Related Content
Search Google Scholar for:
More Information
Related Jobs from ScienceCareers
|
|
Science 11 May 2001: Vol. 292. no. 5519, pp. 1096 - 1099 DOI: 10.1126/science.1058543
|
|
Viewpoint
Genes Lost and Genes Found: Evolution of Bacterial Pathogenesis and Symbiosis
Howard Ochman,*
Nancy A. Moran
Traditionally, evolutionary biologists have viewed mutations
within individual genes as the major source of phenotypic variation leading to adaptation through natural selection, and ultimately generating diversity among species. Although such processes must contribute to the initial development of gene functions and their subsequent fine-tuning, changes in genome repertoire, occurring through
gene acquisition and deletion, are the major events underlying the
emergence and evolution of bacterial pathogens and symbionts. Furthermore, pathogens and symbionts depend on similar mechanisms for
interacting with hosts and show parallel trends in genome evolution.
Department of Ecology and Evolutionary Biology, University of
Arizona, Tucson, AZ 85718, USA.
*
To whom correspondence should be addressed. E-mail:
hochman{at}email.arizona.edu
Read the Full Text
THIS ARTICLE HAS BEEN CITED BY OTHER ARTICLES:
- The Olive Fly Endosymbiont, "Candidatus Erwinia dacicola," Switches from an Intracellular Existence to an Extracellular Existence during Host Insect Development.
- A. M. Estes, D. J. Hearn, J. L. Bronstein, and E. A. Pierson (2009)
Appl. Envir. Microbiol.
75, 7097-7106
| Abstract »
| Full Text »
| PDF »
- A Phylogenetic Mixture Model for Gene Family Loss in Parasitic Bacteria.
- M. Spencer and A. Sangaralingam (2009)
Mol. Biol. Evol.
26, 1901-1908
| Abstract »
| Full Text »
| PDF »
- Molecular Darwinian Evolution of Virulence in Yersinia pestis.
- D. Zhou and R. Yang (2009)
Infect. Immun.
77, 2242-2250
| Full Text »
| PDF »
- Biogeography of the Sulfolobus islandicus pan-genome.
- M. L. Reno, N. L. Held, C. J. Fields, P. V. Burke, and R. J. Whitaker (2009)
PNAS
106, 8605-8610
| Abstract »
| Full Text »
| PDF »
- Selection for Translational Robustness in Buchnera aphidicola, Endosymbiotic Bacteria of Aphids.
- C. Toft and M. A. Fares (2009)
Mol. Biol. Evol.
26, 743-751
| Abstract »
| Full Text »
| PDF »
- Darwinian evolution in the light of genomics.
- E. V. Koonin (2009)
Nucleic Acids Res.
37, 1011-1034
| Abstract »
| Full Text »
| PDF »
- De novo assembly using low-coverage short read sequence data from the rice pathogen Pseudomonas syringae pv. oryzae.
- J. A. Reinhardt, D. A. Baltrus, M. T. Nishimura, W. R. Jeck, C. D. Jones, and J. L. Dangl (2009)
Genome Res.
19, 294-305
| Abstract »
| Full Text »
| PDF »
- Genomics of bacteria and archaea: the emerging dynamic view of the prokaryotic world.
- E. V. Koonin and Y. I. Wolf (2008)
Nucleic Acids Res.
36, 6688-6719
| Abstract »
| Full Text »
| PDF »
- Evolution of Peptidase Diversity.
- M. J. Page and E. Di Cera (2008)
J. Biol. Chem.
283, 30010-30014
| Abstract »
| Full Text »
| PDF »
- Toxic Introns and Parasitic Intein in Coxiella burnetii: Legacies of a Promiscuous Past.
- R. Raghavan, L. D. Hicks, and M. F. Minnick (2008)
J. Bacteriol.
190, 5934-5943
| Abstract »
| Full Text »
| PDF »
- The Evolution of the Flagellar Assembly Pathway in Endosymbiotic Bacterial Genomes.
