Geodermatophilus africanus sp. nov., a halotolerant actinomycete isolated from Saharan desert sand

Antonie van Leeuwenhoek, International Journal of General and Molecular Microbiology

Volumn 104, Issue 2, 2013, Pages 207-216

  Montero Calasanz, María Del Carmen ^a,b   Göker, Markus ^a   Pötter, Gabriele ^a   Rohde, Manfred ^c   Spröer, Cathrin ^a   Schumann, Peter ^a   Gorbushina, Anna A ^d,e   Klenk, Hans Peter ^a  

^a LEIBNIZ INSTITUTE DSMZ GERMAN COLLECTION OF MICROORGANISMS AND CELL CULTURES   (Germany)

^b IFAPA CENTRO EL TORUÑO   (Spain)

^c HELMHOLTZ CENTRE FOR INFECTION RESEARCH   (Germany)

^d BAM FEDERAL INSTITUTE FOR MATERIALS RESEARCH AND TESTING   (Germany)

^e FREIE UNIVERSITÄT BERLIN   (Germany)

Author keywords

Actinomycetes; Geodermatophilaceae; Osmotolerant; Phenotype microarray; Taxonomy

Indexed keywords

BACTERIAL DNA; CARDIOLIPIN; DIAMINOPIMELIC ACID; GALACTOSE; MENAQUINONE; PEPTIDOGLYCAN; PHOSPHATIDYLCHOLINE; PHOSPHATIDYLETHANOLAMINE; PHOSPHATIDYLGLYCEROL; PHOSPHATIDYLINOSITOL; RNA 16S;

ACTINOBACTERIA; ARTICLE; BACTERIAL GENOME; BACTERIUM ISOLATE; CHAD; CHEMOTAXONOMY; CONTROLLED STUDY; DNA DETERMINATION; FATTY ACID ANALYSIS; GENETIC ANALYSIS; GEODERMATOPHILUS AFRICANUS; GRAM POSITIVE BACTERIUM; HIGH PERFORMANCE LIQUID CHROMATOGRAPHY; MICROARRAY ANALYSIS; MOLECULAR DYNAMICS; MORPHOGENESIS; NEW SPECIES; NONHUMAN; NUCLEOTIDE SEQUENCE; PHENOTYPE; PHYLOGENETIC TREE; PHYLOGENY; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN CONTENT; SCANNING ELECTRON MICROSCOPY; SEQUENCE HOMOLOGY;

ACTINOMYCETALES; BACTERIAL TYPING TECHNIQUES; BASE COMPOSITION; CHAD; DESERT CLIMATE; DNA, BACTERIAL; FATTY ACIDS; RNA, RIBOSOMAL, 16S; SILICON DIOXIDE; SOIL MICROBIOLOGY;

ACTINOBACTERIA; ACTINOBACTERIA (CLASS); GEODERMATOPHILACEAE; GEODERMATOPHILUS;

EID: 84879851867     PISSN: 00036072     EISSN: 15729699     Source Type: Journal    
DOI: 10.1007/s10482-013-9939-8     Document Type: Article

References (51)

