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Promoter recruitment drives the emergence of proto-genes in a long-term evolution experiment with Escherichia coli.
- Published in:
- PLoS Biology, 2024, v. 22, n. 5, p. 1, doi. 10.1371/journal.pbio.3002418
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- Publication type:
- Article
Escherichia Coli: What Is and Which Are?
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- Molecular Biology & Evolution, 2023, v. 40, n. 1, p. 1, doi. 10.1093/molbev/msac273
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- Article
Captivity and the co-diversification of great ape microbiomes.
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- Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-25732-y
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- Publication type:
- Article
Recombination events are concentrated in the spike protein region of Betacoronaviruses.
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- PLoS Genetics, 2020, v. 16, n. 12, p. 1, doi. 10.1371/journal.pgen.1009272
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- Article
ConSpeciFix: classifying prokaryotic species based on gene flow.
- Published in:
- Bioinformatics, 2018, v. 34, n. 21, p. 3738, doi. 10.1093/bioinformatics/bty400
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- Publication type:
- Article
Factors driving effective population size and pan-genome evolution in bacteria.
- Published in:
- BMC Evolutionary Biology, 2018, v. 18, n. 1, p. N.PAG, doi. 10.1186/s12862-018-1272-4
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- Publication type:
- Article
A Genome-Wide Assay Specifies Only GreA as a Transcription Fidelity Factor in Escherichia coli.
- Published in:
- G3: Genes | Genomes | Genetics, 2018, v. 8, n. 7, p. 2257, doi. 10.1534/g3.118.200209
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- Article
Rates of gut microbiome divergence in mammals.
- Published in:
- Molecular Ecology, 2018, v. 27, n. 8, p. 1884, doi. 10.1111/mec.14473
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- Article
Local genic base composition impacts protein production and cellular fitness.
- Published in:
- PeerJ, 2018, p. 1, doi. 10.7717/peerj.4286
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- Publication type:
- Article
Impact of Recombination on the Base Composition of Bacteria and Archaea.
- Published in:
- Molecular Biology & Evolution, 2017, v. 34, n. 10, p. 2627, doi. 10.1093/molbev/msx189
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- Article
The Evolution of Bacterial Genome Architecture.
- Published in:
- Frontiers in Genetics, 2017, v. 8, p. 1, doi. 10.3389/fgene.2017.00072
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- Article
Biological Species Are Universal across Life's Domains.
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- Genome Biology & Evolution, 2017, v. 9, n. 3, p. 491, doi. 10.1093/gbe/evx026
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- Article
Assessing the Unseen Bacterial Diversity in Microbial Communities.
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- Genome Biology & Evolution, 2015, v. 7, n. 12, p. 3416, doi. 10.1093/gbe/evv234
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- Publication type:
- Article
Effects of Genic Base Composition on Growth Rate in G+C-rich Genomes.
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- G3: Genes | Genomes | Genetics, 2015, v. 5, n. 6, p. 1247, doi. 10.1534/g3.115.016824
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- Publication type:
- Article
Genome Rearrangements Can Make and Break Small RNA Genes.
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- Genome Biology & Evolution, 2015, v. 7, n. 2, p. 557, doi. 10.1093/gbe/evv009
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- Publication type:
- Article
Stability of the gorilla microbiome despite simian immunodeficiency virus infection.
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- Molecular Ecology, 2015, v. 24, n. 3, p. 690, doi. 10.1111/mec.13057
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- Publication type:
- Article
Where Next for Microbiome Research?
- Published in:
- PLoS Biology, 2015, v. 13, n. 1, p. 1, doi. 10.1371/journal.pbio.1002050
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- Publication type:
- Article
Rapid quantification of sequence repeats to resolve the size, structure and contents of bacterial genomes.
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- BMC Genomics, 2013, v. 14, n. 1, p. 1, doi. 10.1186/1471-2164-14-537
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- Article
Genome Reduction Promotes Increase in Protein Functional Complexity in Bacteria.
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- Genetics, 2013, v. 193, n. 1, p. 303, doi. 10.1534/genetics.112.145656
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- Publication type:
- Article
Chimpanzees and humans harbour compositionally similar gut enterotypes.
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- Nature Communications, 2012, v. 3, n. 11, p. 1179, doi. 10.1038/ncomms2159
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- Article
Causes and Consequences of Genome Expansion in Fungi.
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- Genome Biology & Evolution, 2012, v. 4, n. 9, p. 13, doi. 10.1093/gbe/evr124
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- Publication type:
- Article
Causes and Consequences of Genome Expansion in Fungi.
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- Genome Biology & Evolution, 2012, v. 4, n. 1, p. 13, doi. 10.1093/gbe/evr124
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- Publication type:
- Article
Illumina-based analysis of microbial community diversity.
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- ISME Journal: Multidisciplinary Journal of Microbial Ecology, 2012, v. 6, n. 1, p. 183, doi. 10.1038/ismej.2011.74
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- Publication type:
- Article
Sequence Conservation and Functional Constraint on Intergenic Spacers in Reduced Genomes of the Obligate Symbiont Buchnera.
- Published in:
- PLoS Genetics, 2011, v. 7, n. 9, p. 1, doi. 10.1371/journal.pgen.1002252
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- Publication type:
- Article
Evolutionary Relationships of Wild Hominids Recapitulated by Gut Microbial Communities.
