In Silico Characterisation of Putative Prophages in Lactobacillaceae Used in Probiotics for Vaginal Health

Probiotics impact the antibiotic resistance gene reservoir along the human GI tract in a person-specific and antibiotic-dependent manner

(2021) Emmanuel Montassier et al.   Nature Microbiology

Revealing antibiotic resistance in therapeutic and dietary probiotic supplements

(2020) Joseph Selvin et al.   Journal of Global Antimicrobial Resistance

Phigaro: high-throughput prophage sequence annotation

(2020) Elizaveta V Starikova et al.   BIOINFORMATICS

Complete Genome of Lactobacillus iners KY Using Flongle Provides Insight Into the Genetic Background of Optimal Adaption to Vaginal Econiche

(2020) Woori Kwak et al.   Frontiers in Microbiology

Exploring potential of vaginal Lactobacillus isolates from South African women for enhancing treatment for bacterial vaginosis

(2020) Anna-Ursula Happel et al.   PLoS Pathogens

Characterization of the Vaginal DNA Virome in Health and Dysbiosis

(2020) Rasmus Riemer Jakobsen et al.   Viruses-Basel

CheckV assesses the quality and completeness of metagenome-assembled viral genomes

(2020) Stephen Nayfach et al.   NATURE BIOTECHNOLOGY

The evolving facets of bacterial vaginosis: implications for HIV transmission

(2019) Lyle R McKinnon et al.   AIDS RESEARCH AND HUMAN RETROVIRUSES

Antimicrobial and inflammatory properties of South African clinical Lactobacillus isolates and vaginal probiotics

(2019) Emily Chetwin et al.   Scientific Reports

Sugar and Fatty Acids Ack-celerate Prophage Induction

(2019) Anushila Chatterjee et al.   Cell Host & Microbe

Changes to virus taxonomy and the International Code of Virus Classification and Nomenclature ratified by the International Committee on Taxonomy of Viruses (2019)

(2019) Peter J. Walker et al.   ARCHIVES OF VIROLOGY

Lactobacilli‐containing vaginal probiotics to cure or prevent bacterial or fungal vaginal dysbiosis: a systematic review and recommendations for future trial designs

(2019) Janneke H.H.M. van de Wijgert et al.   BJOG-AN INTERNATIONAL JOURNAL OF OBSTETRICS AND GYNAECOLOGY

Validating the NCBI AMRFinder Tool and Resistance Gene Database Using Antimicrobial Resistance Genotype-Phenotype Correlations in a Collection of NARMS Isolates

(2019) Michael Feldgarden et al.   ANTIMICROBIAL AGENTS AND CHEMOTHERAPY

Characterization and Treatment of Recurrent Bacterial Vaginosis

(2019) Brooke M. Faught et al.   JOURNAL OF WOMENS HEALTH

Prophages in Lactobacillus reuteri Are Associated with Fitness Trade-Offs but Can Increase Competitiveness in the Gut Ecosystem

(2019) Jee-Hwan Oh et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The Human Gut Virome Is Highly Diverse, Stable, and Individual Specific

(2019) Andrey N. Shkoporov et al.   Cell Host & Microbe

CARD 2020: antibiotic resistome surveillance with the comprehensive antibiotic resistance database

(2019) Brian P Alcock et al.   NUCLEIC ACIDS RESEARCH

ProphET, prophage estimation tool: A stand-alone prophage sequence prediction tool with self-updating reference database

(2019) João L. Reis-Cunha et al.   PLoS One

A simple, reproducible and cost-effective procedure to analyse gut phageome: from phage isolation to bioinformatic approach

(2019) Camille d’Humières et al.   Scientific Reports

Probiotics for the Treatment of Bacterial Vaginosis: A Meta-Analysis

(2019) Ziyue Wang et al.   International Journal of Environmental Research and Public Health

Anti-HIV-1 Activity of Lactic Acid in Human Cervicovaginal Fluid

(2018) David Tyssen et al.   mSphere

Bacteriocin production of the probiotic Lactobacillus acidophilus KS400

(2018) C. Gaspar et al.   AMB Express

Genus-Wide Assessment of Antibiotic Resistance in Lactobacillus spp.

(2018) Ilenia Campedelli et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

VFDB 2019: a comparative pathogenomic platform with an interactive web interface

(2018) Bo Liu et al.   NUCLEIC ACIDS RESEARCH

eggNOG 5.0: a hierarchical, functionally and phylogenetically annotated orthology resource based on 5090 organisms and 2502 viruses

(2018) Jaime Huerta-Cepas et al.   NUCLEIC ACIDS RESEARCH

Victors: a web-based knowledge base of virulence factors in human and animal pathogens

(2018) Samantha Sayers et al.   NUCLEIC ACIDS RESEARCH

Integrative and conjugative elements and their hosts: composition, distribution and organization

(2017) Jean Cury et al.   NUCLEIC ACIDS RESEARCH

The role of lactic acid production by probiotic Lactobacillus species in vaginal health

