Skip to main content
SpringerLink
Log in

Nocardiopsis terrae sp. nov., a halophilic actinomycete isolated from saline soil

  • Original Paper
  • Published:
Antonie van Leeuwenhoek Aims and scope Submit manuscript

Abstract

A Gram-positive, moderately halophilic, facultatively alkaliphilic, catalase- and oxidase-positive, obligately aerobic, filamentous actinomycete strain, designated YIM 90022T, was isolated from saline soil collected from the Qaidam Basin, north-west China. Phylogenetic analysis based on 16S rRNA gene sequences indicated that the new isolate was a member of the genus Nocardiopsis and the sequence similarities between the isolate and the type strains of members of the genus Nocardiopsis were in the range of 95.1–98.7%. Phenotypic and chemotaxonomic properties of this organism also indicated that strain YIM 90022T was a member of the genus Nocardiopsis. The strain grew well on most of the media tested, producing yellow-white to deep brown substrate mycelium and white aerial mycelium. Light gray to deep brown diffusible pigments were produced. The substrate mycelium was well developed and fragmented with age; the aerial mycelium produced long, straight to flexuous spore chains with non-motile, smooth-surfaced, rod-shaped spores on them. The strain grew in the presence of 1–15% (w/v) total salts (optimum, 3–5%) and at pH 6.0–10.5 (optimum, pH 8.5) and 10–45°C (optimum, 30°C). Whole-cell hydrolysates of strain YIM 90022T contained meso-diaminopimelic acid and no diagnostic sugars. The predominant menaquinones were MK-10(H4), MK-9(H8), MK-10(H6) and MK-10(H8). Polar lipids comprised diphosphatidylglycerol, phosphatidylcholine, phosphatidylglycerol and phosphatidylmethylethanolamine. The major cellular fatty acids were iso-C16:0, anteiso-C17:0, 10-methyl-C18:0 and 10-methyl-C17:0. The DNA G + C content of strain YIM 90022T was 71.5 mol%. The combination of phylogenetic analysis, DNA–DNA relatedness data, phenotypic characteristics and chemotaxonomic data supported the suggestion that strain YIM 90022T represents a new species of the genus Nocardiopsis, for which the name Nocardiopsis terrae sp. nov. is proposed. The type strain is YIM 90022T (=CCTCC AA 208011T =KCTC 19431T).

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

Similar content being viewed by others

References

  • Al-Tai AM, Ruan JS (1994) Nocardiopsis halophila sp. nov., a new halophilic actinomycete isolated from soil. Int J Syst Bacteriol 44:474–478

    Article  Google Scholar 

  • Al-Zarban SS, Abbas I, Al-Musallam AA, Steiner U, Stackebrandt E, Kroppenstedt RM (2002) Nocardiopsis halotolerans sp. nov., isolated from salt marsh soil in Kuwait. Int J Syst Evol Microbiol 52:525–529

    PubMed  CAS  Google Scholar 

  • Atlas RM (1993) In: Parks LC (ed) Handbook of microbiological media. CRC Press, Boca Raton, FL, pp 542–544

  • Chen YG, Li WJ, Cui XL, Jiang CL, Xu LH, Zhang YQ, Wen ML (2006) Isolation and phylogenetic analysis of one actinomycete strain YIM 90022 exhibiting anticancer activity. Acta Microbiol Sin 46:696–701

    CAS  Google Scholar 

  • Chen YG, Jiang Y, Li WJ, Cui XL, Xu LH, Tang SK, Zhang YQ, Chen HH, Liu ZX (2007a) Micirobial diversity and screening of antitumor activity of actinomycete strains from saline and alkaline environments in the Qinghai Province, PR China. Acta Microbiol Sin 47:757–762

    CAS  Google Scholar 

  • Chen YG, Cui XL, Pukall R, Li HM, Yang YL, Xu LH, Wen ML, Peng Q, Jiang CL (2007b) Salinicoccus kunmingensis sp. nov., a moderately halophilic bacterium isolated from a salt mine in Yunnan, south-west China. Int J Syst Evol Microbiol 57:2327–2332

    Article  PubMed  CAS  Google Scholar 

  • Chen YG, Cui XL, Kroppenstedt RM, Stackebrandt E, Wen ML, Xu LH, Jiang CL (2008) Nocardiopsis quinghaiensis sp. nov., isolated from saline soil in China. Int J Syst Evol Microbiol 58:699–705

