Bergthorsson U, Ochman H: Distribution of chromosome length variation in natural isolates of Escherichia coli. Mol Biol Evol. 1998, 15: 6-16.
Article
PubMed
CAS
Google Scholar
Lindsay JA, Holden MT: Staphylococcus aureus: superbug, super genome?. Trends Microbiol. 2004, 12: 378-385. 10.1016/j.tim.2004.06.004.
Article
PubMed
CAS
Google Scholar
Thompson JR, Pacocha S, Pharino C, Klepac-Ceraj V, Hunt DE, Benoit J, Sarma-Rupavtarm R, Distel DL, Polz MF: Genotypic diversity within a natural coastal bacterioplankton population. Science. 2005, 307: 1311-1313. 10.1126/science.1106028.
Article
PubMed
CAS
Google Scholar
Welch RA, Burland V, Plunkett G, Redford P, Roesch P, Rasko D, Buckles EL, Liou SR, Boutin A, Hackett J, Stroud D, Mayhew GF, Rose DJ, Zhou S, Schwartz DC, Perna NT, Mobley HL, Donnenberg MS, Blattner FR: Extensive mosaic structure revealed by the complete genome sequence of uropathogenic Escherichia coli. Proc Natl Acad Sci U S A. 2002, 99: 17020-17024. 10.1073/pnas.252529799.
Article
PubMed
CAS
PubMed Central
Google Scholar
Ferris MJ, Palenik B: Niche adaptation in ocean cyanobacteria. Nature. 1998, 396: 226-228. 10.1038/24297.
Article
CAS
Google Scholar
Tyson GW, Chapman J, Hugenholtz P, Allen E, Ram RJ, Richardson PM, Solovyev VV, Rubin EM, Pokhsar DS, Banfield JF: Community structure and metabolism through reconstruction of microbial genomes from the environment. Nature. 2004, 428: 37-43. 10.1038/nature02340.
Article
PubMed
CAS
Google Scholar
Benlloch S, Martínez-Murcia A, Rodriguez-Valera F: Sequencing of Bacterial and Archaeal 16S rDNA genes directly amplified from a hypersaline environment. Syst Appl Microbiol. 1995, 18: 574-581.
Article
Google Scholar
Benlloch S, Acinas SG, Anton J, Lopez-Lopez A, Luz SP, Rodriguez-Valera F: Archaeal Biodiversity in Crystallizer Ponds from a Solar Saltern: Culture versus PCR. Microb Ecol. 2001, 41: 12-19.
PubMed
CAS
Google Scholar
Martínez-Murcia A, Acinas SG, Rodriguez-Valera F: Evaluation of prolaryotic diversity by restrictase digestion of 16SrDNA directly amplified from hypersaline environments. FEMS Microbiol Ecol. 1995, 17: 247-256.
Article
Google Scholar
Rodriguez-Valera F, Acinas SG, Anton J: Contribution of molecular techniques to the study of microbial diversity in hypersaline environments. In A Oren (ed), Microbiology and biogeochemistry of hypersaline environments CRC Press, Boca Raton, Fla. 1999, 27-38.
Google Scholar
Anton J, Llobet-Brossa E, Rodriguez-Valera F, Amann R: Fluorescence in situ hybridization analysis of the prokaryotic community inhabiting crystallizer ponds. Environ Microbiol. 1999, 1: 517-523. 10.1046/j.1462-2920.1999.00065.x.
Article
PubMed
CAS
Google Scholar
Ovreas L, Daae FL, Torsvik V, Rodriguez-Valera F: 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. 2003, 46: 291-301. 10.1007/s00248-003-3006-3.
Article
PubMed
CAS
Google Scholar
Rodriguez-Valera F, Ventosa A, Juez G, Imhoff JF: Variation of environmental features and microbial populations with salt concentrations in a multi-pond solar saltern. Microb Ecol. 1985, 11: 105-107. 10.1007/BF02010483.
Article
Google Scholar
Benlloch S, Lopez-Lopez A, Casamayor EO, Ovreas L, Goddard V, Daae FL, Smerdon G, Massana R, Joint I, Thingstad F, Pedros-Alio C, Rodriguez-Valera F: Prokaryotic genetic diversity throughout the salinity gradient of a coastal solar saltern. Environ Microbiol. 2002, 4: 349-360. 10.1046/j.1462-2920.2002.00306.x.
