Howard Ochman, Ph.D. - Publications

Yale University, New Haven, CT 

145 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2019 Moran NA, Ochman H, Hammer TJ. Evolutionary and ecological consequences of gut microbial communities. Annual Review of Ecology, Evolution, and Systematics. 50: 451-475. PMID 32733173 DOI: 10.1146/annurev-ecolsys-110617-062453  1
2017 Raymann K, Moeller AH, Goodman AL, Ochman H. Unexplored Archaeal Diversity in the Great Ape Gut Microbiome. Msphere. 2. PMID 28251182 DOI: 10.1128/mSphere.00026-17  0.4
2016 Moeller AH, Caro-Quintero A, Mjungu D, Georgiev AV, Lonsdorf EV, Muller MN, Pusey AE, Peeters M, Hahn BH, Ochman H. Cospeciation of gut microbiota with hominids. Science (New York, N.Y.). 353: 380-382. PMID 27463672 DOI: 10.1126/science.aaf3951  0.4
2016 Wexler AG, Bao Y, Whitney JC, Bobay LM, Xavier JB, Schofield WB, Barry NA, Russell AB, Tran BQ, Goo YA, Goodlett DR, Ochman H, Mougous JD, Goodman AL. Human symbionts inject and neutralize antibacterial toxins to persist in the gut. Proceedings of the National Academy of Sciences of the United States of America. PMID 26957597 DOI: 10.1073/pnas.1525637113  1
2016 Moeller AH, Foerster S, Wilson ML, Pusey AE, Hahn BH, Ochman H. Social behavior shapes the chimpanzee pan-microbiome. Science Advances. 2: e1500997. PMID 26824072 DOI: 10.1126/sciadv.1500997  0.4
2015 Bobay LM, Traverse CC, Ochman H. Impermanence of bacterial clones. Proceedings of the National Academy of Sciences of the United States of America. 112: 8893-900. PMID 26195749 DOI: 10.1073/pnas.1501724112  1
2015 Kelkar YD, Phillips DS, Ochman H. Effects of Genic Base Composition on Growth Rate in G+C-rich Genomes. G3 (Bethesda, Md.). 5: 1247-52. PMID 25897009 DOI: 10.1534/g3.115.016824  1
2015 Waldor MK, Tyson G, Borenstein E, Ochman H, Moeller A, Finlay BB, Kong HH, Gordon JI, Nelson KE, Dabbagh K, Smith H. Where next for microbiome research? Plos Biology. 13: e1002050. PMID 25602283 DOI: 10.1371/journal.pbio.1002050  1
2015 Raghavan R, Kacharia FR, Millar JA, Sislak CD, Ochman H. Genome rearrangements can make and break small RNA genes. Genome Biology and Evolution. 7: 557-66. PMID 25601101 DOI: 10.1093/gbe/evv009  1
2015 Moeller AH, Peeters M, Ayouba A, Ngole EM, Esteban A, Hahn BH, Ochman H. Stability of the gorilla microbiome despite simian immunodeficiency virus infection. Molecular Ecology. 24: 690-7. PMID 25545295 DOI: 10.1111/mec.13057  1
2015 Kelkar YD, Phillips DS, Ochman H. Corrigendum [G3 Genes Genomes Genetics. (2015) 5: 1247-1252] G3: Genes, Genomes, Genetics. 5: 2921. DOI: 10.1534/g3.115.024042  1
2014 Moeller AH, Li Y, Mpoudi Ngole E, Ahuka-Mundeke S, Lonsdorf EV, Pusey AE, Peeters M, Hahn BH, Ochman H. Rapid changes in the gut microbiome during human evolution. Proceedings of the National Academy of Sciences of the United States of America. 111: 16431-5. PMID 25368157 DOI: 10.1073/pnas.1419136111  1
2014 Moeller AH, Ochman H. Microbiomes are true to type. Proceedings of the National Academy of Sciences of the United States of America. 111: 9372-3. PMID 24938784 DOI: 10.1073/pnas.1408654111  1
2013 Sloan DB, Bennett GM, Engel P, Williams D, Ochman H. Disentangling associated genomes. Methods in Enzymology. 531: 445-64. PMID 24060132 DOI: 10.1016/B978-0-12-407863-5.00020-4  1
2013 Moeller AH, Shilts M, Li Y, Rudicell RS, Lonsdorf EV, Pusey AE, Wilson ML, Hahn BH, Ochman H. SIV-induced instability of the chimpanzee gut microbiome. Cell Host & Microbe. 14: 340-5. PMID 24034619 DOI: 10.1016/j.chom.2013.08.005  1
