David N. Fredricks
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View article: Umbribacter vaginalis gen. nov., sp. nov.: novel bacterium isolated from the human vagina
Umbribacter vaginalis gen. nov., sp. nov.: novel bacterium isolated from the human vagina Open
Gram-variable obligately anaerobic novel bacteria DNF00809 and PR-HUZ-602407-17 were isolated from vaginal fluid samples from women with bacterial vaginosis (BV) in two independent studies conducted in different laboratories. They each dis…
View article: A Syntenic Pangenome for Gardnerella Reveals Taxonomic Boundaries and Stratification of Metabolic and Virulence Potential across Species
A Syntenic Pangenome for Gardnerella Reveals Taxonomic Boundaries and Stratification of Metabolic and Virulence Potential across Species Open
Bacterial vaginosis (BV) is a prevalent condition characterized by an imbalance in the vaginal microbiota, often involving the presence of Gardnerella species. The taxonomic complexity and inconsistent nomenclature of Gardnerella have impe…
View article: Syntrophic bacterial and host–microbe interactions in bacterial vaginosis
Syntrophic bacterial and host–microbe interactions in bacterial vaginosis Open
Bacterial vaginosis (BV) is a common, polymicrobial condition of the vaginal microbiota that is associated with symptoms such as malodor and excessive discharge, along with increased risk of various adverse sequelae. Host–bacteria and bact…
View article: Effect of metronidazole on concentrations of vaginal bacteria associated with risk of HIV acquisition
Effect of metronidazole on concentrations of vaginal bacteria associated with risk of HIV acquisition Open
Several bacterial vaginosis (BV)-associated bacteria have been associated with elevated risk of human immunodeficiency virus (HIV) acquisition; however, susceptibility of these bacteria to antibiotics is poorly understood. Vaginal samples …
View article: SurvBal: compositional microbiome balances for survival outcomes
SurvBal: compositional microbiome balances for survival outcomes Open
Summary Identification of balances of bacterial taxa in relation to continuous and dichotomous outcomes is an increasingly frequent analytic objective in microbiome profiling experiments. SurvBal enables the selection of balances in relati…
View article: Effect of Metronidazole on Concentrations of Vaginal Bacteria Associated with Risk of HIV Acquisition
Effect of Metronidazole on Concentrations of Vaginal Bacteria Associated with Risk of HIV Acquisition Open
Several bacterial vaginosis (BV)-associated bacteria have been associated with elevated risk of HIV acquisition, however susceptibility of these bacteria to antibiotics is poorly understood. Vaginal samples were collected from 22 persons d…
View article: Identification of fallopian tube microbiota and its association with ovarian cancer
Identification of fallopian tube microbiota and its association with ovarian cancer Open
Investigating the human fallopian tube (FT) microbiota has significant implications for understanding the pathogenesis of ovarian cancer (OC). In this large prospective study, we collected swabs intraoperatively from the FT and other surgi…
View article: Author Response: Identification of fallopian tube microbiota and its association with ovarian cancer
Author Response: Identification of fallopian tube microbiota and its association with ovarian cancer Open
View article: The Relationship Between Insertive Oral and Anal Sex and Select Measures of the Composition of the Urethral Microbiota Among Men Who Have Sex With Men
The Relationship Between Insertive Oral and Anal Sex and Select Measures of the Composition of the Urethral Microbiota Among Men Who Have Sex With Men Open
Background Sexual behavior may influence the composition of the male urethral microbiota, but this hypothesis has not been tested in longitudinal studies of men who have sex with men (MSM). Methods From December 2014 to July 2018, we enrol…
View article: Identification of fallopian tube microbiota and its association with ovarian cancer: a prospective study of intraoperative swab collections from 187 patients
Identification of fallopian tube microbiota and its association with ovarian cancer: a prospective study of intraoperative swab collections from 187 patients Open
Investigating the human fallopian tube (FT) microbiota has significant implications for understanding the pathogenesis of ovarian cancer (OC). In this large prospective study, we collected swabs intraoperatively from the FT and other surgi…
View article: Author Response: Identification of fallopian tube microbiota and its association with ovarian cancer: a prospective study of intraoperative swab collections from 187 patients
Author Response: Identification of fallopian tube microbiota and its association with ovarian cancer: a prospective study of intraoperative swab collections from 187 patients Open