Article
PubMed
Google Scholar
Walsby AE: A square bacterium. Nature. 1980, 283: 69-10.1038/283069a0.
Article
Google Scholar
Burns DG, Camakaris HM, Janssen PH, Dyall-Smith ML: Cultivation of Walsby's square haloarchaeon. FEMS Microbiol Lett. 2004, 238: 469-473.
PubMed
CAS
Google Scholar
Bolhuis H, Poele EM, Rodriguez-Valera F: Isolation and cultivation of Walsby's square archaeon. Environ Microbiol. 2004, 6: 1287-1291. 10.1111/j.1462-2920.2004.00692.x.
Article
PubMed
Google Scholar
Bolhuis H: ´Haloquadratum Walsbyi'; Isolation and preliminary insight in the genome of the square archaeon.: ; Helsinki. 2005,
Google Scholar
Anton J, Rossello-Mora R, Rodriguez-Valera F, Amann R: Extremely halophilic bacteria in crystallizer ponds from solar salterns. Appl Environ Microbiol. 2000, 66: 3052-3057. 10.1128/AEM.66.7.3052-3057.2000.
Article
PubMed
CAS
PubMed Central
Google Scholar
Papke RT, Douady CJ, Doolittle WF, Rodriguez-Valera F: Diversity of bacteriorhodopsins in different hypersaline waters from a single Spanish saltern. Environ Microbiol. 2003, 5: 1039-1045. 10.1046/j.1462-2920.2003.00501.x.
Article
PubMed
CAS
Google Scholar
Papke RT, Koenig JE, Rodriguez-Valera F, Doolittle WF: Frequent recombination in a saltern population of Halorubrum. Science. 2004, 306: 1928-1929. 10.1126/science.1103289.
PubMed
CAS
Google Scholar
Anton J, Oren A, Benlloch S, Rodriguez-Valera F, Amann R, Rossello-Mora R: Salinibacter ruber gen. nov., sp. nov., a novel, extremely halophilic member of the Bacteria from saltern crystallizer ponds. Int J Syst Evol Microbiol. 2002, 52: 485-491.
Article
PubMed
CAS
Google Scholar
Burns DG, Camakaris HM, Janssen PH, Dyall-Smith* ML: Combined use of cultivation-dependent and cultivation-independent methods indicates that members of most haloarchaeal groupsin an Australian crystallizer pond are cultivable. Appl Environ Microbiol. 2004, 70: 5258-5265. 10.1128/AEM.70.9.5258-5265.2004.
Article
PubMed
CAS
PubMed Central
Google Scholar
Torsvik V, Ovreas L, Thingstad TF: Prokaryotic diversity--magnitude, dynamics, and controlling factors. Science. 2002, 296: 1064-1066. 10.1126/science.1071698.
Article
PubMed
CAS
Google Scholar
Bolhuis H, Palm P, Wende A, Falb M, Rampp M, Rodriguez-Valera F, Pfeiffer F, Oesterhelt D: The genome of the square archaeon “Haloquadratum walsbyi”: life at thelimits of water activity. BMC Genomics. 2006, 7: 169-
Article
PubMed
PubMed Central
Google Scholar
Konstantinidis KT, Tiedje JM: Genomic insights that advance the species definition for prokaryotes. Proc Natl Acad Sci U S A. 2005, 102: 2567-2572. 10.1073/pnas.0409727102.
Article
PubMed
CAS
PubMed Central
Google Scholar
Feil EJ: Small change: keeping pace with microevolution. Nat Rev Microbiol. 2004, 2: 483-495. 10.1038/nrmicro904.
Article
PubMed
CAS
Google Scholar
Treusch AH, Kletzin A, Raddatz G, Ochsenreiter T, Quaiser A, Meurer G, Schuster SC, Schleper C: Characterization of large-insert DNA libraries from soil for environmental genomic studies of Archaea. Environ Microbiol. 2004, 6: 970-980. 10.1111/j.1462-2920.2004.00663.x.
