Description of two new thermophilic species of the genus Rubrobacter, Rubrobacter calidifluminis sp. nov. and Rubrobacter naiadicus sp. nov., and emended description of the genus Rubrobacter and the species Rubrobacter bracarensis

Systematic and Applied Microbiology

Volumn 37, Issue 4, 2014, Pages 235-243

  Albuquerque, Luciana ^a   Johnson, Megan M ^b   Schumann, Peter ^c   Rainey, Fred A ^b   Da Costa, Milton S ^d,e  

^a UNIVERSITY OF COIMBRA   (Portugal)

^b UNIVERSITY OF ALASKA ANCHORAGE   (United States)

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

^d UNIVERSITY OF COIMBRA   (Portugal)

^e Microbiology Unit   (Portugal)

Author keywords

Actinobacteria; Rubrobacter calidifluminis; Rubrobacter naiadicus

Indexed keywords

CATALASE; FATTY ACID; OXIDOREDUCTASE; RNA 16S; BACTERIAL DNA; RIBOSOME DNA;

ARTICLE; BACTERIAL GENE; BACTERIAL STRAIN; BACTERIUM ISOLATE; CHEMOTAXONOMY; DESICCATION; DNA DNA HYBRIDIZATION; GENE SEQUENCE; GENUS; LIPID COMPOSITION; NEW SPECIES; NONHUMAN; NUCLEOTIDE SEQUENCE; PHENOTYPE; PHYLOGENY; PRIORITY JOURNAL; RNA GENE; RUBROBACTER; RUBROBACTER BRACARENSIS; RUBROBACTER CALIDIFLUMINIS; RUBROBACTER NAIADICUS; RUBROBACTER XYLANOPHILUS; TEMPERATURE; THERMOPHILIC BACTERIUM; ACTINOBACTERIA; AEROBIC METABOLISM; ATLANTIC ISLANDS; BACTERIUM IDENTIFICATION; CHEMISTRY; CLASSIFICATION; CLUSTER ANALYSIS; DNA SEQUENCE; GENETICS; ISOLATION AND PURIFICATION; MICROBIOLOGY; MOLECULAR GENETICS; NUCLEIC ACID HYBRIDIZATION; PHYSIOLOGY; THERMAL SPRING;

ACTINOBACTERIA; RUBROBACTER; RUBROBACTER XYLANOPHILUS;

ACTINOBACTERIA; AEROBIOSIS; AZORES; BACTERIAL TYPING TECHNIQUES; CLUSTER ANALYSIS; DNA, BACTERIAL; DNA, RIBOSOMAL; FATTY ACIDS; HOT SPRINGS; MOLECULAR SEQUENCE DATA; NUCLEIC ACID HYBRIDIZATION; PHYLOGENY; RNA, RIBOSOMAL, 16S; SEQUENCE ANALYSIS, DNA; TEMPERATURE;

EID: 84900469022     PISSN: 07232020     EISSN: 16180984     Source Type: Journal    
DOI: 10.1016/j.syapm.2014.03.001     Document Type: Article

References (30)

