Predicted highly expressed genes of diverse prokaryotic genomes

Journal of Bacteriology

Volumn 182, Issue 18, 2000, Pages 5238-5250

  Karlin, S ^a   Mrazek, J ^a  

^a STANFORD UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CHAPERONE; PROTEIN HISTIDINE KINASE; REGULATOR PROTEIN; RIBOSOME PROTEIN; TRANSCRIPTION FACTOR;

ARTICLE; BACILLUS SUBTILIS; CITRIC ACID CYCLE; CODON USAGE; CONTROLLED STUDY; CYANOBACTERIUM; DEINOCOCCUS RADIODURANS; DETOXIFICATION; ELECTRON TRANSPORT; ENERGY METABOLISM; ESCHERICHIA COLI; FLAGELLUM; GENE EXPRESSION; GENOME; GLYCOLYSIS; HAEMOPHILUS INFLUENZAE; METHANOGENESIS; NONHUMAN; OPERON; PHOTOSYNTHESIS; PREDICTION; PRIORITY JOURNAL; PROKARYOTE; STOICHIOMETRY; VIBRIO CHOLERAE;

ARCHAEA; ARCHAEAL PROTEINS; BACTERIA; BACTERIAL PROTEINS; ESCHERICHIA COLI; GENE EXPRESSION REGULATION, ARCHAEAL; GENE EXPRESSION REGULATION, BACTERIAL; PROTEIN BIOSYNTHESIS; RIBOSOMAL PROTEINS; TRANSCRIPTION FACTORS; TRANSCRIPTION, GENETIC;

EID: 0033816775     PISSN: 00219193     EISSN: None     Source Type: Journal    
DOI: 10.1128/JB.182.18.5238-5250.2000     Document Type: Article

References (76)

