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Perturbation and resilience of the gut microbiome up to 3 months after β-lactams exposure in healthy volunteers suggest an important role of microbial β-lactamases.
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- Microbiome, 2024, v. 12, n. 1, p. 1, doi. 10.1186/s40168-023-01746-0
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- Article
Chance Favors the Prepared Genomes: Horizontal Transfer Shapes the Emergence of Antibiotic Resistance Mutations in Core Genes.
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- Molecular Biology & Evolution, 2023, v. 40, n. 10, p. 1, doi. 10.1093/molbev/msad217
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- Article
Systematic and quantitative view of the antiviral arsenal of prokaryotes.
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- Nature Communications, 2022, v. 13, n. 1, p. 1, doi. 10.1038/s41467-022-30269-9
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- Article
Causes and Consequences of Bacteriophage Diversification via Genetic Exchanges across Lifestyles and Bacterial Taxa.
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- Molecular Biology & Evolution, 2021, v. 38, n. 6, p. 2497, doi. 10.1093/molbev/msab044
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- Article
Erratum: Causes and Consequences of Bacteriophage Diversification via Genetic Exchanges across Lifestyles and Bacterial Taxa.
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- 2021
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- Correction Notice
Bacteria have numerous distinctive groups of phage–plasmids with conserved phage and variable plasmid gene repertoires.
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- Nucleic Acids Research, 2021, v. 49, n. 5, p. 2655, doi. 10.1093/nar/gkab064
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- Article
Phylogenetic background and habitat drive the genetic diversification of Escherichia coli.
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- PLoS Genetics, 2020, v. 16, n. 6, p. 1, doi. 10.1371/journal.pgen.1008866
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- Article
Author Correction: The chromosomal organization of horizontal gene transfer in bacteria.
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- 2020
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- Correction Notice
Atypical organizations and epistatic interactions of CRISPRs and cas clusters in genomes and their mobile genetic elements.
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- Nucleic Acids Research, 2020, v. 48, n. 2, p. 748, doi. 10.1093/nar/gkz1091
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- Article
CRISPRCasdb a successor of CRISPRdb containing CRISPR arrays and cas genes from complete genome sequences, and tools to download and query lists of repeats and spacers.
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- Nucleic Acids Research, 2020, v. 48, n. D1, p. D535, doi. 10.1093/nar/gkz915
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- Article
A simple, reproducible and cost-effective procedure to analyse gut phageome: from phage isolation to bioinformatic approach.
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- Scientific Reports, 2019, v. 9, n. 1, p. N.PAG, doi. 10.1038/s41598-019-47656-w
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- Article
Genetic exchanges are more frequent in bacteria encoding capsules.
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- PLoS Genetics, 2018, v. 14, n. 12, p. 1, doi. 10.1371/journal.pgen.1007862
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- Article
Author Correction: Parallels between experimental and natural evolution of legume symbionts.
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- Nature Communications, 2018, v. 9, n. 1, p. 1, doi. 10.1038/s41467-018-07205-x
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- Article
CRISPRCasFinder, an update of CRISRFinder, includes a portable version, enhanced performance and integrates search for Cas proteins.
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- Nucleic Acids Research, 2018, v. 46, n. W1, p. W246, doi. 10.1093/nar/gky425
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- Article
Parallels between experimental and natural evolution of legume symbionts.
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- Nature Communications, 2018, v. 9, n. 1, p. 1, doi. 10.1038/s41467-018-04778-5
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- Article
Inhibition of NHEJ repair by type II-A CRISPR-Cas systems in bacteria.
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- Nature Communications, 2017, v. 8, n. 1, p. 1, doi. 10.1038/s41467-017-02350-1
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- Article
Metagenomic assessment of the interplay between the environment and the genetic diversification of Acinetobacter.
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- Environmental Microbiology, 2017, v. 19, n. 12, p. 5010, doi. 10.1111/1462-2920.13949
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- Article
The chromosomal organization of horizontal gene transfer in bacteria.
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- Nature Communications, 2017, v. 8, n. 1, p. 1, doi. 10.1038/s41467-017-00808-w
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- Article
Integrative and conjugative elements and their hosts: composition, distribution and organization.