2013 Moeller AH, Ochman H. Factors that drive variation among gut microbial communities. Gut Microbes. 4: 403-8. PMID 23941900 DOI: 10.4161/gmic.26039  1
2013 Williams D, Trimble WL, Shilts M, Meyer F, Ochman H. Rapid quantification of sequence repeats to resolve the size, structure and contents of bacterial genomes. Bmc Genomics. 14: 537. PMID 23924250 DOI: 10.1186/1471-2164-14-537  1
2013 Moeller AH, Peeters M, Ndjango JB, Li Y, Hahn BH, Ochman H. Sympatric chimpanzees and gorillas harbor convergent gut microbial communities. Genome Research. 23: 1715-20. PMID 23804402 DOI: 10.1101/gr.154773.113  1
2013 Kelkar YD, Ochman H. Genome reduction promotes increase in protein functional complexity in bacteria. Genetics. 193: 303-7. PMID 23114380 DOI: 10.1534/genetics.112.145656  1
2012 Moeller AH, Degnan PH, Pusey AE, Wilson ML, Hahn BH, Ochman H. Chimpanzees and humans harbour compositionally similar gut enterotypes. Nature Communications. 3: 1179. PMID 23149725 DOI: 10.1038/ncomms2159  1
2012 Raghavan R, Kelkar YD, Ochman H. A selective force favoring increased G+C content in bacterial genes. Proceedings of the National Academy of Sciences of the United States of America. 109: 14504-7. PMID 22908296 DOI: 10.1073/pnas.1205683109  1
2012 Raghavan R, Sloan DB, Ochman H. Antisense transcription is pervasive but rarely conserved in enteric bacteria. Mbio. 3. PMID 22872780 DOI: 10.1128/mBio.00156-12  1
2012 Degnan PH, Pusey AE, Lonsdorf EV, Goodall J, Wroblewski EE, Wilson ML, Rudicell RS, Hahn BH, Ochman H. Factors associated with the diversification of the gut microbial communities within chimpanzees from Gombe National Park. Proceedings of the National Academy of Sciences of the United States of America. 109: 13034-9. PMID 22826227 DOI: 10.1073/pnas.1110994109  1
2012 Kelkar YD, Ochman H. Causes and consequences of genome expansion in fungi. Genome Biology and Evolution. 4: 13-23. PMID 22117086 DOI: 10.1093/gbe/evr124  1
2012 Degnan PH, Ochman H. Illumina-based analysis of microbial community diversity. The Isme Journal. 6: 183-94. PMID 21677692 DOI: 10.1038/ismej.2011.74  1
2011 Degnan PH, Ochman H, Moran NA. Sequence conservation and functional constraint on intergenic spacers in reduced genomes of the obligate symbiont Buchnera. Plos Genetics. 7: e1002252. PMID 21912528 DOI: 10.1371/journal.pgen.1002252  1
2011 Raghavan R, Groisman EA, Ochman H. Genome-wide detection of novel regulatory RNAs in E. coli. Genome Research. 21: 1487-97. PMID 21665928 DOI: 10.1101/gr.119370.110  1
2011 Raghavan R, Sage A, Ochman H. Genome-wide identification of transcription start sites yields a novel thermosensing RNA and new cyclic AMP receptor protein-regulated genes in Escherichia coli. Journal of Bacteriology. 193: 2871-4. PMID 21460078 DOI: 10.1128/JB.00398-11  1
2010 Ochman H, Worobey M, Kuo CH, Ndjango JB, Peeters M, Hahn BH, Hugenholtz P. Evolutionary relationships of wild hominids recapitulated by gut microbial communities. Plos Biology. 8: e1000546. PMID 21103409 DOI: 10.1371/journal.pbio.1000546  1
2010 Kuo CH, Ochman H. The extinction dynamics of bacterial pseudogenes. Plos Genetics. 6. PMID 20700439 DOI: 10.1371/journal.pgen.1001050  1
2010 Vaishampayan PA, Kuehl JV, Froula JL, Morgan JL, Ochman H, Francino MP. Comparative metagenomics and population dynamics of the gut microbiota in mother and infant. Genome Biology and Evolution. 2: 53-66. PMID 20333224 DOI: 10.1093/gbe/evp057  1
2010 Engelbrektson A, Kunin V, Wrighton KC, Zvenigorodsky N, Chen F, Ochman H, Hugenholtz P. Experimental factors affecting PCR-based estimates of microbial species richness and evenness. The Isme Journal. 4: 642-7. PMID 20090784 DOI: 10.1038/ismej.2009.153  1
