Howard Ochman
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Biology
Howard Ochman's Degrees
- PhD Microbiology University of California, Berkeley
- Bachelors Biology University of California, Berkeley
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(Suggest an Edit or Addition)Howard Ochman's Published Works
Number of citations in a given year to any of this author's works
Total number of citations to an author for the works they published in a given year. This highlights publication of the most important work(s) by the author
Published Works
- Lateral gene transfer and the nature of bacterial innovation (2000) (3632)
- Genetic applications of an inverse polymerase chain reaction. (1988) (1861)
- Sex and virulence in Escherichia coli: an evolutionary perspective (2006) (1799)
- Methods of multilocus enzyme electrophoresis for bacterial population genetics and systematics (1986) (1465)
- Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates. (2009) (1250)
- Molecular archaeology of the Escherichia coli genome. (1998) (971)
- Amelioration of Bacterial Genomes: Rates of Change and Exchange (1997) (866)
- Standard reference strains of Escherichia coli from natural populations (1984) (805)
- Deletional bias and the evolution of bacterial genomes. (2001) (771)
- Identification of a pathogenicity island required for Salmonella survival in host cells. (1996) (685)
- Experimental factors affecting PCR-based estimates of microbial species richness and evenness (2010) (577)
- Pathogenicity Islands: Bacterial Evolution in Quantum Leaps (1996) (563)
- Enterotypes in the landscape of gut microbial community composition (2017) (561)
- Genes Lost and Genes Found: Evolution of Bacterial Pathogenesis and Symbiosis (2001) (553)
- Evolutionary Relationships of Wild Hominids Recapitulated by Gut Microbial Communities (2010) (457)
- Calibrating bacterial evolution. (1999) (433)
- Cospeciation of gut microbiota with hominids (2016) (407)
- How Salmonella became a pathogen. (1997) (372)
- Evolutionary Origins of Genomic Repertoires in Bacteria (2005) (354)
- Evolution in bacteria: Evidence for a universal substitution rate in cellular genomes (1987) (351)
- Illumina-based analysis of microbial community diversity (2011) (325)
- The players in a mutualistic symbiosis: insects, bacteria, viruses, and virulence genes. (2005) (311)
- Production of single-stranded DNA templates by exonuclease digestion following the polymerase chain reaction. (1989) (301)
- Cognate gene clusters govern invasion of host epithelial cells by Salmonella typhimurium and Shigella flexneri. (1993) (295)
- Bacterial genomes as new gene homes: the genealogy of ORFans in E. coli. (2004) (278)
- Phylogenetics and the Cohesion of Bacterial Genomes (2003) (273)
- The consequences of genetic drift for bacterial genome complexity. (2009) (272)
- The Nature and Dynamics of Bacterial Genomes (2006) (261)
- 27 – AMPLIFICATION OF FLANKING SEQUENCES BY INVERSE PCR (1989) (254)
- Rapid changes in the gut microbiome during human evolution (2014) (250)
- Identification and phylogenetic sorting of bacterial lineages with universally conserved genes and proteins. (2004) (250)
- Enzyme polymorphism and genetic population structure in Escherichia coli and Shigella. (1983) (247)
- Strand asymmetries in DNA evolution. (1997) (245)
- Multilocus genetic structure in natural populations of Escherichia coli. (1983) (235)
- Comparative Metagenomics and Population Dynamics of the Gut Microbiota in Mother and Infant (2010) (233)
- Distribution of chromosome length variation in natural isolates of Escherichia coli. (1998) (229)
- Molecular time scale for evolution (1987) (227)
- Reconciling the many faces of lateral gene transfer. (2002) (222)
- Social behavior shapes the chimpanzee pan-microbiome (2016) (218)
