-
The frequency and characteristics of highly thermophilic bacteria in cool soil environments.
Environ Microbiol. 2002 Oct;4(10):595-602
PMID: 12366754
-
Interpreting 16S rDNA T-RFLP Data: Application of Self-Organizing Maps and Principal Component Analysis to Describe Community Dynamics and Convergence.
Microb Ecol. 2001 Dec;42(4):495-505
PMID: 12024232
-
PhyloGenie: automated phylome generation and analysis.
Nucleic Acids Res. 2004;32(17):5231-8
PMID: 15459293
-
Consed: a graphical tool for sequence finishing.
Genome Res. 1998 Mar;8(3):195-202
PMID: 9521923
-
Relationships between genomic G+C content, RNA secondary structures, and optimal growth temperature in prokaryotes.
J Mol Evol. 1997 Jun;44(6):632-6
PMID: 9169555
-
A general empirical model of protein evolution derived from multiple protein families using a maximum-likelihood approach.
Mol Biol Evol. 2001 May;18(5):691-9
PMID: 11319253
-
Alpha/Beta-hydrolase fold enzymes: structures, functions and mechanisms.
Curr Protein Pept Sci. 2000 Sep;1(2):209-35
PMID: 12369917
-
Distribution and molecular investigation of highly thermophilic bacteria associated with cool soil environments.
Biochem Soc Trans. 2004 Apr;32(Pt 2):209-13
PMID: 15046573
-
The rapid generation of mutation data matrices from protein sequences.
Comput Appl Biosci. 1992 Jun;8(3):275-82
PMID: 1633570
-
Base-calling of automated sequencer traces using phred. II. Error probabilities.
Genome Res. 1998 Mar;8(3):186-94
PMID: 9521922
-
A comparison of thermodynamic foldings with comparatively derived structures of 16S and 16S-like rRNAs.
RNA. 1995 Aug;1(6):559-74
PMID: 7489516
-
tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence.
Nucleic Acids Res. 1997 Mar 1;25(5):955-64
PMID: 9023104
-
Novel predominant archaeal and bacterial groups revealed by molecular analysis of an anaerobic sludge digester.
Environ Microbiol. 2005 Aug;7(8):1104-15
PMID: 16011748
-
Comparative genomics of Thermus thermophilus and Deinococcus radiodurans: divergent routes of adaptation to thermophily and radiation resistance.
BMC Evol Biol. 2005;5:57
PMID: 16242020
-
A transition probability model for amino acid substitutions from blocks.
J Comput Biol. 2003;10(6):997-1010
PMID: 14980022
-
Active self-splicing group I introns in 23S rRNA genes of hyperthermophilic bacteria, derived from introns in eukaryotic organelles.
Proc Natl Acad Sci U S A. 2003 Sep 16;100(19):10806-11
PMID: 12947037
-
Cyclic di-guanosine-monophosphate comes of age: a novel secondary messenger involved in modulating cell surface structures in bacteria?
Curr Opin Microbiol. 2004 Apr;7(2):185-91
PMID: 15063857
-
EMBOSS: the European Molecular Biology Open Software Suite.
Trends Genet. 2000 Jun;16(6):276-7
PMID: 10827456
-
The University of Minnesota Biocatalysis/Biodegradation Database: the first decade.
Nucleic Acids Res. 2006 Jan 1;34(Database issue):D517-21
PMID: 16381924
-
Improved microbial gene identification with GLIMMER.
Nucleic Acids Res. 1999 Dec 1;27(23):4636-41
PMID: 10556321
-
Petrotoga mobilis sp. nov., from a North Sea oil-production well.
Int J Syst Bacteriol. 1998 Jul;48 Pt 3:1007-13
PMID: 9734057
-
Phylogenetic characterization of a polychlorinated-dioxin- dechlorinating microbial community by use of microcosm studies.
Appl Environ Microbiol. 2005 Aug;71(8):4325-34
PMID: 16085820
-
Recombination in Thermotoga: implications for species concepts and biogeography.
Genetics. 2006 Feb;172(2):759-69
PMID: 16322518
-
Characterization of a defined 2,3,5, 6-tetrachlorobiphenyl-ortho-dechlorinating microbial community by comparative sequence analysis of genes coding for 16S rRNA.
Appl Environ Microbiol. 1998 Sep;64(9):3359-67
PMID: 9726883
-
The comparative RNA web (CRW) site: an online database of comparative sequence and structure information for ribosomal, intron, and other RNAs.
BMC Bioinformatics. 2002;3:2
PMID: 11869452
-
The reductive dechlorination of 2,3,4,5-tetrachlorobiphenyl in three different sediment cultures: evidence for the involvement of phylogenetically similar Dehalococcoides-like bacterial populations.
FEMS Microbiol Ecol. 2006 Feb;55(2):248-61
PMID: 16420633
-
The Pfam protein families database.
Nucleic Acids Res. 2004 Jan 1;32(Database issue):D138-41
PMID: 14681378
-
Population density-dependent regulation of exopolysaccharide formation in the hyperthermophilic bacterium Thermotoga maritima.
Mol Microbiol. 2005 Feb;55(3):664-74
PMID: 15660994
-
Genomic correlates of hyperthermostability, an update.
J Biol Chem. 2003 May 9;278(19):17198-202
PMID: 12600994
-
Establishment of a polychlorinated biphenyl-dechlorinating microbial consortium, specific for doubly flanked chlorines, in a defined, sediment-free medium.
Appl Environ Microbiol. 2000 Jan;66(1):49-53
PMID: 10618202
-
Comparative analysis of polychlorinated biphenyl-dechlorinating communities in enrichment cultures using three different molecular screening techniques.
Environ Microbiol. 2001 Nov;3(11):710-9
PMID: 11846761
-
Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions.
Mol Biol Evol. 1986 Sep;3(5):418-26
PMID: 3444411
-
Evidence for lateral gene transfer between Archaea and bacteria from genome sequence of Thermotoga maritima.
Nature. 1999 May 27;399(6734):323-9
PMID: 10360571
-
TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing.
Bioinformatics. 2002 Mar;18(3):502-4
PMID: 11934758
-
Base-calling of automated sequencer traces using phred. I. Accuracy assessment.
Genome Res. 1998 Mar;8(3):175-85
PMID: 9521921
-
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.
Nucleic Acids Res. 1997 Sep 1;25(17):3389-402
PMID: 9254694
-
Cloning the soil metagenome: a strategy for accessing the genetic and functional diversity of uncultured microorganisms.
Appl Environ Microbiol. 2000 Jun;66(6):2541-7
PMID: 10831436