2010 Jarvik T, Smillie C, Groisman EA, Ochman H. Short-term signatures of evolutionary change in the Salmonella enterica serovar typhimurium 14028 genome. Journal of Bacteriology. 192: 560-7. PMID 19897643 DOI: 10.1128/JB.01233-09  1
2010 Stavrinides J, No A, Ochman H. A single genetic locus in the phytopathogen Pantoea stewartii enables gut colonization and pathogenicity in an insect host. Environmental Microbiology. 12: 147-55. PMID 19788413 DOI: 10.1111/j.1462-2920.2009.02056.x  1
2010 Kunin V, Engelbrektson A, Ochman H, Hugenholtz P. Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates. Environmental Microbiology. 12: 118-23. PMID 19725865 DOI: 10.1111/j.1462-2920.2009.02051.x  1
2009 Kuo CH, Ochman H. Deletional bias across the three domains of life. Genome Biology and Evolution. 1: 145-52. PMID 20333185 DOI: 10.1093/gbe/evp016  0.36
2009 Ochman H, Raghavan R. Systems biology. Excavating the functional landscape of bacterial cells. Science (New York, N.Y.). 326: 1200-1. PMID 19965458 DOI: 10.1126/science.1183757  1
2009 Kuo CH, Ochman H. Inferring clocks when lacking rocks: the variable rates of molecular evolution in bacteria. Biology Direct. 4: 35. PMID 19788732 DOI: 10.1186/1745-6150-4-35  1
2009 Kuo CH, Moran NA, Ochman H. The consequences of genetic drift for bacterial genome complexity. Genome Research. 19: 1450-4. PMID 19502381 DOI: 10.1101/gr.091785.109  1
2009 Ochman H. Radical views of the tree of life. Environmental Microbiology. 11: 731-2. PMID 19236444 DOI: 10.1111/j.1462-2920.2009.01895.x  1
2009 Stavrinides J, McCloskey JK, Ochman H. Pea aphid as both host and vector for the phytopathogenic bacterium Pseudomonas syringae. Applied and Environmental Microbiology. 75: 2230-5. PMID 19201955 DOI: 10.1128/AEM.02860-08  1
2009 Kuo CH, Ochman H. The fate of new bacterial genes. Fems Microbiology Reviews. 33: 38-43. PMID 19054121 DOI: 10.1111/j.1574-6976.2008.00140.x  1
2008 Narra HP, Cordes MH, Ochman H. Structural features and the persistence of acquired proteins. Proteomics. 8: 4772-81. PMID 18924109 DOI: 10.1002/pmic.200800061  1
2008 Marri PR, Harris LK, Houmiel K, Slater SC, Ochman H. The effect of chromosome geometry on genetic diversity. Genetics. 179: 511-6. PMID 18493068 DOI: 10.1534/genetics.107.085621  1
2008 van Passel MW, Marri PR, Ochman H. The emergence and fate of horizontally acquired genes in Escherichia coli. Plos Computational Biology. 4: e1000059. PMID 18404206 DOI: 10.1371/journal.pcbi.1000059  1
2007 van Passel MW, Ochman H. Selection on the genic location of disruptive elements. Trends in Genetics : Tig. 23: 601-4. PMID 17996324 DOI: 10.1016/j.tig.2007.08.017  1
2007 Liu R, Ochman H. Origins of flagellar gene operons and secondary flagellar systems. Journal of Bacteriology. 189: 7098-104. PMID 17644605 DOI: 10.1128/JB.00643-07  1
2007 Liu R, Ochman H. Stepwise formation of the bacterial flagellar system. Proceedings of the National Academy of Sciences of the United States of America. 104: 7116-21. PMID 17438286 DOI: 10.1073/pnas.0700266104  1
2007 van Passel MW, Smillie CS, Ochman H. Gene decay in archaea. Archaea (Vancouver, B.C.). 2: 137-43. PMID 17350934  1
2007 Ochman H. Single-cell genomics. Environmental Microbiology. 9: 7. PMID 17227404 DOI: 10.1111/j.1462-2920.2006.01222_6.x  1
2007 Ochman H, Liu R, Rocha EP. Erosion of interaction networks in reduced and degraded genomes. Journal of Experimental Zoology. Part B, Molecular and Developmental Evolution. 308: 97-103. PMID 17219366 DOI: 10.1002/jez.b.21147  1
