Prokaryotic diversity of a Tunisian multipond solar saltern

Extremophiles

Volumn 12, Issue 4, 2008, Pages 505-518

  Baati, Houda ^a   Guermazi, Sonda ^b,c,d   Amdouni, Ridha ^e   Gharsallah, Neji ^f   Sghir, Abdelghani ^b,c,d   Ammar, Emna ^a  

^a UNIVERSITY OF SFAX   (Tunisia)

^b UNIVERSITÉ D EVRY VAL D ESSONNE   (France)

^c CNRS   (France)

^d CENTRE NATIONAL DE SÉQUENÇAGE   (France)

^e Laboratoire d'Analyse   (Tunisia)

^f Faculté des Sciences de Sfax   (Tunisia)

Author keywords

16S rRNA genes; Archaea; Bacteria; Molecular diversity; Solar saltern

Indexed keywords

RNA 16S; WATER;

ARCHAEBACTERIUM; ARTICLE; BACTERIAL GENE; BACTERIUM; CHEMISTRY; CLASSIFICATION; CYANOBACTERIUM; GENE; GENE LIBRARY; GENETIC VARIABILITY; GENETICS; MICROBIOLOGY; MOLECULAR CLONING; MOLECULAR EVOLUTION; PHYLOGENY; TUNISIA;

ARCHAEA; BACTERIA; CLONING, MOLECULAR; CYANOBACTERIA; EVOLUTION, MOLECULAR; GENE LIBRARY; GENES, ARCHAEAL; GENES, BACTERIAL; PHYLOGENY; RNA, RIBOSOMAL, 16S; TUNISIA; VARIATION (GENETICS); WATER; WATER MICROBIOLOGY;

ARCHAEA; BACTERIA (MICROORGANISMS); BACTEROIDETES; CYANOBACTERIA; EURYARCHAEOTA; OTUS; PROKARYOTA; PROTEOBACTERIA;

EID: 46149122972     PISSN: 14310651     EISSN: 14334909     Source Type: Journal    
DOI: 10.1007/s00792-008-0154-x     Document Type: Article

References (51)

