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  1. Article ; Online: The Fecal Metabolome Links Diet Composition, Foacidic positive ion conditions, chromatographicallyod Processing, and the Gut Microbiota to Gastrointestinal Health in a Randomized Trial of Adults Consuming a Processed Diet.

    Karl, J Philip / Armstrong, Nicholes J / Player, Robert A / Rood, Jennifer C / Soares, Jason W / McClung, Holly L

    The Journal of nutrition

    2022  Volume 152, Issue 11, Page(s) 2343–2357

    Abstract: Background: Food processing alters diet digestibility and composition, thereby influencing interactions between host biology, diet, and the gut microbiota. The fecal metabolome offers insight into those relations by providing a readout of diet- ... ...

    Abstract Background: Food processing alters diet digestibility and composition, thereby influencing interactions between host biology, diet, and the gut microbiota. The fecal metabolome offers insight into those relations by providing a readout of diet-microbiota interactions impacting host health.
    Objectives: The aims were to determine the effects of consuming a processed diet on the fecal metabolome and to explore relations between changes in the fecal metabolome with fecal microbiota composition and gastrointestinal health markers.
    Methods: This was a secondary analysis of a randomized controlled trial wherein healthy adults [94% male; 18-61 y; BMI (kg/m
    Results: Fecal concentrations of multiple dipeptides [Mann-Whitney effect size (ES) = 0.27-0.50] and long-chain SFAs (ES = 0.35-0.58) increased, whereas plant-derived compounds (ES = 0.31-0.60) decreased in MRE versus CON (P < 0.05; q < 0.20). Changes in dipeptides correlated positively with changes in fecal concentrations of Maillard-reaction products (ρ = 0.29-0.70; P < 0.05) and inversely with changes in serum prealbumin (ρ = -0.30 to -0.48; P ≤ 0.03). Multiple bile acids, coffee and caffeine metabolites, and plant-derived compounds were associated with both fecal microbiota composition and gastrointestinal health markers, with changes in fecal microbiota composition explaining 26% of the variability within changes in gastrointestinal health-associated fecal metabolites (P = 0.001).
    Conclusions: Changes in the fecal metabolomes of adults consuming a Meal, Ready-to-Eat
    Clinicaltrials: gov as NCT02423551.
    MeSH term(s) Adult ; Humans ; Gastrointestinal Microbiome ; Diet ; Gastrointestinal Tract ; Feces/chemistry ; Metabolome ; Phytochemicals
    Chemical Substances Phytochemicals
    Language English
    Publishing date 2022-07-26
    Publishing country United States
    Document type Randomized Controlled Trial ; Journal Article ; Research Support, U.S. Gov't, Non-P.H.S.
    ZDB-ID 218373-0
    ISSN 1541-6100 ; 0022-3166
    ISSN (online) 1541-6100
    ISSN 0022-3166
    DOI 10.1093/jn/nxac161
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    In stock of ZB MED Cologne/Königswinter

    Uc I Zs.205: Show issues Location:
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  2. Article ; Online: The META tool optimizes metagenomic analyses across sequencing platforms and classifiers.

    Player, Robert A / Aguinaldo, Angeline M / Merritt, Brian B / Maszkiewicz, Lisa N / Adeyemo, Oluwaferanmi E / Forsyth, Ellen R / Verratti, Kathleen J / Chee, Brant W / Grady, Sarah L / Bradburne, Christopher E

    Frontiers in bioinformatics

    2023  Volume 2, Page(s) 969247

    Abstract: A major challenge in the field of metagenomics is the selection of the correct combination of sequencing platform and downstream metagenomic analysis algorithm, or "classifier". Here, we present the Metagenomic Evaluation Tool Analyzer (META), which ... ...

    Abstract A major challenge in the field of metagenomics is the selection of the correct combination of sequencing platform and downstream metagenomic analysis algorithm, or "classifier". Here, we present the Metagenomic Evaluation Tool Analyzer (META), which produces simulated data and facilitates platform and algorithm selection for any given metagenomic use case. META-generated
    Language English
    Publishing date 2023-01-06
    Publishing country Switzerland
    Document type Journal Article
    ISSN 2673-7647
    ISSN (online) 2673-7647
    DOI 10.3389/fbinf.2022.969247
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: A novel

    Player, Robert A / Forsyth, Ellen R / Verratti, Kathleen J / Mohr, David W / Scott, Alan F / Bradburne, Christopher E

    Life science alliance

    2021  Volume 4, Issue 4

    Abstract: Reference genome fidelity is critically important for genome wide association studies, yet most vary widely from the study population. A typical whole genome sequencing approach implies short-read technologies resulting in fragmented assemblies with ... ...