- C. Toft and M. A. Fares (2008)
Mol. Biol. Evol.
25, 2069-2076
| Abstract »
| Full Text »
| PDF »
- Genome Sequence of Thermofilum pendens Reveals an Exceptional Loss of Biosynthetic Pathways without Genome Reduction.
- I. Anderson, J. Rodriguez, D. Susanti, I. Porat, C. Reich, L. E. Ulrich, J. G. Elkins, K. Mavromatis, A. Lykidis, E. Kim, et al. (2008)
J. Bacteriol.
190, 2957-2965
| Abstract »
| Full Text »
| PDF »
- Chemical Ecology Special Feature: The evolution of gene collectives: How natural selection drives chemical innovation.
- M. A. Fischbach, C. T. Walsh, and J. Clardy (2008)
PNAS
105, 4601-4608
| Abstract »
| Full Text »
| PDF »
- Reductive evolution of architectural repertoires in proteomes and the birth of the tripartite world.
- M. Wang, L. S. Yafremava, D. Caetano-Anolles, J. E. Mittenthal, and G. Caetano-Anolles (2007)
Genome Res.
17, 1572-1585
| Abstract »
| Full Text »
| PDF »
- Genomics of Actinobacteria: Tracing the Evolutionary History of an Ancient Phylum.
- M. Ventura, C. Canchaya, A. Tauch, G. Chandra, G. F. Fitzgerald, K. F. Chater, and D. van Sinderen (2007)
Microbiol. Mol. Biol. Rev.
71, 495-548
| Abstract »
| Full Text »
| PDF »
- Binding of Human Plasminogen to Bifidobacterium.
- M. Candela, S. Bergmann, M. Vici, B. Vitali, S. Turroni, B. J. Eikmanns, S. Hammerschmidt, and P. Brigidi (2007)
J. Bacteriol.
189, 5929-5936
| Abstract »
| Full Text »
| PDF »
- Hydrogen symbioses in evolution and disease.
- A.C. Williams and D.B. Ramsden (2007)
QJM
100, 451-459
| Abstract »
| Full Text »
| PDF »
- In Planta Horizontal Transfer of a Major Pathogenicity Effector Gene.
- B. El Yacoubi, A. M. Brunings, Q. Yuan, S. Shankar, and D. W. Gabriel (2007)
Appl. Envir. Microbiol.
73, 1612-1621
| Abstract »
| Full Text »
| PDF »
- Two hydrophobin genes from the conifer pathogen Heterobasidion annosum are expressed in aerial hyphae.
- M. Karlsson, J. Stenlid, and A. Olson (2007)
Mycologia
99, 227-231
| Abstract »
| Full Text »
| PDF »
- Dynamics of Reductive Genome Evolution in Mitochondria and Obligate Intracellular Microbes.
- A. N. Khachane, K. N. Timmis, and V. A. P. Martins dos Santos (2007)
Mol. Biol. Evol.
24, 449-456
| Abstract »
| Full Text »
| PDF »
- Genome characteristics of facultatively symbiotic Frankia sp. strains reflect host range and host plant biogeography.
- P. Normand, P. Lapierre, L. S. Tisa, J. P. Gogarten, N. Alloisio, E. Bagnarol, C. A. Bassi, A. M. Berry, D. M. Bickhart, N. Choisne, et al. (2007)
Genome Res.
17, 7-15
| Abstract »
| Full Text »
| PDF »
- Complete Nucleotide Sequence of an Exogenously Isolated Plasmid, pLB1, Involved in {gamma}-Hexachlorocyclohexane Degradation.
- R. Miyazaki, Y. Sato, M. Ito, Y. Ohtsubo, Y. Nagata, and M. Tsuda (2006)
Appl. Envir. Microbiol.
72, 6923-6933
| Abstract »
| Full Text »
| PDF »
- Discovery of Natural Atypical Nonhemolytic Listeria seeligeri Isolates.
