Skip to main content
SpringerLink
Log in

Bacillus filamentosus sp. nov., isolated from sediment sample

Antonie van Leeuwenhoek volume 107, pages 433–441 (2015)Cite this article

Abstract

A novel Gram-stain positive, endospore-forming bacterium, designated SGD-14T, was isolated from a marine sediment sample in Goa Province, India. Cells of the isolate were found to be strictly aerobic. Phylogenetic analysis based on 16S rRNA gene sequences indicated that strain SGD-14T showed a similarity of 99.5 % with Bacillus endophyticus and similarities to other Bacillus type strains were below 96 %. The whole-cell sugar pattern was found to consist of ribose, xylose and glucose. The predominant menaquinone was identified as MK-7 and the major fatty acids as anteiso-C15:0, iso-C15:0, iso-C16:0, anteiso-C17:0, C16:0 and iso-C14:0. The strain was found to grow optimally at 30 °C and pH 7.0–7.5. DNA G + C content was determined to be 39.6 mol%. The phospholipid pattern was found to consist of diphosphatidylglycerol, phosphatidylglycerol and phosphatidylethanolamine. DNA–DNA hybridization studies between strain SGD-14T and B. endophyticus CIP106778T showed that strain SGD-14T exhibited <70 % similarity with B. endophyticus CIP106778T. Differences in phenotypic and chemotaxonomic characteristics between the novel strain and B. endophyticus CIP106778T further confirmed that this isolate represents novel species. Phylogenetic analysis showed that strain SGD-14T fits in the same clade with B. endophyticus with 100 % bootstrap values. Strain SGD-14T is therefore considered to represent a novel species of the genus Bacillus, for which the name Bacillus filamentosus sp. nov. is proposed. The type strain of Bacillus filamentosus is SGD-14T = (=NCIM 5491T = DSM 27955T).

This is a preview of subscription content, access via your institution.

Access options

Buy single article

Instant access to the full article PDF.

USD 39.95

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Fig. 1
Fig. 2

References

  • Ash C, Priest FG, Collins MD (1993) Molecular identification of rRNA group 3 bacilli (Ash, Farrow, Wallbanks, and Collins) using a PCR probe test. Proposal for the creation of a new genus Paenibacillus. Antonie Van Leeuwenhoek 64:253–260

    Article  CAS  PubMed  Google Scholar 

  • Bischoff KM, Rooney AP, Li XL, Liu S, Hughes SR (2006) Purification and characterization of a family 5 endoglucanase from a moderately thermophilic strain of Bacillus licheniformis. Biotechnol Lett 28:1761–1765

    Article  CAS  PubMed  Google Scholar 

  • Claus D, Berkeley RCW (1986) Genus Bacillus. In: Sneath PH, Mair N, Sharpe ME, Holt JG (eds) Bergey’s manual of systematic bacteriology. Williams & Wilkins, Baltimore, pp 1105–1139

    Google Scholar 

  • De Ley J, Cattoir H, Reynaerts A (1970) The quantitative measurement of DNA hybridization from renaturation rates. Eur J Biochem 12:133–142

    Article  PubMed  Google Scholar 

  • Felsenstein J (1981) Evolutionary trees from DNA sequences: a maximum likelihood approach. J Mol Evol 17:368–376

    Article  CAS  PubMed  Google Scholar 

  • Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–789

    Article  Google Scholar 

  • Fitch WM (1971) Towards defining the course of evolution: minimum change for a specific tree topology. Syst Zool 20:406–416

    Article  Google Scholar 

  • Gillis M, De Ley J, De Cleene M (1970) The determination of molecular weight of bacterial genome DNA from renaturation rates. Eur J Biochem 12:143–153

    Article  CAS  PubMed  Google Scholar 

  • Gonzalez JM, Saiz-Jimenez C (2002) A fluorimetric method for the estimation of G + C mol% content in microorganisms by thermal denaturation temperature. Environ Microbiol 4(11):770–773

    Article  CAS  PubMed  Google Scholar 

  • Gonzalez JM, Saiz-Jimenez C (2005) A simple fluorimetric method for the estimation of DNA–DNA relatedness between closely related microorganisms by thermal denaturation temperatures. Extremophiles 9(1):75–79

    Article  CAS  PubMed  Google Scholar 

  • Heyndrickx M, Lebbe L, Vancanneyt M, Kersters K, De Vos P, Logan NA, Forsyth G, Nazli S, Ali N, Berkeley RCW (1997) A polyphasic reassessment of the genus Aneurinibacillus, reclassification of Bacillus thermoaerophilus (Meier-Stauffer,1996) as Aneurinibacillus thermoaerophilus comb. nov., and emended descriptions of A. aneurinilyticus corrig., A. migulanus, and A. thermoaerophilus. Int J Syst Bacteriol 47:808–817