- Stepwise formation of the bacterial flagellar system (2007) (211)
- Examining bacterial species under the specter of gene transfer and exchange (2005) (211)
- Short-Term Signatures of Evolutionary Change in the Salmonella enterica Serovar Typhimurium 14028 Genome (2009) (205)
- Evidence for clonal population structure in Escherichia coli. (1984) (201)
- Distribution of pathogenicity islands in Salmonella spp (1996) (193)
- Deletional Bias across the Three Domains of Life (2009) (189)
- Evolutionary dynamics of full genome content in Escherichia coli (2000) (187)
- Type III secretion systems and the evolution of mutualistic endosymbiosis (2002) (171)
- Recognizing the pseudogenes in bacterial genomes (2005) (165)
- Human symbionts inject and neutralize antibacterial toxins to persist in the gut (2016) (164)
- The Extinction Dynamics of Bacterial Pseudogenes (2010) (152)
- Factors associated with the diversification of the gut microbial communities within chimpanzees from Gombe National Park (2012) (150)
- Sympatric chimpanzees and gorillas harbor convergent gut microbial communities (2013) (149)
- Genome-wide detection of novel regulatory RNAs in E. coli. (2011) (142)
- Antisense Transcription Is Pervasive but Rarely Conserved in Enteric Bacteria (2012) (142)
- Where Next for Microbiome Research? (2015) (140)
- Rates of gut microbiome divergence in mammals (2018) (138)
- Molecular and evolutionary relationships among enteric bacteria. (1991) (130)
- Clonal analysis of Escherichia coli O2:K1 isolated from diseased humans and animals (1986) (130)
- Asymmetries Generated by Transcription-Coupled Repair in Enterobacterial Genes (1996) (129)
- Intracellular symbionts of sharpshooters (Insecta: Hemiptera: Cicadellinae) form a distinct clade with a small genome. (2003) (129)
- Relationship between evolutionary rate and cellular location among the Inv/Spa invasion proteins of Salmonella enterica. (1995) (128)
- Inferring clocks when lacking rocks: the variable rates of molecular evolution in bacteria (2009) (126)
- Evolutionary and ecological consequences of gut microbial communities. (2019) (119)
- Chimpanzees and Humans Harbor Compositionally Similar Gut Enterotypes (2012) (117)
- Heterogeneity of genome sizes among natural isolates of Escherichia coli (1995) (114)
- A selective force favoring increased G+C content in bacterial genes (2012) (114)
- Horizontal transfer of a phosphatase gene as evidence for mosaic structure of the Salmonella genome. (1992) (109)
- Of What Use Is Sex to Bacteria? (2006) (105)
- Deamination as the basis of strand-asymmetric evolution in transcribed Escherichia coli sequences. (2001) (104)
- Geographic components of linkage disequilibrium in natural populations of Escherichia coli. (1983) (102)
- Isochores result from mutation not selection (1999) (100)
- Loss of DNA recombinational repair enzymes in the initial stages of genome degeneration. (2003) (98)
- Pea Aphid as both Host and Vector for the Phytopathogenic Bacterium Pseudomonas syringae (2009) (98)
- The evolution of insertion sequences within enteric bacteria. (1992) (97)
- Ψ-Φ: Exploring the outer limits of bacterial pseudogenes (2004) (94)
- Neutral mutations and neutral substitutions in bacterial genomes. (2003) (93)
- Comparative genetics of the inv-spa invasion gene complex of Salmonella enterica (1997) (91)
- Evolution in bacteria: Evidence for a universal substitution rate in cellular genomes (2005) (90)
- Long-Term Shifts in Patterns of Antibiotic Resistance in Enteric Bacteria (2000) (89)
- Biological Species Are Universal across Life’s Domains (2017) (85)
- The fate of new bacterial genes. (2009) (85)
- SIV-induced instability of the chimpanzee gut microbiome. (2013) (84)
- Use of polymerase chain reaction to amplify segments outside boundaries of known sequences. (1993) (82)