1. Amann RI, Ludwig W, Schleifer KH (1995) Phylogenetic identification and in situ detection of individual microbial cells without cultivation. Microbiol Rev 59:143-169
2. Antón J, Rossello MR, Rodríguez-Valera F, Amann R (2000) Extremely halophilic bacteria in crystallizer ponds from solar salterns. Appl Environ Microbiol 66:3052-3057
3. Antón J, Oren A, Benlloch S, Rodriguez-Valera F, Amann R, Rossello-Mora R (2002) Salinibacter ruber. Gen. nov, sp nov., a new species of extremely halophilic bacteria from saltern crystallizer ponds. Int J Syst Evol Microbiol 52:485-491
4. Artiguenave F, Wincker P, Brottier P, Duprat Jovelin F, Scarpelli C, Verdier J, Vico V, Weissenbach J, Saurin W (2000) Genomic exploration of the hemiascomycetous yeast. 2. Data generation and processing. FEBS Lett 487:13-16
5. Belcher R, Gibbons D, West TS (1954) The evaluation of barium sulphate precipitates by a titrimetric method. Chem. Ind 127
6. Benlloch S, Acinas SG, Antón J, Lopez L, Rodriguez-Valera F (2001) Archaeal biodiversity in crystallizer ponds from a solar saltern: culture versus PCR. Microb Ecol 41:12-19
7. Benlloch S, Lopez A, Emilio C, Goddard V, Rodriguez-Valera F (2002) Prokaryotic genetic diversity throughout the salinity gradient of a coastal solar saltern. Environ Microbiol 4:349-360
8. Bolhuis H, Poele EM, Rodriguez-Valera F (2004) Isolation and cultivation of Walsby's square archaeon. Environ Microbiol 6:1287-1291
9. Burns DG, Camakaris HM, Janssen PH, Dyall-Smith ML (2004) Combined use of cultivation-dependent and cultivation-independent methods indicate that members of most haloarchaeal groups in an Australian crystallizer pond are cultivable. App Environ Microbiol 70:5258-5265
10. Burns DG, Janssen PH, Itoh T, Kamekura M, Li Z, Jensen G, Rodríguez-Valera F, Bolhuis H., Dyall-Smith MD (2007) Haloquadratum walsbyi gen. nov., sp. nov., the square haloarchaeon of Walsby, isolated from saltern crystallizers in Australia and Spain. Int J Syst Evol Microbiol 57:387-392
11. Chao A (1987) Estimating the population size for capture-recapture data with unequal catchability. Biometrics 43:783-791
12. Chouari R, Le Paslier D, Daegelen P, Ginestet P, Weissenbach J, Sghir A (2003) Molecular evidence for novel planctomycete diversity in a municipal wastewater treatment plant. Appl Environ Microbiol 69:7354-7363
13. Cottrell MT, Kirchman DL (2000) Natural assemblages of marine Proteobacteria and members of the Cytophaga-Flavobacterium cluster consuming low- and high-molecular-weight dissolved organic matter. Appl Environ Microbiol 66:1692-1697
14. DeLong EF (1992). Archaea in coastal marine environments. Proc Nalt Acad Sci USA 89:5685-5690
15. Demergasso C, Casamayor EO, Chong G, Galleguillos P, Escudero L, Pedrós-Alió C (2004) Distribution of prokaryotic genetic diversity in athalassohaline lakes of the Atacama Desert, Northen Chile. FEMS Microbiol Ecol 48:57-69
16. Fendrihan S, Legat A, Pfaffenhuemer M, Gruber C, Weidler G, Gerbl F, Stan-Lotter H (2006) Extremely halophilic Archaea and the issue of long-term microbial survival. Rev Environ Sci Biotechnol 5:203-218
17. Golterman HL, Clymo RS (1971) Methods for chemical analysis of freshwaters. Blackwell, Oxford, p 166
18. González JM, Kiene RP, Moran MA (1999) Transformation of sulphur compounds by an abundant lineage of marine bacteria in the alpha-subclass of the class Proteobacteria. Appl Environ Microbiol 65:3810-3819
19. Good IJ (1954) The population frequencies of species and the estimation of population parameters. Biometrica 40:237-264
20. Harris DC (1997) Quantitative chemical analysis. W.H. Freeman, New York, p 307
21. Hicks RE, Amann RI, Stahl DA (1992) Dual staining of natural bacterioplankton with 4′,6-diamidino-2-phenylindole and fluorescent oligonucleotide probes targeting kingdom-level 16S rDNA sequences. Appl Environ Microbiol 58:2158-2163
22. Hugenhotz P, Goebel BM, Pace NR (1998) Impact of culture-independent studies on the emerging phylogenetic view of bacterial diversity. J Bacteriol 180:4765-4774
23. Hughes JB, Hellmann JJ, Ricketts TH, Bohannan BM (2001) Counting the uncountable: statistical approaches to estimating microbial diversity. Appl Environ Microbiol 67:4399-4406
24. Imhoff JF (1984) Reassignment of the genus Ectothiorhodospira to a new family, Ectothiorhodospiraceae fam. Nov., and emended description of the Chromatiaceae. Int J Syst Bacteriol 34:338-339
25. Imhoff JF, Suling J (1996) The phylogenetic relationship among Ectothiorhodospiraceae: a reevaluation of their taxonomy on the basis of 16S rDNA analyses. Arch Microbiol 165:106-113
26. Javor B (2002) Industrial microbiology of solar salt production. J Ind Microbiol Biotechnol 28:42-47