- D. Volokhov, J. George, C. Anderson, R. E. Duvall, and A. D. Hitchins (2006)
Appl. Envir. Microbiol.
72, 2439-2448
| Abstract »
| Full Text »
| PDF »
- Plasmids - potential tool for the investigation of gene transfer in Mycobacterium tuberculosis..
- T. Dam and P. Das (2006)
J. Med. Microbiol.
55, 479-480
| Full Text »
| PDF »
- Microbial Phylogeny and Evolution: Concepts and Controversies.
- J. O. Andersson (2006)
Syst Biol
55, 359-361
| Full Text »
| PDF »
- Genetic Variation in the Vibrio vulnificus Group 1 Capsular Polysaccharide Operon..
- M. Chatzidaki-Livanis, M. K. Jones, and A. C. Wright (2006)
J. Bacteriol.
188, 1987-1998
| Abstract »
| Full Text »
| PDF »
- Horizontal Transfer of Bacterial Symbionts: Heritability and Fitness Effects in a Novel Aphid Host.
- J. A. Russell and N. A. Moran (2005)
Appl. Envir. Microbiol.
71, 7987-7994
| Abstract »
| Full Text »
| PDF »
- Microarray-Based Detection and Typing of the Rhizobium Nodulation Gene nodC: Potential of DNA Arrays To Diagnose Biological Functions of Interest.
- C. Bontemps, G. Golfier, C. Gris-Liebe, S. Carrere, L. Talini, and C. Boivin-Masson (2005)
Appl. Envir. Microbiol.
71, 8042-8048
| Abstract »
| Full Text »
| PDF »
- Revisiting the Evolution of Mycobacterium bovis.
- S. Mostowy, J. Inwald, S. Gordon, C. Martin, R. Warren, K. Kremer, D. Cousins, and M. A. Behr (2005)
J. Bacteriol.
187, 6386-6395
| Abstract »
| Full Text »
| PDF »
- Recognition of Host Immune Activation by Pseudomonas aeruginosa.
- L. Wu, O. Estrada, O. Zaborina, M. Bains, L. Shen, J. E. Kohler, N. Patel, M. W. Musch, E. B. Chang, Y.-X. Fu, et al. (2005)
Science
309, 774-777
| Abstract »
| Full Text »
| PDF »
- Evolution of Subspecies of Francisella tularensis.
- K. Svensson, P. Larsson, D. Johansson, M. Bystrom, M. Forsman, and A. Johansson (2005)
J. Bacteriol.
187, 3903-3908
| Abstract »
| Full Text »
| PDF »
- Symbiotic Hydra express a plant-like peroxidase gene during oogenesis.
- M. Habetha and T. C. G. Bosch (2005)
J. Exp. Biol.
208, 2157-2165
| Abstract »
| Full Text »
| PDF »
- The genome of the heartwater agent Ehrlichia ruminantium contains multiple tandem repeats of actively variable copy number.
- N. E. Collins, J. Liebenberg, E. P. de Villiers, K. A. Brayton, E. Louw, A. Pretorius, F. E. Faber, H. van Heerden, A. Josemans, M. van Kleef, et al. (2005)
PNAS
102, 838-843
| Abstract »
| Full Text »
| PDF »
- Metabolic Interdependence of Obligate Intracellular Bacteria and Their Insect Hosts.
- E. Zientz, T. Dandekar, and R. Gross (2004)
Microbiol. Mol. Biol. Rev.
68, 745-770
| Abstract »
| Full Text »
| PDF »
- Genome reduction in prokaryotic obligatory intracellular parasites of humans: a comparative analysis.
- K. R. Sakharkar, P. K. Dhar, and V. T. K. Chow (2004)
Int J Syst Evol Microbiol
54, 1937-1941
| Abstract »
| Full Text »
| PDF »
- Isolation, Free-Living Capacities, and Genome Structure of "Candidatus Glomeribacter gigasporarum," the Endocellular Bacterium of the Mycorrhizal Fungus Gigaspora margarita.
