacteria containing peptidoglycans based on 2,4-diaminobutyric acid. J Appl Bacteriol 48:459–470. CrossRefGoogle Scholar
  4. Collins MD, Pirouz T, Goodfellow M, Minnikin DE (1977) Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 100:221–230CrossRefGoogle Scholar
  5. Doronina NV, Trotsenko YA (2015) Incertae sedis IV. Methylopila. In: Whitman WB, Rainey F, Kämpfer P, Trujillo M, Chun J, DeVos P, Hedlund B, Dedysh S (eds) Bergey’s manual of systematics of archaea and bacteria. Wiley, Hoboken. Google Scholar
  6. Felsenstein J (1981) Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376. CrossRefGoogle Scholar
  7. Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791. CrossRefGoogle Scholar
  8. Gonzalez C, Gutierrez C, Ramirez C (1978) Halobacterium vallismortis sp. nov., an amylolytic and carbohydrate-metabolizing, extremely halophilic bacterium. Can J Microbiol 24:710–715CrossRefGoogle Scholar
  9. Harrison PG, Strulo B (2000) SPADES—a process algebra for discrete event simulation. J Logic Comput 10:3–42. CrossRefGoogle Scholar
  10. 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. CrossRefGoogle Scholar
  11. Ivanova E, Doronina N, Trotsenko Y (2007) Hansschlegelia plantiphila gen. nov. sp. nov., a new aerobic restricted facultative methylotrophic bacterium associated with plants. Syst Appl Microbiol 30:444–452. CrossRefGoogle Scholar
  12. Kim D, Kang K, Ahn TY (2017) Chthonobacter albigriseus gen. nov., sp. nov., isolated from grass-field soil. Int J Syst Evol Microbiol 67:883–888. CrossRefGoogle Scholar
  13. Kovacs N (1956) Identification of Pseudomonas pyocyanea by the oxidase reaction. Nature 178:703–704. CrossRefGoogle Scholar
  14. Leifson E (1960) Atlas of bacterial flagellation. Academic Press, New YorkCrossRefGoogle Scholar
  15. Li WJ, Xu P, Schumann P, Zhang YQ, Pukall R, Xu LH, Stackebrandt E, Jiang CL (2007) Georgenia ruanii sp. nov., a novel actinobacterium isolated from forest soil in Yunnan (China), and emended description of the genus Georgenia. Int J Syst Evol Microbiol 57:1424–1428. CrossRefGoogle Scholar
  16. Lv H, Masuda S, Fujitani Y, Sahin N, Tani A (2017) Oharaeibacter diazotrophicus gen. nov., sp. nov., a diazotrophic and facultatively methylotrophic bacterium, isolated from rice rhizosphere. Int J Syst Evol Microbiol 67:576–582. CrossRefGoogle Scholar
  17. Minnikin DE, Collins MD, Goodfellow M (1979) Fatty acid and polar lipid composition in the classification of Cellulomonas, Oerskovia and related taxa. J Appl Bacteriol 47:87–95. CrossRefGoogle Scholar
  18. Nie GX, Ming H, Li S, Zhou E-M, Cheng J, Tang X, Feng HG, Tang SK, Li WJ (2012) Amycolatopsis dongchuanensis sp. nov., an actinobacterium isolated from soil. Int J Syst Evol Microbiol 62:2650–2656. CrossRefGoogle Scholar
  19. Rosselló-Móra R, Trujillo ME, Sutcliffe IC (2017) Introducing a digital protologue: a timely move towards a database-driven systematics of archaea and bacteria. Antonie Van Leeuwenhoek 110:455–456. CrossRefGoogle Scholar
  20. Rzhetsky A, Nei M (1992) A simple method for estimating and testing minimum evolution trees. Mol Biol Evol 9:945–967Google Scholar
  21. Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425Google Scholar
  22. Sasser M (2001) Identification of bacteria by gas chromatography of cellular fatty acids. Accessed 4 May 2016
  23. Shirling EB, Gottlieb D (1966) Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16:313–340. CrossRefGoogle Scholar
  24. Tamaoka J, Katayama-Fujimura Y, Kuraishi H (1983) Analysis of bacterial menaquinone mixtures by high performance liquid chromatography. J Appl Bacteriol 54:31–36. CrossRefGoogle Scholar
  25. Tamura K, Stecher G, Peterson D, Filipski A, Kumar S (2013) MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30:2725–2729CrossRefPubMedCentralGoogle Scholar
  26. Tindall BJ, Sikorski J, Smibert RA, Krieg NR (2007) Phenotypic characterization and the principles of comparative systematics. In: Reddy CA, Beveridge TJ, Breznak JA, Marzluf GA, Schmidt TM, Snyder LR (eds) Methods for general and molecular microbiology, 3rd edn. American Society of Microbiology, Washington, DC, pp 330–393. Google Scholar
  27. Tindall BJ, Rosselló-Móra R, Busse H-J, Ludwig W, Kämpfer P (2010) Notes on the characterization of prokaryote strains for taxonomic purposes. Int J Syst Evol Microbiol 60:249–266. CrossRefGoogle Scholar
  28. Webb HK, Ng HJ, Ivanova EP (2014) The family Methylocystaceae. In: Rosenberg E, DeLong EF, Lory S, Stackebrandt E, Thompson F (eds) The prokaryotes: alphaproteobacteria and betaproteobacteria. Springer, Berlin, pp 341–347. CrossRefGoogle Scholar
  29. Wen Y, Huang X, Zhou Y, Hong Q, Li S (2011) Hansschlegelia zhihuaiae sp. nov., isolated from a polluted farmland soil. Int J Syst Evol Microbiol 61:1114–1117. CrossRefGoogle Scholar
  30. Yang LQ, Liu L, Salam N, Xiao M, Kim C-J, Hozzein WN, Park DJ, Li WJ, Zhang HW (2016) Chenggangzhangella methanolivorans gen. nov., sp. nov., a member of the family Methylocystaceae, transfer of Methylopila helvetica Doronina et al. 2000 to Albibacter helveticus comb. nov and emended description of the genus Albibacter. Int J Syst Evol Microbiol 66:2825–2830. CrossRefGoogle Scholar
  31. 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. CrossRefPubMedCentralGoogle Scholar
  32. Zou X-L, Li X-A, Wang X-M, Chen Q, Gao M, Qiu T-L, Sun J-G, Gao J-L (2013) Hansschlegelia beijingensis sp. nov., an aerobic, pink-pigmented, facultatively methylotrophic bacterium isolated from watermelon rhizosphere soil. Int J Syst Evol Microbiol 63:3715–3719. CrossRefGoogle Scholar

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© Springer Nature Switzerland AG 2019

Authors and Affiliations

  1. 1.State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant ResourcesSun Yat-Sen UniversityGuangzhouPeople’s Republic of China
  2. 2.State Key Laboratory of Biogeology and Environmental GeologyChina University of GeosciencesWuhanPeople’s Republic of China
  3. 3.College of Life Science and TechnologyHonghe UniversityMengziPeople’s Republic of China
  4. 4.Key Laboratory of Biogeography and Bioresource in Arid Land, Xinjiang Institute of Ecology and GeographyChinese Academy of SciencesŰrűmqiPeople’s Republic of China

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