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Genome-Based Prediction of Bacterial Antibiotic Resistance

Journal of clinical microbiology, 2019-03, Vol.57 (3)

2019

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Chlamydia suis undergoes interclade recombination promoting Tet-island exchange

BMC genomics, 2024-07, Vol.25 (1), p.1-7, Article 724

2024

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Bactopia: a Flexible Pipeline for Complete Analysis of Bacterial Genomes

mSystems, 2020-08, Vol.5 (4)

2020

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The role of hypermutation and collateral sensitivity in antimicrobial resistance diversity of Pseudomonas aeruginosa populations in cystic fibrosis lung infection

mBio, 2024-02, Vol.15 (2), p.e0310923-e0310923

2024

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Staphylococcus aureus viewed from the perspective of 40,000+ genomes

PeerJ (San Francisco, CA), 2018-07, Vol.6, p.e5261-e5261, Article e5261

2018

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Genotypic and Phenotypic Diversity of Staphylococcus aureus Isolates from Cystic Fibrosis Patient Lung Infections and Their Interactions with Pseudomonas aeruginosa

mBio, 2020-06, Vol.11 (3)

2020

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Detecting patterns of accessory genome coevolution in Staphylococcus aureus using data from thousands of genomes

BMC bioinformatics, 2023-06, Vol.24 (1), p.243-16, Article 243

2023

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Draft sequencing and assembly of the genome of the world's largest fish, the whale shark: Rhincodon typus Smith 1828

BMC genomics, 2017-07, Vol.18 (1), p.532-532, Article 532

2017

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Transcriptional activation of ompA in Neisseria gonorrhoeae mediated by the XRE family member protein NceR

mBio, 2023-08, Vol.14 (4), p.e0124423

2023

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Corrigendum: Patterns of within-host spread of Chlamydia trachomatis between vagina, endocervix and rectum revealed by comparative genomic analysis

Frontiers in microbiology, 2024-06, Vol.15, p.1441327

2024

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Comprehensive bioinformatics analysis of Mycoplasma pneumoniae genomes to investigate underlying population structure and type-specific determinants

PloS one, 2017-04, Vol.12 (4), p.e0174701-e0174701

2017

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Structures of Neisseria gonorrhoeae MtrR-operator complexes reveal molecular mechanisms of DNA recognition and antibiotic resistance-conferring clinical mutations

Nucleic acids research, 2021-04, Vol.49 (7), p.4155-4170

2021

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Unique microbial diversity, community composition, and networks among Pacific Islander endocervical and vaginal microbiomes with and without Chlamydia trachomatis infection in Fiji

mBio, 2024-01, Vol.15 (1), p.e0306323-e0306323

2024

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Patterns of within-host spread of Chlamydia trachomatis between vagina, endocervix and rectum revealed by comparative genomic analysis

Frontiers in microbiology, 2023-03, Vol.14, p.1154664

2023

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Protocol for the Emory University African American Vaginal, Oral, and Gut Microbiome in Pregnancy Cohort Study

BMC pregnancy and childbirth, 2017-06, Vol.17 (1), p.161-161, Article 161

2017

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Vaginal Microbiome Composition in Early Pregnancy and Risk of Spontaneous Preterm and Early Term Birth Among African American Women

Frontiers in cellular and infection microbiology, 2021-04, Vol.11, p.641005

2021

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Dissecting Vancomycin-Intermediate Resistance in Staphylococcus aureus Using Genome-Wide Association

Genome biology and evolution, 2014-04, Vol.6 (5), p.1174-1185

2014

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Scaffolding and validation of bacterial genome assemblies using optical restriction maps

Bioinformatics, 2008-05, Vol.24 (10), p.1229-1235

2008

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'SEEDY' (Simulation of Evolutionary and Epidemiological Dynamics): An R Package to Follow Accumulation of Within-Host Mutation in Pathogens

