Oral and anal microbiome from HIV-exposed individuals: role of host-associated factors in taxa composition and metabolic pathways

The Effect of Gender-Affirming Medical Care on the Vaginal and Neovaginal Microbiomes of Transgender and Gender-Diverse People

(2022) Yonah Krakowsky et al.   Frontiers in Cellular and Infection Microbiology

Exploiting the Microbiota for the Diagnosis of Anal Precancerous Lesions in Men Who Have Sex With Men

(2021) Raquel Ron et al.   JOURNAL OF INFECTIOUS DISEASES

Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3

(2021) Francesco Beghini et al.   eLife

Penile bacteria associated with HIV seroconversion, inflammation, and immune cells

(2021) Jessica L. Prodger et al.   JCI Insight

The oral microbiome: Role of key organisms and complex networks in oral health and disease

(2021) Lea Sedghi et al.   PERIODONTOLOGY 2000

Whole-Genome Metagenomic Analysis of the Gut Microbiome in HIV-1-Infected Individuals on Antiretroviral Therapy

(2021) Xiangning Bai et al.   Frontiers in Microbiology

HIV-Associated Interactions Between Oral Microbiota and Mucosal Immune Cells: Knowledge Gaps and Future Directions

(2021) Modupe O. Coker et al.   Frontiers in Immunology

Veillonellaceae family members uniquely alter the cervical metabolic microenvironment in a human three-dimensional epithelial model

(2021) Mary E. Salliss et al.   npj Biofilms and Microbiomes

Fusobacterium nucleatum Acts as a Pro-carcinogenic Bacterium in Colorectal Cancer: From Association to Causality

(2021) Shuang Wang et al.   Frontiers in Cell and Developmental Biology

A pilot study of microbial signatures of liver disease in those with HIV mono-infection in Rio de Janeiro, Brazil

(2021) Carolyn Yanavich et al.   AIDS

The vaginal microbiota and innate immunity after local excisional treatment for cervical intraepithelial neoplasia

(2021) Anita Mitra et al.   Genome Medicine

Multivariable association discovery in population-scale meta-omics studies

(2021) Himel Mallick et al.   PLoS Computational Biology

Signature changes in gut microbiome are associated with increased susceptibility to HIV-1 infection in MSM

(2021) Yue Chen et al.   Microbiome

The HIV epidemic in Latin America: a time to reflect on the history of success and the challenges ahead

(2020) Brenda Crabtree‐Ramírez et al.   Journal of the International AIDS Society

Signatures of oral microbiome in HIV-infected individuals with oral Kaposi's sarcoma and cell-associated KSHV DNA

(2020) Marion Gruffaz et al.   PLoS Pathogens

Characteristics and Dysbiosis of the Gut Microbiome in Renal Transplant Recipients

(2020) J. Casper Swarte et al.   Journal of Clinical Medicine

Can gut microbiota of men who have sex with men influence HIV transmission?

(2020) Sara L. Coleman et al.   Gut Microbes

Research of the potential biomarkers in vaginal microbiome for persistent high-risk human papillomavirus infection

(2020) Xiaopei Chao et al.   Annals of Translational Medicine

HIV-associated gut dysbiosis is independent of sexual practice and correlates with noncommunicable diseases

(2020) I. Vujkovic-Cvijin et al.   Nature Communications

The neovaginal microbiome of transgender women post-gender reassignment surgery

(2020) Kenzie D. Birse et al.   Microbiome

Microbiome factors in HPV-driven carcinogenesis and cancers

(2020) Daniel Lin et al.   PLoS Pathogens

Lymphotropic Viruses EBV, KSHV and HTLV in Latin America: Epidemiology and Associated Malignancies. A Literature-Based Study by the RIAL-CYTED

(2020) Paola Chabay et al.   Cancers

Alpha-enolase in viral target cells suppresses the human immunodeficiency virus type 1 integration

(2020) Naoki Kishimoto et al.   Retrovirology

Relationship between the Cervical Microbiome, HIV Status, and Precancerous Lesions

(2019) Cameron Klein et al.   mBio

Distribution of high-risk HPV types among women in Sichuan province, China: a cross-sectional study

(2019) Lixia He et al.   BMC INFECTIOUS DISEASES

Bacteroides fragilis polysaccharide A induces IL-10 secreting B and T cells that prevent viral encephalitis

(2019) Chandran Ramakrishna et al.   Nature Communications

HIV, Cancer, and the Microbiota: Common Pathways Influencing Different Diseases

(2019) Sabina Herrera et al.   Frontiers in Immunology

KEGG Mapper for inferring cellular functions from protein sequences

(2019) Minoru Kanehisa et al.   PROTEIN SCIENCE

Peptostreptococcus anaerobius promotes colorectal carcinogenesis and modulates tumour immunity

(2019) Xiaohang Long et al.   Nature Microbiology

Alterations in Blood Chemistry Levels Associated With Nipah Virus Disease in the Syrian Hamster Model

(2019) Sarah C Genzer et al.   JOURNAL OF INFECTIOUS DISEASES

What is the collective effect of aging and HIV on the gut microbiome?