Article
PubMed
CAS
Google Scholar
Medini D, Donati C, Tettelin H, Masignani V, Rappuoli R: The microbial pan-genome. Curr Opin Genet Dev. 2005
Google Scholar
Tettelin H, Masignani V, Cieslewicz MJ, Donati C, Medini D, Ward NL, Angiuoli SV, Crabtree J, Jones AL, Durkin AS, Deboy RT, Davidsen TM, Mora M, Scarselli M, Margarit YRI, Peterson JD, Hauser CR, Sundaram JP, Nelson WC, Madupu R, Brinkac LM, Dodson RJ, Rosovitz MJ, Sullivan SA, Daugherty SC, Haft DH, Selengut J, Gwinn ML, Zhou L, Zafar N, Khouri H, Radune D, Dimitrov G, Watkins K, O'Connor K J, Smith S, Utterback TR, White O, Rubens CE, Grandi G, Madoff LC, Kasper DL, Telford JL, Wessels MR, Rappuoli R, Fraser CM: Genome analysis of multiple pathogenic isolates of Streptococcus agalactiae: Implications for the microbial "pan-genome". Proc Natl Acad Sci U S A. 2005, 102: 13950-13955. 10.1073/pnas.0506758102.
Article
PubMed
CAS
PubMed Central
Google Scholar
Acinas SG, Klepac-Ceraj V, Hunt DE, Pharino C, Ceraj I, Distel DL, Polz MF: Fine-scale phylogenetic architecture of a complex bacterial community. Nature. 2004, 430: 551-554. 10.1038/nature02649.
Article
PubMed
CAS
Google Scholar
Acinas SG, Anton J, Rodriguez-Valera F: Diversity of free-living and attached bacteria in offshore Western Mediterranean waters as depicted by analysis of genes encoding 16S rRNA. Appl Environ Microbiol. 1999, 65: 514-522.
PubMed
CAS
PubMed Central
Google Scholar
Schut F, Prins RA, Gottschal JC: Oligotrofy and pelagic marine bacteria:facts and fiction. Aquat Microbial Ecol. 1997, 12.: 177-202.
Article
Google Scholar
Venter JC, Remington K, Heidelberg JF, Halpern AL, Rusch D, Eisen JA, Wu D, Paulsen I, Nelson KE, Nelson W, Fouts DE, Levy S, Knap AH, Lomas MW, Nealson K, White O, Peterson J, Hoffman J, Parsons R, Baden-Tillson H, Pfannkoch C, Rogers YH, Smith HO: Environmental genome shotgun sequencing of the Sargasso Sea. Science. 2004, 304: 66-74. 10.1126/science.1093857.
Article
PubMed
CAS
Google Scholar
Giovannoni SJ, Tripp HJ, Givan S, Podar M, Vergin KL, Baptista D, Bibbs L, Eads J, Richardson TH, Noordewier M, Rappe MS, Short JM, Carrington JC, Mathur EJ: Genome streamlining in a cosmopolitan oceanic bacterium. Science. 2005, 309: 1242-1245. 10.1126/science.1114057.
Article
PubMed
CAS
Google Scholar
Altschul SF, Koonin EV: Iterated profile searches with PSI-BLAST--a tool for discovery in protein databases. Trends Biochem Sci. 1998, 23: 444-447. 10.1016/S0968-0004(98)01298-5.
Article
PubMed
CAS
Google Scholar
Karlin S, Mrazek J, Campbell AM: Compositional biases of bacterial genomes and evolutionary implications. J Bacteriol. 1997, 179: 3899-3913.
PubMed
CAS
PubMed Central
Google Scholar
RuG-L04: [http://www.let.rug.nl/~kleiweg/indexs.html.]. [http://www.let.rug.nl/~kleiweg/indexs.html.]
Rice P, Longden I, Bleasby A: EMBOSS: the European Molecular Biology Open Software Suite. Trends Genet. 2000, 16: 276-277. 10.1016/S0168-9525(00)02024-2.
Article
PubMed
CAS
Google Scholar
Isoelectric-Point-Calculator: [http://www.bioinformatics.vg/sms/protein_iep.html].
Delcher AL, Harmon D, Kasif S, White O, Salzberg SL: Improved microbial gene identification with GLIMMER. Nucleic Acids Res. 1999, 27: 4636-4641. 10.1093/nar/27.23.4636.
Article
PubMed
CAS
PubMed Central
Google Scholar
HaloLex: [www.halolex.mpg.de].
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: The genome of Salinibacter ruber: convergence and gene exchange among hyperhalophilic bacteria and archaea. Proc Natl Acad Sci U S A. 2005, 102: 18147-18152. 10.1073/pnas.0509073102.
Article
PubMed
CAS
PubMed Central
Google Scholar