2006 Narra HP, Ochman H. Of what use is sex to bacteria? Current Biology : Cb. 16: R705-10. PMID 16950097 DOI: 10.1016/j.cub.2006.08.024  1
2006 Wirth T, Falush D, Lan R, Colles F, Mensa P, Wieler LH, Karch H, Reeves PR, Maiden MC, Ochman H, Achtman M. Sex and virulence in Escherichia coli: an evolutionary perspective. Molecular Microbiology. 60: 1136-51. PMID 16689791 DOI: 10.1111/j.1365-2958.2006.05172.x  1
2006 Ochman H, Davalos LM. The nature and dynamics of bacterial genomes. Science (New York, N.Y.). 311: 1730-3. PMID 16556833 DOI: 10.1126/science.1119966  1
2005 Dale C, Dunbar H, Moran NA, Ochman H. Extracting single genomes from heterogenous DNA samples: a test case with Carsonella ruddii, the bacterial symbiont of psyllids (Insecta). Journal of Insect Science (Online). 5: 3. PMID 16299593  1
2005 Moran NA, Degnan PH, Santos SR, Dunbar HE, Ochman H. The players in a mutualistic symbiosis: insects, bacteria, viruses, and virulence genes. Proceedings of the National Academy of Sciences of the United States of America. 102: 16919-26. PMID 16195380 DOI: 10.1073/pnas.0507029102  1
2005 Ochman H. Genomes on the shrink. Proceedings of the National Academy of Sciences of the United States of America. 102: 11959-60. PMID 16105941 DOI: 10.1073/pnas.0505863102  1
2005 Lerat E, Ochman H. Recognizing the pseudogenes in bacterial genomes. Nucleic Acids Research. 33: 3125-32. PMID 15933207 DOI: 10.1093/nar/gki631  1
2005 Ochman H, Lerat E, Daubin V. Examining bacterial species under the specter of gene transfer and exchange. Proceedings of the National Academy of Sciences of the United States of America. 102: 6595-9. PMID 15851673 DOI: 10.1073/pnas.0502035102  1
2005 Lerat E, Daubin V, Ochman H, Moran NA. Evolutionary origins of genomic repertoires in bacteria. Plos Biology. 3: e130. PMID 15799709 DOI: 10.1371/journal.pbio.0030130  1
2005 Ochman H, Daubin V, Lerat E. A bunch of fun-guys: the whole-genome view of yeast evolution. Trends in Genetics : Tig. 21: 1-3. PMID 15680504 DOI: 10.1016/j.tig.2004.11.006  1
2005 Ochman H, Santos SR. Exploring microbial microevolution with microarrays. Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases. 5: 103-8. PMID 15639741 DOI: 10.1016/j.meegid.2004.09.002  1
2004 Daubin V, Ochman H. Start-up entities in the origin of new genes. Current Opinion in Genetics & Development. 14: 616-9. PMID 15531155 DOI: 10.1016/j.gde.2004.09.004  1
2004 Lerat E, Ochman H. Psi-Phi: exploring the outer limits of bacterial pseudogenes. Genome Research. 14: 2273-8. PMID 15479949 DOI: 10.1101/gr.2925604  1
2004 Santos SR, Ochman H. Identification and phylogenetic sorting of bacterial lineages with universally conserved genes and proteins. Environmental Microbiology. 6: 754-9. PMID 15186354 DOI: 10.1111/j.1462-2920.2004.00617.x  1
2004 Daubin V, Ochman H. Bacterial genomes as new gene homes: the genealogy of ORFans in E. coli. Genome Research. 14: 1036-42. PMID 15173110 DOI: 10.1101/gr.2231904  1
2004 Daubin V, Ochman H. Quartet mapping and the extent of lateral transfer in bacterial genomes. Molecular Biology and Evolution. 21: 86-9. PMID 12949130 DOI: 10.1093/molbev/msg234  1
2003 Ochman H. Neutral mutations and neutral substitutions in bacterial genomes. Molecular Biology and Evolution. 20: 2091-6. PMID 12949125 DOI: 10.1093/molbev/msg229  1
2003 Daubin V, Moran NA, Ochman H. Phylogenetics and the cohesion of bacterial genomes. Science (New York, N.Y.). 301: 829-32. PMID 12907801 DOI: 10.1126/science.1086568  1