PloS one, 2015-06, Vol.10 (6), p.e0129745-e0129745

2015

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Factors associated with foreign body infection in methicillin-resistant Staphylococcus aureus bacteremia

Frontiers in immunology, 2024, Vol.15, p.1335867-1335867

2024

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Transmission and microevolution of USA300 MRSA in U.S. households: evidence from whole-genome sequencing

mBio, 2015-03, Vol.6 (2), p.e00054-e00054

2015

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Antibiotic failure mediated by a resistant subpopulation in Enterobacter cloacae

Nature microbiology, 2016-05, Vol.1 (6), p.16053, Article 16053

2016

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Generation of Tetracycline and Rifamycin Resistant Chlamydia Suis Recombinants

Frontiers in microbiology, 2021-06, Vol.12, p.630293-630293

2021

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Bacillus anthracis comparative genome analysis in support of the Amerithrax investigation

Proceedings of the National Academy of Sciences - PNAS, 2011-03, Vol.108 (12), p.5027-5032

2011

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Population genomics of Chlamydia trachomatis: insights on drift, selection, recombination, and population structure

Molecular biology and evolution, 2012-12, Vol.29 (12), p.3933-3946

2012

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Genome-Based Prediction of Bacterial Antibiotic Resistance

Chlamydia suis undergoes interclade recombination promoting Tet-island exchange

Bactopia: a Flexible Pipeline for Complete Analysis of Bacterial Genomes

The role of hypermutation and collateral sensitivity in antimicrobial resistance diversity of Pseudomonas aeruginosa populations in cystic fibrosis lung infection

Staphylococcus aureus viewed from the perspective of 40,000+ genomes

Genotypic and Phenotypic Diversity of Staphylococcus aureus Isolates from Cystic Fibrosis Patient Lung Infections and Their Interactions with Pseudomonas aeruginosa

Detecting patterns of accessory genome coevolution in Staphylococcus aureus using data from thousands of genomes

Draft sequencing and assembly of the genome of the world's largest fish, the whale shark: Rhincodon typus Smith 1828

Transcriptional activation of ompA in Neisseria gonorrhoeae mediated by the XRE family member protein NceR

Corrigendum: Patterns of within-host spread of Chlamydia trachomatis between vagina, endocervix and rectum revealed by comparative genomic analysis

Comprehensive bioinformatics analysis of Mycoplasma pneumoniae genomes to investigate underlying population structure and type-specific determinants

Structures of Neisseria gonorrhoeae MtrR-operator complexes reveal molecular mechanisms of DNA recognition and antibiotic resistance-conferring clinical mutations

Unique microbial diversity, community composition, and networks among Pacific Islander endocervical and vaginal microbiomes with and without Chlamydia trachomatis infection in Fiji

Patterns of within-host spread of Chlamydia trachomatis between vagina, endocervix and rectum revealed by comparative genomic analysis

Protocol for the Emory University African American Vaginal, Oral, and Gut Microbiome in Pregnancy Cohort Study

Vaginal Microbiome Composition in Early Pregnancy and Risk of Spontaneous Preterm and Early Term Birth Among African American Women

Dissecting Vancomycin-Intermediate Resistance in Staphylococcus aureus Using Genome-Wide Association

Scaffolding and validation of bacterial genome assemblies using optical restriction maps

'SEEDY' (Simulation of Evolutionary and Epidemiological Dynamics): An R Package to Follow Accumulation of Within-Host Mutation in Pathogens

Factors associated with foreign body infection in methicillin-resistant Staphylococcus aureus bacteremia

Transmission and microevolution of USA300 MRSA in U.S. households: evidence from whole-genome sequencing

Antibiotic failure mediated by a resistant subpopulation in Enterobacter cloacae

Generation of Tetracycline and Rifamycin Resistant Chlamydia Suis Recombinants

Bacillus anthracis comparative genome analysis in support of the Amerithrax investigation

Population genomics of Chlamydia trachomatis: insights on drift, selection, recombination, and population structure

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