A Research Genetic sequencing laboratory
Scholarly Publications
Detection of SARS-CoV-2 from patient fecal samples by whole genome sequencing
Multifaceted highly targeted sequential multidrug treatment of early ambulatory high-risk SARS-CoV-2 infection (COVID-19)
Multifaceted highly targeted sequential multidrug treatment of early ambulatory high-risk SARS-CoV-2 infection (COVID-19)
SARS-CoV-2 has been detected not only in respiratory secretions, but also in stool collections. Here were sought to identify SARS-CoV-2 by enrichment next-generation sequencing (NGS) from fecal samples, and to utilize whole genome analysis to characterize SARS-CoV-2 mutational variations in COVID-19 patients.
Multifaceted highly targeted sequential multidrug treatment of early ambulatory high-risk SARS-CoV-2 infection (COVID-19)
Multifaceted highly targeted sequential multidrug treatment of early ambulatory high-risk SARS-CoV-2 infection (COVID-19)
Multifaceted highly targeted sequential multidrug treatment of early ambulatory high-risk SARS-CoV-2 infection (COVID-19)
The SARS-CoV-2 virus spreading across the world has led to surges of COVID-19 illness, hospitalizations, and death. The complex and multifaceted pathophysiology of life-threatening COVID-19 illness including viral mediated organ damage, cytokine storm, and thrombosis warrants early interventions to address all components of the devastatin
The SARS-CoV-2 virus spreading across the world has led to surges of COVID-19 illness, hospitalizations, and death. The complex and multifaceted pathophysiology of life-threatening COVID-19 illness including viral mediated organ damage, cytokine storm, and thrombosis warrants early interventions to address all components of the devastating illness. In countries where therapeutic nihilism is prevalent, patients endure escalating symptoms and without early treatment can succumb to delayed in-hospital care and death. Prompt early initiation of sequenced multidrug therapy (SMDT) is a widely and currently available solution to stem the tide of hospitalizations and death. A multipronged therapeutic approach includes...
Shotgun Metagenomic Sequencing Identifies Dysbiosis in Triplet Sibling with Gastrointestinal Symptoms and ASD
Multifaceted highly targeted sequential multidrug treatment of early ambulatory high-risk SARS-CoV-2 infection (COVID-19)
Shotgun Metagenomic Sequencing Identifies Dysbiosis in Triplet Sibling with Gastrointestinal Symptoms and ASD
The gut microbiome profile of a child with autism spectrum disorder (ASD) and co-occurring gastrointestinal (GI) symptoms was compared to that of her healthy triplet siblings to determine if she exhibited intestinal dysbiosis. Shotgun metagenomic sequencing was performed in individual fecal samples, and relative microbial abundance and di
The gut microbiome profile of a child with autism spectrum disorder (ASD) and co-occurring gastrointestinal (GI) symptoms was compared to that of her healthy triplet siblings to determine if she exhibited intestinal dysbiosis. Shotgun metagenomic sequencing was performed in individual fecal samples, and relative microbial abundance and diversity was determined. Microbial diversity was lower in sibling #3, coupled with a higher Bacteroidetes/Firmicutes ratio, a lower relative abundance of Actinobacteria, and an increased relative abundance of Proteobacteria. Our findings are suggestive of gut dysbiosis in a child with ASD and co-occurring GI symptoms, compared to her two healthy triplet siblings.
Anti–Siglec-8 Antibody for Eosinophilic Gastritis and Duodenitis
Rapid improvement in Alzheimer’s disease symptoms following fecal microbiota transplantation
Shotgun Metagenomic Sequencing Identifies Dysbiosis in Triplet Sibling with Gastrointestinal Symptoms and ASD
Eosinophilic gastritis and duodenitis are characterized by gastrointestinal mucosal eosinophilia, chronic symptoms, impaired quality of life, and a lack of adequate treatments. Mast-cell activity may contribute to the pathogenesis of the conditions. AK002 (lirentelimab) is an anti–Siglec-8 antibody that depletes eosinophils and inhibits m
Eosinophilic gastritis and duodenitis are characterized by gastrointestinal mucosal eosinophilia, chronic symptoms, impaired quality of life, and a lack of adequate treatments. Mast-cell activity may contribute to the pathogenesis of the conditions. AK002 (lirentelimab) is an anti–Siglec-8 antibody that depletes eosinophils and inhibits mast cells and that has shown potential in animal models as a treatment for eosinophilic gastritis and duodenitis.