2003 Hudson RE, Bergthorsson U, Ochman H. Transcription increases multiple spontaneous point mutations in Salmonella enterica. Nucleic Acids Research. 31: 4517-22. PMID 12888512 DOI: 10.1093/nar/gkg651  1
2003 Dale C, Wang B, Moran N, Ochman H. Loss of DNA recombinational repair enzymes in the initial stages of genome degeneration. Molecular Biology and Evolution. 20: 1188-94. PMID 12777518 DOI: 10.1093/molbev/msg138  1
2003 Ochman H, Santos SR. Eyeing bacterial genomes. Current Opinion in Microbiology. 6: 109-13. PMID 12732298 DOI: 10.1016/S1369-5274(03)00031-6  1
2003 Moran NA, Dale C, Dunbar H, Smith WA, Ochman H. Intracellular symbionts of sharpshooters (Insecta: Hemiptera: Cicadellinae) form a distinct clade with a small genome. Environmental Microbiology. 5: 116-26. PMID 12558594 DOI: 10.1046/j.1462-2920.2003.00391.x  1
2002 Dale C, Plague GR, Wang B, Ochman H, Moran NA. Type III secretion systems and the evolution of mutualistic endosymbiosis. Proceedings of the National Academy of Sciences of the United States of America. 99: 12397-402. PMID 12213957 DOI: 10.1073/pnas.182213299  1
2002 Mira A, Ochman H. Gene location and bacterial sequence divergence. Molecular Biology and Evolution. 19: 1350-8. PMID 12140247  1
2002 Ochman H. Distinguishing the ORFs from the ELFs: short bacterial genes and the annotation of genomes. Trends in Genetics : Tig. 18: 335-7. PMID 12127765 DOI: 10.1016/S0168-9525(02)02668-9  1
2002 Ochman H. Bacterial evolution: chromosome arithmetic and geometry. Current Biology : Cb. 12: R427-8. PMID 12123594 DOI: 10.1016/S0960-9822(02)00916-8  1
2002 Lawrence JG, Ochman H. Reconciling the many faces of lateral gene transfer. Trends in Microbiology. 10: 1-4. PMID 11755071 DOI: 10.1016/S0966-842X(01)02283-1  1
2002 Hudson RE, Bergthorsson U, Roth JR, Ochman H. Effect of chromosome location on bacterial mutation rates. Molecular Biology and Evolution. 19: 85-92. PMID 11752193  1
2001 Morgan U, Ochman H, Renaud F, Tibayrenc M. Population genetics and population biology: what did they bring to the epidemiology of transmissible diseases? An e-debate. Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases. 1: 161-6. PMID 12798031 DOI: 10.1016/S1567-1348(01)00023-5  1
2001 Ochman H. Lateral and oblique gene transfer. Current Opinion in Genetics & Development. 11: 616-9. PMID 11682303 DOI: 10.1016/S0959-437X(00)00243-4  1
2001 Mira A, Ochman H, Moran NA. Deletional bias and the evolution of bacterial genomes. Trends in Genetics : Tig. 17: 589-96. PMID 11585665 DOI: 10.1016/S0168-9525(01)02447-7  1
2001 Francino MP, Ochman H. Deamination as the basis of strand-asymmetric evolution in transcribed Escherichia coli sequences. Molecular Biology and Evolution. 18: 1147-50. PMID 11371605  1
2001 Ochman H, Moran NA. Genes lost and genes found: evolution of bacterial pathogenesis and symbiosis. Science (New York, N.Y.). 292: 1096-9. PMID 11352062 DOI: 10.1126/science.1058543  1
2000 Ochman H, Jones IB. Evolutionary dynamics of full genome content in Escherichia coli. The Embo Journal. 19: 6637-43. PMID 11118198 DOI: 10.1093/emboj/19.24.6637  1
2000 Houndt T, Ochman H. Long-term shifts in patterns of antibiotic resistance in enteric bacteria. Applied and Environmental Microbiology. 66: 5406-9. PMID 11097921 DOI: 10.1128/AEM.66.12.5406-5409.2000  1
2000 Wernegreen JJ, Ochman H, Jones IB, Moran NA. Decoupling of genome size and sequence divergence in a symbiotic bacterium. Journal of Bacteriology. 182: 3867-9. PMID 10851009 DOI: 10.1128/JB.182.13.3867-3869.2000  1
