Signatures of COVID-19 Severity and Immune Response in the Respiratory Tract Microbiome

Bacterial coinfection in critically ill COVID-19 patients with severe pneumonia

(2021) Alexandre Elabbadi et al.   INFECTION

SARS-CoV-2 Genomic Variation in Space and Time in Hospitalized Patients in Philadelphia

(2021) John Everett et al.   mBio

SARS-CoV-2 Receptor ACE2 Is an Interferon-Stimulated Gene in Human Airway Epithelial Cells and Is Detected in Specific Cell Subsets across Tissues

(2020) Carly G.K. Ziegler et al.   CELL

Prevalence of comorbidities and its effects in patients infected with SARS-CoV-2: a systematic review and meta-analysis

(2020) Jing Yang et al.   INTERNATIONAL JOURNAL OF INFECTIOUS DISEASES

Neutrophil-to-lymphocyte ratio as an independent risk factor for mortality in hospitalized patients with COVID-19

(2020) Yuwei Liu et al.   JOURNAL OF INFECTION

Neutrophil-to-lymphocyte ratio and lymphocyte-to-C-reactive protein ratio in patients with severe coronavirus disease 2019 (COVID-19): A meta-analysis

(2020) Francisco Alejandro Lagunas-Rangel   JOURNAL OF MEDICAL VIROLOGY

The stepwise assembly of the neonatal virome is modulated by breastfeeding

(2020) Guanxiang Liang et al.   NATURE

Antibiotic use in patients with COVID-19: a ‘snapshot’ Infectious Diseases International Research Initiative (ID-IRI) survey

(2020) Bojana Beović et al.   JOURNAL OF ANTIMICROBIAL CHEMOTHERAPY

A minimal common outcome measure set for COVID-19 clinical research

(2020) John C Marshall et al.   LANCET INFECTIOUS DISEASES

Genomewide Association Study of Severe Covid-19 with Respiratory Failure

(2020) David Ellinghaus et al.   NEW ENGLAND JOURNAL OF MEDICINE

Deep immune profiling of COVID-19 patients reveals distinct immunotypes with therapeutic implications

(2020) Divij Mathew et al.   SCIENCE

A dynamic nomenclature proposal for SARS-CoV-2 lineages to assist genomic epidemiology

(2020) Andrew Rambaut et al.   Nature Microbiology

Bacterial and fungal superinfections in critically ill patients with COVID-19

(2020) Matteo Bassetti et al.   INTENSIVE CARE MEDICINE

Redondovirus DNA in human respiratory samples

(2020) Pietro Giorgio Spezia et al.   JOURNAL OF CLINICAL VIROLOGY

Airway gene expression correlates of RSV disease severity and microbiome composition in infants

(2020) Chin-Yi Chu et al.   JOURNAL OF INFECTIOUS DISEASES

Neutrophilic inflammation in the respiratory mucosa predisposes to RSV infection

(2020) Maximillian S. Habibi et al.   SCIENCE

Autoantibodies against type I IFNs in patients with life-threatening COVID-19

(2020) Paul Bastard et al.   SCIENCE

A distinct phylogenetic cluster of Indian SARS-CoV-2 isolates

(2020) Sofia Banu et al.   Open Forum Infectious Diseases

Assessment of respiratory bacterial co-infections among SARS-CoV-2 positive patients hospitalized in intensive care units using conventional culture and BioFire ® FilmArray ® Pneumonia Panel plus assay

(2020) Camille Kolenda et al.   Open Forum Infectious Diseases

Redondoviridae, a Family of Small, Circular DNA Viruses of the Human Oro-Respiratory Tract Associated with Periodontitis and Critical Illness

(2019) Arwa A. Abbas et al.   Cell Host & Microbe

Torquetenovirus viremia for early prediction of graft rejection after kidney transplantation

(2019) M. Solis et al.   JOURNAL OF INFECTION

Microbial Lineages in Sarcoidosis. A Metagenomic Analysis Tailored for Low–Microbial Content Samples

(2018) Erik L. Clarke et al.   AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE

Lactobacillus -Deficient Cervicovaginal Bacterial Communities Are Associated with Increased HIV Acquisition in Young South African Women

(2017) Christina Gosmann et al.   IMMUNITY

Composition and dynamics of the respiratory tract microbiome in intubated patients

(2016) Brendan J. Kelly et al.   Microbiome

Enrichment of the lung microbiome with oral taxa is associated with lung inflammation of a Th17 phenotype

(2016) Leopoldo N. Segal et al.   Nature Microbiology

Viral Metagenomics Reveal Blooms of Anelloviruses in the Respiratory Tract of Lung Transplant Recipients

(2014) J. C. Young et al.   AMERICAN JOURNAL OF TRANSPLANTATION

Influenza Promotes Pneumococcal Growth during Coinfection by Providing Host Sialylated Substrates as a Nutrient Source

(2014) Steven J. Siegel et al.   Cell Host & Microbe

Topographical Continuity of Bacterial Populations in the Healthy Human Respiratory Tract

(2011) Emily S. Charlson et al.   AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE

Viral Infection in Acute Exacerbation of Idiopathic Pulmonary Fibrosis

(2011) Sharon Chao Wootton et al.   AMERICAN JOURNAL OF RESPIRATORY AND CRITICAL CARE MEDICINE

Complications of seasonal and pandemic influenza

(2010) Michael B. Rothberg et al.   CRITICAL CARE MEDICINE

Influenza Infection Leads to Increased Susceptibility to Subsequent Bacterial Superinfection by Impairing NK Cell Responses in the Lung

(2010) Cherrie-Lee Small et al.   JOURNAL OF IMMUNOLOGY

Disordered Microbial Communities in the Upper Respiratory Tract of Cigarette Smokers

(2010) Emily S. Charlson et al.   PLoS One

Influenza-Associated Pediatric Mortality in the United States: Increase of Staphylococcus aureus Coinfection

(2008) L. Finelli et al.   PEDIATRICS