- P. Jargeat, C. Cosseau, B. Ola'h, A. Jauneau, P. Bonfante, J. Batut, and G. Becard (2004)
J. Bacteriol.
186, 6876-6884
| Abstract »
| Full Text »
| PDF »
- Biodiversity of Vibrios.
- F. L. Thompson, T. Iida, and J. Swings (2004)
Microbiol. Mol. Biol. Rev.
68, 403-431
| Abstract »
| Full Text »
| PDF »
- Selection Footprint in the FimH Adhesin Shows Pathoadaptive Niche Differentiation in Escherichia coli.
- E. V. Sokurenko, M. Feldgarden, E. Trintchina, S. J. Weissman, S. Avagyan, S. Chattopadhyay, J. R. Johnson, and D. E. Dykhuizen (2004)
Mol. Biol. Evol.
21, 1373-1383
| Abstract »
| Full Text »
| PDF »
- Genomic Diversity of Burkholderia pseudomallei Clinical Isolates: Subtractive Hybridization Reveals a Burkholderia mallei-Specific Prophage in B. pseudomallei 1026b.
- D. DeShazer (2004)
J. Bacteriol.
186, 3938-3950
| Abstract »
| Full Text »
| PDF »
- Illuminating the Evolutionary History of Chlamydiae.
- M. Horn, A. Collingro, S. Schmitz-Esser, C. L. Beier, U. Purkhold, B. Fartmann, P. Brandt, G. J. Nyakatura, M. Droege, D. Frishman, et al. (2004)
Science
304, 728-730
| Abstract »
| Full Text »
| PDF »
- Evidence for a Symbiosis Island Involved in Horizontal Acquisition of Pederin Biosynthetic Capabilities by the Bacterial Symbiont of Paederus fuscipes Beetles.
- J. Piel, I. Hofer, and D. Hui (2004)
J. Bacteriol.
186, 1280-1286
| Abstract »
| Full Text »
| PDF »
- Bordetella Species Are Distinguished by Patterns of Substantial Gene Loss and Host Adaptation.
- C. A. Cummings, M. M. Brinig, P. W. Lepp, S. van de Pas, and D. A. Relman (2004)
J. Bacteriol.
186, 1484-1492
| Abstract »
| Full Text »
| PDF »
- Mutational and Selective Pressures on Codon and Amino Acid Usage in Buchnera, Endosymbiotic Bacteria of Aphids.
- C. Rispe, F. Delmotte, R. C.H.J. van Ham, and A. Moya (2004)
Genome Res.
14, 44-53
| Abstract »
| Full Text »
| PDF »
- Gene essentiality determines chromosome organisation in bacteria.
- E. P. C. Rocha and A. Danchin (2003)
Nucleic Acids Res.
31, 6570-6577
| Abstract »
| Full Text »
| PDF »
- CadC Is the Preferential Target of a Convergent Evolution Driving Enteroinvasive Escherichia coli toward a Lysine Decarboxylase-Defective Phenotype.
- M. Casalino, M. C. Latella, G. Prosseda, and B. Colonna (2003)
Infect. Immun.
71, 5472-5479
| Abstract »
| Full Text »
| PDF »
- History of the ADP/ATP-Translocase-Encoding Gene, a Parasitism Gene Transferred from a Chlamydiales Ancestor to Plants 1 Billion Years Ago.
- G. Greub and D. Raoult (2003)
Appl. Envir. Microbiol.
69, 5530-5535
| Abstract »
| Full Text »
| PDF »
- Using a DNA Microarray To Investigate the Distribution of Insect Virulence Factors in Strains of Photorhabdus Bacteria.
