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THE INTESTINAL AND ORAL MICROBIOMES ARE ROBUST PREDICTORS OF COVID-19 SEVERITY THE MAIN PREDICTOR OF COVID-19-RELATED FATALITY

https://doi.org/10.1101/2021.01.05.20249061

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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

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Stability and inactivation of SARS coronavirus

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Effect of oral feeding with Clostridium leptum on regulatory T-cell responses and allergic airway inflammation in mice

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Regulatory T Cells and Immune Tolerance

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Th17 Cell Induction by Adhesion of Microbes to Intestinal Epithelial Cells

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Mining the Human Gut Microbiota for Effector Strains that Shape the Immune System

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Extrathymically Generated Regulatory T Cells Establish a Niche for Intestinal Border-Dwelling Bacteria and Affect Physiologic Metabolite Balance

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SARS-CoV-2-specific ELISA development

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Towards Predictive Models of the Human Gut Microbiome

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Linking the Microbiota, Chronic Disease, and the Immune System

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Gastrointestinal symptoms associated with COVID-19: impact on the gut microbiome

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Facilitating Dietary Change

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COVID-19: consider cytokine storm syndromes and immunosuppression

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Treg induction by a rationally selected mixture of Clostridia strains from the human microbiota

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Commensal microbe-derived butyrate induces the differentiation of colonic regulatory T cells

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DADA2: High-resolution sample inference from Illumina amplicon data

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Development and maintenance of intestinal regulatory T cells

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Comments to: A systematic review of pathological findings in COVID-19: a pathophysiological timeline and possible mechanisms of disease progression

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Interaction between microbiota and immunity in health and disease

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Dynamic changes in anti-SARS-CoV-2 antibodies during SARS-CoV-2 infection and recovery from COVID-19

inferredcites →https://doi.org/10.1038/s41598-017-10346-6openalex-snapshot

Antibiotic treatment for Tuberculosis induces a profound dysbiosis of the microbiome that persists long after therapy is completed

inferredcites →https://doi.org/10.1038/s41598-019-49829-zopenalex-snapshot

Adenovirus infection is associated with altered gut microbial communities in a non-human primate

inferredcites →https://doi.org/10.1053/j.gastro.2020.05.048openalex-snapshot

Alterations in Gut Microbiota of Patients With COVID-19 During Time of Hospitalization

inferredcites →https://doi.org/10.1073/pnas.0909122107openalex-snapshot

Inducible Foxp3 + regulatory T-cell development by a commensal bacterium of the intestinal microbiota

inferredcites →https://doi.org/10.1073/pnas.2111315118openalex-snapshot

Profound Treg perturbations correlate with COVID-19 severity

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Species indicator values as an important tool in applied plant ecology – a review

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Regulatory T‐cell homeostasis: steady‐state maintenance and modulation during inflammation

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Ecological Uses of Vertebrate Indicator Species: A Critique

inferredcites →https://doi.org/10.1126/science.1198469openalex-snapshot

Induction of Colonic Regulatory T Cells by Indigenous Clostridium Species

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The receptor-binding domain of the viral spike protein is an immunodominant and highly specific target of antibodies in SARS-CoV-2 patients

inferredcites →https://doi.org/10.1128/aem.01043-13openalex-snapshot

Development of a Dual-Index Sequencing Strategy and Curation Pipeline for Analyzing Amplicon Sequence Data on the MiSeq Illumina Sequencing Platform

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Routine procedures for isolation and identification of enterococci and fecal streptococci

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Species identities of enterococci isolated from clinical specimens

inferredcites →https://doi.org/10.1128/mbio.00632-19openalex-snapshot

Alzheimer’s Disease Microbiome Is Associated with Dysregulation of the Anti-Inflammatory P-Glycoprotein Pathway

inferredcites →https://doi.org/10.1128/mbio.03236-19openalex-snapshot

Respiratory Viral Infection Alters the Gut Microbiota by Inducing Inappetence

inferredcites →https://doi.org/10.1128/msystems.00614-20openalex-snapshot

SARS-CoV-2 Titers in Wastewater Are Higher than Expected from Clinically Confirmed Cases

inferredcites →https://doi.org/10.1136/bmj.m3339openalex-snapshot

Risk stratification of patients admitted to hospital with covid-19 using the ISARIC WHO Clinical Characterisation Protocol: development and validation of the 4C Mortality Score

inferredcites →https://doi.org/10.1136/gutjnl-2020-322294openalex-snapshot

Depicting SARS-CoV-2 faecal viral activity in association with gut microbiota composition in patients with COVID-19

inferredcites →https://doi.org/10.1172/jci137244openalex-snapshot

Clinical and immunological features of severe and moderate coronavirus disease 2019

