Detection of lateral gene transfer among microbial genomes

Current Opinion in Genetics and Development

Volumn 11, Issue 6, 2001, Pages 620-626

  Ragan, M A ^a  

^a UNIVERSITY OF QUEENSLAND   (Australia)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIUM; GENE SEQUENCE; GENE TRANSFER; MICROBIAL GENETICS; NONHUMAN; OPEN READING FRAME; PHENOTYPE; PHYLOGENY; PRIORITY JOURNAL; REVIEW; SEQUENCE ANALYSIS;

EID: 0035546223     PISSN: 0959437X     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0959-437X(00)00244-6     Document Type: Review

References (76)

1. Interpreting the universal phylogenetic tree
2. Horizontal gene transfer and the origin of species: Lessons from bacteria
3. Lateral gene transfer and the nature of bacterial innovation
4. Phylogenetic classification and the universal tree
5. Lateral gene transfer in prokaryotes
6. An archaeal genomic signature
7. You are what you eat: A gene transfer ratchet could account for bacterial genes in eukaryotic nuclear genomes
8. Horizontal gene transfer among microbial genomes: New insights from complete genome analysis
9. Evidence for lateral gene transfer between Archaea and Bacteria from genome sequence of Thermotoga maritima
10. Genome sequence of enterohaemorrhagic Escherichia coli O157:H7
11. The genome sequence of the thermoacidophilic scavenger Thermoplasma acidophilum
12. Complete genome sequence of an Mq strain of Streptococcus pyogenes
13. Whole genome sequencing of meticillin-resistant Staphylococcus aureus
14. Analysis of codon usage patterns of bacterial genomes using the self-organizing map
15. Horizontal gene transfer in bacterial and archaeal complete genomes
16. About the last common ancestor, the universal life-tree and lateral gene transfer: A reappraisal
17. Something for everyone. Horizontal gene transfer in evolution
18. Plasmids responsible for horizontal transfer of naphthalene catabolism genes between bacteria at a coal tar-contaminated site are homologous to pDTG1 from Pseudomonas putida NCIB 9816-4
19. Evolution of a pathway for chlorobenzene metabolism leads to natural attenuation in contaminated groundwater
20. Biodiversity and horizontal gene transfer in culturable bacteria isolated from activated sludge enriched in nonylphenol ethoxylates
21. Gene transfer between bacteria within digestive vacuoles of protozoa
22. Gene transfer in soil systems using microcosms
23. Transformation of Acinetobacter sp. strain BD413(pFG4ΔnptII) with transgenic plant DNA in soil microcosms and effects of kanamycin on selection of transformants
24. Horizontal gene transfer from transgenic plants to terrestrial bacteria - A rare event?
25. Horizontal gene transfers in the environment: Natural transformation as a putative process for gene transfers between transgenic plants and microorganisms
26. Monitoring field releases of genetically modified sugar beets for persistence of transgenic plant DNA and horizontal gene transfer
27. Horizontal gene transfer among bacteria in terrestrial and aquatic habitats as assessed by microcosm and field studies
28. 1-ATPase
29. Analysis of long repeats in bacterial genomes reveals alternative evolutionary mechanisms in Bacillus subtilis and other competent prokaryotes
30. Gene capture in archaeal chromosomes
31. Retrotransfer or gene capture: A feature of conjugative plasmids, with ecological and evolutionary significance
32. Evidence of recent lateral gene transfer among hyperthermophilic Archaea
33. Phylogenetic analysis of two 'archaeal' genes in Thermotoga maritima reveal multiple transfers between Archaea and Bacteria
34. Gene transfers between distantly related organisms
35. Eukaryotic signaling domain homologues in Archaea and Bacteria. Ancient ancestry and horizontal gene transfer
36. Evolution of domain families
37. A minimal gene set for cellular life derived by comparison of complete bacterial genomes
38. Codon bias and base composition are poor indicators of horizontally transferred genes
39. 'Homology' in proteins and nucleic acids: A terminology muddle and a way out of it
40. Horizontal transfer of archaeal genes into the Deinococcaceae: Detection by molecular and computer-based approaches
41. The closest BLAST hit is often not the nearest neighbor
42. +-dependent glyceraldehyde-3-phosphate dehydrogenase from Pinus sylvestris chloroplasts
43. On surrogate methods for detecting lateral gene transfer
44. Apoptotic molecular machinery: Vastly increased complexity in vertebrates revealed by genome comparisons
45. Selfish operons: Horizontal transfer may drive the evolution of gene clusters
46. Evidence for horizontal gene transfer in Escherichia coli speciation
47. Amelioration of bacterial genomes: Rates of change and exchange
48. Codon usage and lateral gene transfer in Bacillus subtilis
49. Universal replication biases in bacteria
50. A possible origin of newly-born bacterial genes: Significance of GC-rich nonstop frame on antisense strand
51. Evolutionary dynamics of full genome content in Escherichia coli
52. Horizontal transfer of genetic material among Saccharomyces yeasts
53. Comparison of the evolutionary dynamics of symbiotic and housekeeping loci: A case for the genetic coherence of rhizobial lineages
54. Mosaic genes and mosaic chromosomes: Intra- and interspecies genomic variation of Streptococcus pneumoniae
55. Evolution by acquisition: The case for horizontal gene transfers
56. Horizontal gene transfer among genomes: The complexity hypothesis
57. Genome phylogeny based on gene content
58. Whole genome-based phylogenetic analysis of free-living microorganisms
59. The genomic tree as revealed from whole proteome comparisons
60. Archaea and the prokaryote-to-eukaryote transition
61. A phylogenomic approach to microbial evolution
62. Phylogenetic inference from molecular sequences: Review and critique
63. Evolutionary implications of the frequent horizontal transfer of mismatch repair genes
64. Isoprenoid biosynthesis: The evolution of two ancient and distinct pathways across genomes
65. The role of lateral gene transfer in the evolution of isoprenoid biosythesis pathways
66. Biosynthesis of isoprenoids via mevalonate in Archaea: The lost pathway
67. + oxidoreductase from the mitochondrion of Euglena gracilis and from the apicomplexan Cryptosporidium parvum: A biochemical relic linking pyruvate metabolism in mitochondriate and amitochondriate protists
68. How many genes in Arabidopsis come from cyanobacteria? An estimate from 386 protein phylogenies
69. The phylogeny of proteobacteria: Relationships to other eubacterial phyla and eukaryotes
70. Constructing multigenome views of whole microbial genomes
71. Reticulate evolution: From bacteria to philosopher
72. Testing hybridization hypotheses based on incongruent gene trees
73. Making phylogenetic sense of biochemical and morphological diversity among the protists
74. Distributional profiles of homologous open reading frames among bacterial phyla: Implications for vertical and lateral transmission