Detection of SARS-CoV-2 from Patient Fecal Samples by Whole Genome Sequencing
Rapid improvement in Alzheimer’s disease symptoms following fecal microbiota transplantation
Rapid improvement in Alzheimer’s disease symptoms following fecal microbiota transplantation
SARS-CoV-2 has been detected not only in respiratory secretions, but also in stool collections. Here were sought to identify SARS-CoV-2 by enrichment NGS from fecal samples, and to utilize whole genome analysis to characterize SARS-CoV-2 mutational variations in COVID-19 patients.
Rapid improvement in Alzheimer’s disease symptoms following fecal microbiota transplantation
Rapid improvement in Alzheimer’s disease symptoms following fecal microbiota transplantation
Rapid improvement in Alzheimer’s disease symptoms following fecal microbiota transplantation
Alzheimer’s disease (AD), the most common form of dementia, is a leading cause of death and a major cause of morbidity in older people. The disease is characterized by progressive memory loss, cognitive impairment, and the cerebral accumulation of amyloid-b peptide. Given the health and economic impacts of AD, treatments that target the u
Alzheimer’s disease (AD), the most common form of dementia, is a leading cause of death and a major cause of morbidity in older people. The disease is characterized by progressive memory loss, cognitive impairment, and the cerebral accumulation of amyloid-b peptide. Given the health and economic impacts of AD, treatments that target the underlying etiology of AD or modify the course of the disease are of significant interest. The gut microbiome has been increasingly implicated [...]
DETECTION OF NON-TOXIGENIC CLOSTRIDIOIDES DIFFICILE IN THE GUT MICROBIOME BY NEXT GENERATION SEQUENCING SHOTGUN UTILIZING KRAKEN METAGENOMIC ANALYSIS
DETECTION OF NON-TOXIGENIC CLOSTRIDIOIDES DIFFICILE IN THE GUT MICROBIOME BY NEXT GENERATION SEQUENCING SHOTGUN UTILIZING KRAKEN METAGENOMIC ANALYSIS
DETECTION OF NON-TOXIGENIC CLOSTRIDIOIDES DIFFICILE IN THE GUT MICROBIOME BY NEXT GENERATION SEQUENCING SHOTGUN UTILIZING KRAKEN METAGENOMIC ANALYSIS
Toxigenic Clostridioides difficile infection (CDI) is the most common cause of nosocomial disease in the United States, however, its prevalence in the general population is poorly understood. In this study we sought to determine the presence of Clostridioides difficile colonizing a representative sample of 119 asymptomatic adult volunteer
Toxigenic Clostridioides difficile infection (CDI) is the most common cause of nosocomial disease in the United States, however, its prevalence in the general population is poorly understood. In this study we sought to determine the presence of Clostridioides difficile colonizing a representative sample of 119 asymptomatic adult volunteers, 12 of which were physicians treating patients with CDI. Methods: Next generation sequencing (NGS) was performed on fecal samples from [...]
The Presence of Clostridioides difficile Strains in the Gut by Next Generation Shotgun Sequencing: Innocent Bystander or Villain?
DETECTION OF NON-TOXIGENIC CLOSTRIDIOIDES DIFFICILE IN THE GUT MICROBIOME BY NEXT GENERATION SEQUENCING SHOTGUN UTILIZING KRAKEN METAGENOMIC ANALYSIS
DETECTION OF NON-TOXIGENIC CLOSTRIDIOIDES DIFFICILE IN THE GUT MICROBIOME BY NEXT GENERATION SEQUENCING SHOTGUN UTILIZING KRAKEN METAGENOMIC ANALYSIS
Pathogenic Clostridioides difficile (C. difficile) is the most common cause of nosocomial infection in the United States. However, the prevalence of C. difficile colonization in the general population is poorly understood. We sought to determine the presence and nature of various C. difficile strains colonizing a representative sample of
Pathogenic Clostridioides difficile (C. difficile) is the most common cause of nosocomial infection in the United States. However, the prevalence of C. difficile colonization in the general population is poorly understood. We sought to determine the presence and nature of various C. difficile strains colonizing a representative sample of 17 asymptomatic adult volunteers, consisting of 10 healthy and 7 stable Crohn's patients.