Investigating the human fallopian tube (FT) microbiota has significant implications for understanding the pathogenesis of ovarian cancer (OC). In this large prospective study, we collected swabs intraoperatively from the FT and other surgi…
View article: Reviewer #3 (Public Review): Identification of fallopian tube microbiota and its association with ovarian cancer: a prospective study of intraoperative swab collections from 187 patients
Reviewer #3 (Public Review): Identification of fallopian tube microbiota and its association with ovarian cancer: a prospective study of intraoperative swab collections from 187 patients Open
Investigating the human fallopian tube (FT) microbiota has significant implications for understanding the pathogenesis of ovarian cancer (OC). In this large prospective study, we collected swabs intraoperatively from the FT and other surgi…
View article: Reviewer #2 (Public Review): Identification of fallopian tube microbiota and its association with ovarian cancer: a prospective study of intraoperative swab collections from 187 patients
Reviewer #2 (Public Review): Identification of fallopian tube microbiota and its association with ovarian cancer: a prospective study of intraoperative swab collections from 187 patients Open
Investigating the human fallopian tube (FT) microbiota has significant implications for understanding the pathogenesis of ovarian cancer (OC). In this large prospective study, we collected swabs intraoperatively from the FT and other surgi…
View article: <i>Gardnerella</i> Species and Their Association With Bacterial Vaginosis
<i>Gardnerella</i> Species and Their Association With Bacterial Vaginosis Open
Background Bacterial vaginosis (BV) is a condition marked by high vaginal bacterial diversity. Gardnerella vaginalis has been implicated in BV but is also detected in healthy women. The Gardnerella genus has been expanded to encompass 6 va…
View article: IgA coating of vaginal bacteria is reduced in the setting of bacterial vaginosis (BV) and preferentially targets BV-associated species
IgA coating of vaginal bacteria is reduced in the setting of bacterial vaginosis (BV) and preferentially targets BV-associated species Open
Immunoglobulin (Ig) bacterial coating has been described in the gastrointestinal tract and linked to inflammatory bowel disease; however, little is known about Ig coating of vaginal bacteria and whether it plays a role in vaginal health in…
View article: Identification of fallopian tube microbiota and its association with ovarian cancer
Identification of fallopian tube microbiota and its association with ovarian cancer Open
Investigating the human fallopian tube (FT) microbiota has significant implications for understanding the pathogenesis of ovarian cancer (OC). In this large prospective study, we collected swabs intraoperatively from the FT and other surgi…
View article: Identification of fallopian tube microbiota and its association with ovarian cancer: a prospective study of intraoperative swab collections from 187 patients
Identification of fallopian tube microbiota and its association with ovarian cancer: a prospective study of intraoperative swab collections from 187 patients Open
Investigating the human fallopian tube (FT) microbiota has significant implications for understanding the pathogenesis of ovarian cancer (OC). In this large prospective study, we collected swabs intraoperatively from the FT and other surgi…
View article: Reviewer #1 (Public Review): Identification of fallopian tube microbiota and its association with ovarian cancer: a prospective study of intraoperative swab collections from 187 patients
Reviewer #1 (Public Review): Identification of fallopian tube microbiota and its association with ovarian cancer: a prospective study of intraoperative swab collections from 187 patients Open
Investigating the human fallopian tube (FT) microbiota has significant implications for understanding the pathogenesis of ovarian cancer (OC). In this large prospective study, we collected swabs intraoperatively from the FT and other surgi…
View article: Reviewer #2 (Public Review): Identification of fallopian tube microbiota and its association with ovarian cancer: a prospective study of intraoperative swab collections from 187 patients
Reviewer #2 (Public Review): Identification of fallopian tube microbiota and its association with ovarian cancer: a prospective study of intraoperative swab collections from 187 patients Open
Investigating the human fallopian tube (FT) microbiota has significant implications for understanding the pathogenesis of ovarian cancer (OC). In this large prospective study, we collected swabs intraoperatively from the FT and other surgi…
