Antonie van Leeuwenhoek

, Volume 103, Issue 4, pp 789–796 | Cite as

Exiguobacterium himgiriensis sp. nov. a novel member of the genus Exiguobacterium, isolated from the Indian Himalayas

  • Nitin Kumar Singh
  • Revti Raichand
  • Ishwinder Kaur
  • Chandandeep Kaur
  • Siddhika Pareek
  • Shanmugam MayilrajEmail author
Original Paper


The taxonomic position of an orange coloured bacterium, strain K22–26T isolated from a soil sample was studied using a polyphasic approach. The organism had phenotypic and chemotaxonomic properties consistent with its allocation into the genus Exiguobacterium. Phylogenetic analysis of the 16S rRNA gene sequence showed that strain K22–26T belongs to the genus Exiguobacterium and was related to Exiguobacterium aurantiacum DSM 6208T (99.0 %) Exiguobacterium mexicanum DSM 16483T (98.6 %), Exiguobacterium aquaticum (98.6 %), Exiguobacterium aestuarii DSM 16306T (98.1 %), Exiguobacterium profundum DSM 17289T (98.1 %) and Exiguobacterium marinum DSM 16483T (97.9 %), whereas sequence similarity values with respect to other Exiguobacterium species with validly published names were between 92.5–94.0 %. The major polar lipids detected were phosphatidylglycerol, diphosphatidylglycerol and phosphatidylethanolamine. The major menaquinone was determined to be MK-7 (83 %) whereas MK-8 (11 %) and MK-6 (6 %) occur in smaller amounts. The peptidoglycan of the strain was found to contain l-lysine as the diagnostic diamino acid. The major fatty acids detected were iso C13:0 (11.2 %), anteiso C13:0 (15.4 %), iso C15:0 (13.2 %) and iso C17:0 (16.1 %). However, analysis of the DNA–DNA relatedness confirmed that strain K22–26T belongs to a novel species. The G + C content of the strain K22–26T was determined to be 50.1 mol %. The novel strain was distinguished from closely related type species of the genus Exiguobacterium using DNA–DNA relatedness and phenotypic data. Based on these differences, the strain K22–26T should be classified as a novel species of the genus Exiguobacterium, for which the name Exiguobacterium himgiriensis sp. nov. strain K22–26T (= MTCC 7628T = JCM 14260T) is proposed.


16S rRNA gene sequence DNA–DNA hybridization Fatty acid 



We thank Mr. Malkit Singh for his excellent technical assistance. This work was supported by Council of Scientific and Industrial Research (CSIR-network project NWP-006) Government of India. This is IMTECH communication number 094/2011.

Supplementary material

10482_2012_9861_MOESM1_ESM.doc (1.4 mb)
Supplementary material 1 (DOC 1480 kb)