    Article  Google Scholar 

  • Hou CT, Labeda DP, Rooney AP (2005) Evaluation of microbial strains for linoleic acid hydroxylation and reclassification of strain ALA2. Antonie Van Leeuwenhoek 88:167–171

    Article  CAS  PubMed  Google Scholar 

  • Huss VAR, Festl H, Schleifer KH (1983) Studies on the spectrophotometric determination of DNA hybridization from renaturation rates. Syst Appl Microbiol 4:184–192

    Article  CAS  PubMed  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

    Article  CAS  PubMed  Google Scholar 

  • Kroppenstedt RM (1982) Separation of bacterial menaquinones by HPLC using reverse phase (RP-18) and a silver-loaded ion exchanger. J Liq Chromatogr 5:2359–2367

    Article  CAS  Google Scholar 

  • 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

    Article  PubMed  Google Scholar 

  • Lim J-M, Jeon CK, Lee JR, Park D-J, Kim C-J (2007) Bacillus kribbensis sp. nov., isolated from a soil sample in Jeju, Korea. Int J Syst Evol Microbiol 57:2912–2916

    Article  CAS  PubMed  Google Scholar 

  • Logan NA, Lebbe L, Verhelst A, Goris J, Forsyth G, Rodríguez-Díaz M, Heyndrickx M, Vos PD (2004) Bacillus shackletonii sp. nov., from volcanic soil on Candlemas Island, South Sandwich archipelago. Int J Syst Evol Microbiol 54:373–376

    Article  CAS  PubMed  Google Scholar 

  • Logan NA, Berge O, Bishop AH, Busse H-J, De Vos P, Fritze D, Heyndrickx M, Kämpfer P, Rabinovitch L, Salkinoja-Salonen MS, Seldin L, Ventosa A (2009) Proposed minimal standards for describing new taxa of aerobic, endospore-forming bacteria. Int J Syst Evol Microbiol 59:2114–2121

    Article  CAS  PubMed  Google Scholar 

  • Loveland-Curtze J, Miteva VI, Brenchley JE (2011) Evaluation of a new fluorimetric DNA–DNA hybridization method. Can J Microbiol 57:250–255

    Article  CAS  PubMed  Google Scholar 

  • Marmur J (1961) A procedure for the isolation of deoxyribonucleic acid from microorganisms. J Mol Biol 3:208–218

    Article  CAS  Google Scholar 

  • Marmur J, Doty P (1962) Determination of the base composition of deoxyribonucleic acid from its thermal denaturation temperature. J Mol Biol 5:109–118

    Article  CAS  PubMed  Google Scholar 

  • Minnikin DE, O’Donnell AG, Goodfellow M, Alderson G, Athalye M, Schaal K, Parlett JH (1984) An integrated procedure for the extraction of bacterial isoprenoid quinones and polar lipids. J Microbiol Methods 2:233–241

    Article  CAS  Google Scholar 

  • Nazina TN, Tourova TP, Poltaraus AB, Novikova EV, Grigoryan AA, Ivanova AE, Lysenko AM, Petrunyaka VV, Osipov GA, Belyaev SS, Ivanov MV (2001) Taxonomic study of aerobic thermophilic bacilli: descriptions of Geobacillus subterraneus gen. nov., sp. nov. and Geobacillus uzenensis sp. nov. from petroleum reservoirs and transfer of Bacillus stearothermophilus, Bacillus thermocatenulatus, Bacillus thermoleovorans, Bacillus kaustophilus, Bacillus thermoglucosidasius and Bacillus thermodenitrificans to Geobacillus as the new combinations G. stearothermophilus, G. thermocatenulatus, G. thermoleovorans, G. kaustophilus, G. thermoglucosidasius and G. thermodenitrificans. Int J Syst Evol Microbiol 51:433–446

    CAS  PubMed  Google Scholar 

  • Price NPJ, Rooney AP, Swezey JL, Perry E, Cohan FM (2007) Mass spectroscopic analysis of lipopeptide for Bacillus strains isolated from diverse geographical locations. FEMS Microbiol Lett 271:83–89

    Article  CAS  PubMed  Google Scholar 

  • Ruiz-García C, Béjar V, Martínez-Checa F, Llamas I, Quesada E (2005a) Bacillus velezensis sp. nov., a surfactant-producing bacterium isolated from the river Velez in Malaga, southern Spain. Int J Syst Evol Microbiol 55:191–195