1. Albuquerque L., Tiago I., Nobre M.F., Veríssimo A., da Costa M.S. Cecembia calidifontis sp. nov., isolated from a hot spring runoff, and emended description of the genus Cecembia. Int. J. Syst. Evol. Microbiol. 2013, 63:1431-1436.
2. Albuquerque L., França L., Rainey F.A., Schumann P., Nobre M.F., da Costa M.S. Gaiella occulta gen. nov., sp. nov., a novel representative of a deep branching phylogenetic lineage within the class Actinobacteria and proposal of Gaiellaceae fam. nov. and Gaiellales ord. nov. Syst. Appl. Microbiol. 2011, 34:595-599.
3. Callegan R.P., Nobre M.F., McTernan P:M., Battista J:R., Navarro-González R., McKay C.P., da Costa M.S., Rainey F.A. Description of four novel psychrophilic, ionizing radiation-sensitive Deinococcus species from alpine environments. Int. J. Syst. Evol. Microbiol. 2008, 58:1252-1258.
4. Cashion P., Hodler-Franklin M.A., McCully J., Franklin M. A rapid method for base ratio determination of bacterial DNA. Anal. Biochem. 1977, 81:461-466.
5. Carreto L., Moore E., Nobre M.F., Wait R., Riley P.W., Sharp R.J., da Costa M.S. Rubrobacter xylanophilus sp. nov., a new thermophilic species isolated from a thermally polluted effluent. Int. J. Syst. Evol. Microbiol. 1996, 46:460-465.
6. Chanal A., Chapon V., Benzerara K., Barakat M., Christen R., Achouak W., Barras F., Heulin T. The desert of Tataouine: an extreme environment that hosts a wide diversity of microorganisms and radiotolerant bacteria. Environ. Microbiol. 2006, 8:514-525.
7. Chen M.Y., Wu S.H., Lin G.H., Lu C.P., Lin Y.T., Chang W.C., Tsay S.S. Rubrobacter taiwanensis sp. nov., a novel thermophilic radiation-resistant species isolated from hot springs Rubrobacter xylanophilus sp. nov., a new thermophilic species isolated from a thermally polluted effluent. Int. J. Syst. Evol. Microbiol. 2004, 54:1849-1855.
8. da Costa M.S., Albuquerque L., Nobre M.F., Wait R. The identification of polar lipids in prokaryotes. Methods in Microbiology (Taxonomy of Prokaryotes) 2011, vol. 38:165-181. Elsevier Ltd., London, UK.
9. da Costa M.S., Albuquerque L., Nobre M.F., Wait R. The identification of fatty acids in Bacteria. Methods in Microbiology (Taxonomy of Prokaryotes) 2011, vol. 38:183-196. Elsevier Ltd., London, UK.
10. da Costa M.S., Albuquerque L., Nobre M.F., Wait R. The extraction and identification of respiratory lipoquinones of prokaryotes and their use in taxonomy. Methods in Microbiology (Taxonomy of Prokaryotes) 2011, vol. 38:197-206. Elsevier Ltd., London, UK.
11. De Ley J., Cattoir H., Reynaerts A. The quantitative measurement of DNA hybridization from renaturation rates. Eur. J. Biochem. 1970, 12:133-142.
12. Ferreira A.C., Nobre M.F., Rainey F.A., Silva M.T., Wait R., Burghardt J., Chung A.P., da Costa M.S. Deinococcus geothermalis sp. nov. and Deinococcus murrayi sp. nov., two extremely radiation-resistant and slightly thermophilic species from hot springs. Int. J. Syst. Evol. Microbiol. 1997, 47:939-947.
13. Ferreira A.C., Nobre M.F., Moore E., Rainey F.A., Battista J.R., da Costa M.S. Characterization and radiation resistance of new isolates of Rubrobacter radiotolerans and Rubrobacter xylanophilus. Extremophiles 1999, 3:235-238.
14. Holmes A.J., Bowyer J., Holley M.P., O'Donoghue M., Montgomery M., Gillings M.R. Diverse, yet-to-be cultured members of the Rubrobacter subdivision of the actinobacteria are widespread in Australian arid soils. FEMS Microbiol. Ecol. 2000, 33:111-120.
15. Huss V.A.R., Festl H., Schleifer K.H. Studies on the spectrophotometric determination of DNA hybridization from renaturation rates. Syst. Appl. Microbiol. 1983, 4:184-192.