- Molecular, functional, and evolutionary analysis of sequences specific to Salmonella. (1993) (81)
- Origins of Flagellar Gene Operons and Secondary Flagellar Systems (2007) (81)
- The Emergence and Fate of Horizontally Acquired Genes in Escherichia coli (2008) (81)
- Inverse Polymerase Chain Reaction (1990) (80)
- The Evolution of Bacterial Genome Architecture (2017) (79)
- Factors driving effective population size and pan-genome evolution in bacteria (2018) (77)
- Distinguishing the ORFs from the ELFs: short bacterial genes and the annotation of genomes. (2002) (77)
- The genetic structure of populations as illustrated by molluscs. (1983) (74)
- Inverse polymerase chain reaction. (1990) (73)
- Unexplored Archaeal Diversity in the Great Ape Gut Microbiome (2017) (66)
- Psi-Phi: exploring the outer limits of bacterial pseudogenes. (2004) (65)
- Lateral and oblique gene transfer. (2001) (63)
- How to become a pathogen. (1994) (61)
- Start-up entities in the origin of new genes. (2004) (60)
- Decoupling of Genome Size and Sequence Divergence in a Symbiotic Bacterium (2000) (58)
- Genetic population structure and breeding systems in arionid slugs (Mollusca: Pulmonata) (1982) (56)
- Causes and Consequences of Genome Expansion in Fungi (2011) (55)
- Gene location and bacterial sequence divergence. (2002) (55)
- The origin and evolution of species differences in Escherichia coli and Salmonella typhimurium. (1994) (54)
- Genomes on the shrink. (2005) (53)
- Molecular area effects in Cepaea. (1983) (53)
- Conserved rates and patterns of transcription errors across bacterial growth states and lifestyles (2016) (52)
- Effect of chromosome location on bacterial mutation rates. (2002) (52)
- The ancestry of insertion sequences common to Escherichia coli and Salmonella typhimurium (1993) (50)
- Biological species in the viral world (2018) (48)
- Recombination events are concentrated in the spike protein region of Betacoronaviruses. (2020) (45)
- Sequence Conservation and Functional Constraint on Intergenic Spacers in Reduced Genomes of the Obligate Symbiont Buchnera (2011) (45)
- Genome Reduction Promotes Increase in Protein Functional Complexity in Bacteria (2013) (42)
- A great-ape view of the gut microbiome (2019) (42)
- Transcription increases multiple spontaneous point mutations in Salmonella enterica. (2003) (41)
- Natural populations of Escherichia coli and Salmonella typhimurium harbor the same classes of insertion sequences. (1993) (40)
- Impact of Recombination on the Base Composition of Bacteriaand Archaea (2017) (40)
- Genetic diversity and breeding systems in terrestrial slugs of the families Limacidae and Arionidae (1984) (39)
- Stability of the gorilla microbiome despite simian immunodeficiency virus infection (2015) (36)
- Strand Symmetry Around the β-Globin Origin of Replication in Primates (2000) (36)
- Assessing the Unseen Bacterial Diversity in Microbial Communities (2015) (35)
- Compositional heterogeneity and patterns of molecular evolution in the Drosophila genome. (1993) (35)
- The evolution of invasion by enteric bacteria. (1995) (34)
- A single genetic locus in the phytopathogen Pantoea stewartii enables gut colonization and pathogenicity in an insect host. (2010) (34)
- Impermanence of bacterial clones (2015) (34)
- Association of infection caused by Pseudomonas aeruginosa serotype O11 with intravenous abuse of pentazocine mixed with tripelennamine (1984) (30)
- The Ingenuity of Bacterial Genomes. (2020) (28)
- Quartet mapping and the extent of lateral transfer in bacterial genomes. (2003) (27)
- Molecular considerations in the evolution of bacterial genes (1991) (26)
- Genome-Wide Identification of Transcription Start Sites Yields a Novel Thermosensing RNA and New Cyclic AMP Receptor Protein-Regulated Genes in Escherichia coli (2011) (26)
