Orthologs, paralogs, and evolutionary genomics
EV Koonin - Annu. Rev. Genet., 2005 - annualreviews.org
Orthologs and paralogs are two fundamentally different types of homologous genes that
evolved, respectively, by vertical descent from a single ancestral gene and by duplication …
evolved, respectively, by vertical descent from a single ancestral gene and by duplication …
The TetR family of transcriptional repressors
JL Ramos, M Martínez-Bueno… - Microbiology and …, 2005 - Am Soc Microbiol
We have developed a general profile for the proteins of the TetR family of repressors. The
stretch that best defines the profile of this family is made up of 47 amino acid residues that …
stretch that best defines the profile of this family is made up of 47 amino acid residues that …
VFDB: a reference database for bacterial virulence factors
L Chen, J Yang, J Yu, Z Yao, L Sun… - Nucleic acids …, 2005 - academic.oup.com
Bacterial pathogens continue to impose a major threat to public health worldwide in the 21st
century. Intensified studies on bacterial pathogenesis have greatly expanded our knowledge …
century. Intensified studies on bacterial pathogenesis have greatly expanded our knowledge …
Complete genome sequence of the probiotic lactic acid bacterium Lactobacillus acidophilus NCFM
E Altermann, WM Russell… - Proceedings of the …, 2005 - National Acad Sciences
Lactobacillus acidophilus NCFM is a probiotic bacterium that has been produced
commercially since 1972. The complete genome is 1,993,564 nt and devoid of plasmids …
commercially since 1972. The complete genome is 1,993,564 nt and devoid of plasmids …
Protein length in eukaryotic and prokaryotic proteomes
L Brocchieri, S Karlin - Nucleic acids research, 2005 - academic.oup.com
We analyzed length differences of eukaryotic, bacterial and archaeal proteins in relation to
function, conservation and environmental factors. Comparing Eukaryotes and Prokaryotes …
function, conservation and environmental factors. Comparing Eukaryotes and Prokaryotes …
A novel method for accurate operon predictions in all sequenced prokaryotes
We combine comparative genomic measures and the distance separating adjacent genes to
predict operons in 124 completely sequenced prokaryotic genomes. Our method …
predict operons in 124 completely sequenced prokaryotic genomes. Our method …
Whole-Genome Transcriptional Analysis of Heavy Metal Stresses in Caulobacter crescentus
The bacterium Caulobacter crescentus and related stalk bacterial species are known for
their distinctive ability to live in low-nutrient environments, a characteristic of most heavy …
their distinctive ability to live in low-nutrient environments, a characteristic of most heavy …
The Genome of Sulfolobus acidocaldarius, a Model Organism of the Crenarchaeota
L Chen, K Brügger, M Skovgaard… - Journal of …, 2005 - Am Soc Microbiol
Sulfolobus acidocaldarius is an aerobic thermoacidophilic crenarchaeon which grows
optimally at 80° C and pH 2 in terrestrial solfataric springs. Here, we describe the genome …
optimally at 80° C and pH 2 in terrestrial solfataric springs. Here, we describe the genome …
[HTML][HTML] Dissimilatory metabolism of nitrogen oxides in bacteria: comparative reconstruction of transcriptional networks
Bacterial response to nitric oxide (NO) is of major importance since NO is an obligatory
intermediate of the nitrogen cycle. Transcriptional regulation of the dissimilatory nitric oxides …
intermediate of the nitrogen cycle. Transcriptional regulation of the dissimilatory nitric oxides …
Whole genome sequence of Staphylococcus saprophyticus reveals the pathogenesis of uncomplicated urinary tract infection
M Kuroda, A Yamashita, H Hirakawa… - Proceedings of the …, 2005 - National Acad Sciences
Staphylococcus saprophyticus is a uropathogenic Staphylococcus frequently isolated from
young female outpatients presenting with uncomplicated urinary tract infections. We …
young female outpatients presenting with uncomplicated urinary tract infections. We …