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Saccharothrix ghardaiensis sp. nov., an actinobacterium isolated from Saharan soil

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Abstract

The taxonomic position of a new Saccharothrix strain, designated MB46T, isolated from a Saharan soil sample collected in Mzab region (Ghardaïa province, South Algeria) was established following a polyphasic approach. The novel microorganism has morphological and chemical characteristics typical of the members of the genus Saccharothrix and formed a phyletic line at the periphery of the Saccharothrix espanaensis subcluster in the 16S rRNA gene dendrograms. Results of the 16S rRNA gene sequence comparisons revealed that strain MB46T shares high degrees of similarity with S. espanaensis DSM 44229T (99.2%), Saccharothrix variisporea DSM 43911T (98.7%) and Saccharothrix texasensis NRRL B-16134T (98.6%). However, the new strain exhibited only 12.5–17.5% DNA relatedness to the neighbouring Saccharothrix spp. On the basis of phenotypic characteristics, 16S rRNA gene sequence comparisons and DNA-DNA hybridizations, strain MB46T is concluded to represent a novel species of the genus Saccharothrix, for which the name Saccharothrix ghardaiensis sp. nov. (type strain MB46T = DSM 46886T = CECT 9046T) is proposed.

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References

  • Aouiche A, Sabaou N, Meklat A, Zitouni A, Bijani C, Mathieu F, Lebrihi A (2012) Saccharothrix sp. PAL54, a new chloramphenicol-producing strain isolated from a Saharan soil. World J Microbiol Biotechnol 28:943–951

    Article  CAS  PubMed  Google Scholar 

  • Becker B, Lechevalier MP, Gordon RE, Lechevalier HA (1964) Rapid differentiation between Nocardia and Streptomyces by paper chromatography of whole-cell hydrolysates. Appl Microbiol 12:421–423

    CAS  PubMed  PubMed Central  Google Scholar 

  • Boubetra D, Zitouni A, Bouras N, Mathieu F, Lebrihi A, Schumann P, Spröer C, Klenk H-P, Sabaou N (2013a) Saccharothrix hoggarensis sp. nov., a novel actinomycete isolated from Saharan soil. Int J Syst Evol Microbiol 63:549–553

    Article  CAS  PubMed  Google Scholar 

  • Boubetra D, Zitouni A, Bouras N, Mathieu F, Lebrihi A, Schumann P, Spröer C, Klenk H-P, Sabaou N (2013b) Saccharothrix saharensis sp. nov., an actinomycete isolated from Algerian Saharan soil. Int J Syst Evol Microbiol 63:3744–3749

    Article  CAS  PubMed  Google Scholar 

  • Boubetra D, Zitouni A, Bouras N, Schumann P, Spröer C, Klenk H-P, Sabaou N (2015) Saccharothrix tamanrassetensis sp. nov., an actinomycete isolated from Saharan soil. Int J Syst Evol Microbiol 65:1316–1320

    Article  CAS  PubMed  Google Scholar 

  • Bouras N, Merrouche R, Lamari L, Mathieu F, Sabaou N, Lebrihi A (2008) Precursor-directed biosynthesis of new dithiolopyrrolone analogs by Saccharothrix algeriensis NRRL B-24137. Process Biochem 43:1244–1252

    Article  CAS  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 39:783–791

    Article  Google Scholar 

  • Fitch WM (1977) On the problem of discovering the most parsimonious tree. Am Nat 111:223–257

    Article  Google Scholar 

  • Goodfellow M (1971) Numerical taxonomy of some nocardioform bacteria. J Gen Microbiol 69:33–90

    Article  CAS  PubMed  Google Scholar 

  • Goodfellow M, Fiedler HP (2010) A guide to successful bioprospecting: informed by actinobacterial systematics. Antonie Van Leeuwenhoek 98:119–142

    Article  PubMed  Google Scholar 

  • Gordon RE, Barnett DA, Handerhan JE, Pang CHN (1974) Nocardia coeliaca, Nocardia autotrophica, and the nocardin strain. Int J Syst Bacteriol 24:54–63