- J. Marokhazi, N. Waterfield, G. LeGoff, E. Feil, R. Stabler, J. Hinds, A. Fodor, and R. H. ffrench-Constant (2003)
J. Bacteriol.
185, 4648-4656
| Abstract »
| Full Text »
| PDF »
- An Appraisal of the Potential for Illegitimate Recombination in Bacterial Genomes and Its Consequences: From Duplications to Genome Reduction.
- E. P.C. Rocha (2003)
Genome Res.
13, 1123-1132
| Abstract »
| Full Text »
| PDF »
- Complete Genome Sequence and Comparative Genomics of Shigella flexneri Serotype 2a Strain 2457T.
- J. Wei, M. B. Goldberg, V. Burland, M. M. Venkatesan, W. Deng, G. Fournier, G. F. Mayhew, G. Plunkett III, D. J. Rose, A. Darling, et al. (2003)
Infect. Immun.
71, 2775-2786
| Abstract »
| Full Text »
| PDF »
- Genome Evolution in an Insect Cell: Distinct Features of an Ant-Bacterial Partnership.
- J. J. Wernegreen, P. H. Degnan, A. B. Lazarus, C. Palacios, and S. R. Bordenstein (2003)
Biol. Bull.
204, 221-231
| Abstract »
| Full Text »
| PDF »
- Archaea and Their Potential Role in Human Disease.
- P. B. Eckburg, P. W. Lepp, and D. A. Relman (2003)
Infect. Immun.
71, 591-596
| Full Text »
| PDF »
- Traffic at the tmRNA Gene.
- K. P. Williams (2003)
J. Bacteriol.
185, 1059-1070
| Abstract »
| Full Text »
| PDF »
- Reductive genome evolution in Buchnera aphidicola.
- R. C. H. J. van Ham, J. Kamerbeek, C. Palacios, C. Rausell, F. Abascal, U. Bastolla, J. M. Fernandez, L. Jimenez, M. Postigo, F. J. Silva, et al. (2003)
PNAS
100, 581-586
| Abstract »
| Full Text »
| PDF »
- Molecular Genetic Analysis of ICEF, an Integrative Conjugal Element That Is Present as a Repetitive Sequence in the Chromosome of Mycoplasma fermentans PG18.
- M. J. Calcutt, M. S. Lewis, and K. S. Wise (2002)
J. Bacteriol.
184, 6929-6941
| Abstract »
| Full Text »
| PDF »
- Identification of an Iron-Regulated, Hemin-Binding Outer Membrane Protein in Sinorhizobium meliloti.
- F. Battistoni, R. Platero, R. Duran, C. Cervenansky, J. Battistoni, A. Arias, and E. Fabiano (2002)
Appl. Envir. Microbiol.
68, 5877-5881
| Abstract »
| Full Text »
| PDF »
- Deducing the Origin of Soluble Adenylyl Cyclase, a Gene Lost in Multiple Lineages.
- J. Roelofs and P. J. M. Van Haastert (2002)
Mol. Biol. Evol.
19, 2239-2246
| Abstract »
| Full Text »
| PDF »
- Genetics of Streptococci, Lactococci, and Enterococci: Review of the Sixth International Conference.
- J. Yother, P. Trieu-Cuot, T. R. Klaenhammer, and W. M. de Vos (2002)
J. Bacteriol.
184, 6085-6092
| Full Text »
| PDF »
- Genome fragment of Wolbachia endosymbiont transferred to X chromosome of host insect.
- N. Kondo, N. Nikoh, N. Ijichi, M. Shimada, and T. Fukatsu (2002)
PNAS
99, 14280-14285
| Abstract »
| Full Text »
| PDF »
- Interactions among Strategies Associated with Bacterial Infection: Pathogenicity, Epidemicity, and Antibiotic Resistance.
- J. L. Martinez and F. Baquero (2002)
Clin. Microbiol. Rev.
15, 647-679
| Abstract »
| Full Text »
| PDF »
- Acceleration of genomic evolution caused by enhanced mutation rate in endocellular symbionts.