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The validity of breath collection bags method in detecting Helicobacter pylori using the novel BreathID®Hp Lab System: a multicenter clinical study in 257 subjects
The validity of breath collection bags method in detecting Helicobacter pylori using the novel BreathID®Hp Lab System: a multicenter clinical study in 257 subjects
The validity of breath collection bags method in detecting Helicobacter pylori using the novel BreathID®Hp Lab System: a multicenter clinical study in 257 subjects
The BreathID®Hp urea breath test provides several advantages over other 13C breath analyzers for the detection of Helicobacter pylori. We evaluated the sensitivity and specificity of a new BreathID®Hp Lab System (Exalenz Bioscience Ltd, Israel), a 13C-urea breath test system using breath sampling bags that facilitates multiple testing in a multicenter international clinical study.
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The Relationship Between Parkinson’s Disease and the Microbiome
The validity of breath collection bags method in detecting Helicobacter pylori using the novel BreathID®Hp Lab System: a multicenter clinical study in 257 subjects
The validity of breath collection bags method in detecting Helicobacter pylori using the novel BreathID®Hp Lab System: a multicenter clinical study in 257 subjects
Sabine Hazan, MD, Series Editor
Parkinson’s Disease (PD) is a central nervous system movement disorder characterized by the formation of spherical protein deposits in the brain (Lewy bodies) and the development of spindle-like Lewy neurites in the body of the affected neuron. These start in the medulla oblongata and spread in a predictable pattern, resulting in [...]
How Globalization Changes the Microbiome
The validity of breath collection bags method in detecting Helicobacter pylori using the novel BreathID®Hp Lab System: a multicenter clinical study in 257 subjects
How Globalization Changes the Microbiome
Sabine Hazan, MD, Series Editor
The digestive tract’s microbial ecosystem is tailored for specific geographic areas. Here we discuss how the rise of globalization has spurred a mass transition of the European and American microbiome worldwide, altering the unique digestive patterns and processes of other nations. We can partially attribute our global obesity epidemic [...]
Probiotics: What Do We Know So Far?
The Microbiome, Viscerosensory Signaling and Autism
How Globalization Changes the Microbiome
Sabine Hazan, MD, Series Editor
Probiotic is a general term for live, nonpathogenic microorganisms, many of which exist in a symbiotic relationship within the normal human gut flora. Here we discuss their growth in popularity, their use in treating Gastrointestinal (GI) and non-GI medical conditions, and the data demonstrating their [...]
The Microbiome, Viscerosensory Signaling and Autism
The Microbiome, Viscerosensory Signaling and Autism
The Microbiome, Viscerosensory Signaling and Autism
Sabine Hazan, MD, Series Editor
Throughout this series we have pointed to evidence of an increasingly complex understanding of the relationship between the gut, its commensal bacterial composition, and its link to various pathological states within different organ systems. Here we will briefly discuss the emerging research that [...]
The Microbiome and the Heart
The Microbiome, Viscerosensory Signaling and Autism
The Microbiome, Viscerosensory Signaling and Autism
Sabine Hazan, MD, Series Editor
In this article, we discuss further understanding the gut microbiome along with its effect on metabolites and cardiovascular health. This understanding will give us opportunities to develop new test and therapeutic approaches to arteriosclerosis. In the future, stool transplantation with lean or low risk fo
Sabine Hazan, MD, Series Editor
In this article, we discuss further understanding the gut microbiome along with its effect on metabolites and cardiovascular health. This understanding will give us opportunities to develop new test and therapeutic approaches to arteriosclerosis. In the future, stool transplantation with lean or low risk for cardiovascular disease microflora may be a way of treating patients who are susceptible to [...]