    Article  Google Scholar 

  • Hayakawa M, Nonomura H (1987) Humic acid-vitamin agar, a new medium for the selective isolation of soil actinomycetes. J Ferment Technol 65:501–509

    Article  CAS  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 

  • Jones KL (1949) Fresh isolates of actinomycetes in which the presence of sporogenous aerial mycelia is a fluctuating characteristic. J Bacteriol 57:141–145

    CAS  PubMed  PubMed Central  Google Scholar 

  • Jukes TH, Cantor CR (1969) Evolution of protein molecules. In: Munro HN (ed) Mammalian protein metabolism, vol 3. Academic press, New York, pp 21–132

    Chapter  Google Scholar 

  • Kelly KL, Judd DB (1976) Color: universal language and dictionary of names (National Bureau of Standards special publication 440). US Department of Commerce, Washington

    Book  Google Scholar 

  • Kim OS, 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 62:716–721

    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 16:111–120

    Article  CAS  PubMed  Google Scholar 

  • Kovács N (1956) Identification of Pseudomonas pyocyanea by the oxidase reaction. Nature 178:703–704

    Article  PubMed  Google Scholar 

  • Kroppenstedt RM (1982) Separation of bacterial menaquinones by HPLC using reverse phase (RP18) and a silver loaded ion exchanger as stationary phases. J Liq Chromatogr 5:2359–2367

    Article  CAS  Google Scholar 

  • Kroppenstedt RM (1985) Fatty acid and menaquinone analysis of actinomycetes and related organisms. In: Goodfellow M, Minnikin DE (eds) Chemical methods in bacterial systematics. Academic Press, London, pp 173–179

    Google Scholar 

  • Labeda DP, Kroppenstedt RM (2000) Phylogenetic analysis of Saccharothrix and related taxa: proposal for Actinosynnemataceae fam. nov. Int J Syst Evol Microbiol 50:331–336

    Article  CAS  PubMed  Google Scholar 

  • Labeda DP, Lechevalier MP (1989) Amendment of the genus Saccharothrix Labeda et al. 1984 and descriptions of Saccharothrix espanaensis sp. nov., Saccharothrix cryophilis sp. nov., and Saccharothrix mutabilis comb. nov. Int J Syst Bacteriol 39:420–423

    Article  Google Scholar 

  • Labeda DP, Testa RT, Lechevalier MP, Lechevalier HA (1984) Saccharothrix: a new genus of the Actinomycetales related to Nocardiopsis. Int J Syst Bacteriol 34:426–431

    Article  Google Scholar 

  • Labeda DP, Goodfellow M, Chun J, Zhi XY, Li WJ (2011) Reassessment of the systematics of the suborder Pseudonocardineae: transfer of the genera within the family Actinosynnemataceae Labeda and Kroppenstedt 2000 emend. Zhi, 2009 into an emended family Pseudonocardiaceae Embley et al. 1989 emend. Zhi et al. 2009. Int J Syst Evol Microbiol 61:1259–1264

    Article  CAS  PubMed  Google Scholar 

  • Lechevalier MP, Lechevalier HA (1970) Chemical composition as a criterion in the classification of aerobic actinomycetes. Int J Syst Bacteriol 34:435–444

    Article  Google Scholar 

  • Lechevalier MP, de Bièvre C, Lechevalier HA (1977) Chemotaxonomy of aerobic actinomycetes: phospholipid composition. Biochem Syst Ecol 5:249–260

    Article  CAS  Google Scholar 

  • Mao J, Wang J, Dai HQ, Zhang ZD, Tang QY, Ren B, Yang N, Goodfellow M, Zhang LX, Liu ZH (2011) Yuhushiella deserti gen. nov., sp. nov., a new member of the suborder Pseudonocardineae. Int J Syst Evol Microbiol 61:621–630

    Article  CAS  PubMed  Google Scholar 

  • Marchal N, Bourdon JL, Richard CL (1987) Les milieux de culture pour l’isolement et l’identification biochimique des bactéries. Doin Press, Paris

    Google Scholar 

  • Minnikin DE, Patel PV, Alshamaony L, Goodfellow M (1977) Polar lipid composition in the classification of Nocardia and related bacteria. Int J Syst Bacteriol 27:104–107