1. Castresana J (2000) Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Mol Biol Evol 17:540-552
2. Collins MD, Pirouz T, Goodfellow M, Minnikin DE (1977) Distribution of menaquinones in actinomycetes and corynebacteria. J Gen Microbiol 100:221-230
3. De Ley J, Cattoir H, Reynaerts A (1970) The quantitative measurement of DNA hybridization from renaturation rates. Eur J Biochem 12:133-142
4. Favet J, Lapange A, Giongo A, Kennedy S, Aung Y-Y, Cattaneo A, Davis-Richarson AG, Brown CT, Kort R, Brumsack H-J, Schnetger B, Chappell A, Kroijenga J, Beck A, Schwibbert K, Mohamed AH, Kirchner T, Dorr de Quadros P, Tripplett EW, Broughton WJ, Gorbushina AA (2013) Microbial hitchhikers on intercontinental dust: catching a lift in Chad. ISME J 7:850-867
5. Giongo A, Favet J, Lapanje A, Gano KA et al (2013) Microbial hitchhikers on intercontinental dust: high-throughput sequencing to catalogue microbes in small sand samples. Aerobiologia 29:71-84
6. Gordon RE, Smith MM (1955) Proposed group of characters for the separation of Streptomyces and Nocardia. J Bacteriol 69:147-150
7. Gregersen T (1978) Rapid method for distinction of gram-negative from positive bacteria. Appl Microbiol Biotechnol 5:123-127
8. Hess PN, De Moraes Russo CA (2007) An empirical test of the midpoint rooting method. Biol J Linn Soc 92:669-674
9. Huss VAR, Fest H, Schleifer KH (1983) Studies on the spectrophotometric determination of DNA hybridization from renaturation rates. Syst Appl Microbiol 4:184-192
10. Ishiguro EE, Fletcher DW (1975) Characterization of Geodermatophilus strains isolated from high altitude Mount Everest soils. Mikrobiologika 12:99-108
11. Ishiguro EE, Wolfe RS (1970) Control of morphogenesis in Geodermatophilus: ultrastructural studies. J Bacteriol 104:566-580
12. T). Stand Genomic Sci 2:158-167
13. Jin L, Lee HG, Kim HS, Ahn CY, Oh HM (2013) Geodermatophilus soli sp. nov. and Geodermatophilus terrae sp. nov., two novel actinobacteria isolated from grass soil. Int J Syst Bacteriol. doi: 10.1099/ijs.0.048892-0
14. Kroppenstedt RM (1982) Separation of bacterial menaquinones by HPLC using reverse phase (RP18) and a silver loaded ion exchanger. J Liq Chromatogr 5:2359-2387
15. Kroppenstedt RM, Goodfellow M (2006) The family Thermomonosporaceae: Actinocorallia, Actinomadura, Spirillispora and Thermomonospora. In: Dworkin M, Falkow S, Schleifer KH, Stackebrandt E (eds) The prokaryotes. Archaea and Bacteria: Firmicutes, Actinomycetes, 3rd edn, vol 3, Springer, New York, pp. 682-724
16. Lechevalier MP, Lechevalier HA (1970) Chemical composition as a criterion in the classification of aerobic actinomycetes. Int J Syst Bacteriol 20:435-443
17. Lee C, Grasso C, Sharlow MF (2002) Multiple sequence alignment using partial order graphs. Bioinformatics 18:452-464
18. Luedemann GM (1968) Geodermatophilus, a new genus of the Dermatophilaceae (Actinomycetales). J Bacteriol 96:1848-1858
19. Meier-Kolthoff JP, Göker M, Spröer C, Klenk HP (2013) When should a DDH experiment be mandatory in microbial taxonomy? Arch Microbiol. doi: 10.1007/s00203-013-0888-4
20. 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
21. 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
22. Montero-Calasanz MC, Göker M, Pötter G, Rohde M, Spröer C, Schumann P, Gorbushina AA, Klenk HP (2012) Geodermatophilus arenarius sp. nov., a xerophilic actinomycete isolated from Saharan desert sand in Chad. Extremophiles 16:903-909
23. Montero-Calasanz MC, Göker M, Rohde M, Schumann P, Pötter G, Spröer C, Gorbushina AA, Klenk HP (2013a) Geodermatophilus siccatus sp. nov., isolated from arid sand of the Saharan desert in Chad. Antonie Van Leeuwenhoek 103:449-456
24. Montero-Calasanz MC, Göker M, Pötter G, Rohde M, Spröer C, Schumann P, Gorbushina AA, Klenk HP (2013b) Geodermatophilus saharensis sp. nov., isolated from sand of the Saharan desert in Chad. Arch Microbiol 195:153-159
25. Montero-Calasanz MC, Göker M, Broughtonc WJ, Cattaneoc A, Favetc J, Pötter G, Rohde M, Spröer C, Schumann P, Klenk H-P, Gorbushina AA (2013c) Geodermatophilus tzadiensis sp. nov., a UV radiation-resistant bacterium isolated from sand of the Saharan desert. Syst Appl Microbiol 36:177-182