The Microbiome and Obesity
The Microbiome and Inflammatory Bowel Disease
The Microbiome and Clostridium difficile
Sabine Hazan, MD, Series Editor
There is a growing body of research suggesting that obesity, metabolic syndrome, and insulin resistance are associated with predictable phyla and gene level compositional changes in the intestinal microbiome of humans and mice. With a better understanding of these changes, we can develop new, robust therape
Sabine Hazan, MD, Series Editor
There is a growing body of research suggesting that obesity, metabolic syndrome, and insulin resistance are associated with predictable phyla and gene level compositional changes in the intestinal microbiome of humans and mice. With a better understanding of these changes, we can develop new, robust therapeutic strategies. In this article, we will briefly discuss some of the definitive research related to [...]
The Microbiome and Clostridium difficile
The Microbiome and Inflammatory Bowel Disease
The Microbiome and Clostridium difficile
Sabine Hazan, MD, Series Editor
A new, emerging paradigm suggests that the susceptibility, severity, and duration of some diseases, even some previously thought to be independent of microbial involvement, are mediated by a complex interplay of host and microbe genomes. Already, nearly 10 million different microbial genes have been isolate
Sabine Hazan, MD, Series Editor
A new, emerging paradigm suggests that the susceptibility, severity, and duration of some diseases, even some previously thought to be independent of microbial involvement, are mediated by a complex interplay of host and microbe genomes. Already, nearly 10 million different microbial genes have been isolated from the human gut. In this series, we aim to shed light on some of the most promising research to date that [...]
The Microbiome and Inflammatory Bowel Disease
The Microbiome and Inflammatory Bowel Disease
The Microbiome and Inflammatory Bowel Disease
Sabine Hazan, MD, Series Editor
An IBD patient’s quality of life can be significantly diminished when treated with conventional therapies. However, like the trend of fecal microbiota transplantation (FMT) for the treatment of Clostridium difficile infection, there is promising evidence that a similar approach will prove efficacious in tre
Sabine Hazan, MD, Series Editor
An IBD patient’s quality of life can be significantly diminished when treated with conventional therapies. However, like the trend of fecal microbiota transplantation (FMT) for the treatment of Clostridium difficile infection, there is promising evidence that a similar approach will prove efficacious in treating UC and Crohn’s, especially given the increasingly predictable intestinal microbiome perturbation
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The Microbiome and Disease
Efficacy and safety of ridinilazole compared with vancomycin for the treatment of Clostridium difficile infection: A phase 2, randomised, double-blind, active-controlled, non-inferiority study
The Microbiome and Inflammatory Bowel Disease
Sabine Hazan, MD, Series Editor
Simply and elegantly defined by Lynch and Pedersen in their December 2016 article in the New England Journal of Medicine, a microbiome is the collection of all genomes of microbes in an ecosystem. In the context of human beings and our health, it is the vastly diverse genetic information observable in the m
Sabine Hazan, MD, Series Editor
Simply and elegantly defined by Lynch and Pedersen in their December 2016 article in the New England Journal of Medicine, a microbiome is the collection of all genomes of microbes in an ecosystem. In the context of human beings and our health, it is the vastly diverse genetic information observable in the microbes colonizing the distal GI tract. Historically, the study of human microbiology has been one of a [...]
Efficacy and safety of ridinilazole compared with vancomycin for the treatment of Clostridium difficile infection: A phase 2, randomised, double-blind, active-controlled, non-inferiority study
Efficacy and safety of ridinilazole compared with vancomycin for the treatment of Clostridium difficile infection: A phase 2, randomised, double-blind, active-controlled, non-inferiority study
Efficacy and safety of ridinilazole compared with vancomycin for the treatment of Clostridium difficile infection: A phase 2, randomised, double-blind, active-controlled, non-inferiority study
Background Clostridium difficile infection is the most common health-care-associated infection in the USA. We assessed the safety and efficacy of ridinilazole versus vancomycin for treatment of C difficile infection. Methods We did a phase 2, randomised, double-blind, active-controlled, non-inferiority study. Participants with signs and s
Background Clostridium difficile infection is the most common health-care-associated infection in the USA. We assessed the safety and efficacy of ridinilazole versus vancomycin for treatment of C difficile infection. Methods We did a phase 2, randomised, double-blind, active-controlled, non-inferiority study. Participants with signs and symptoms of C difficile infection and a positive diagnostic test result were recruited from 33 centres in the USA and Canada and randomly assigned (1:1) [...]
