Subtercola vilae sp. nov., a novel actinobacterium from an extremely high-altitude cold volcano lake in Chile

Antonie van Leeuwenhoek, International Journal of General and Molecular Microbiology

Volumn 111, Issue 6, 2018, Pages 955-963

  Villalobos, Alvaro S ^a   Wiese, Jutta ^a   Aguilar, Pablo ^b,c   Dorador, Cristina ^b   Imhoff, Johannes F ^a  

^a GEOMAR HELMHOLTZ CENTRE FOR OCEAN RESEARCH KIEL   (Germany)

^b UNIVERSIDAD DE ANTOFAGASTA   (Chile)

^c UNIVERSITY OF INNSBRUCK   (Austria)

Author keywords

Cold environments; Llullaillaco volcano; Microbacteriaceae; New species; Subtercola vilae

Indexed keywords

2,4 DIAMINOBUTYRIC ACID; AMINO ACID; CARDIOLIPIN; FATTY ACID; GLYCOLIPID; PEPTIDOGLYCAN; PHOSPHATIDYLGLYCEROL; PHOSPHOLIPID; QUINONE DERIVATIVE; RNA 16S;

ALTITUDE; ARTICLE; BACTERIAL GENOME; BACTERIAL GROWTH; BACTERIAL STRAIN; BACTERIUM IDENTIFICATION; BACTERIUM ISOLATION; CHEMOTAXONOMY; CHILE; COLD; CONTROLLED STUDY; CROSS LINKING; DNA CONTENT; GENE SEQUENCE; GRAM POSITIVE BACTERIUM; LAKE; MICROBACTERIACEAE; MICROBIAL MORPHOLOGY; NONHUMAN; PHENOTYPE; PHYLOGENY; PRIORITY JOURNAL; SUBTERCOLA BOREUS; SUBTERCOLA FRIGORAMANS; SUBTERCOLA LOBARIAE; SUBTERCOLA VILAE; VOLCANO; ACTINOMYCETALES; DNA SEQUENCE; GENETICS; PHYSIOLOGY; PROCEDURES;

ACTINOMYCETALES; ALTITUDE; CHILE; LAKES; PHYLOGENY; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA;

EID: 85037104508     PISSN: 00036072     EISSN: 15729699     Source Type: Journal    
DOI: 10.1007/s10482-017-0994-4     Document Type: Article

References (31)