26. Montero-Calasanz MC, Göker M, Pötter G, Rohde M, Spröer C, Schumann P, Klenk HP, Gorbushina AA (2013d) Geodermatophilus telluris sp. nov., a novel actinomycete isolated from Saharan desert sand in Chad. Int J Syst Evol Microbiol 63:2254-2259
27. Montero-Calasanz MC, Göker M, Pötter G, Rohde M, Spröer C, Schumann P, Gorbushina AA, Klenk HP (2013e) Geodermatophilus normandii sp. nov., isolated from Saharan desert sand. Int J Syst Evol Microbiol. doi: 10.1099/ijs.0.051201-0
28. Nie GX, Ming H, Li S, Zhou EM, Cheng J, Yu TT, Zhang J, Feng HG, Tang SK, Li WJ (2012) Geodermatophilus nigrescens sp. nov., isolated from a dry-hot valley. Antonie Van Leeuwenhoek 101:811-817
29. Normand P (2006) Geodermatophilaceae fam. nov., a formal description. Int J Syst Evol Microbiol 56:2277-2278
30. Normand P, Benson DR (2012). Genus I. Geodermatophilus Luedemann 1968. 1994. In: Goodfellow M, Kämpfer P, Busse HJ, Trujillo ME, Suzuki KI, Ludwig W, Whitman WB (eds) Bergey's Manual of Systematic Bacteriology, 2nd edn, vol 5, The Actinobacteria Part 1, Springer, New York, pp 528-530
31. Normand P, Orso S, Cournoyer B, Jeannin P, Chapelon C, Dawson J, Evtushenko L, Misra AK (1996) Molecular phylogeny of the genus Frankia and related genera and emendation of the family Frankinaceae. Int J Syst Bacteriol 46:1-9
32. Pattengale ND, Alipour M, Bininda-Emonds ORP, Moret BME, Stamatakis A (2009) How many bootstrap replicates are necessary? Lect Notes Comput Sci 5541:184-200
33. Pelczar MJ Jr (ed) (1957) Manual of microbiological methods. McGraw-Hill Book Co., New York
34. 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 Nocardiopsiaceae fam. nov. Int J Syst Bacteriol 46:28-96
35. Rice P, Longden I, Bleasby A (2000) EMBOSS: the European molecular biology open software suite. Trends Genet 16:276-277
36. Sasser M (1990) Identification of bacteria by gas chromatography of cellular fatty acids. USFCC Newsl 20:16
37. Schleifer KH, Kandler O (1972) Peptidoglycan types of bacterial cell walls and their taxonomic implications. Bacteriol Rev 36:407-477
38. Shirling EB, Gottlieb D (1966) Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16:313-340
39. Skerman VBD, McGowan V, Sneath PHA (1980) Approved lists of bacterial names. Int J Syst Bacteriol 30:225-420
40. Stackebrandt E, Ebers J (2006) Taxonomic parameter revisited: tarnished gold standards. Microbiol Today 33:152-155
41. Stamatakis A, Hoover P, Rougemont J (2008) A rapid bootstrap algorithm for the RAxML web servers. Syst Biol 57:758-771
42. Staneck JL, Roberts GD (1974) Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. Appl Microbiol 28:226-231
43. Swofford DL (2002) PAUP*: Phylogenetic Analysis Using Parsimony (*and Other Methods), Version 4.0 b10. Sinauer Associates, Sunderland
44. Tindall BJ (1990) A comparative study of the lipid composition of Halobacterium saccharovorum from various sources. Syst Appl Microbiol 13:128-130
45. Urzì C, Brusetti L, Salamone P, Sorlini C, Stackebrandt E, Daffonchio D (2001) Biodiversity of Geodermatophilaceae isolated from stones and monuments in the Mediterranean basin. Environ Microbiol 3:471-479
46. Urzì C, La Cono V, Stackebrandt E (2004) Design and application of two oligonucleotide probes for the identification of Geodermatophilaceae strains using fluorescence in situ hybridization (FISH). Environ Microbiol 6:678-685
47. Vaas LAI, Sikorski J, Michael V, Göker M, Klenk HP (2012) Visualization and curve-parameter estimation strategies for efficient exploration of phenotype microarray kinetics. PLoS ONE 7(4):e34846
48. Validation List no. 150 List of new names and new combinations previously effectively, but not validly published. Int J Syst Bacteriol March 2013
49. Validation List no. 151 List of new names and new combinations previously effectively, but not validly published. Int J Syst Bacteriol May 2013
50. Wayne LG, Brenner DJ, Colwell RR, Grimont PAD, Kandler O, Krichevsky MI, Moore LH, Moore WEC, Murray RGE, Stackebrandt E, Starr MP, Trüper HG (1987) Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37:463-464
51. Zhang Y-Q, Chen J, Liu H-Y, Zhang Y-Q, Li W-J, Yu L-Y (2011) Geodermatophilus ruber sp. nov., isolated from rhizosphere soil of a medical plant. Int J Syst Evol Microbiol 61:190-193