View article: Reviewer #3 (Public Review): Identification of fallopian tube microbiota and its association with ovarian cancer: a prospective study of intraoperative swab collections from 187 patients
Reviewer #3 (Public Review): Identification of fallopian tube microbiota and its association with ovarian cancer: a prospective study of intraoperative swab collections from 187 patients Open
Investigating the human fallopian tube (FT) microbiota has significant implications for understanding the pathogenesis of ovarian cancer (OC). In this large prospective study, we collected swabs intraoperatively from the FT and other surgi…
View article: Amygdalobacter indicium gen. nov., sp. nov., and Amygdalobacter nucleatus sp. nov., gen. nov.: novel bacteria from the family Oscillospiraceae isolated from the female genital tract
Amygdalobacter indicium gen. nov., sp. nov., and Amygdalobacter nucleatus sp. nov., gen. nov.: novel bacteria from the family Oscillospiraceae isolated from the female genital tract Open
Four obligately anaerobic Gram-positive bacteria representing one novel genus and two novel species were isolated from the female genital tract. Both novel species, designated UPII 610-J T and KA00274 T , and an additional isolate of each …
View article: SurvBal: Compositional Microbiome Balances for Survival Outcomes
SurvBal: Compositional Microbiome Balances for Survival Outcomes Open
Identification of balances of bacterial taxa in relation to continuous and dichotomous outcomes is an increasingly frequent analytic objective in microbiome profiling experiments. SurvBal enables the selection of balances in relation to ce…
View article: Vaginal Bacteria Elicit Acute Inflammatory Response in Fallopian Tube Organoids
Vaginal Bacteria Elicit Acute Inflammatory Response in Fallopian Tube Organoids Open
View article: Intestinal microbiota controls graft-versus-host disease independent of donor-host genetic disparity
Intestinal microbiota controls graft-versus-host disease independent of donor-host genetic disparity Open
View article: Identification of fallopian tube microbiota and its association with ovarian cancer: a prospective study of intraoperative swab collections from 187 patients
Identification of fallopian tube microbiota and its association with ovarian cancer: a prospective study of intraoperative swab collections from 187 patients Open
Investigating the human fallopian tube (FT) microbiota has significant implications for understanding the pathogenesis of ovarian cancer (OC). In this large prospective study, we collected swabs intraoperatively from the FT and other surgi…
View article: Optimizing metaproteomics database construction: lessons from a study of the vaginal microbiome
Optimizing metaproteomics database construction: lessons from a study of the vaginal microbiome Open
Metaproteomics, a method for untargeted, high-throughput identification of proteins in complex samples, provides functional information about microbial communities and can tie functions to specific taxa. Metaproteomics often generates less…
View article: Analysis of Antibiotic Exposure and Development of Acute Graft-vs-Host Disease Following Allogeneic Hematopoietic Cell Transplantation
Analysis of Antibiotic Exposure and Development of Acute Graft-vs-Host Disease Following Allogeneic Hematopoietic Cell Transplantation Open
Importance Certain antibiotic exposures have been associated with increased rates of acute graft-vs-host disease (aGVHD) after allogeneic hematopoietic cell transplantation (allo-HCT). Since antibiotic exposure can both affect and be affec…
View article: Vaginal bacteria elicit acute inflammatory response in fallopian tube organoids: a model for pelvic inflammatory disease
Vaginal bacteria elicit acute inflammatory response in fallopian tube organoids: a model for pelvic inflammatory disease Open
View article: Changes in Vaginal Bacteria and Inflammatory Mediators From Periconception Through the Early Postpartum Period in a Cohort of Kenyan Women Without HIV
Changes in Vaginal Bacteria and Inflammatory Mediators From Periconception Through the Early Postpartum Period in a Cohort of Kenyan Women Without HIV Open
Background Women's increased risk of HIV acquisition during pregnancy and postpartum may be mediated by changes in vaginal microbiota and/or cytokines. Methods A cohort of 80 Kenyan women who were HIV-1 seronegative contributed 409 vaginal…
View article: Next generation sequencing to examine associations between vaginal washing and vaginal microbiota: A cohort study
Next generation sequencing to examine associations between vaginal washing and vaginal microbiota: A cohort study Open
Background The association between vaginal washing and HIV risk may be mediated by vaginal washing-associated changes in vaginal microbiota. Methods Data from a cohort of HIV-negative US and Kenyan women enrolled in the Preventing Vaginal …