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- Volume 68, Issue 2
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f Ciceribacter azotifigens sp. nov., a nitrogen-fixing bacterium isolated from activated sludge
- Authors: Muhammad Zubair Siddiqi1,2 , Gyu-Min Choi1,2 , Wan-Taek Im1,2
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1 1Department of Biotechnology, Hankyong National University, 327 Chungang-no Anseong-si, Kyonggi-do 17579, Republic of Korea 2 2AceEMzyme Co., Ltd., Academic Industry Cooperation, 327 Chungang-no Anseong-si, Kyonggi-do 17579, Republic of Korea
- *Correspondence: Wan-Taek Im [email protected]
- First Published Online: 03 January 2018, International Journal of Systematic and Evolutionary Microbiology 68: 482-486, doi: 10.1099/ijsem.0.002438
- Subject: New Taxa - Proteobacteria
- Received:
- Accepted:
- Cover date:




Ciceribacter azotifigens sp. nov., a nitrogen-fixing bacterium isolated from activated sludge, Page 1 of 1
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A Gram-reaction-negative, catalase- and oxidase-positive, aerobic, transparent, motile and rod-shaped bacterium that was capable of fixing dinitrogen (designated strain A.slu09T), isolated from activated sludge, was characterized by a polyphasic approach to clarify its taxonomic position. Strain A.slu09T was observed to grow optimally at 30 °C and at pH 7.0 on R2A agar medium. Strain A.slu09T showed β-glucosidase activity, converting the major ginsenoside Rd to ginsenoside F2. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain A.slu09T belongs to the genus Ciceribacter of the family Rhizobiaceae and was most closely related to Ciceribacter lividus MSSRFBL1T (97.8 % similarity). The DNA G+C content was 67.2 mol%. The DNA–DNA hybridization value between strain A.slu09T and C. lividus KCTC 32403T was 16.9±1.17 %. The major polar lipids were phosphatidylcholine, phosphatidylglycerol, diphosphatidylglycerol, phosphatidylmethylethanolamine, phosphatidylethanolamine, aminophospholipid and two glycolipids, and one unknown phospholipid as a minor lipid. The predominant quinone was ubiquinone-10 (Q-10). The major fatty acids were C19 : 0 cyclo ω8c, C18 : 1 ω7c and/or C18 : 1ω6c (summed feature 8) and C18 : 0, a profile that supported the affiliation of A.slu09T to the genus Ciceribacter . Moreover, the physiological and biochemical characteristics and low level of DNA–DNA relatedness allowed the phenotypic and genotypic differentiation of strain A.slu09T from the recognized species of the genus Ciceribacter . Therefore, strain A.slu09T represents a novel species of the genus Ciceribacter , for which the name Ciceribacter azotifigens sp. nov. is proposed. The type strain is A.slu09T (=KACC 19080T=LMG 29962T).
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The GenBank/EMBL/DDBJ accession number for the 16S rRNA gene sequence of strain A.slu09T is KX510117.
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Six supplementary figures are available with the online version of this article.
