Explanipedia

Salivary microbiota and clinical periodontal measures predicting cardiometabolic disease mortality: A nationwide survey Open

Hamdi S Adam, Weihua Guan, Abigail J. Johnson, Sanaz Sedaghat, Charlene Enhui Goh , et al. · 2025

Background Although periodontitis and oral microbiota are linked to cardiometabolic diseases (CMD), it is unclear if they similarly predict CMD mortality. We compared the predictive ability of salivary microbiota and periodontal disease me…

The Role of Surgical and Perioperative Factors in Shaping Gut Microbiome Recovery After Colorectal Surgery Open

Julia Köhn, Alexander Troester, Zachary Ziegert, Julia Frebault, Sonja Boatman , et al. · 2025

The gut microbiome is essential for gut health, immune regulation, and metabolism, but pathogenic bacteria like Enterococcus and Streptococcus can disrupt these processes, increasing infection risk after colorectal surgery. Prior studies s…

Gut mycobiome maturation and its determinants during early childhood: a comparison of ITS2 amplicon and shotgun metagenomic sequencing approaches Open

Timothy Heisel, Sara Gonia, Abrielle Dillon, Suzie Hoops, Gabriel A. Al‐Ghalith , et al. · 2025

Introduction Microbial colonization of the gut in early life is important for the development of metabolism, immunity, and the brain. Fungi and bacteria both colonize the human infant gut. The relatively smaller contribution of fungi to th…

Plant Richness From FoodSeq Metabarcoding Is Associated With a Healthy Dietary Pattern in Adults With Irritable Bowel Syndrome Open

Subin Jang, Breanna N Metras, Purna Kashyap, Ruben A. Mars, Abigail J. Johnson · 2025

A Pilot Study to Compare Plant Metabarcoding With Biomarkers and Dietary Recall Data Open

Breanna N Metras, Julia Köhn, Alexander Troester, Zachary Ziegart, Subin Jang , et al. · 2025

Nutritional optimization of fecal microbiota transplantation in humans: a scoping review Open

Levi Teigen, Austin Hoeg, Hannia Zehra, Priyali Shah, R C Johnson , et al. · 2025

Diet constitutes a major source of nutrient flow to the gut microbes. As such, it can be used to help shape the gut microbiome. Fecal microbiota transplantation (FMT) is an increasingly promising therapy in disease states beyond recurrent …

A Randomized Pilot Study of Time-Restricted Eating Shows Minimal Microbiome Changes Open

Abigail J. Johnson, Alison Alvear, Dan Knights, Lisa S. Chow, A. Bantle · 2025

Objective: TRE is an emerging approach in obesity treatment, yet there is limited data on how it influences gut microbiome composition in humans. Our objective was to characterize the gut microbiome of human participants before and after a…

Sugar-rich foods exacerbate antibiotic-induced microbiome injury Open

Anqi Dai, Peter Adintori, Tyler Funnell, William Jogia, Teng Fei , et al. · 2024

Intestinal microbiota composition is implicated in several diseases; understanding the factors that influence it are key to elucidating host-commensal interactions and to designing microbiome-targeted therapies. We quantified how diet infl…

Association Between Dietary Patterns and Subgingival Microbiota: Results From the Oral Infections, Glucose Intolerance, and Insulin Resistance Study (<span>ORIGINS</span>) Open

Rebecca Molinsky, Abigail J. Johnson, Lisa Marotz, Sumith Roy, Bruno Bohn , et al. · 2024

Objective To study the association between dietary patterns and subgingival microbiota. Methods Participants ( n = 651) who were enrolled in the Oral Infections, Glucose Intolerance, and Insulin Resistance Study (ORIGINS) with subgingival …

Dietary pattern and diversity analysis using DietDiveR in R: a cross-sectional evaluation in the National Health and Nutrition Examination Survey Open

Rie Sadohara, David R. Jacobs, Mark A. Pereira, Abigail J. Johnson · 2024

Evaluating Turkey-Derived Lactic-Acid-Producing Bacteria as Potential Probiotics for Use in Commercial Turkeys Open

Abigail J. Johnson, Bonnie Weber, Divek V.T. Nair, Randall S. Singer, Anup Kollanoor Johny , et al. · 2024

Lactic-acid-producing bacteria (LAB) are widely used in the poultry industry, and they are positively associated with gut health and growth performance. Despite their wide use in poultry production, LAB appear to be highly variable in thei…

Diet-induced shifts in the gut microbiota influence anastomotic healing in a murine model of colonic surgery Open

Sonja Boatman, Thomas Kaiser, Harika Nalluri, Mohammad H. Khan, Matthew Dietz , et al. · 2023

Host diet and gut microbiota interact to contribute to perioperative complications, including anastomotic leak (AL). Using a murine surgical model of colonic anastomosis, we investigated how diet and fecal microbial transplantation (FMT) i…

Author Correction: Enhancing untargeted metabolomics using metadata-based source annotation Open

Julia M. Gauglitz, Kiana West, Wout Bittremieux, Candace L. Williams, Kelly C. Weldon , et al. · 2023

Dietary pattern and diversity analysis using ‘DietR’ package in R Open

Rie Sadohara, David R. Jacobs, Mark A. Pereira, Abigail J. Johnson · 2023

There are scarce resources available for analyzing 24-hour dietary records. Here we introduce DietR, a set of functions written in R for the analysis of 24-hour dietary recall or records data, collected with either the Automated Self-Admin…