    Article  PubMed  Google Scholar 

  • Ruiz-García C, Quesada E, Martínez-Checa F, Llamas I, Urdaci MC, Béjar V (2005b) Bacillus axarquiensis sp. nov. and Bacillus malacitensis sp. nov., isolated from river-mouth sediments in southern Spain. Int J Syst Evol Microbiol 55:1279–1285

    Article  PubMed  Google Scholar 

  • Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425

    CAS  PubMed  Google Scholar 

  • Sasser M (1990) Identification of bacteria by gas chromatography of cellular fatty acids. USFCC News Lett 20:1–6

    Google Scholar 

  • Shida O, Takagi H, Kadowaki K, Komagata K (1996) Proposal of two new genera, Brevibacillus gen. nov. and Aneurinibacillus gen. nov. Int J Syst Bacteriol 46:939–946

    Article  CAS  PubMed  Google Scholar 

  • Staneck JL, Roberts GD (1974) Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. Appl Microbiol 28:226–231

    CAS  PubMed Central  PubMed  Google Scholar 

  • Tamura K, Stecher G, Peterson D, Filipski A, Kumar S (2013) MEGA 6: molecular evolutionary genetics analysis 6.0. Mol Biol Evolution 30:2725–2729

    Article  CAS  Google Scholar 

  • Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG (1997) The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25:4876–4882

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Venkateswaran K, Kempf M, Chen F, Satomi M, Nicholson W, Kern R (2003) Bacillus nealsonii sp. nov., isolated from a space craft assembly facility, whose spores are c-radiation resistant. Int J Syst Evol Microbiol 53:165–172

    Article  CAS  PubMed  Google Scholar 

  • Wainø M, Tindall BJ, Schumann P, Ingvorsen K (1999) Gracilibacillus gen. nov., with description of Gracilibacillus halotolerans gen. nov., sp. nov.; transfer of Bacillus dipsosauri to Gracilibacillus dipsosauri comb. nov., and Bacillus salexigens to the genus Salibacillus gen. nov., as Salibacillus salexigens comb. nov. Int J Syst Bacteriol 49:821–831

    Article  PubMed  Google Scholar 

  • Wayne LG, Brenner DJ, Colwell RR et al (1987) International Committee on Systematic Bacteriology. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37:463–464

    Article  Google Scholar 

  • Wisotzkey JD, Jurtshuk P Jr, Fox GE, Deinhard G, Poralla K (1992) Comparative sequence analysis on the 16S rRNA (rDNA) of Bacillus acidocaldarius, Bacillus acidoterrestris, and Bacillus cycloheptanicus and proposal for creation of a new genus, Alicyclobacillus gen. nov. Int J Syst Bacteriol 42:263–269

    Article  CAS  PubMed  Google Scholar 

  • Yoon JH, Weiss N, Lee KC, Lee IS, Kang KH, Park YH (2001) Jeotgalibacillus alimentarius gen. nov., sp. nov., a novel bacterium isolated from jeotgal with l-lysine in the cell wall, and reclassification of Bacillus marinus Ruger 1983 as Marinibacillus marinus gen nov., comb. nov. Int J Syst Evol Microbiol 51:2087–2093

    Article  CAS  PubMed  Google Scholar 

Download references

Acknowledgments

Author SGD thanks to the Council for Scientific and Industrial Research (CSIR), New Delhi for financial supported from the grants under 12th five year plan. Author SGD acknowledged the kind support from The Collection of Institute Pasteur (CIP) for providing the type strain B. endophyticus CIP106778T.

Author information

Authors and Affiliations

  1. CSIR-National Chemical Laboratory, NCIM-Resource Center, Pune, 411008, Maharashtra, India

    Vidya V. Sonalkar, Rahul Mawlankar & Syed G. Dastager

  2. Microbial Culture Collection (MCC), National Centre for Cell Science, Pune, 411007, Maharashtra, India

    V. Venkata Ramana, Neetha Joseph & Yogesh S. Shouche

Authors
  1. Vidya V. Sonalkar
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Rahul Mawlankar
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. V. Venkata Ramana
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Neetha Joseph
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. Yogesh S. Shouche
    View author publications

    You can also search for this author in PubMed Google Scholar

  6. Syed G. Dastager
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Syed G. Dastager.

Electronic supplementary material

Below is the link to the electronic supplementary material.

Supplementary material 1 (DOC 352 kb)

Rights and permissions

Reprints and Permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Sonalkar, V.V., Mawlankar, R., Venkata Ramana, V. et al. Bacillus filamentosus sp. nov., isolated from sediment sample. Antonie van Leeuwenhoek 107, 433–441 (2015). https://doi.org/10.1007/s10482-014-0341-y

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s10482-014-0341-y

Keywords

search

Navigation