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- PLoS Biology, 2010, v. 8, n. 11, p. 1, doi. 10.1371/journal.pbio.1000546
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- Publication type:
- Article
Experimental factors affecting PCR-based estimates of microbial species richness and evenness.
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- ISME Journal: Multidisciplinary Journal of Microbial Ecology, 2010, v. 4, n. 5, p. 642, doi. 10.1038/ismej.2009.153
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- Publication type:
- Article
Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates.
- Published in:
- Environmental Microbiology, 2010, v. 12, n. 1, p. 118, doi. 10.1111/j.1462-2920.2009.02051.x
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- Article
A single genetic locus in the phytopathogen Pantoea stewartii enables gut colonization and pathogenicity in an insect host.
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- Environmental Microbiology, 2010, v. 12, n. 1, p. 147, doi. 10.1111/j.1462-2920.2009.02056.x
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- Article
Afterword: Genomics Update update.
- Published in:
- 2009
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- Publication type:
- Other
Radical views of the Tree of Life.
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- 2009
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- Publication type:
- Other
Deletional Bias across the Three Domains of Life.
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- Genome Biology & Evolution, 2009, v. 1, p. 145, doi. 10.1093/gbe/evp016
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- Publication type:
- Article
Structural features and the persistence of acquired proteins.
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- Proteomics, 2008, v. 8, n. 22, p. 4772, doi. 10.1002/pmic.200800061
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- Article
The Effect of Chromosome Geometry on Genetic Diversity.
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- Genetics, 2008, v. 179, n. 1, p. 511, doi. 10.1534/genetics.107.085621
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- Article
The Emergence and Fate of Horizontally Acquired Genes in Escherichia coli.
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- PLoS Computational Biology, 2008, v. 4, n. 4, p. 1, doi. 10.1371/journal.pcbi.1000059
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- Article
Single-cell genomics.
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- 2007
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- Publication type:
- Other
Sex and virulence in Escherichia coli: an evolutionary perspective.
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- Molecular Microbiology, 2006, v. 60, n. 5, p. 1136, doi. 10.1111/j.1365-2958.2006.05172.x
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- Article
Recognizing the pseudogenes in bacterial genomes.
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- Nucleic Acids Research, 2005, v. 33, n. 10, p. 3125, doi. 10.1093/nar/gki631
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- Article
Evolutionary Origins of Genomic Repertoires in Bacteria.
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- PLoS Biology, 2005, v. 3, n. 5, p. 807, doi. 10.1371/journal.pbio.0030130
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- Publication type:
- Article
Evolutionary Origins of Genomic Repertoires in Bacteria.
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- PLoS Biology, 2005, v. 3, n. 4, p. 1, doi. 10.1371/journal.pbio.0030130
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- Article
Identification and phylogenetic sorting of bacterial lineages with universally conserved genes and proteins.
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- Environmental Microbiology, 2004, v. 6, n. 7, p. 754, doi. 10.1111/j.1462-2920.2004.00617.x
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- Article
Quartet Mapping and the Extent of Lateral Transfer in Bacterial Genomes.
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- Molecular Biology & Evolution, 2004, v. 21, n. 1, p. 86
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- Article
Neutral Mutations and Neutral Substitutions in Bacterial Genomes.
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- Molecular Biology & Evolution, 2003, v. 20, n. 12, p. 2091, doi. 10.1093/molbev/msg229
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- Publication type:
- Article
Loss of DNA Recombinational Repair Enzymes in the Initial Stages of Genome Degeneration.
- Published in:
- Molecular Biology & Evolution, 2003, v. 20, n. 8, p. 1188, doi. 10.1093/molbev/msg138
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- Publication type:
- Article
Transcription increases multiple spontaneous point mutations in Salmonella enterica.
- Published in:
- Nucleic Acids Research, 2003, v. 31, n. 15, p. 4517, doi. 10.1093/nar/gkg651
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- Publication type:
- Article
Intracellular symbionts of sharpshooters (Insecta: Hemiptera: Cicadellinae) form a distinct clade with a small genome.
- Published in:
- Environmental Microbiology, 2003, v. 5, n. 2, p. 116, doi. 10.1046/j.1462-2920.2003.00391.x
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- Publication type:
- Article
Side-stepping genetics.
- Published in:
- 2002
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- Publication type:
- Book Review
Gene Location and Bacterial Sequence Divergence.
- Published in:
- Molecular Biology & Evolution, 2002, v. 19, n. 8, p. 1350, doi. 10.1093/oxfordjournals.molbev.a004196
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- Publication type:
- Article
Effect of Chromosome Location on Bacterial Mutation Rates.
- Published in:
- Molecular Biology & Evolution, 2002, v. 19, n. 1, p. 85, doi. 10.1093/oxfordjournals.molbev.a003986
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- Publication type:
- Article
Deamination as the Basis of Strand-Asymmetric Evolution in Transcribed Escherichia coli Sequences.
- Published in:
- Molecular Biology & Evolution, 2001, v. 18, n. 6, p. 1147, doi. 10.1093/oxfordjournals.molbev.a003888
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- Publication type:
- Article
Evolutionary dynamics of full genome content in Escherichia coli.
- Published in:
- EMBO Journal, 2000, v. 19, n. 24, p. 6637, doi. 10.1093/emboj/19.24.6637
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- Article