Streptacidiphilus durhamensis sp. nov., isolated from a spruce forest soil

Antonie van Leeuwenhoek, International Journal of General and Molecular Microbiology

Volumn 104, Issue 2, 2013, Pages 199-206

  Golinska, Patrycja ^a,c   Ahmed, Lina ^a   Wang, Dylan ^a,b   Goodfellow, Michael ^a  

^a NEWCASTLE UNIVERSITY   (United Kingdom)

^b INSTITUTE OF MICROBIOLOGY   (China)

^c NICOLAUS COPERNICUS UNIVERSITY   (Poland)

Author keywords

Actinobacteria; Polyphasic taxonomy; Spruce forest soil; Streptacidiphilus durhamensis

Indexed keywords

GENOMIC DNA;

ACTINOBACTERIA; ARTICLE; BACTERIAL STRAIN; BACTERIUM IDENTIFICATION; BACTERIUM ISOLATE; CHEMOTAXONOMY; CONTROLLED STUDY; DNA HYBRIDIZATION; FOREST SOIL; GENOTYPE; MORPHOLOGY; NEW SPECIES; NONHUMAN; NUCLEOTIDE SEQUENCE; PHENOTYPE; PHYLOGENY; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; SEQUENCE ALIGNMENT; STREPTACIDIPHILUS DURHAMENSIS; TAXONOMY;

BACTERIAL TYPING TECHNIQUES; DNA, BACTERIAL; GENOTYPE; PHYLOGENY; PICEA; RNA, RIBOSOMAL, 16S; SOIL MICROBIOLOGY; STREPTOMYCETACEAE;

ACTINOBACTERIA; PICEA; STREPTACIDIPHILUS; STREPTACIDIPHILUS ALBUS;

EID: 84879887833     PISSN: 00036072     EISSN: 15729699     Source Type: Journal    
DOI: 10.1007/s10482-013-9938-9     Document Type: Article

References (37)