1. Bankevich A, Nurk S, Antipov D et al (2012) SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing. J Comput Biol 19:455–477
2. Behrendt U, Ulrich A, Schumann P, Naumann D, Suzuki K (2002) Diversity of grass-associated Microbacteriaceae isolated from the phyllosphere and litter layer after mulching the sward; polyphasic characterization of Subtercola pratensis sp. nov., Curtobacterium herbarum sp. nov. and Plantibacter flavus gen. nov., sp. nov. Int J Syst Evol Microbiol 52:1441–1454
3. Bligh EG, Dyer WJ (1959) A rapid method of total lipid extraction and purification. Can J Biochem Physiol 37:911–917
4. Bolger AM, Lohse M, Usadel B (2014) Trimmomatic: a flexible trimmer for Illumina sequence data. Bioinformatics 30:2114–2120
5. Christner BC, Mosley-Thompson E, Thompson LG, Zagorodnov V, Reeve JN (2007) Isolation and identification of bacteria from ancient and modern ice core archives. In: Casassa G, Sepúlveda FV, Sinclair RM (eds) The Patagonian icefields: a unique natural laboratory for environmental and climate change studies. Springer, New York, pp 9–15
6. Evtushenko LI (2012) Family XI. Microbacteriaceae. In: Whitman W, Goodfellow M, Kämpfer P, Busse HJ, Trujillo M, Ludwig W, Suzuki KI, Parte A (eds) Bergey’s manual of systematic bacteriology, volume 5: the actinobacteria. Springer, Berlin, pp 807–994
7. Evtushenko LI, Dorofeeva LV, Dobrovolskaya TG et al (2001) Agreia bicolorata gen. nov., sp. nov., to accommodate actinobacteria isolated from narrow reed grass infected by the nematode Heteroanguina graminophila. Int J Syst Evol Microbiol 51:2073–2079
8. Gärtner A, Wiese J, Imhoff JF (2008) Amphritea atlantica gen. nov., sp. nov., a gammaproteobacterium from the Logatchev hydrothermal vent field. Int J Syst Evol Microbiol 58:34–39
9. Goodfellow M, Fiedler H-P (2010) A guide to successful bioprospecting: informed by actinobacterial systematics. Antonie Van Leeuwenhoek 98:119–142
10. Kim SJ, Lim JM, Ahn JH et al (2014) Description of Galbitalea soli gen. nov., sp. nov., and Frondihabitans sucicola sp. nov. Int J Syst Evol Microbiol 64:572–578
11. Kutzner HJ (1981) The family Streptomycetaceae. In: Starr MP, Stolp H, Trüper HG, Balows A, Schlegel HG (eds) The prokaryotes—a handbook on habitats, isolation and identification of bacteria. Springer, Berlin, pp 2028–2090
12. Kuykendall LD, Roy MA, O’Neill JJ, Devine TE (1988) Fatty acids, antibiotic resistance, and deoxyribonucleic acid homology groups of Bradyrhizobium japonicum. Int J Syst Bacteriol 38:358–361
13. Li HR, Yu Y, Luo W, Zeng YX (2010) Marisediminicola antarctica gen. nov., sp. nov., an actinobacterium isolated from the Antarctic. Int J Syst Evol Microbiol 60:2535–2539
14. Männistö MK, Schumann P, Rainey FA et al (2000) Subtercola boreus gen. nov., sp. nov. and Subtercola frigoramans sp. nov., two new psychrophilic actinobacteria isolated from boreal groundwater. Int J Syst Evol Microbiol 50:1731–1739
15. Miller LT (1982) Single derivatization method for routine analysis of bacterial whole-cell fatty acid methyl esters, including hydroxy acids. J Clin Microbiol 16:584–586
16. Peeters K, Ertz D, Willems A (2011) Culturable bacterial diversity at the Princess Elisabeth Station (Utsteinen, Sør Rondane Mountains, East Antarctica) harbours many new taxa. Syst Appl Microbiol 34:360–367
17. Pruesse E, Peplies J, Glöckner FO (2012) SINA: accurate high-throughput multiple sequence alignment of ribosomal RNA genes. Bioinformatics 28:1823–1829
18. Rosselló-Móra R, Trujillo ME, Sutcliffe IC (2017) Introducing a digital protologue: a timely move towards a database-driven systematics of archaea and bacteria. Syst Appl Microbiol 40:121–122
19. Saitou N, Nei M (1987) The neighbour-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425
20. Schaeffer AB, Fulton MD (1933) A simplified method of staining endospores. Science 77:194
21. Schleifer KH (1985) Analysis of the chemical composition and primary structure of murein. Methods Microbiol 18:123–156
22. Schumann P (2011) Peptidoglycan structure. Methods Microbiol 38:101–129
23. Schumann P, Behrendt U, Ulrich A, Suzuki KI et al (2003) Reclassification of Subtercola pratensis Behrendt et al. 2002 as Agreia pratensis comb. nov. Int J Syst Evol Microbiol 53:2041–2044
24. Si H, Shi F, Zhang L et al (2017) Subtercola lobariae sp. nov., an actinobacterium of the family Microbacteriaceae isolated from the lichen Lobaria retigera. Int J Syst Evol Microbiol 67:1516–1521
25. Singh P, Hanada Y, Singh SM, Tsuda S (2014) Antifreeze protein activity in Arctic cryoconite bacteria. FEMS Microbiol Lett 351:14–22
26. Tamura K, Stecher G, Peterson D et al (2013) MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30:2725–2729
27. Tindall BJ (1990a) Lipid composition of Halobacterium lacusprofundi. FEMS Microbiol Lett 66:199–202
28. Tindall BJ (1990b) A comparative study of the lipid composition of Halobacterium saccharovorum from various sources. Syst Appl Microbiol 13:128–130
29. Tindall BJ, Sikorski J, Smibert RA, Krieg NR (2007) Chapter 15: phenotypic characterization and the principles of comparative systematics. In: Reddy C, Beveridge T, Breznak J, Marzluf G, Schmidt T, Snyder L (eds) Methods for general and molecular microbiology, 3rd edn. ASM Press, Washington, DC, pp 330–393
30. Zhang L, Xu Z, Patel BKC (2007) Frondicola australicus gen. nov., sp. nov., isolated from decaying leaf litter from a pine forest. Int J Syst Evol Microbiol 57:1177–1182
31. Zhang DC, Brouchkov A, Griva G, Schinner F, Margesin R (2013) Isolation and characterization of bacteria from ancient Siberian permafrost sediment. Biology 2:85–106