P21-005-23 Proportions of Packaged Foods in Various Food Categories in the U.S. Marketplace That Met the Proposed Updated FDA Criteria for “Healthy” Labeling Open

Lisa Harnack, Janet Pettit, Abigail J. Johnson, Bhaskarani Jasthi, Jennifer C. Stevenson , et al. · 2023

OR16-04-23 Assessing Calcium, Vitamin D, and Protein Content of Plant-Based Milk Alternatives Available in the U.S. Open

Abigail J. Johnson, Jennifer C. Stevenson, Janet Pettit, Bhaskarani Jasthi, Lisa Harnack · 2023

Evidence of host specificity in Lactobacillus johnsonii genomes and its influence on probiotic potential in poultry Open

Abigail J. Johnson, Elizabeth A. Miller, Bonnie Weber, Cristian Flores Figueroa, Jeannette Munoz Aguayo , et al. · 2023

Regular consumption of lacto-fermented vegetables has greater effects on the gut metabolome compared with the microbiome Open

Kylene Guse, Ashok Sharma, Emily Weyenberg, Sam Davison, Yiwei Ma , et al. · 2023

The industrialisation of Western food systems has reduced the regular consumption of lacto-fermented vegetables (LFV). Consuming LFV may exert health benefits through the alteration of the gut microbiome, but the mechanisms involved remain…

Regular Consumption of Lacto-fermented Vegetables has Greater Effects on the Gut Metabolome Compared with the Microbiome Open

Kylene Guse, Ashok Sharma, Emily Weyenberg, Sam Davison, Yiwei Ma , et al. · 2022

The industrialization of Western food systems has greatly reduced the regular consumption of lacto-fermented vegetables (LFV). Consuming LFV may exert health benefits through the alteration of the gut microbiome, but the events and mechani…

Bacterial, fungal, and interkingdom microbiome features of exclusively breastfeeding dyads are associated with infant age, antibiotic exposure, and birth mode Open

Timothy Heisel, Abigail J. Johnson, Sara Gonia, Abrielle Dillon, Emily Skalla , et al. · 2022

The composition and function of early life gut bacterial communities (microbiomes) have been proposed to modulate health for the long term. In addition to bacteria, fungi (mycobiomes) also colonize the early life gut and have been implicat…

Designing the Microbes and Social Equity Symposium: A Novel Interdisciplinary Virtual Research Conference Based on Achieving Group-Directed Outputs Open

Suzanne L. Ishaq, Emily Wissel, Patricia G. Wolf, Laura Grieneisen, Erin M. Eggleston , et al. · 2022

The Microbes and Social Equity working group was formed in 2020 to foster conversations on research, education, and policy related to how microorganisms connect to personal, societal, and environmental health, and to provide space and guid…

Enhancing untargeted metabolomics using metadata-based source annotation Open

Julia M. Gauglitz, Kiana West, Wout Bittremieux, Candace L. Williams, Kelly C. Weldon , et al. · 2022

Weight Loss Associated With Time Restricted Eating Is Not Reflected in Changes in the Human Gut Microbiome Open

A. Bantle, Alison Alvear, Dan Knights, Lisa S. Chow, Abigail J. Johnson · 2022

Representing Diet in a Tree-Based Format for Interactive and Exploratory Assessment of Dietary Intake Data Open

Nicole S. Litwin, Kalen Cantrell, Aurélie Cotillard, Muriel Derrien, Abigail J. Johnson , et al. · 2022

Diet-microbiome interactions in cancer treatment: Opportunities and challenges for precision nutrition in cancer Open

K. Leigh Greathouse, Madhur Wyatt, Abigail J. Johnson, Eugene P. Toy, Joetta Khan , et al. · 2022

Dietary patterns contribute to cancer risk. Separately, microbial factors influence the development of several cancers. However, the interaction of diet and the microbiome and their joint contribution to cancer treatment response needs mor…

Characterisation, procedures and heritability of acute dietary intake in the Twins UK cohort: an observational study Open

Emily R. Leeming, Olatz Mompeó, Pauline Turk, Ruth C. E. Bowyer, Panayiotis Louca , et al. · 2022

A Guide to Dietary Pattern–Microbiome Data Integration Open

Yuni Choi, Suzie Hoops, Calvin J. Thoma, Abigail J. Johnson · 2022

Perspective: A Framework for Addressing Dynamic Food Consumption Processes Open

Jennifer Taylor, Margaret Allman‐Farinelli, Juliana Chen, Julia M. Gauglitz, Dina Hamideh , et al. · 2022

Bacterial Clathrate-Binding Proteins in the Deep Subsurface Biosphere: Implications for Gas Clathrate Stability and Habitability Open

Abigail J. Johnson, Dustin Huard, Raquel L. Lieberman, Sheng Dai, Jennifer Glass · 2022

Additional file 1 of Characterisation, procedures and heritability of acute dietary intake in the Twins UK cohort: an observational study Open

Emily R. Leeming, Olatz Mompeó, Pauline Turk, Ruth C. E. Bowyer, Panayiotis Louca , et al. · 2022

Additional file 1. Supplementary Table 1. Frequency of food words and food phrases.

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