1. Cho S-H, Han J-H, Ko H-Y, Kim SB (2008) Streptacidiphilus anmyonensis sp. nov., Streptacidiphilus rugosus sp. nov. and Streptacidiphilus melanogenes sp. nov., acidophilic actinobacteria isolated from Pinus soils. Int J Syst Evol Microbiol 58:1566-1570
2. Collins MD (1985) Isoprenoid quinone analysis in bacterial classification and identification. In: Goodfellow M, Minnikin DE (eds) Chemical methods in bacterial systematics. Academic Press, London, pp 267-287
3. Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783-791
4. Golinska P, Wang D, Goodfellow M (2013) Nocardia aciditolerans sp. nov., isolated from a spruce forest soil. Antonie Van Leeuwenhoek 103:1079-1088
5. Gonzalez JM, Saiz-Jimenez C (2002) A fluorimetric method for the estimation of G+C mol% content in microorganisms by thermal denaturation temperature. Environ Microbiol 4:770-773
6. Gonzalez JM, Saiz-Jimenez C (2005) A simple fluorimetric method for the estimation of DNA-DNA relatedness between closely related microorganisms by thermal denaturation temperatures. Extremophiles 9:75-79
7. Goodfellow M, Dawson D (1978) Qualitative and quantitative studies of bacteria colonizing Picea sitchensis litter. Soil Biol Biochem 10:303-307
8. Goodfellow M, Simpson KE (1987) Ecology of streptomycetes. Front Appl Microbiol 2:97-125
9. Guindon S, Gascuel O (2003) A simple, fast and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol 52:696-704
10. Hasegawa T, Takizawa M, Tanida S (1983) A rapid analysis for chemical grouping of aerobic actinomycetes. J Gen Appl Microbiol 29:319-322
11. Huang Y, Cui Q, Wang L, Rodriguez C, Quintana E, Goodfellow M, Liu Z (2004) Streptacidiphilus jiangxiensis sp. nov., a novel actinomycete isolated from acidic rhizosphere soil in China. Antonie Van Leeuwenhoek 86:159-165
12. Jones KL (1949) Fresh isolates of actinomycetes in which the presence of sporogenous aerial mycelia is a fluctuating characteristic. J Bacteriol 57:141-145
13. AL emend. Rainey, Ward-Rainey and Stackebrandt 1997, 486 emend. Kim, Lonsdale, Seong and Goodfellow 2003b, 113 emend Zhi, Li and Stackebrandt 2009, 600. In: Goodfellow M, Kämpfer P, Busse H-J, Trujillo ME, Suzuki K-I, Ludwig W, Whitman WB (eds) Bergey's manual of systematic bacteriology, 2nd Edition, vol 5. The Actinobacteria, Part B, 2nd edn. Springer, New York, pp 1446-1454
14. VP (Effective publication: Kim, Lonsdale, Seong and Goodfellow 2003b, 115). In: Goodfellow M, Kämpfer P, Busse H-J, Trujillo ME, Suzuki K-I, Ludwig W, Whitman WB (eds) Bergey's manual of systematic bacteriology, 2nd Edition, vol 5. The Actinobacteria, Part B. Springer, New York, pp 1777-1781
15. Kawato M, Shinobu R (1959) On Streptomyces herbaricolor sp. nov., supplement: as simple technique for microscopical observation. Mem Osaka Univ Lib Arts Educ B Nat Sci 8:114-119
16. Khan MR, Williams ST (1975) Studies on the ecology of actinomycetes in soil. VIII. Distribution and characteristics of acidophilic actinomycetes. Soil Biol Biochem 7:345-348
17. AL emend. Rainey et al. 1977. Antonie Van Leeuwenhoek 83:107-116
18. 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
19. 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 173-199
20. Kuster E, Williams ST (1964) Selection of media for isolation of streptomycetes. Nature 202:928-929
21. Labeda DP, Goodfellow M, Brown R, Ward AC, Lanoot B, Vancanneyt M, Swings J, Kim SB, Liu Z, Chun J, Tamura T, Oguchi A, Kikuchi T, Kikuchi H, Nishii T, Tsuji K, Tase A, Takahashi M, Sakane T, Suzuki K-I, Hatano K, Yamaguchi A (2012) Phylogenetic study of the species within the family Streptomycetaceae. Antonie Van Leeuwenhoek 101:73-104
22. Lechevalier MP, De Biévre C, Lechevalier HA (1977) Chemotaxonomy of aerobic actinomycetes: phospholipid composition. Biochem Syst Ecol 5:249-260
23. Lonsdale JT (1985) Aspects of the biology of acidophilic actinomycetes. PhD thesis. University of Newcastle, Newcastle upon Tyne
24. 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
25. O'Donnell AG, Falconer C, Goodfellow M, Ward AC, Williams E (1993) Biosystematics and diversity amongst novel carboxydotrophic actinomycetes. Antonie Van Leeuwenhoek 64:325-340
26. Sasser M (1990) Identification of bacteria by gas chromatography of cellular fatty acids. MIDI Technical Note 101, MIDI Inc. Newark
27. Seong CN, Goodfellow M, Ward AC, Hah YC (1993) Numerical classification of acidophilic actinomycetes isolated from acid soil in Korea. Korean J Microbiol 31:355-363
28. Shirling EB, Gottlieb D (1966) Methods for characterization of Streptomyces species. Int J Syst Bacteriol 16:313-340
29. Staneck JL, Roberts GD (1974) Simplified approach to identification of aerobic actinomycetes by thin-layer chromatography. Appl Microbiol 28:226-231
30. Tamura K, Peterson D, Peterson N, Stecher G, Nei M, Kumar S (2011) Mega 5: molecular evolutionary genetics analysis using maximum likelihood evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28:2731-2739
31. Wang L, Huang Y, Liu Z, Goodfellow M, Rodriguez C (2006) Streptacidiphilus oryzae sp. nov., an actinomycete isolated from rice field soil in Thailand. Int J Syst Evol Microbiol 56:1257-1261
32. Wayne LG, Brenner DJ, Colwell RR et al (1987) International committee on systematic bacteriology. Report on the ad hoc committee on reconciliation of approaches to bacterial systematics. Int J Syst Bacteriol 37:463-465
33. Williams ST, Flowers TH (1978) The influence of pH on starch hydrolysis by neutrophilic and acidophilic actinomycetes. Microbios 20:99-106
34. Williams ST, Khan MR (1974) Antibiotics - a soil microbiologist's viewpoint. Post Hig I Med Dosw 28:395-408
35. Williams ST, Robinson CS (1981) The role of streptomycetes in decomposition of chitin in acidic soils. J Gen Microbiol 127:55-63
36. Williams ST, Davies FL, Mayfield CI, Khan MR (1971) Studies on the ecology of actinomycetes in soil. II. The pH requirements of streptomycetes from two acid soils. Soil Biol Biochem 3:187-195
37. Williams ST, Goodfellow M, Alderson G, Wellington EMH, Sneath PHA, Sackin MJ (1983) Numerical classification of Streptomyces and related genera. J Gen Microbiol 129:1743-1813