Skip to main content
SpringerLink
Log in

Natronorubrum texcoconense sp. nov., a haloalkaliphilic archaeon isolated from soil of the former lake Texcoco (Mexico)

  • Short Communication
  • Published:
Archives of Microbiology Aims and scope Submit manuscript

Abstract

A new haloalkaliphilic archaeon, strain B4T, was isolated from the former lake Texcoco in Mexico. The cells were Gram-negative, pleomorphic-shaped, pink to red pigmented and aerobic. Strain B4T required at least 2.5 M NaCl for growth, with optimum growth at 3.4 M NaCl. It was able to grow over a pH range of 7.5–10.0 and temperature of 25–50 °C, with optimal growth at pH 9 and 37 °C. Cells are lysed in hypotonic treatment with less than 1.3 M NaCl. The major polar lipids of strain B4T were phosphatidylglycerol and methyl-phosphatidylglycerophosphate. Phospholipids were detected, but not glycolipids. The nucleotide sequence of the 16S rRNA gene revealed that the strain B4T was phylogenetically related to members of the genus Natronorubrum. Sequence similarity with Natronorubrum tibetense was 96.28 %, with Natronorubrum sulfidifaciens 95.06 % and Natronorubrum sediminis 94.98 %. The G+C content of the DNA was 63.3 mol%. The name of Natronorubrum texcoconense sp. nov. is proposed. The type strain is B4T (=CECT 8067T = JCM 17497T).

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

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

Instant access to the full article PDF.

Institutional subscriptions

Fig. 1
Fig. 2
Fig. 3

References

  • Barrow GI, Feltham RKA (2004) Cowan and Steel’s manual for the identification of medical bacteria, 3rd edn. University Press, Cambridge

    Google Scholar 

  • Camacho C, Coulouris G, Avagyan V, Ma N, Papadopoulos J, Bealer K, Madden TL (2008) BLAST+: architecture and applications. BMC Bioinform 10:421

    Article  Google Scholar 

  • Cole JR, Chai B, Marsh TL, Farris RJ, Wang Q, Kulam SA, Chandra S, McGarrell DM, Schmidt TM, Garrity GM, Tiedje JM (2003) The Ribosomal Database Project (RDP-II): previewing a new autoaligner that allows regular updates and the new prokaryotic taxonomy. Nucleic Acids Res 31:442–443

    Article  PubMed  CAS  Google Scholar 

  • Cui HL, Tohty D, Feng J, Zhou PJ, Liu SJ (2006) Natronorubrum aibiense sp. nov., an extremely halophilic archaeon isolated from Aibi salt lake in Xin-Jiang, China, and emended description of the genus Natronorubrum. Int J Syst Evol Microbiol 56:1515–1517

    Article  PubMed  CAS  Google Scholar 

  • Cui HL, Tohty D, Liu HC, Liu SJ, Oren A, Zhou PJ (2007) Natronorubrum sulfidifaciens sp. nov., an extremely haloalkaliphilic archaeon isolated from aiding salt lake in Xin-Jiang, China. Int J Syst Evol Microbiol 57:738–740

    Article  PubMed  CAS  Google Scholar 

  • Dendooven L, Alcántara-Hernández RJ, Valenzuela-Encinas C, Luna-Guido M, Perez-Guevara F, Marsch R (2010) Dynamics of carbon and nitrogen in an ‘extreme’ alkaline saline soil: a review. Soil Biol Biochem 42:865–877

    Article  CAS  Google Scholar 

  • Gouy M, Guindon S, Gascuel O (2010) SeaView version 4: a multiplatform graphical user interface for sequence alignment and phylogenetic tree building. Mol Biol Evol 27:221–224

    Article  PubMed  CAS  Google Scholar 

  • Guindon S, Dufayard JF, Lefort V, Anisimova M, Hordijk W, Gascuel O (2010) New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0. Syst Biol 59:307–321

    Article  PubMed  CAS  Google Scholar 

  • Gutiérrez MC, Castillo AM, Corral P, Minegishi H, Ventosa A (2010) Natronorubrum sediminis sp. nov., an archaeon isolated from a saline lake. Int J Syst Evol Microbiol 60:1802–1806

    Article  PubMed  Google Scholar 

  • Larkin MA, Blackshields G, Brown NP, Chenna R, Mc Gettigan PA, Mc William H, Valentin F, Wallace IM, Wilm A, Lopez R, Thompson JD, Gibson TJ, Higgins DG (2007) ClustalW and ClustalX version 2.0. Bioinformatics 23:2947–2948

    Article  PubMed  CAS  Google Scholar 

  • Oren A (2002) Molecular ecology of extremely halophilic archaea and bacteria. FEMS Microbiol Ecol 39:1–7

    Article  PubMed  CAS  Google Scholar 

  • Oren A, Ventosa A, Grant WD (1997) Proposed minimal standards for description of new taxa in the order Halobacteriales. Int J Syst Bacteriol 47:233–238

    Article  Google Scholar 

  • Roh SW, Nam YD, Chang HW, Sung Y, Kim KH, Lee HJ, Oh HM, Bae JW (2007) Natronococcus jeotgali sp. nov., a halophilic archaeon isolated from shrimp jeotgal, a traditional fermented seafood from Korea. Int J Syst Evol Microbiol 57:2129–2131