  1. Bligh EG, Dyer WJ (1959) A rapid method of total lipid extraction and purification. Can J Biochem Physiol 37:911–917PubMedCrossRefGoogle Scholar
  2. Chaturvedi P, Shivaji S (2006) Exiguobacterium indicum sp. nov. a psychrophilic bacterium from the Hamta glacier of the Himalayan mountain ranges of India. Int J Syst Evol Microbiol 56:2765–2770PubMedCrossRefGoogle Scholar
  3. Chaturvedi P, Prabahar V, Manorama R, Pindi PK, Bhadra B, Begum Z, Shivaji S (2008) Exiguobacterium soli sp. nov. a psychrophilic bacterium from the McMurdo dry valleys, Antarctica. Int J Syst Evol Microbiol 58:2447–2453PubMedCrossRefGoogle Scholar
  4. Collins MD, Jones D (1981) Distribution of isoprenoid quinone structural types in bacteria and their taxonomic implications. Microbiol Rev 45:316–354PubMedGoogle Scholar
  5. Collins MD, Lund BM, Farrow JAE, Schleifer KH (1983) Chemotaxonomic study of an alkalophilic bacterium Exiguobacterium aurantiacum gen. nov. sp. nov. J Gen Microbiol 129:2037–2042Google Scholar
  6. Cowan ST, Steel KJ (1965) Manual for the identification of medical bacteria. Cambridge University Press, LondonGoogle Scholar
  7. Crapart S, Fardeau ML, Cayol JL, Thomas P, Sery C, Ollivier B, Combet-Blanc Y (2007) Exiguobacterium profundum sp. nov. a moderately thermophilic, lactic acid-producing bacterium isolated from a deep-sea hydrothermal vent. Int J Syst Evol Microbiol 57:287–292PubMedCrossRefGoogle Scholar
  8. Farrow JAE, Wallbanks S, Collins MD (1994) Phylogenetic interrelationships of round-spore forming bacilli containing cell walls based on lysine and the non-spore-forming genera Caryophanon, Exiguobacterium, Kurthia and Planococcus. Int J Syst Bacteriol 44:74–82PubMedCrossRefGoogle Scholar
  9. Fruhling A, Schumann P, Hippe H, Straubler B, Stackebrandt E (2002) Exiguobacterium undae sp. nov. and E. antarcticum sp. nov. Int J Syst Evol Microbiol 52:1171–1176PubMedCrossRefGoogle Scholar
  10. Gee JM, Lund BM, Metcalf G, Peel JL (1980) Properties of a new group of alkalophilic bacteria. J Gen Microbiol 117:9–17Google Scholar
  11. Kim IJ, Lee MH, Jung SY, Song JJ, Oh TK, Yoon JH (2005) Exiguobacterium aestuarii sp. nov. and E. marinum sp. nov. isolated from tidal flat of the yellow sea in Korea. Int J Syst Evol Microbiol 55:885–889PubMedCrossRefGoogle Scholar
  12. Kim O, Cho YJ, Lee K, Yoon SH, Kim M, Na H, Park SC, Jeon YS, Lee JH, Yi H, Won S, Chun J (2012) Introducing EzTaxon-e: a prokaryotic 16S rRNA Gene sequence database with phylotypes that represent uncultured species. Int J Syst Evol Microbiol 62:716–721PubMedCrossRefGoogle Scholar
  13. Komagata K, Suzuki KI (1987) Lipid and cell wall analysis in bacterial systematics. Methods Microbiol 19:161–208CrossRefGoogle Scholar
  14. Lanyi B (1987) Classical and rapid identification methods for medically important bacteria. Methods Microbiol 19:1–67CrossRefGoogle Scholar
  15. Lopez-Cortes A, Schumann P, Pukall R, Stackebrandt E (2006) Exiguobacterium mexicanum sp. nov. and E. artemiae sp. nov. isolated from the brine shrimp artemia franciscana. Syst Appl Microbiol 29:183PubMedCrossRefGoogle Scholar
  16. Mandel M, Marmur J (1968) Use of ultraviolet absorbance temperature profile for determining the guanine plus cytosine content of DNA. Methods Enzymol 12B:195–206CrossRefGoogle Scholar
  17. Mayilraj S, Saha PK, Suresh K, Saini HS (2006) Ornithinimicrobium kibberensesp. nov. isolated from the Himalayas, India. Int J Syst Evol Microbiol 56:1657–1661PubMedCrossRefGoogle Scholar
  18. Murray RGE, Doetsch RN, Robinow F (1994) Determinative and cytological light microscopy. In: Gerhard P, Murray RGE, Wood WA, Krieg NR (eds) Methods for general and molecular bacteriology. American Society for Microbiology, Washington, pp 21–41Google Scholar
  19. Raichand R, Pareek S, Singh NK, Mayilraj S (2012) Exiguobacterium aquaticum sp. nov. a new member of the genus Exiguobacterium. Int J Syst Evol Microbiol 62:2150–2155PubMedCrossRefGoogle Scholar
  20. Rodrigues DF, Goris J, Vishnivetskaya T, Gilichinsky D, Thomashow MF, Tiedje JM (2006) Characterization of Exiguobacterium isolates from the siberian permafrost. Description of Exiguobacterium sibiricum sp. nov. Extremophiles 10:285–294PubMedCrossRefGoogle Scholar
  21. Sasser M (1990) Identification of bacteria by gas chromatography of cellular fatty acids.MIDI Technical note 101. Newark, DE: MIDI IncGoogle Scholar
  22. Schleifer KH (1985) Analysis of the chemical composition and primary structure of murein. Methods Microbiol 18:123–156CrossRefGoogle Scholar
  23. Schleifer KH, Kandler O (1972) Peptidoglycan types of bacterial cell walls and their taxonomic implications. Bacteriol Rev 36:407–477PubMedGoogle Scholar
  24. Smibert RM, Krieg NR (1994) Phenotypic characterization. In: Gerhardt P (ed) Methods for general and molecular bacteriology. American Society for Microbiology, Washington, pp 607–654Google Scholar
  25. Smith NR, Gordon RE, Clark FE (1952) Aerobic spore forming bacteria.US. Dep. Agric. Agriculture Monograph, no. 16Google Scholar
  26. Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S (2011) MEGA5: evolutionary genetics analysis using maximum likelihood, evolutionary distance maximum parsimony methods. Mol Biol Evol. doi: 28:2731-2739 Google Scholar
  27. Tourova TP, Antonov AS (1987) Identification of microorganisms by rapid DNA–DNA hybridization. Methods Microbiol 19:333–355CrossRefGoogle Scholar
  28. Wayne LG, Brenner DJ, Colwell RR, Grimont PAD, Kandler O, Krichevsky MI, Moore LH, Moore WEC, Murray RGE et al (1987) International committee on systematic bacteriology. Report of the adhoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37:463–464CrossRefGoogle Scholar
  29. Yumoto I, Hishinuma-Narisawa M, Hirota K, Shingyo T, Takebe F, Nodasaka Y, Matsuyama H, Hara I (2004) Exiguobacterium oxidotolerans sp. nov. a novel alkaliphile exhibiting high catalase activity. Int J Syst Evol Microbiol 54:2013–2017PubMedCrossRefGoogle Scholar

Copyright information

© Springer Science+Business Media Dordrecht 2012

Authors and Affiliations

  • Nitin Kumar Singh
    • 2
  • Revti Raichand
    • 2
  • Ishwinder Kaur
    • 2
  • Chandandeep Kaur
    • 2
  • Siddhika Pareek
    • 2
  • Shanmugam Mayilraj
    • 1
    Email author
  1. 1.Microbial Type Culture Collection & Gene Bank (MTCC), Institute of Microbial Technology (IMTECH)ChandigarhIndia
  2. 2.A Constituent Laboratory of Council of Scientific and Industrial Research (CSIR)ChandigarhIndia

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