2000 Ochman H, Lawrence JG, Groisman EA. Lateral gene transfer and the nature of bacterial innovation. Nature. 405: 299-304. PMID 10830951 DOI: 10.1038/35012500  1
2000 Francino MP, Ochman H. Strand symmetry around the beta-globin origin of replication in primates. Molecular Biology and Evolution. 17: 416-22. PMID 10723742  1
1999 Ochman H, Elwyn S, Moran NA. Calibrating bacterial evolution. Proceedings of the National Academy of Sciences of the United States of America. 96: 12638-43. PMID 10535975 DOI: 10.1073/pnas.96.22.12638  1
1999 Francino MP, Ochman H. A comparative genomics approach to DNA asymmetry. Annals of the New York Academy of Sciences. 870: 428-31. PMID 10415514 DOI: 10.1111/j.1749-6632.1999.tb08919.x  1
1999 Francino MP, Ochman H. Isochores result from mutation not selection. Nature. 400: 30-1. PMID 10403245 DOI: 10.1038/21804  1
1999 Ochman H. Bacterial evolution: Jittery genomes. Current Biology : Cb. 9: R485-6. PMID 10395532 DOI: 10.1016/S0960-9822(99)80302-9  1
1999 Bergthorsson U, Ochman H. Chromosomal changes during experimental evolution in laboratory populations of Escherichia coli. Journal of Bacteriology. 181: 1360-3. PMID 9973369  1
1999 Ochman H. Genomics: Editorial Current Opinion in Microbiology. 2: 517-518. DOI: 10.1016/S1369-5274(99)00018-1  1
1998 Ochman H, Bergthorsson U. Rates and patterns of chromosome evolution in enteric bacteria. Current Opinion in Microbiology. 1: 580-3. PMID 10066521  1
1998 Lawrence JG, Ochman H. Molecular archaeology of the Escherichia coli genome. Proceedings of the National Academy of Sciences of the United States of America. 95: 9413-7. PMID 9689094 DOI: 10.1073/pnas.95.16.9413  1
1998 Bergthorsson U, Ochman H. Distribution of chromosome length variation in natural isolates of Escherichia coli. Molecular Biology and Evolution. 15: 6-16. PMID 9491600  1
1997 Groisman EA, Ochman H. How Salmonella became a pathogen. Trends in Microbiology. 5: 343-9. PMID 9294889 DOI: 10.1016/S0966-842X(97)01099-8  1
1997 Ochman H. Miles of isles. Trends in Microbiology. 5: 222. PMID 9211641 DOI: 10.1016/S0966-842X(97)89534-0  1
1997 Francino MP, Ochman H. Strand asymmetries in DNA evolution. Trends in Genetics : Tig. 13: 240-5. PMID 9196330 DOI: 10.1016/S0168-9525(97)01118-9  1
1997 Lawrence JG, Ochman H. Amelioration of bacterial genomes: rates of change and exchange. Journal of Molecular Evolution. 44: 383-97. PMID 9089078 DOI: 10.1007/PL00006158  1
1997 Boyd EF, Li J, Ochman H, Selander RK. Comparative genetics of the inv-spa invasion gene complex of Salmonella enterica. Journal of Bacteriology. 179: 1985-91. PMID 9068645  1
1996 Ochman H, Groisman EA. Distribution of pathogenicity islands in Salmonella spp. Infection and Immunity. 64: 5410-2. PMID 8945597 DOI: 10.1128/iai.64.12.5410-5412.1996  1
1996 Groisman EA, Ochman H. Pathogenicity islands: bacterial evolution in quantum leaps. Cell. 87: 791-4. PMID 8945505 DOI: 10.1016/S0092-8674(00)81985-6  1
1996 Ochman H, Soncini FC, Solomon F, Groisman EA. Identification of a pathogenicity island required for Salmonella survival in host cells. Proceedings of the National Academy of Sciences of the United States of America. 93: 7800-4. PMID 8755556 DOI: 10.1073/pnas.93.15.7800  1
1996 Hartl DL, Ochman H. Inverse polymerase chain reaction. Methods in Molecular Biology (Clifton, N.J.). 58: 293-301. PMID 8713876 DOI: 10.1385/0-89603-402-X:293  1
1996 Francino MP, Chao L, Riley MA, Ochman H. Asymmetries generated by transcription-coupled repair in enterobacterial genes. Science (New York, N.Y.). 272: 107-9. PMID 8600517  1