- Structural features and the persistence of acquired proteins (2008) (26)
- EVOLUTION OF CLONAL DIVERSITY IN THE PARTHENOGENETIC FLY LONCHOPTERA DUBIA (1980) (26)
- Rapid quantification of sequence repeats to resolve the size, structure and contents of bacterial genomes (2013) (25)
- Genome Rearrangements Can Make and Break Small RNA Genes (2015) (25)
- Bacterial Evolution: Chromosome Arithmetic and Geometry (2002) (22)
- Factors that drive variation among gut microbial communities (2013) (22)
- Resurrection of a global, metagenomically defined gokushovirus (2020) (21)
- Large scale patterns of genetic differentiation at enzyme loci in the land snails Cepaea nemoralis and Cepaea hortensis (1987) (20)
- Rates and patterns of chromosome evolution in enteric bacteria. (1998) (20)
- Exploring microbial microevolution with microarrays. (2005) (20)
- Chromosomal Changes during Experimental Evolution in Laboratory Populations of Escherichia coli (1999) (20)
- Genome evolution in enteric bacteria. (1995) (19)
- Excavating the Functional Landscape of Bacterial Cells (2009) (18)
- Selection on the genic location of disruptive elements. (2007) (17)
- Gene decay in archaea. (2007) (16)
- Phylogenetic relationships of bacteria with special reference to Endosymbionts and Enteric Species (1992) (15)
- Erosion of interaction networks in reduced and degraded genomes. (2007) (14)
- Publisher Correction: Enterotypes in the landscape of gut microbial community composition (2018) (14)
- A Comparative Genomics Approach to DNA Asymmetry (1999) (14)
- A bunch of fun-guys: the whole-genome view of yeast evolution. (2005) (14)
- Strand symmetry around the beta-globin origin of replication in primates. (2000) (14)
- ConSpeciFix: classifying prokaryotic species based on gene flow (2018) (14)
- GENETIC-HETEROGENEITY WITHIN AND AMONG MORPHOLOGICAL TYPES OF THE PARTHENOGENETIC SNAIL POTAMOPYRGUS-JENKINSI (SMITH, 1889) (1984) (12)
- Captivity and the co-diversification of great ape microbiomes (2021) (12)
- Genetic structure of populations of the earthworm Aporrectodea tuberculata (1980) (11)
- A Genome-Wide Assay Specifies Only GreA as a Transcription Fidelity Factor in Escherichia coli (2018) (10)
- Genome-Wide Spectra of Transcription Insertions and Deletions Reveal That Slippage Depends on RNA:DNA Hybrid Complementarity (2017) (9)
- Organizing the Global Diversity of Microviruses (2022) (9)
- Effects of Genic Base Composition on Growth Rate in G+C-rich Genomes (2015) (8)
- The Effect of Chromosome Geometry on Genetic Diversity (2008) (8)
- Disentangling associated genomes. (2013) (8)
- Microbiomes are true to type (2014) (8)
- Rapid determination of nucleotide content and its application to the study of genome structure. (1991) (8)
- Defensive hypervariable regions confer superinfection exclusion in microviruses (2021) (7)
- Genome Size and Structure, Bacterial (2016) (6)
- Population genetics and population biology: what did they bring to the epidemiology of transmissible diseases? An e-debate. (2001) (5)
- Bacterial evolution: Jittery genomes (1999) (5)
- Single-cell genomics. (2007) (5)
- Local genic base composition impacts protein production and cellular fitness (2018) (4)
- Extracting single genomes from heterogenous DNA samples: A test case with Carsonella ruddii, the bacterial symbiont of psyllids (Insecta) (2005) (4)
- Eyeing bacterial genomes. (2003) (4)
- Radical views of the tree of life. (2009) (4)
- Realizing Microbial Evolution. (2016) (3)
- Escherichia Coli: What Is and Which Are? (2022) (3)
- Comparative Genetics of theinv-spaInvasion Gene Complex ofSalmonella enterica (1997) (3)
- Physical map location of the asc (formerly sac) operon of Escherichia coli K-12 (1991) (3)
- [40] – Use of Polymerase Chain Reaction to Amplify Segments Outside Boundaries of Known Sequences (1995) (3)