- T. Itoh, W. Martin, and M. Nei (2002)
PNAS
99, 12944-12948
| Abstract »
| Full Text »
| PDF »
- Microbial Genomics--Challenges and Opportunities: The 9th International Conference on Microbial Genomes.
- J. Zhou and J. H. Miller (2002)
J. Bacteriol.
184, 4327-4333
| Full Text »
| PDF »
- A single Photorhabdus gene, makes caterpillars floppy (mcf), allows Escherichia coli to persist within and kill insects.
- P. J. Daborn, N. Waterfield, C. P. Silva, C. P. Y. Au, S. Sharma, and R. H. ffrench-Constant (2002)
PNAS
99, 10742-10747
| Abstract »
| Full Text »
| PDF »
- Diverse Bacteria Are Pathogens of Caenorhabditis elegans.
- C. Couillault and J. J. Ewbank (2002)
Infect. Immun.
70, 4705-4707
| Abstract »
| Full Text »
| PDF »
- A whole genome view of prokaryotic haem biosynthesis.
- H. Panek and M. R. O'Brian (2002)
Microbiology
148, 2273-2282
| Full Text »
| PDF »
- Small genome of Candidatus Blochmannia, the bacterial endosymbiont of Camponotus, implies irreversible specialization to an intracellular lifestyle.
- J. J. Wernegreen, A. B. Lazarus, and P. H. Degnan (2002)
Microbiology
148, 2551-2556
| Abstract »
| Full Text »
| PDF »
- Activation of Prophage eib Genes for Immunoglobulin-Binding Proteins by Genes from the IbrAB Genetic Island of Escherichia coli ECOR-9.
- C. H. Sandt, J. E. Hopper, and C. W. Hill (2002)
J. Bacteriol.
184, 3640-3648
| Abstract »
| Full Text »
| PDF »
- Origin and fate of repeats in bacteria.
- G. Achaz, E. P. C. Rocha, P. Netter, and E. Coissac (2002)
Nucleic Acids Res.
30, 2987-2994
| Abstract »
| Full Text »
| PDF »
- Evolving Insights: Symbiosis Islands and Horizontal Gene Transfer.
- T. M. Finan (2002)
J. Bacteriol.
184, 2855-2856
| Full Text »
| PDF »
- Genomewide identification of proteins secreted by the Hrp type III protein secretion system of Pseudomonas syringae pv. tomato DC3000.
- T. Petnicki-Ocwieja, D. J. Schneider, V. C. Tam, S. T. Chancey, L. Shan, Y. Jamir, L. M. Schechter, M. D. Janes, C. R. Buell, X. Tang, et al. (2002)
PNAS
99, 7652-7657
| Abstract »
| Full Text »
| PDF »
- Mechanisms of bacterial pathogenicity.
- J W Wilson, M J Schurr, C L LeBlanc, R Ramamurthy, K L Buchanan, and C A Nickerson (2002)
Postgrad. Med. J.
78, 216-224
| Abstract »
| Full Text »
| PDF »
- The Genome of the Natural Genetic Engineer Agrobacterium tumefaciens C58.
- D. W. Wood, J. C. Setubal, R. Kaul, D. E. Monks, J. P. Kitajima, V. K. Okura, Y. Zhou, L. Chen, G. E. Wood, N. F. Almeida Jr., et al. (2001)
Science
294, 2317-2323
| Abstract »
| Full Text »
| PDF »
- Pathoadaptive Mutations That Enhance Virulence: Genetic Organization of the cadA Regions of Shigella spp..
- W. A. Day Jr., R. E. Fernandez, and A. T. Maurelli (2001)
Infect. Immun.
69, 7471-7480
| Abstract »
| Full Text »
| PDF »
- Why We Don't Get Sick: The Within-Host Population Dynamics of Bacterial Infections.
- B. R. Levin and R. Antia (2001)
Science
292, 1112-1115
| Abstract »
| Full Text »
|
|