(2019) Stephanie M. Dillon et al.   Current Opinion in HIV and AIDS

Determinants of high-grade anal intraepithelial lesions in HIV-positive men having sex with men

(2018) Gary M. Clifford et al.   AIDS

Evaluation of the association between the concentrations of key vaginal bacteria and the increased risk of HIV acquisition in African women from five cohorts: a nested case-control study

(2018) R Scott McClelland et al.   LANCET INFECTIOUS DISEASES

Human papillomavirus types from infection to cancer in the anus, according to sex and HIV status: a systematic review and meta-analysis

(2018) Chunqing Lin et al.   LANCET INFECTIOUS DISEASES

The functional consequences of the microbiome in HIV

(2018) Sergio Serrano-Villar et al.   Current Opinion in HIV and AIDS

Association Between Gut Microbiota and CD4 Recovery in HIV-1 Infected Patients

(2018) Wei Lu et al.   Frontiers in Microbiology

Low nadir CD4+ T-cell counts predict gut dysbiosis in HIV-1 infection

(2018) Yolanda Guillén et al.   Mucosal Immunology

The gut microbiota at the intersection of diet and human health

(2018) Christopher L. Gentile et al.   SCIENCE

Inside Out: HIV, the Gut Microbiome, and the Mucosal Immune System

(2017) Jay Liu et al.   JOURNAL OF IMMUNOLOGY

Effect of HSV-2 infection on subsequent HIV acquisition: an updated systematic review and meta-analysis

(2017) Katharine J Looker et al.   LANCET INFECTIOUS DISEASES

Fusobacterium’s link to colorectal neoplasia sequenced: A systematic review and future insights

(2017) Hisham Hussan et al.   WORLD JOURNAL OF GASTROENTEROLOGY

Differential effects of antiretrovirals on microbial translocation and gut microbiota composition of HIV-infected patients

(2017) María J. Villanueva-Millán et al.   Journal of the International AIDS Society

Effect of a Lactobacillus Salivarius Probiotic on a Double-Species Streptococcus Mutans and Candida Albicans Caries Biofilm

(2017) Wirginia Krzyściak et al.   Nutrients

A novel Ruminococcus gnavus clade enriched in inflammatory bowel disease patients

(2017) Andrew Brantley Hall et al.   Genome Medicine

Leptotrichia species in human infections II

(2017) Emenike R. K. Eribe et al.   Journal of Oral Microbiology

Analysis of the cervical microbiome and potential biomarkers from postpartum HIV-positive women displaying cervical intraepithelial lesions

(2017) Gislaine Curty et al.   Scientific Reports

The gut microbiome and HIV-1 pathogenesis

(2016) Stephanie M. Dillon et al.   AIDS

Linking the Human Gut Microbiome to Inflammatory Cytokine Production Capacity

(2016) Melanie Schirmer et al.   CELL

HIV-associated changes in the enteric microbial community

(2016) David B. Gootenberg et al.   CURRENT OPINION IN INFECTIOUS DISEASES

Gut Mucosal Barrier Dysfunction, Microbial Dysbiosis, and Their Role in HIV-1 Disease Progression

(2016) Joseph C. Mudd et al.   JOURNAL OF INFECTIOUS DISEASES

Oxidative Stress during HIV Infection: Mechanisms and Consequences

(2016) Alexander V. Ivanov et al.   Oxidative Medicine and Cellular Longevity

The vaginal microbiota, human papillomavirus infection and cervical intraepithelial neoplasia: what do we know and where are we going next?