(2017) Gilda Tachedjian et al.   RESEARCH IN MICROBIOLOGY

Strain-specific probiotic properties of lactic acid bacteria and their interference with human intestinal pathogens invasion

(2017) Raffaella Campana et al.   Gut Pathogens

Genomic structure and insertion sites of Helicobacter pylori prophages from various geographical origins

(2017) Filipa F. Vale et al.   Scientific Reports

Phages rarely encode antibiotic resistance genes: a cautionary tale for virome analyses

(2016) François Enault et al.   ISME Journal

Prokaryotic Virus Orthologous Groups (pVOGs): a resource for comparative genomics and protein family annotation

(2016) Ana Laura Grazziotin et al.   NUCLEIC ACIDS RESEARCH

PHASTER: a better, faster version of the PHAST phage search tool

(2016) David Arndt et al.   NUCLEIC ACIDS RESEARCH

Why Be Temperate: Lessons from Bacteriophage λ

(2016) Sylvain Gandon   TRENDS IN MICROBIOLOGY

Bacteriophages Isolated from Chicken Meat and the Horizontal Transfer of Antimicrobial Resistance Genes

(2015) Amira Shousha et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

In Vivo Horizontal Gene Transfer of the Carbapenemase OXA-48 During a Nosocomial Outbreak

(2015) S. Gottig et al.   CLINICAL INFECTIOUS DISEASES

CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes

(2015) Donovan H. Parks et al.   GENOME RESEARCH

A century of the phage: past, present and future

(2015) George P. C. Salmond et al.   NATURE REVIEWS MICROBIOLOGY

A new perspective on lysogeny: prophages as active regulatory switches of bacteria

(2015) Ron Feiner et al.   NATURE REVIEWS MICROBIOLOGY

Virulence reduction in bacteriophage resistant bacteria

(2015) Marcela León et al.   Frontiers in Microbiology

VirSorter: mining viral signal from microbial genomic data

(2015) Simon Roux et al.   PeerJ

Spontaneously Induced Prophages in Lactobacillus gasseri Contribute to Horizontal Gene Transfer

(2014) J. L. Baugher et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Metagenomic insights into the human gut resistome and the forces that shape it

(2014) Kristoffer Forslund et al.   BIOESSAYS

Antibiotic resistance among commercially available probiotics

(2014) Poonam Sharma et al.   FOOD RESEARCH INTERNATIONAL

Improved annotation of antibiotic resistance determinants reveals microbial resistomes cluster by ecology

(2014) Molly K Gibson et al.   ISME Journal

Antibiotic treatment expands the resistance reservoir and ecological network of the phage metagenome

(2013) Sheetal R. Modi et al.   NATURE

Comparative Genomic and Functional Analysis of 100 Lactobacillus rhamnosus Strains and Their Comparison with Strain GG

(2013) François P. Douillard et al.   PLoS Genetics

Nosocomial outbreak of carbapenem-resistant Enterobacter cloacae highlighting the interspecies transferability of the blaOXA-48 gene in the gut flora

(2012) L. Cremet et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

Identification of acquired antimicrobial resistance genes

(2012) E. Zankari et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

PhiSpy: a novel algorithm for finding prophages in bacterial genomes that combines similarity- and composition-based strategies

(2012) Sajia Akhter et al.   NUCLEIC ACIDS RESEARCH

Gut inflammation can boost horizontal gene transfer between pathogenic and commensal Enterobacteriaceae

(2012) B. Stecher et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A composite bacteriophage alters colonization by an intestinal commensal bacterium

(2012) B. A. Duerkop et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Temporal Dynamics of the Human Vaginal Microbiota

(2012) P. Gajer et al.   Science Translational Medicine

Easyfig: a genome comparison visualizer

(2011) M. J. Sullivan et al.   BIOINFORMATICS

High-level resistance to gentamicin: genetic transfer between Enterococcus faecalis isolated from food of animal origin and human microbiota

(2011) M. Sparo et al.   LETTERS IN APPLIED MICROBIOLOGY

Immunomodulatory mechanisms of lactobacilli

(2011) Jerry M Wells   Microbial Cell Factories

Identification of predominant culturable vaginal Lactobacillus species and associated bacteriophages from women with and without vaginal discharge syndrome in South Africa

(2010) L. H. Damelin et al.   JOURNAL OF MEDICAL MICROBIOLOGY

Bacteriophage resistance mechanisms

(2010) Simon J. Labrie et al.   NATURE REVIEWS MICROBIOLOGY

Temporal Variability of Human Vaginal Bacteria and Relationship with Bacterial Vaginosis

(2010) Sujatha Srinivasan et al.   PLoS One

Cryptic prophages help bacteria cope with adverse environments

(2010) Xiaoxue Wang et al.   Nature Communications

BLAST+: architecture and applications

(2009) Christiam Camacho et al.   BMC BIOINFORMATICS

Bacteriophages of Lactobacillus

(2009) Manuela Villion   Frontiers in Bioscience-Landmark