- Miles of isles. (1997) (3)
- CHAPTER 1 – Evolution of Bacterial Pathogens (2001) (3)
- Pathogenicity Islands: Minireview Bacterial Evolution in Quantum Leaps (1996) (2)
- Methods ofMultilocus EnzymeElectrophoresis forBacterial Population Genetics andSystematics (1986) (2)
- Rapid quantification of sequence repeats to resolve the size, structure and contents of bacterial genomes (2013) (2)
- Sequencing products of polymerase chain reaction. (1993) (2)
- LATERAL GENE TRANSFER AND THE HISTORY OF BACTERIAL GENOMES (2006) (2)
- systematics.bacterial population genetics and Methods of multilocus enzyme electrophoresis (2013) (2)
- The Genomics of Escherichia coli and Beyond (2011) (1)
- Evolution of the E. coli Genome (1998) (1)
- Erratum: Stepwise formation of the bacterial flagellar system (Proceedings of the National Academy of Sciences of the United States of America (2007) 104, (7116-7121)) (2007) (1)
- Seeking the genetic basis of phenotypic differences among bacterial species (1998) (1)
- Discriminating arboviral species. (2021) (1)
- Comparative Community Genomics of the Gut Microbiota (2006) (1)
- Physical Analysis of Chromosome Size Variation (2003) (0)
- ReviewOf What Use Is Sex to Bacteria ? (0)
- Inverse polymerase chain reaction. (1994) (0)
- Association ofInfection CausedbyPseudomonas aeruginosa Serotype 011withIntravenous AbuseofPentazocine Mixedwith Tripelennamine (1984) (0)
- The Lure of Bacterial Genetics: A Tribute to John Roth. Edited by Stanley Maloy, Kelly T. Hughes, and Josep Casadesús. Washington (DC): ASM Press. $149.95. xiv + 362 p.; ill.; index. ISBN: 978-1-55581-538-7. 2011. (2012) (0)
- Selection on translation rate impacts genic base composition (2017) (0)
- Reviews and Resources: BOOKS (2013) (0)
- Where Next for Microbiome Research? The Harvard community has made this article openly available. Please share how this access benefits you. Your story matters (2015) (0)
- COMPARISON OF PARAMETERS IN THE PRESENT REPORT WITH THOSE OF THE NRDC REPORT: HUMAN SALMONELLOSIS DEATHS ATTRIBUTABLE TO ANY LOW-LEVEL FARM USE OF PENICILLIN OR THE TETRACYCLINES (2003) (0)
- Side-stepping genetics (2002) (0)
- Resurrection of a Global, Metagenomically Defined Microvirus (2019) (0)
- Enterotypes in the landscape of gut microbial community composition (2017) (0)
- PARTHENOGENETIC FLY LONCHOPTERA DUBIA (1980) (0)
- Insects Co-opt Host Genes to Overcome Plant Defences. (2022) (0)
- Factors driving effective population size and pan-genome evolution in bacteria (2018) (0)
- The pea aphid as both host and vector for the phytopathogenic bacterium , 1 Pseudomonas syringae 2 3 4 (2009) (0)
- PyroTag: Pyrosequencing as a Powerful Tool to Study the Diversity of Microbial Community (2008) (0)
- A great-ape view of the gut microbiome (2019) (0)
- Afterword: Genomics Update update (2009) (0)
- Physical structure of human Chromosome 21: an analysis of YACs spanning 21q (1995) (0)
- SEXUAL DIFFICULTIES (2007) (0)
- Molecular area effects in Cepaea (land snails/enzyme polymorphism/genetic drift/natural selection/speciation) (2016) (0)
- Enterotypes are Shared by Chimpanzees and Humans (2012) (0)
- The Extraordinary Evolution of the Great Ape Microbiome (2015) (0)
- Physical MapLocation oftheasc (Formerly sac)Operonof Escherichia coli K-12 (1991) (0)
- Corrigendum [G3 Genes Genomes Genetics. (2015) 5: 1247-1252] (2015) (0)
- The fate of newbacterial genes (2008) (0)
- Specimen Daze Ed Yong I Contain Multitudes: The Microbes Within Us and a Grander View of Life 2016 HarperCollins Publishers 368 pp. $28.00 (2016) (0)
- Publisher Correction: Enterotypes in the landscape of gut microbial community composition (2018) (0)
- Author response: Resurrection of a global, metagenomically defined gokushovirus (2020) (0)
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