16. Jurado V., Miller A.Z., Alias-Villegas C., Laiz L., Saiz-jimenez C. Rubrobacter bracarensis sp. nov., a novel member of the genus Rubrobacter isolated from a biodeteriorated monument. Syst. Appl. Microbiol. 2012, 35:306-309.
17. Kim O.S., Cho Y.J., Lee K., Yoon S.H., Kim M., Na H., Park S.C., Jeon Y.S., Lee J.H., Yi H., Won S., Chun J. Introducing EzTaxon-e: a prokaryotic 16S rRNA Gene sequence database with phylotypes that represent uncultured species. Int. J. Syst. Evol. Microbiol. 2012, 62:716-721.
18. Mattimore V., Battista J.R. Radioresistance of Deinococcus radiodurans: functions necessary to survive ionizing radiation are also necessary to survive prolonged desiccation. J. Bacteriol. 1996, 178:633-637.
19. Mesbah M., Premachandran U., Whitman W. Precise measurement of the G+C content of deoxyribonucleic acid by high performance liquid chromatography. Int. J. Syst. Bacteriol. 1989, 39:159-167.
20. Nielsen P., Fritze D., Priest F.G. Phenetic diversity of alkaliphilic Bacillus strains: proposal for nine new species. Microbiology 1995, 141:1745-1761.
21. Rainey F.A., Ray K., Ferreira M., Gatz B.Z., Nobre M.F., Bagaley D., Rash B.A., Park M.-J., Earl A.M., Shank N.C., Small A.M., Henk M.C., Battista J.R., Kämpfer P., da Costa M.S. Extensive diversity of ionizing radiation-resistant bacteria recovered from a Sonoran Desert soil and the description of nine new species of the genus Deinococcus from a single soil sample. Appl. Environ. Microbiol. 2005, 71:5225-5235.
22. Rainey F.A., Ward-Rainey N., Kroppenstedt R.M., Stackebrandt E. The genus Nocardiopsis represents a phylogenetically coherent taxon and a distinct actinomycete lineage: proposal of Nocardiopsaceae fam nov. Int. J. Syst. Bacteriol. 1996, 46:1088-1092.
23. Smibert R.M., Krieg N.R. Manual of methods for general bacteriology. General Characterization 1981, 411-442. American Society for Microbiology, Washington, DC. P. Gerhardt, R.G.E. Murray, R.N. Costilow, E.W. Nester, W.A. Wood, N.R. Krieg, G.B. Phillips (Eds.).
24. Stackebrandt E., Frederiksen W., Garrity G.M., Grimont P.A.D., Kämpfer P., Maiden M.C.J., Nesme X., Rosselló-Móra R., Swings J., Trüper H.G., Vauterin L., Ward A.C., Whitman W.B. Report of the ad hoc committee for the re-evaluation of the species definition in bacteriology. Int. J. Syst. Evol. Microbiol. 2002, 52:1043-1047.
25. Suzuki K., Collins M.D., Iijima E., Komagata K. Chemotaxonomic characterization of a radiotolerant bacterium, Arthrobacter radiotolerans: description of Rubrobacter radiotolerans gen. nov., comb. nov. FEMS Microbiol. Lett. 1988, 52:33-40.
26. Tamura K., Dudley J., Nei M., Kumar S. MEGA4: molecular evolutionary genetics analysis (MEGA) software version 4.0. Mol. Biol. Evol. 2007, 24:1596-1599.
27. Wait R., Hudson M.J. The use of picolinyl esters for the characterization of microbial lipids: application to the unsaturated and cyclopropane fatty acids of Campylobacter species. Lett. Appl. Microbiol. 1985, 1:95-99.
28. Wayne L.G., Brenner D.J., Colwell R.R., Grimont P.A.D., Kandler O., Krichevsky M.I., Moore L.H., Moore W.E.C., Murray R.G.E., et al. Report of the ad hoc committee on reconciliation of approaches to bacterial systematics. Int. J. Syst. Evol. Microbiol. 1987, 37:463-464.
29. Wiedmann-al-Ahmad M., Tichy H.V., Schon G. Characterization of Acinetobacter type strains and isolates obtained from wastewater treatment plants by PCR fingerprinting. Appl. Environ. Microbiol. 1994, 60:4066-4071.
30. Williams R.A., da Costa M.S. The genus Thermus and related microorganisms. The Prokaryotes 1992, 3745-3753. Springer, New York. 2nd ed. A. Balows, H.G. Trüper, M. Dworkin, W. Harder, K.-H. Schleifer (Eds.).