(2016) Anita Mitra et al.   Microbiome

Gut Microbiota Linked to Sexual Preference and HIV Infection

(2016) Marc Noguera-Julian et al.   EBioMedicine

Gut microbiota diversity predicts immune status in HIV-1 infection

(2015) Piotr Nowak et al.   AIDS

Mageeibacillus indolicus gen. nov., sp. nov.: A novel bacterium isolated from the female genital tract

(2015) Michele N. Austin et al.   ANAEROBE

Haemophilus parainfluenzae urethritis among homosexual men

(2015) Meng-Shiuan Hsu et al.   JOURNAL OF MICROBIOLOGY IMMUNOLOGY AND INFECTION

The MetaCyc database of metabolic pathways and enzymes and the BioCyc collection of pathway/genome databases

(2015) Ron Caspi et al.   NUCLEIC ACIDS RESEARCH

Biosynthesis and physiology of coenzyme Q in bacteria

(2014) Laurent Aussel et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS

UniRef clusters: a comprehensive and scalable alternative for improving sequence similarity searches

(2014) B. E. Suzek et al.   BIOINFORMATICS

Health- and disease-associated species clusters in complex natural biofilms determine the innate immune response in oral epithelial cells during biofilm maturation

(2014) Daniela Langfeldt et al.   FEMS MICROBIOLOGY LETTERS

An altered intestinal mucosal microbiome in HIV-1 infection is associated with mucosal and systemic immune activation and endotoxemia

(2014) S M Dillon et al.   Mucosal Immunology

Altered metabolism of gut microbiota contributes to chronic immune activation in HIV-infected individuals

(2014) J F Vázquez-Castellanos et al.   Mucosal Immunology

Dynamics and associations of microbial community types across the human body

(2014) Tao Ding et al.   NATURE

Heat-Stable Molecule Derived from Streptococcus cristatus Induces APOBEC3 Expression and Inhibits HIV-1 Replication

(2014) Ziqing Wang et al.   PLoS One

Epidemiology and Transmission of Kaposi’s Sarcoma-Associated Herpesvirus

(2014) Veenu Minhas et al.   Viruses-Basel

Campylobacter ureolyticus

(2014) Dylan O'Donovan et al.   Virulence

Molecular and Cellular Mechanisms of KSHV Oncogenesis of Kaposi's Sarcoma Associated with HIV/AIDS

(2014) Lucas E. Cavallin et al.   PLoS Pathogens

A Compositional Look at the Human Gastrointestinal Microbiome and Immune Activation Parameters in HIV Infected Subjects

(2014) Ece A. Mutlu et al.   PLoS Pathogens

Alterations in the Gut Microbiota Associated with HIV-1 Infection

(2013) Catherine A. Lozupone et al.   Cell Host & Microbe

Herpes Simplex Virus Type 2 Coinfection Does Not Accelerate CD4 Count Decline in Untreated HIV Infection

(2013) Darrell H. S. Tan et al.   CLINICAL INFECTIOUS DISEASES

The Association Between Detectable Plasmatic Human Immunodeficiency Virus (HIV) Viral Load and Different Subgingival Microorganisms in Brazilian Adults With HIV: A Multilevel Analysis

(2013) Viviane Tiago Pereira et al.   JOURNAL OF PERIODONTOLOGY

phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data

(2013) Paul J. McMurdie et al.   PLoS One

Dysbiosis of the Gut Microbiota Is Associated with HIV Disease Progression and Tryptophan Catabolism

(2013) Ivan Vujkovic-Cvijin et al.   Science Translational Medicine

HIV Infection is associated with compositional and functional shifts in the rectal mucosal microbiota

(2013) Ian H McHardy et al.   Microbiome

Worldwide burden of HIV in transgender women: a systematic review and meta-analysis

(2012) Stefan D Baral et al.   LANCET INFECTIOUS DISEASES

Hypothesis Testing and Power Calculations for Taxonomic-Based Human Microbiome Data

(2012) Patricio S. La Rosa et al.   PLoS One

Structural insight into the role of Streptococcus parasanguinis Fap1 within oral biofilm formation

(2011) James A. Garnett et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Bacterial Virulence in the Moonlight: Multitasking Bacterial Moonlighting Proteins Are Virulence Determinants in Infectious Disease

(2011) Brian Henderson et al.   INFECTION AND IMMUNITY

The Human Oral Microbiome

(2010) F. E. Dewhirst et al.   JOURNAL OF BACTERIOLOGY

Elevation of Intact and Proteolytic Fragments of Acute Phase Proteins Constitutes the Earliest Systemic Antiviral Response in HIV-1 Infection

(2010) Holger B. Kramer et al.   PLoS Pathogens

Coinfection with Herpes Simplex Virus Type 2 Is Associated with Reduced HIV‐Specific T Cell Responses and Systemic Immune Activation

(2008) Prameet M. Sheth et al.   JOURNAL OF INFECTIOUS DISEASES