    Article  CAS  Google Scholar 

  • Minnikin DE, Hutchinson IG, Caldicott AB, Goodfellow M (1980) Thin-layer chromatography of methanolysates of mycolic acid-containing bacteria. J Chromatogr 188:221–233

    Article  CAS  Google Scholar 

  • Minnikin DE, O’Donnell AG, Goodfellow M, Alderson G, Athalye M, Schaal A, 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 

  • Rainey FA, Ward-Rainey N, Kroppenstedt RM, Stackebrandt E (1996) The genus Nocardiopsis represents a phylogenetically coherent taxon and a distinct actinomycete lineage: proposal of Nocardiopsaceae fam. nov. Int J Syst Bacteriol 46:1088–1092

    Article  CAS  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. MIDI technical note 101. MIDI Inc, Newark

  • Shirling EB, Gottlieb D (1966) Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16:313–340

    Article  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  CAS  PubMed  PubMed Central  Google Scholar 

  • Thompson JD, Higgins DG, Gibson TJ (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22:4673–4680

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Wayne LG, Brenner DJ, Colwell RR, Grimont PAD, Kandler O, Krichevsky MI, Moore LH, Moore WEC, Murray RGE, Stackebrant E, Starr HG, Trüper G (1987) International committee on systematic bacteriology. Report of the adhoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37:463–464

    Article  Google Scholar 

  • Zitouni A, Lamari L, Boudjella H, Badji B, Sabaou N, Gaouar A, Mathieu F, Lebrihi A, Labeda DP (2004a) Saccharothrix algeriensis sp. nov., isolated from Saharan soil. Int J Syst Evol Microbiol 54:1377–1381

    Article  CAS  PubMed  Google Scholar 

  • Zitouni A, Mathieu F, Coppel Y, Pont F, Sabaou N, Lebrihi A (2004b) Mutactimycin PR, a new anthracycline antibiotic from Saccharothrix sp. SA 103. II. Physicochemical properties and structure elucidation. J Antibiot 57:373–378

    Article  CAS  PubMed  Google Scholar 

Download references

Acknowledgements

The authors would like to gratefully acknowledge the technical assistance of Bettina Sträubler (DSMZ) for her help in the genomic analysis.

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Authors and Affiliations

  1. Laboratoire de Biologie des Systèmes Microbiens (LBSM), Ecole Normale Supérieure de Kouba, Algiers, Algeria

    Khaoula Bouznada, Noureddine Bouras, Salim Mokrane, Fawzia Chaabane Chaouch, Abdelghani Zitouni & Nasserdine Sabaou

  2. Département de Biologie, Faculté des Sciences de la Nature et de la Vie et Sciences de la Terre, Université de Ghardaïa, BP 455, 47000, Ghardaïa, Algeria

    Noureddine Bouras

  3. DSMZ - German Collection of Microorganisms and Cell Cultures, Inhoffenstraße 7B, 38124, Brunswick, Germany

    Gabriele Pötter & Cathrin Spröer

  4. School of Biology, Newcastle University, Ridley Building, Newcastle upon Tyne, NE1 7RU, UK

    Hans-Peter Klenk

Authors
  1. Khaoula Bouznada
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  2. Noureddine Bouras
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  3. Salim Mokrane
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  4. Fawzia Chaabane Chaouch
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  5. Abdelghani Zitouni
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  6. Gabriele Pötter
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  7. Cathrin Spröer
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  8. Hans-Peter Klenk
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  9. Nasserdine Sabaou
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Correspondence to Hans-Peter Klenk or Nasserdine Sabaou.

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This article does not contain any studies with human participants and/or animals performed by any of the authors. The formal consent is not required in this study.

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Bouznada, K., Bouras, N., Mokrane, S. et al. Saccharothrix ghardaiensis sp. nov., an actinobacterium isolated from Saharan soil. Antonie van Leeuwenhoek 110, 399–405 (2017). https://doi.org/10.1007/s10482-016-0812-4

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  • DOI: https://doi.org/10.1007/s10482-016-0812-4

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