- Keyword(s): ginsenosides, 16S rRNA gene sequence, bioconversion, polyphasic taxonomy, Ciceribacter azotifigens
© 2018 IUMS | Published by the Microbiology Society
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1. Kathiravan R, Jegan S, Ganga V, Prabavathy VR, Tushar L et al. Ciceribacter lividus gen. nov., sp. nov., isolated from rhizosphere soil of chick pea (Cicer arietinum L.). Int J Syst Evol Microbiol 2013; 63: 4484– 4488 [CrossRef] [PubMed]
-
2. Cavalcante VA, Dobereiner J. A new acid-tolerant nitrogen-fixing bacterium associated with sugarcane. Plant Soil 1988; 108: 23– 31 [CrossRef]
-
3. Lane DJ. 16S/23S rRNA sequencing. In Stackebrandt E, Goodfellow M. (editors) Nucleic Acid Techniques in Bacterial Systematics Chichester: Wiley; 1991; pp. 115– 176
-
4. Kim JK, Kang MS, Park SC, Kim KM, Choi K et al. Sphingosinicella ginsenosidimutans sp. nov., with ginsenoside converting activity. J Microbiol 2015; 53: 435– 441 [CrossRef] [PubMed]
-
5. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 1997; 25: 4876– 4882 [CrossRef] [PubMed]
-
6. Hall TA. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 1999; 41: 95– 98
-
7. Kimura M. The Neutral Theory of Molecular Evolution Cambridge: Cambridge University Press; 1983; [Crossref]
-
8. Saitou N, Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 1987; 4: 406– 425 [PubMed]
-
9. Fitch WM. Toward defining the course of evolution: minimum change for a specific tree topology. Syst Zool 1971; 20: 406– 416 [CrossRef]
-
10. Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 2013; 30: 2725– 2729 [CrossRef] [PubMed]
-
11. Felsenstein J. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 1985; 39: 783– 791 [CrossRef] [PubMed]
-
12. Martens M, Delaere M, Coopman R, de Vos P, Gillis M et al. Multilocus sequence analysis of Ensifer and related taxa. Int J Syst Evol Microbiol 2007; 57: 489– 503 [CrossRef] [PubMed]
-
13. Buck JD. Nonstaining (KOH) method for determination of gram reactions of marine bacteria. Appl Environ Microbiol 1982; 44: 992– 993 [PubMed]
-
14. Cowan ST, Steel KJ. Manual for the Identification of Medical Bacteria Cambridge: Cambridge University Press; 1974
-
15. Ten LN, Im WT, Kim MK, Kang MS, Lee ST. Development of a plate technique for screening of polysaccharide-degrading microorganisms by using a mixture of insoluble chromogenic substrates. J Microbiol Methods 2004; 56: 375– 382 [CrossRef] [PubMed]
-
16. Siddiqi MZ, Aslam Z, Im WT. Arachidicoccus ginsenosidivorans sp. nov., with ginsenoside-converting activity isolated from ginseng cultivating soil. Int J Syst Evol Microbiol 2017; 67: 1005– 1010 [CrossRef] [PubMed]
-
17. Berge O, Guinebretière MH, Achouak W, Normand P, Heulin T. Paenibacillus graminis sp. nov. and Paenibacillus odorifer sp. nov., isolated from plant roots, soil and food. Int J Syst Evol Microbiol 2002; 52: 607– 616 [CrossRef] [PubMed]
-
18. Moore DD, Dowhan D. Preparation and analysis of DNA. In Ausubel FW, Brent R, Kingston RE, Moore DD, Seidman JG et al. (editors) Current Protocols in Molecular Biology NY: Wiley; 1995; pp. 2– 11
-
19. Mesbah M, Premachandran U, Whitman WB. Precise measurement of the G+C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 1989; 39: 159– 167 [CrossRef]
-
20. Minnikin DE, O'Donnell AG, Goodfellow M, Alderson G, Athalye M et al. An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 1984; 2: 233– 241 [CrossRef]
-
21. Hiraishi A, Ueda Y, Ishihara J, Mori T. Comparative lipoquinone analysis of influent sewage and activated sludge by high-performance liquid chromatography and photodiode array detection. J Gen Appl Microbiol 1996; 42: 457– 469 [CrossRef]
-
22. Sasser M. Identification of bacteria through fatty acid analysis. In Klement Z, Rudolph K, Sands DC. (editors) Methods in Phytobacteriology Budapest: Akademiai Kaido; 1990; pp. 199– 204
-
23. Ezaki T, Hashimoto Y, Yabuuchi E. Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. Int J Syst Bacteriol 1989; 39: 224– 229 [CrossRef]
-
24. Goris J, Suzuki K-Ichiro, Vos PD, Nakase T, Kersters K. Evaluation of a microplate DNA-DNA hybridization method compared with the initial renaturation method. Can J Microbiol 1998; 44: 1148– 1153 [CrossRef]
-
25. Wayne LG, Brenner DJ, Colwell RR, Grimont PAD, Kandler O et al. International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 1987; 37: 463– 464 [Crossref]

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