    Article  PubMed  CAS  Google Scholar 

  • Chen YG, Wang YX, Zhang YQ, Tang SK, Liu ZX, Xiao HD, Xu LH, Cui XL, Li WJ (2009) Nocardiopsis litoralis sp. nov., a halophilic marine actinomycete isolated from a sea anemone. Int J Syst Evol Microbiol 59:2708–2713

    Article  PubMed  CAS  Google Scholar 

  • Chun J, Bae KS, Moon EY, Jung SO, Lee HK, Kim SJ (2000) Nocardiopsis kunsanensis sp. nov., a moderately halophilic actinomycete isolated from a saltern. Int J Syst Evol Microbiol 50:1909–1913

    PubMed  CAS  Google Scholar 

  • Cui XL, Mao PH, Zeng M, Li WJ, Zhang LP, Xu LH, Jiang CL (2001) Streptomonospora salina gen. nov., sp. nov., a new member of the family Nocardiopsaceae. Int J Syst Evol Microbiol 51:357–363

    PubMed  CAS  Google Scholar 

  • Evtushenko LI, Taran VV, Akimov VN, Kroppenstedt RM, Tiedje JM, Stackebrandt E (2000) Nocardiopsis tropica sp. nov., Nocardiopsis trehalosi sp. nov., nom. rev. and Nocardiopsis dassonvillei subsp. albirubida subsp. nov., comb. nov. Int J Syst Evol Microbiol 50:73–81

    PubMed  CAS  Google Scholar 

  • Ezaki T, Hashimoto Y, Yabuuchi E (1989) 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 39:224–229

    Article  Google Scholar 

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

    Article  PubMed  CAS  Google Scholar 

  • Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783–791

    Article  Google Scholar 

  • Felsenstein J (2002) PHYLIP (phylogeny inference package), version 3.6a. Distributed by the auther. Department of Genome Sciences, University of Washington, Seattle, USA

    Google Scholar 

  • Grund E, Kroppenstedt RM (1990) Chemotaxonomy and numerical taxonomy of the genus Nocardiopsis Meyer 1976. Int J Syst Bacteriol 40:5–11

    Article  Google Scholar 

  • Hopwood DA, Bibb MJ, Chater KF, Kieser T, Bruton CJ, Kieser HM, Lydiate DJ, Smith CP, Ward JM (1985) Preparation of chromosomal, plasmid and phage DNA. In: Hopwood DA, Bibb MJ, Chater KF, Kieser T, Bruton CJ, Kieser HM, Lydiate DJ, Smith CP, Ward JM, Schrempf H (eds) Genetic manipulation of Streptomyces: a laboratory manual. F. Crowe and Sons, Norwich, pp 79–80

    Google Scholar 

  • Hozzein WN, Goodfellow M (2008) Nocardiopsis arabia sp. nov., a halotolerant actinomycete isolated from a sand-dune soil. Int J Syst Evol Microbiol 58:2520–2524

    Article  PubMed  CAS  Google Scholar 

  • Hozzein WN, Li WJ, Ali MIA, Hammouda O, Mousa AS, Xu LH, Jiang CL (2004) Nocardiopsis alkaliphila sp. nov., a novel alkaliphilic actinomycete isolated from desert soil in Egypt. Int J Syst Evol Microbiol 54:247–252

    Article  PubMed  CAS  Google Scholar 

  • Kämpfer P, Busse HJ, Rainey FA (2002) Nocardiopsis compostus sp. nov., from the atmosphere of a composting facility. Int J Syst Evol Microbiol 52:621–627

    PubMed  Google Scholar 

  • Kelly KL (1964) Inter-society color council-national bureau of standards color name charts illustrated with centroid colors. US Government Printing Office, Washington, DC

    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  PubMed  CAS  Google Scholar 

  • Kluge AG, Farris FS (1969) Quantitative phyletics and the evolution of anurans. Syst Zool 18:1–32

    Article  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 5:2359–2387

    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 (Society for Applied Bacteriology Technical Series vol. 20). Academic Press, New York, pp 173–179

    Google Scholar 

  • Kroppenstedt RM (1992) The genus Nocardiopsis. In: Balows A, Trüper HG, Dworkin M, Harder W, Schleifer KH (eds) The prokaryotes, 2nd edn. Springer, New York, pp 1139–1156