1. Codon preferences in free-living microorganisms
2. The genome sequence of Rickettsia prowazekii and the origin of mitochondria
3. Against all odds: The survival strategies of Deinococcus radiodurans
4. Why is Deinococcus radiodurans so resistant to ionizing radiation?
5. Characterization of activity and expression of isocitrate lyase in Mycobacterium avium and Mycobacterium tuberculosis
6. The complete genome sequence of Escherichia coli K-12
7. Complete genome sequence of the methanogenic archeon, Methanococcus jannaschii
8. Morphology and dynamics of protruding spirochete periplasmic flagella
9. Deciphering the biology of Mycobacterium tuberculosis from the complete genome sequence
10. Cis-acting signals controlling translational initiation in the thermophilic archaeon Sulfolobus solfataricus
11. The complete genome of the hyperthermophilic bacterium Aquifex aeolicus
12. Trigger factor and DnaK cooperate in folding of newly synthesized proteins
13. Following the leader: Bacterial protein export through the Sec pathway
14. Translational enhancement by an element downstream of the initiation codon in Escherichia coli
15. Whole-genome random sequencing and assembly of Haemophilus influenzae Rd
16. Genomic sequence of a Lyme disease spirochete, Borrelia burgdorferi
17. The minimal gene complement of Mycoplasma genitalium
18. Complete genome sequence of Treponema pallidum, the syphilis spirochete
19. Contributions of genome sequencing to understanding the biology of Helicobacter pylori
20. Using codon usage to predict gene origin: Is the Escherichia coli outer membrane a patchwork of products from different genomes?
21. Correlation between protein and mRNA abundance in yeast
22. Genome multiplicity and radiation resistance in Micrococcus radiodurans
23. Complete sequence analysis of the genome of the bacterium Mycoplasma pneumoniae
24. Correlation between the abundance of Escherichia coli transfer RNAs and the occurrence of the respective codons in its protein genes: A proposal for a synonymous codon choice that is optimal for the E. coli translational system
25. Codon pair utilization biases influence translational elongation step times
26. Comparative genomes of Chlamydia pneumoniae and C. trachomatis
27. Sequence analysis of the genome of the unicellular cyanobacterium Synechocystis sp. PCC6803. II. Sequence determination of the entire genome and assignment of potential protein-coding regions
28. Evolutionary conservation of RecA genes in relation to protein structure and function
29. Comparative DNA analysis across diverse genomes
30. What drives codon choices in human genes?
31. Frequent oligonucleotides and peptides of the Haemophilus influenzae genome
32. Codon usages in different gene classes of the Escherichia coli genome
33. Complete sequence and gene organization of the genome of a hyper-thermophilic archaebacterium, Pyrococcus horikoshii OT3
34. The complete genome sequence of the hyperthermophilic, sulphate-reducing archaeon Archaeoglobus fulgidus
35. Prediction of eukaryotic mRNA translational properties
36. Biochemistry of homologous recombination in Escherichia coli
37. The complete genome sequence of the Gram-positive bacterium Bacillus subtilis
38. Major codon preference: Theme and variations
39. Amelioration of bacterial genomes: Rates of change and exchange
40. Molecular archaeology of the Escherichia coli genome
41. Elongation factor NusG interacts with termination factor rho to regulate termination and antitermination of transcription
42. Protection of DNA during oxidative stress by the nonspecific DNA-binding protein Dps
43. Survival strategies in stationary phase
44. Evidence for horizontal gene transfer in Escherichia coli speciation
45. Nitrogen control in bacteria
46. Adaptive evolution of highly mutable loci in pathogenic bacteria
47. Detecting alien genes in bacterial genomes
48. Urease plays an important role in the chemotactic motility of Helicobacterpylori in a viscous environment
49. Evidence for lateral gene transfer between Archaea and Bacteria from gehome sequence of Thermotoga maritima
50. Lateral gene transfer and the nature of bacterial innovation
51. Analysis of base-pairing potentials between 16S rRNA and 5' UTR for translation initiation in various prokaryotes
52. Who chaperones nascent chains in bacteria?
53. Studies on the lumazine synthase/riboflavin synthase complex of Bacillus subtilis: Crystal structure analysis of reconstituted, icosahedral beta-subunit capsids with bound substrate analogue inhibitor at 2.4 A resolution
54. Computer analyses of complete genomes suggest that some archacbactcria employ both eukaryotic and eubacterial mechanisms in translation initiation
55. The codon adaptation index - A measure of directional synonymous codon usage bias, and its potential applications
56. Codon usage and genome evolution
57. Conditional lethality of deletions which include uvrB in strains of Escherichia coli lacking deoxyribonucleic acid polymerase I
58. Complete genome sequence of Methanobacterium thermoautotrophicum delta H: Functional analysis and comparative genomics
59. Multiple control of flagellum biosynthesis in Escherichia coli: Role of H-NS protein and the cyclic AMP-catabolite activator protein complex in transcription of the flhDC master operon
60. Genome sequence of an obligate intracellular pathogen of humans: Chlamydia trachomatis
61. Functional genomics: Expression analysis of Escherichia coli growing on minimal and rich media
62. Polypeptide flux through bacterial Hsp70: DnaK cooperates with trigger factor in chaperoning nascent chains
63. Two nucleotide transport proteins in Chlamydia trachomatis, one for net nucleoside triphosphate uptake and the other for transport of energy
64. The complete genome sequence of the gastric pathogen Helicobacter pylori
65. Novel ionizing radiation-sensitive mutants of Deinococcus radiodurans
66. Gene-protein database of Escherichia coli K-12
67. Diagnosis of cellular states of microbial organisms using proteomics
68. Three-dimensional structure of the biotin carboxylase subunit of acetyl-CoA carboxylase
69. The economics of ribosome biosynthesis in yeast
70. Genome sequence of the radioresistant bacterium Deinococcus radiodurans R1
71. Acquisition of glucose by Rickettsia prowazekii through the nucleotide intermediate uridine 5'-diphosphoglucose
72. Non-mitochondrial ATP transport
73. Extraribosomal functions of ribosomal proteins
74. Structure and evolution of mammalian ribosomal proteins
75. A new pathway for the secretion of virulence factors by bacteria: The flagellar export apparatus functions as a protein-secretion system
76. Involvement of molecular chaperonins in nucleotide excision repair. DnaK leads to increased thermal stability of UvrA, catalytic UvrB loading, enhanced repair, and increased UV resistance