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- Nucleic Acids Research, 2017, v. 45, n. 15, p. 8943, doi. 10.1093/nar/gkx607
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- Article
A widespread family of polymorphic toxins encoded by temperate phages.
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- BMC Biology, 2017, v. 15, p. 1, doi. 10.1186/s12915-017-0415-1
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- Article
Abundance and co-occurrence of extracellular capsules increases environmental breadth: Implications for the emergence of pathogens.
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- PLoS Pathogens, 2017, v. 13, n. 7, p. 1, doi. 10.1371/journal.ppat.1006525
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- Article
Comparative genomic analysis of Acinetobacter strains isolated from murine colonic crypts.
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- BMC Genomics, 2017, v. 18, p. 1, doi. 10.1186/s12864-017-3925-x
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- Article
Metabolic diversity of the emerging pathogenic lineages of Klebsiella pneumoniae.
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- Environmental Microbiology, 2017, v. 19, n. 5, p. 1881, doi. 10.1111/1462-2920.13689
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- Article
Genomic epidemiology and global diversity of the emerging bacterial pathogen Elizabethkingia anophelis.
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- Scientific Reports, 2016, p. 30379, doi. 10.1038/srep30379
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- Article
Identification and analysis of integrons and cassette arrays in bacterial genomes.
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- Nucleic Acids Research, 2016, v. 44, n. 10, p. 4539, doi. 10.1093/nar/gkw319
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- Article
Identification of protein secretion systems in bacterial genomes.
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- Scientific Reports, 2016, p. 23080, doi. 10.1038/srep23080
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- Article
The Genomic Diversification of the Whole Acinetobacter Genus: Origins, Mechanisms, and Consequences.
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- Genome Biology & Evolution, 2014, v. 6, n. 10, p. 2866, doi. 10.1093/gbe/evu225
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- Article
MacSyFinder: A Program to Mine Genomes for Molecular Systems with an Application to CRISPR-Cas Systems.
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- PLoS ONE, 2014, v. 9, n. 10, p. 1, doi. 10.1371/journal.pone.0110726
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- Article
The interplay of restriction-modification systems with mobile genetic elements and their prokaryotic hosts.
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- Nucleic Acids Research, 2014, v. 42, n. 16, p. 10618, doi. 10.1093/nar/gku734
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- Article
A PNPase Dependent CRISPR System in <i>Listeria</i>.
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- PLoS Genetics, 2014, v. 10, n. 1, p. 1, doi. 10.1371/journal.pgen.1004065
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- Article
Manipulating or Superseding Host Recombination Functions: A Dilemma That Shapes Phage Evolvability.
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- PLoS Genetics, 2013, v. 9, n. 9, p. 1, doi. 10.1371/journal.pgen.1003825
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- Article
The Adaptation of Temperate Bacteriophages to Their Host Genomes.
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- Molecular Biology & Evolution, 2013, v. 30, n. 4, p. 737, doi. 10.1093/molbev/mss279
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- Article
Rapid Evolution of the Sequences and Gene Repertoires of Secreted Proteins in Bacteria.
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- PLoS ONE, 2012, v. 7, n. 11, p. 1, doi. 10.1371/journal.pone.0049403
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- Article
The Small, Slow and Specialized CRISPR and Anti-CRISPR of Escherichia and Salmonella.
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- PLoS ONE, 2010, v. 5, n. 6, p. 1, doi. 10.1371/journal.pone.0011126
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- Article
Organised Genome Dynamics in the Escherichia coli Species Results in Highly Diverse Adaptive Paths.
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- PLoS Genetics, 2009, v. 5, n. 1, p. 1, doi. 10.1371/journal.pgen.1000344
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- Article
Causes of Insertion Sequences Abundance in Prokaryotic Genomes.
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- Molecular Biology & Evolution, 2007, v. 24, n. 4, p. 969, doi. 10.1093/molbev/msm014
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- Article
Transcription-coupled and splicing-coupled strand asymmetries in eukaryotic genomes.
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- Nucleic Acids Research, 2004, v. 32, n. 17, p. 4969, doi. 10.1093/nar/gkh823
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- Article