1995 Ochman H, Bergthorsson U. Genome evolution in enteric bacteria. Current Opinion in Genetics & Development. 5: 734-8. PMID 8745071 DOI: 10.1016/0959-437X(95)80005-P  1
1995 Ochman H, Buckholtz LA. Physical structure of human chromosome 21: an analysis of YACs spanning 21q. Mammalian Genome : Official Journal of the International Mammalian Genome Society. 6: 84-9. PMID 7767010 DOI: 10.1007/BF00303249  1
1995 Ochman H, Groisman EA. The evolution of invasion by enteric bacteria. Canadian Journal of Microbiology. 41: 555-61. PMID 7641138 DOI: 10.1139/m95-074  1
1995 Li J, Ochman H, Groisman EA, Boyd EF, Solomon F, Nelson K, Selander RK. Relationship between evolutionary rate and cellular location among the Inv/Spa invasion proteins of Salmonella enterica. Proceedings of the National Academy of Sciences of the United States of America. 92: 7252-6. PMID 7638176 DOI: 10.1073/pnas.92.16.7252  1
1995 Bergthorsson U, Ochman H. Heterogeneity of genome sizes among natural isolates of Escherichia coli. Journal of Bacteriology. 177: 5784-9. PMID 7592324  1
1994 Ochman H, Groisman EA. The origin and evolution of species differences in Escherichia coli and Salmonella typhimurium. Exs. 69: 479-93. PMID 7994120 DOI: 10.1007/978-3-0348-7527-1_27  1
1994 Groisman EA, Ochman H. How to become a pathogen. Trends in Microbiology. 2: 289-94. PMID 7981972 DOI: 10.1016/0966-842X(94)90006-X  1
1994 Hartl DL, Ochman H. Inverse polymerase chain reaction. Methods in Molecular Biology (Clifton, N.J.). 31: 187-96. PMID 7921017 DOI: 10.1385/0-89603-258-2:187  1
1993 Lawrence JG, Hartl DL, Ochman H. Sequencing products of polymerase chain reaction. Methods in Enzymology. 218: 26-35. PMID 8510537  1
1993 Groisman EA, Sturmoski MA, Solomon FR, Lin R, Ochman H. Molecular, functional, and evolutionary analysis of sequences specific to Salmonella. Proceedings of the National Academy of Sciences of the United States of America. 90: 1033-7. PMID 8430070 DOI: 10.1073/pnas.90.3.1033  1
1993 Groisman EA, Ochman H. Cognate gene clusters govern invasion of host epithelial cells by Salmonella typhimurium and Shigella flexneri. The Embo Journal. 12: 3779-87. PMID 8404849  1
1993 Ochman H, Ayala FJ, Hartl DL. Use of polymerase chain reaction to amplify segments outside boundaries of known sequences Methods in Enzymology. 218: 309-321. PMID 8389965 DOI: 10.1016/0076-6879(93)18023-6  1
1993 Bisercic M, Ochman H. Natural populations of Escherichia coli and Salmonella typhimurium harbor the same classes of insertion sequences Genetics. 133: 449-454. PMID 8384142  1
1993 Carulli JP, Krane DE, Hartl DL, Ochman H. Compositional heterogeneity and patterns of molecular evolution in the Drosophila genome. Genetics. 134: 837-45. PMID 8349114  1
1993 Biserci? M, Ochman H. The ancestry of insertion sequences common to Escherichia coli and Salmonella typhimurium. Journal of Bacteriology. 175: 7863-8. PMID 8253675  1
1992 Groisman EA, Saier MH, Ochman H. Horizontal transfer of a phosphatase gene as evidence for mosaic structure of the Salmonella genome Embo Journal. 11: 1309-1316. PMID 1339343  1
1992 Lawrence JG, Ochman H, Hartl DL. The evolution of insertion sequences within enteric bacteria. Genetics. 131: 9-20. PMID 1317318  1
1991 Lawrence JG, Ochman H, Hartl DL. Molecular and evolutionary relationships among enteric bacteria. Journal of General Microbiology. 137: 1911-21. PMID 1955870  1
1991 Hall BG, Xu L, Ochman H. Physical map location of the asc (formerly sac) operon of Escherichia coli K-12 Journal of Bacteriology. 173: 5250. PMID 1885507  1