27. Juretschko S, Loy A, Lehner A, Wagner M (2002) The microbial community composition of a nitrifying-denitrifying activated sludge from an industrial sewage treatment plant analysed by the full-cycle rRNA approach. Syst Appl Microbiol 25:84-99
28. Legault BA, Lopez-Lopez A, Alba-Casado JC, Doolittle WF, Bolhuis H, Rodrigeuz-Valera F, Papke TR (2006) Environmental genomics of Haloquadratum walsbyi in a saltern crystallizer indicates a large pool of accessory genes in an otherwise coherent species. BMC Genomics 7:1-13
29. Litchfield CD, Gillevet PM (2002) Microbial diversity and complexity in hypersaline environments: a preliminary assessment. J Ind Microbiol Biotechnol 28:48-55
30. Lopez CA, Ochoa JL (1998) The biological significance of Halobacteria on nucleation and sodium chloride crystal growth. In: Dubrowski A (ed.) Absorption and its applications in industry and environmental protection. Studies in surface science and catalysis, vol 120. Elsevier, Amsterdam, pp 903-923
31. Magurran AE (1996) Ecological diversity and its measurement. Chapman and Hall, London, pp 274-286
32. Maturrano L, Santos F, Rossello-Mora R, Anton J (2006) Microbial diversity in Maras saltern, a hypersaline environment in the Peruvian Andes. Appl Environ Microbiol 72:3887-3895
33. Mongodin EF, Nelson KE, Daugherty S, DeBoy RT, Wister J, Khouri H, Weidman J, Walsh DA, Papke RT, Sanchez Perez G, Sharma AK, Nesbo CL, MacLeod D, Bapteste E, Doolittle WF, Charlebois RL, Legault B, Rodriguez-Valera F (2005) The genome of Salinibacter rubber: Convergence and gene exchange among hyperhalophilic Bacteria and Archaea. Proc Nalt Acad Sci 102:18147-18152
34. Norton CF, Grant WD (1988) Survival of Halobacteria within fluid inclusions in salt crystal. J Gen Microbiol 134:1365-1373
35. Ochsenreiter T, Pfeifer F, Schleper C (2002) Diversity of Archaea in hypersaline environments characterized by molecular-phylogenetic and cultivation studies. Extremophiles 6:267-274
36. Oren A, Truper HG (1990) Anaerobic growth of halophilic archaeobacteria by reducing of dimethylsulfoxide and trimethylamine N-oxide. FEMS Microbiol Lett 70:33-36
37. Oren A (2002) Diversity of halophilic microorganisms: environments, phylogeny, physiology, and applications. J Ind Microbiol Biotechnol 28:56-63
38. Oren A, Heldal M, Norland S, Svein N, Galinski EA (2002) Intracellular ion and organic solute concentrations of the extremely halophilic bacterium Salinibacter ruber. Extremophiles 6:491-498
39. Ovreas L, Daae FL, Torsvik V, Rodríguez-Valera F (2003) Characterization of microbial diversity in hypersaline environments by melting profiles and reassociation kinetics in combination with terminal restriction fragment length polymorphism (T-RFLP). Microb Ecol 46:291-301
40. Park SJ, Kang CH, Rhee SK (2006) Characterization of the microbial diversity in a Korean solar saltern by 16S rRNA gene analysis. J Microbial Biotechnol 16:1640-1645
41. Pašić L, Bartual SG, Ulrih NP, Grabnar M, Velikonja BH (2005) Diversity of halophilic archaea in the crystallizers of an Adriatic solar saltern. FEMS Microbiol Ecol 54:491-498
42. Pašić L, Ulrih NP, Crnigoj M, Grabnar M, Velikonja BH (2007) Haloarchaeal communities in the crystallizers of two Adriatic solar salterns. Can J Microbiol 53:8-18
43. Rossello-Mora R, Lee N, Anton J, Wagner M (2003) Substrate uptake in extremely halophilic microbial communities revealed by microautoradiography and fluorescence in situ hybridization. Extremophiles 7:409-413
44. Schloss PD, Handelsman J (2005) Introducing DOTUR, a computer program for defining operational taxonomic units and estimating species richness. Appl Environ Microbiol 71:1501-1506
45. Singleton DR, Furlong MA, Rathbun SL, Whitman WB (2001) Quantitative comparisons of 16S rRNA gene sequence libraries from environmental samples. Appl Environ Microbiol 67:4374-4376
46. Skoog DA, West DM, Holler FJ (1996) Fundamentals of analytical chemistry, 7th edn, Thomson, USA
47. Sorensen KB, Canfield DE, Teske AP, Oren A (2005) Community composition of a hypersaline endoevaporitic microbial mat. Appl Environ Microbiol 71:7352-7365
48. Stackebrandt E, Fowler VJ, Schubert W, Imhoff JF (1984) Towards a phylogeny of phototrophic purple sulfur bacteria-The genus Ectothiorhodospira. Arch Microbiol 137:366-370
49. Walsby AE (2005) Archaea with square cells. Trends microbiol 13:193-195
50. Won AJ, Chan WK (2005) Proteomics of halophilic Archaea. J Chromatogr 237-250
51. Zheng A, Alm EW, Stahl DA, Raskin L (1996) Characterization of universal small-subunit rRNA hybridization probes for quantitative molecular microbial ecology studies. Appl Environ Microbiol 62:4504-4513