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Differential expression analysis for sequence count data

inferredcites →https://doi.org/10.1186/s13059-014-0550-8openalex-snapshot

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

inferredcites →https://doi.org/10.1186/s13059-016-0980-6openalex-snapshot

MDSINE: Microbial Dynamical Systems INference Engine for microbiome time-series analyses

inferredcites →https://doi.org/10.18637/jss.v036.i11openalex-snapshot

Feature Selection with the Boruta Package

inferredcites →https://doi.org/10.3389/fimmu.2018.02640openalex-snapshot

Respiratory Viral Infection-Induced Microbiome Alterations and Secondary Bacterial Pneumonia

inferredcites →https://doi.org/10.3389/fimmu.2019.00426openalex-snapshot

Microbiome Dependent Regulation of Tregs and Th17 Cells in Mucosa

inferredcites →https://doi.org/10.7554/elife.30916openalex-snapshot

Computer-guided design of optimal microbial consortia for immune system modulation

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

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Dynamic Alterations in the Respiratory Tract Microbiota of Patients with COVID‐19 and its Association with Microbiota in the Gut

inferred← citeshttps://doi.org/10.1002/jmv.29083openalex-snapshot

Baseline gut microbiome features prior to SARS‐CoV‐2 infection are associated with host symptoms in and post COVID‐19

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Humans and the Microbiome: We Are Many

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Artificial intelligence-based approaches for improving the diagnosis, triage, and prioritization of autism spectrum disorder: a systematic review of current trends and open issues

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ieta nti-flamatoria or DAIN: A Crohn's disease management strategy tailored for Puerto Ricans

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The role of gut microbiome in cancer genesis and cancer prevention

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Oral dysbiosis and its linkage with SARS-CoV-2 infection

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Emerging concepts in mucosal immunity and oral microecological control of respiratory virus infection-related inflammatory diseases

inferred← citeshttps://doi.org/10.1038/s41392-021-00614-3openalex-snapshot

Metagenomic analysis reveals oropharyngeal microbiota alterations in patients with COVID-19

inferred← citeshttps://doi.org/10.1038/s41522-021-00254-zopenalex-snapshot

Assessing saliva microbiome collection and processing methods

inferred← citeshttps://doi.org/10.1101/mcs.a006031openalex-snapshot

The gut microbiome: a missing link in understanding the gastrointestinal manifestations of COVID-19?

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MDITRE: Scalable and Interpretable Machine Learning for Predicting Host Status from Temporal Microbiome Dynamics

inferred← citeshttps://doi.org/10.1186/s12974-023-02729-6openalex-snapshot

Cannabinoids modulate the microbiota–gut–brain axis in HIV/SIV infection by reducing neuroinflammation and dysbiosis while concurrently elevating endocannabinoid and indole-3-propionate levels

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The oncobiome; what, so what, now what?

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SARS-CoV-2: Possible Factors Contributing to Serious Consequences of COVID-19?

inferred← citeshttps://doi.org/10.22592/ode2022n39e312openalex-snapshot

Fisiopatología de la enfermedad COVID-19

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Oral microbiome, COVID-19 and probiotics

inferred← citeshttps://doi.org/10.26502/acbr.50170318openalex-snapshot

Rapid Real-time Squiggle Classification for Read until using RawMap

inferred← citeshttps://doi.org/10.3389/fmicb.2021.687513openalex-snapshot

Oral Microbiome Dysbiosis Is Associated With Symptoms Severity and Local Immune/Inflammatory Response in COVID-19 Patients: A Cross-Sectional Study

inferred← citeshttps://doi.org/10.3389/fmicb.2024.1342749openalex-snapshot

Gut microbiome dynamics and predictive value in hospitalized COVID-19 patients: a comparative analysis of shallow and deep shotgun sequencing

inferred← citeshttps://doi.org/10.3390/biology10090865openalex-snapshot

Engineering Multigenerational Host-Modulated Microbiota against Soilborne Pathogens in Response to Global Climate Change

inferred← citeshttps://doi.org/10.3390/cells12091213openalex-snapshot

Understanding the Relationship of the Human Bacteriome with COVID-19 Severity and Recovery

inferred← citeshttps://doi.org/10.3390/jcm11175155openalex-snapshot

Probiotics in the Management of Mental and Gastrointestinal Post-COVID Symptomes

inferred← citeshttps://doi.org/10.3390/microorganisms12122573openalex-snapshot

The Clinical Anatomy of SARS-CoV-2 Variants of Concern in Central Greece During October 2020–July 2022

inferred← citeshttps://doi.org/10.34133/research.0389openalex-snapshot

Gut Microbiota Improves Prognostic Prediction in Critically Ill COVID-19 Patients Alongside Immunological and Hematological Indicators

inferred← citeshttps://doi.org/10.51219/jih/zahra--meshkat/8openalex-snapshot

Microbiota and COVID -19: Microbial Dysbiosis

inferred← citeshttps://doi.org/10.64628/aai.j5va4qk5popenalex-snapshot

A healthy microbiome builds a strong immune system that could help defeat COVID-19

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Así es como tus bacterias y microbios pueden salvarte de enfermedades como el COVID-19

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Comment le microbiome peut nous aider à renforcer notre immunité contre la Covid-19

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