1991 Krane DE, Hartl DL, Ochman H. Rapid determination of nucleotide content and its application to the study of genome structure Nucleic Acids Research. 19: 5181-5185. PMID 1833723 DOI: 10.1093/NAR/19.19.5181  1
1991 Lawrence JG, Hartl DL, Ochman H. Molecular considerations in the evolution of bacterial genes. Journal of Molecular Evolution. 33: 241-50. PMID 1757995 DOI: 10.1007/BF02100675  1
1990 Ochman H, Ajioka JW, Garza D, Hartl DL. Inverse polymerase chain reaction. Bio/Technology (Nature Publishing Company). 8: 759-60. PMID 1366903 DOI: 10.1038/nbt0890-759  1
1989 Higuchi RG, Ochman H. Production of single-stranded DNA templates by exonuclease digestion following the polymerase chain reaction Nucleic Acids Research. 17: 5865. PMID 2548171 DOI: 10.1093/nar/17.14.5865  1
1988 Ochman H, Gerber AS, Hartl DL. Genetic applications of an inverse polymerase chain reaction Genetics. 120: 621-623. PMID 2852134  1
1987 Ochman H, Jones JS, Selander RK. Large scale patterns of genetic differentiation at enzyme loci in the land snails Cepaea nemoralis and Cepaea hortensis. Heredity. 58: 127-38. PMID 3818342  1
1987 Ochman H, Wilson AC. Evolution in bacteria: evidence for a universal substitution rate in cellular genomes. Journal of Molecular Evolution. 26: 74-86. PMID 3125340 DOI: 10.1007/BF02101157  1
1987 Wilson AC, Ochman H, Prager EM. Molecular time scale for evolution Trends in Genetics. 3: 241-247. DOI: 10.1016/0168-9525(87)90257-5  1
1986 Achtman M, Heuzenroeder M, Kusecek B, Ochman H, Caugant D, Selander RK, Väisanen-Rhen V, Korhonen TK, Stuart S, Orskov F. Clonal analysis of Escherichia coli O2:K1 isolated from diseased humans and animals. Infection and Immunity. 51: 268-76. PMID 3510171  1
1986 Selander RK, Caugant DA, Ochman H, Musser JM, Gilmour MN, Whittam TS. Methods of multilocus enzyme electrophoresis for bacterial population genetics and systematics. Applied and Environmental Microbiology. 51: 873-84. PMID 2425735  1
1984 Levin MH, Weinstein RA, Nathan C, Selander RK, Ochman H, Kabins SA. Association of infection caused by Pseudomonas aeruginosa serotype O11 with intravenous abuse of pentazocine mixed with tripelennamine Journal of Clinical Microbiology. 20: 758-762. PMID 6436316  1
1984 Ochman H, Selander RK. Evidence for clonal population structure in Escherichia coli Proceedings of the National Academy of Sciences of the United States of America. 81: 198-201. PMID 6364134  1
1984 Ochman H, Selander RK. Standard reference strains of Escherichia coli from natural populations Journal of Bacteriology. 157: 690-693. PMID 6363394  1
1983 Whittam TS, Ochman H, Selander RK. Geographic components of linkage disequilibrium in natural populations of Escherichia coli Molecular Biology and Evolution. 1: 67-83. PMID 6400648  1
1983 Ochman H, Whittam TS, Caugant DA, Selander RK. Enzyme polymorphism and genetic population structure in Escherichia coli and Shigella Journal of General Microbiology. 129: 2715-2726. PMID 6355392  1
1983 Selander RK, Ochman H. The genetic structure of populations as illustrated by molluscs Isozymes. 10: 93-123. PMID 6354995  1
1983 Whittam TS, Ochman H, Selander RK. Multilocus genetic structure in natural populations of Escherichia coli Proceedings of the National Academy of Sciences of the United States of America. 80: 1751-1755. PMID 6340107  1
1982 Foltz DW, Ochman H, Jones JS, Evangelisti SM, Selander RK. Genetic population structure and breeding systems in arionid slugs (Mollusca: Pulmonata) Biological Journal of the Linnean Society. 17: 225-241.  1
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