    Google Scholar 

  • Kroppenstedt RM, Evtushenko LI (2006) The family Nocardiopsaceae. In: Dworkin M, Falkow S, Rosenberg E, Schleifer KH, Stackebrandt E (eds) The prokaryotes: a handbook on the biology of bacteria, vol 3, 3rd edn. New York, Springer, pp 754–795

    Google Scholar 

  • Lechevalier MP, Lechevalier HA (1970) Chemical composition as a criterion in the classification of aerobic actinomycetes. Int J Syst Bacteriol 20:435–443

    Article  CAS  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 

  • Li MG, Li WJ, Xu P, Cui XL, Xu LH, Jiang CL (2003) Nocardiopsis xinjiangensis sp. nov., a halophilic actinomycete isolated from saline soil sample in China. Int J Syst Evol Microbiol 53:317–321

    Article  PubMed  CAS  Google Scholar 

  • Li WJ, Tang SK, Park DJ, Wang D, Lee JC, Xu LH, Kim CJ, Jiang CL (2004) Nocardiopsis salina sp. nov., a novel halophilic actinomycete isolated from saline soil in China. Int J Syst Evol Microbiol 54:1805–1809

    Article  PubMed  CAS  Google Scholar 

  • Li WJ, Kroppenstedt RM, Wang D, Tang SK, Lee JC, Park DJ, Kim CJ, Xu LH, Jiang CL (2006) Five novel species of the genus Nocardiopsis isolated from hypersaline soils and emended description of Nocardiopsis salina Li et al. 2004. Int J Syst Evol Microbiol 56:1089–1096

    Article  PubMed  CAS  Google Scholar 

  • Mesbah M, Premachandran U, Whitman WB (1989) Precise measurement of the G + C content of deoxyribonucleic acid by high-performance liquid chromatography. Int J Syst Bacteriol 39:159–167

    Article  CAS  Google Scholar 

  • Meyer J (1976) Nocardiopsis, a new genus of the order Actinomycetales. Int J Syst Bacteriol 26:487–493

    Article  Google Scholar 

  • Meyer J (1994) The Genus Nocardiopsis Meyer 1976. In: Holt JG, Krieg NR, Sneath PHA, Staley JT, Williams ST (eds) Bergey’s manual of determinative bacteriology, 9th edn. Williams and Wilkins, Baltimore, MD, pp 2562–2568

    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 

  • Miyashita M, Mikami Y, Arai T (1984) Alkalophilic actinomycete, Nocardiopsis dassonvillei subsp. prasina subsp. nov. isolated from soil. Int J Syst Bacteriol 34:405–409

    Article  Google Scholar 

  • Peltola JSP, Andersson MA, Kämpfer P, Auling G, Kroppenstedt RM, Busse HJ, Salkinoja-Salonen MS, Rainey FA (2001) Isolation of toxigenic Nocardiopsis strains from indoor environments and description of two new Nocardiopsis species, N. exhalans sp. nov. and N. umidischolae sp. nov. Appl Environ Microbiol 67:4293–4304

    Article  PubMed  CAS  Google Scholar 

  • Sabry SA, Ghanem NB, Abu-Ella GA, Schumann P, Stackebrandt E, Kroppenstedt RM (2004) Nocardiopsis aegyptia sp. nov., isolated from marine sediment. Int J Syst Evol Microbiol 54:453–456

    Article  PubMed  CAS  Google Scholar 

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

    PubMed  CAS  Google Scholar 

  • Sasser M (1990) Identification of bacteria by gas chromatography of cellular fatty acids. MIDI Technical Note 101. MIDI Inc, Newark, DE

    Google Scholar 

  • Schippers A, Bosecker K, Willscher S, Spröer C, Schumann P, Kroppenstedt RM (2002) Nocardiopsis metallicus sp. nov., a metal-leaching actinomycete isolated from an alkaline slag dump. Int J Syst Evol Microbiol 52:2291–2295

    Article  PubMed  CAS  Google Scholar 

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

    Article  Google Scholar 

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

    PubMed  CAS  Google Scholar 

  • Tamura K, Dudley J, Nei M, Kumar S (2007) MEGA4: molecular evolutionary genetic analysis (MEGA) software version 4.0. Mol Biol Evol 24:1596–1599

    Article  PubMed  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  PubMed  CAS  Google Scholar 