    Article  PubMed  CAS  Google Scholar 

  • Stackebrandt E, Goebel BM (1994) Taxonomic note: a place for DNA–DNA reassociation and 16S rRNA sequence analysis in the present species definition in bacteriology. Int J Syst Bacteriol 44:846–849

    Article  CAS  Google Scholar 

  • Subba Rao NS (1999) Soil microbiology—fourth edition of soil microorganisms and plant growth. Science Publishers Inc., Enfield, New Hampshire

    Google Scholar 

  • Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S (2011) MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28:2731–2739

    Article  PubMed  CAS  Google Scholar 

  • Tavaré S (1986) Some probabilistic and statistical problems in the analysis of DNA sequences. In: Lectures in mathematics in the life sciences. American Mathematical Society Providence, vol 17, pp 57–86

  • Valenzuela-Encinas C, Neria-González I, Alcántara-Hernández RJ, Enríquez-Aragón JA, Estrada-Alvarado I, Hernández-Rodríguez C, Dendooven L, Marsch R (2008) Phylogenetic analysis of the archaeal community in an alkaline-saline soil of the former lake Texcoco (Mexico). Extremophiles 12:247–254

    Article  PubMed  CAS  Google Scholar 

  • Walsh DA, Bapteste E, Kamekura M, Doolittle WF (2004) Evolution of the RNA polymerase B′ subunit gene (rpoB′) in Halobacteriales: a complementary molecular marker to the SSU rRNA Gene. Mol Biol Evol 21:2340–2351

    Article  PubMed  CAS  Google Scholar 

  • Worley KC, Culpepper P, Wiese BA, Smith RF (1998) BEAUTY-X: enhanced BLAST searches for DNA queries. Bioinformatics 14:890–891

    Article  PubMed  CAS  Google Scholar 

  • Xu Y, Zhou P, Tian X (1999) Characterization of two novel haloalkaliphilic archaea Natronorubrum bangense gen. nov., sp. nov. and Natronorubrum tibetense gen. nov., sp. nov. Int J Syst Bacteriol 49:261–266

    Article  PubMed  CAS  Google Scholar 

Download references

Acknowledgments

This work was funded by the ‘Instituto de Ciencia y Tecnología del Distrito Federal’ project ICyTDF/295/2009. E.R.-R. received grant-aided support from ‘Consejo Nacional de Ciencia y Tecnología’ (CONACYT), while K.B. S.-L. from ‘Sistema Nacional de Investigadores (SNI). We thank Dr. Peter Schumann and Dr Brian Tindall for the DNA G+C content and polar lipid analysis at the DSMZ. And finally, we thank Sirenia Gonzalez Pozos for her technical assistance with the scanning electron microscopy and phase-contrast microscopy.

Author information

Authors and Affiliations

  1. Laboratory of Soil Ecology, Cinvestav, Mexico City, Mexico

    Erick Ruiz-Romero, César Valenzuela-Encinas, María Patricia López-Ramírez, María de los Angeles Coutiño-Coutiño, Rodolfo Marsch & Luc Dendooven

Authors
  1. Erick Ruiz-Romero
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. César Valenzuela-Encinas
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. María Patricia López-Ramírez
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. María de los Angeles Coutiño-Coutiño
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. Rodolfo Marsch
    View author publications

    You can also search for this author in PubMed Google Scholar

  6. Luc Dendooven
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Luc Dendooven.

Additional information

Communicated by Erko Stackebrandt.

The GenBank/EMBL/DDBJ accession number of the 16S rRNA gene sequence of strain B4T is HQ456225 and for the RNA polymerase B′ subunit gene JQ736672. Phase-contrast microscopy, thin-layer chromatogram of polar lipids and determination of GC content in DNA from strain B4T is available as supplementary material with the online version of this paper.

Electronic supplementary material

Below is the link to the electronic supplementary material.

203_2012_852_MOESM1_ESM.jpg

Fig. S1. Photomicrograph of strain B4T viewed by phase-contrast microscopy in a Zeiss Photo microscope (Carl Zeiss, Inc.,Wüerttenberg, West Germany) at 63 × , grown for 10 days at 37 °C (JPEG 5327 kb)

203_2012_852_MOESM2_ESM.jpg

Fig. S2. Thin-layer chromatography of polar lipids of strain B4T. PGP phosphatidylglycerol; PG methyl-phosphatidylglycerophosphate; PL1–PL3 phospholipids; GL1–GL3 glycolipids. Polar lipids analyses were carried out by the identification service of the DSMZ and Dr. B.T. Tindall, DSMZ, Braunschweig, Germany. Plates have been stained with 5 % molybdophosphoric acid to show all lipids (JPEG 60 kb)

Rights and permissions

Reprints and permissions

About this article

Cite this article

Ruiz-Romero, E., Valenzuela-Encinas, C., López-Ramírez, M.P. et al. Natronorubrum texcoconense sp. nov., a haloalkaliphilic archaeon isolated from soil of the former lake Texcoco (Mexico). Arch Microbiol 195, 145–151 (2013). https://doi.org/10.1007/s00203-012-0852-8

Download citation

  • Received:

  • Revised:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s00203-012-0852-8

Keywords

Search

Navigation