  • 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 ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37:463–464

    Article  Google Scholar 

  • Yang R, Zhang LP, Guo LG, Shi N, Lu Z, Zhang X (2008) Nocardiopsis valliformis sp. nov., an alkaliphilic actinomycete isolated from alkali lake soil in China. Int J Syst Evol Microbiol 58:1542–1546

    Article  PubMed  CAS  Google Scholar 

  • Yassin AF, Galinski EA, Wohlfarth A, Jahnke KD, Schaal KP, Trűper HG (1993) A new actinomycete species, Nocardiopsis lucentensis sp. nov. Int J Syst Bacteriol 43:266–271

    Article  Google Scholar 

  • Yassin AF, Rainey FA, Burghardt J, Gierth D, Ungerechts J, Lux I, Seifert P, Bal C, Schaal KP (1997) Description of Nocardiopsis synnemataformans sp. nov., elevation of Nocardiopsis alba subsp. prasina to Nocardiopsis prasina comb. nov., and designation of Nocardiopsis antarctica and Nocardiopsis alborubida as later subjective synonyms of Nocardiopsis dassonvillei. Int J Syst Bacteriol 47:983–988

    Article  PubMed  CAS  Google Scholar 

  • Yassin AF, Spröer C, Hupfer H, Siering C, Klenk HP (2009) Nocardiopsis potens sp. nov., isolated from household waste. Int J Syst Evol Microbiol 59:2729–2733

    Article  PubMed  CAS  Google Scholar 

  • Zhang X, Zhang LP, Yang R, Shi N, Lu Z, Chen WX, Jiang CL, Xu LH (2008) Nocardiopsis ganjiahuensis sp. nov., isolated from a soil from Ganjiahu, China. Int J Syst Evol Microbiol 58:195–199

    Article  PubMed  CAS  Google Scholar 

Download references

Acknowledgements

This work was supported by grants from the National Basic Research Program of China (2010CB833800), National Natural Science Foundation of China (NSFC) (30970007), Key Projects of International Cooperation (2007DFB31620) and Yunnan Provincial Natural Science Foundation (Nos. 2009AC017 and 2009DA002). We are grateful to Mr Yun Chen and Mr Ke Huang for their excellent technical assistance.

Author information

Authors and Affiliations

  1. The Key Laboratory for Microbial Resources of the Ministry of Education, Kunming, People’s Republic of China

    Yi-Guang Chen, Shu-Kun Tang, Li-Hua Xu & Wen-Jun Li

  2. Laboratory for Conservation and Utilization of Bio-Resources, Yunnan Institute of Microbiology, Yunnan University, 650091, Kunming, People’s Republic of China

    Yi-Guang Chen, Shu-Kun Tang, Li-Hua Xu & Wen-Jun Li

  3. College of Biology and Environmental Sciences, Jishou University, 416000, Jishou, People’s Republic of China

    Yi-Guang Chen & Zhu-Xiang Liu

  4. Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences and Peking Union Medical College, 100050, Beijing, People’s Republic of China

    Yu-Qin Zhang

  5. Guangdong Key Laboratory of Marine Materia Medica, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 510301, Guangzhou, People’s Republic of China

    Li-Xin Zhang & Wen-Jun Li

  6. Institute of Microbiology, Chinese Academy of Sciences, 100101, Beijing, People’s Republic of China

    Li-Xin Zhang

Authors
  1. Yi-Guang Chen
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Yu-Qin Zhang
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Shu-Kun Tang
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Zhu-Xiang Liu
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. Li-Hua Xu
    View author publications

    You can also search for this author in PubMed Google Scholar

  6. Li-Xin Zhang
    View author publications

    You can also search for this author in PubMed Google Scholar

  7. Wen-Jun Li
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding authors

Correspondence to Yi-Guang Chen or Wen-Jun Li.

Additional information

The GenBank/EMBL/DDBJ accession number for the 16S rRNA gene sequence of strain YIM 90022T is DQ387958.

Rights and permissions

Reprints and permissions

About this article

Cite this article

Chen, YG., Zhang, YQ., Tang, SK. et al. Nocardiopsis terrae sp. nov., a halophilic actinomycete isolated from saline soil. Antonie van Leeuwenhoek 98, 31–38 (2010). https://doi.org/10.1007/s10482-010-9425-5

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s10482-010-9425-5

Keywords

Search

Navigation