    Abstract Reference genome fidelity is critically important for genome wide association studies, yet most vary widely from the study population. A typical whole genome sequencing approach implies short-read technologies resulting in fragmented assemblies with regions of ambiguity. Further information is lost by economic necessity when genotyping populations, as lower resolution technologies such as genotyping arrays are commonly used. Here, we present a phased reference genome for
    MeSH term(s) Animals ; Chromosome Mapping ; Computational Biology ; Genome ; Genome-Wide Association Study ; Genomics/methods ; High-Throughput Nucleotide Sequencing ; Humans ; Whole Genome Sequencing ; Wolves/classification ; Wolves/genetics
    Language English
    Publishing date 2021-01-29
    Publishing country United States
    Document type Journal Article ; Research Support, U.S. Gov't, Non-P.H.S.
    ISSN 2575-1077
    ISSN (online) 2575-1077
    DOI 10.26508/lsa.202000902
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Complete Genome Sequence of Francisella tularensis Live Vaccine Strain NR-28537 (BEI Master Cell Bank).

    Player, Robert A / Verratti, Kathleen J / Grady, Sarah L / Beck, Linda C / Goodwin, Bruce G / Earnhart, Christopher G / Sozhamannan, Shanmuga

    Microbiology resource announcements

    2020  Volume 9, Issue 50

    Abstract: The genome ... ...

    Abstract The genome of
    Language English
    Publishing date 2020-12-10
    Publishing country United States
    Document type Journal Article
    ISSN 2576-098X
    ISSN (online) 2576-098X
    DOI 10.1128/MRA.01248-20
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Reference Genome for the Highly Transformable

    Thielen, Peter M / Pendleton, Amanda L / Player, Robert A / Bowden, Kenneth V / Lawton, Thomas J / Wisecaver, Jennifer H

    G3 (Bethesda, Md.)

    2020  Volume 10, Issue 10, Page(s) 3467–3478

    Abstract: ... Setaria ... ...

    Abstract Setaria viridis
    MeSH term(s) Genome ; Humans ; Phylogeny ; Repetitive Sequences, Nucleic Acid ; Sequence Analysis, DNA ; Setaria Plant/genetics
    Language English
    Publishing date 2020-10-05
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't ; Research Support, U.S. Gov't, Non-P.H.S.
    ZDB-ID 2629978-1
    ISSN 2160-1836 ; 2160-1836
    ISSN (online) 2160-1836
    ISSN 2160-1836
    DOI 10.1534/g3.120.401345
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article: A diet of U.S. military food rations alters gut microbiota composition and does not increase intestinal permeability

    Karl, J. Philip / Armstrong, Nicholes J / McClung, Holly L / Player, Robert A / Rood, Jennifer C / Racicot, Kenneth / Soares, Jason W / Montain, Scott J

    Journal of nutritional biochemistry. 2019 July 22,

    2019  

    Abstract: Interactions between gut microbes and dietary components modulate intestinal permeability (IP) and inflammation. Recent studies have reported altered fecal microbiota composition together with increased IP and inflammation in individuals consuming ... ...

    Abstract Interactions between gut microbes and dietary components modulate intestinal permeability (IP) and inflammation. Recent studies have reported altered fecal microbiota composition together with increased IP and inflammation in individuals consuming military food rations in austere environments, but could not isolate effects of the diet from environmental factors. To determine how the U.S. Meal, Ready-to-Eat food ration affects fecal microbiota composition, IP and inflammation, 60 adults (95% male,18–61 yr) were randomized to consume their usual ad libitum diet for 31d (CON), or a strictly controlled Meal, Ready-to-Eat-only diet for 21d followed by their usual diet for 10d (MRE). In both groups, fecal microbiota composition was measured before, during (INT, days 1–21) and after the intervention period. IP and inflammation (high sensitivity C-reactive protein (hsCRP)) were measured on days 0, 10, 21, and 31. Longitudinal changes in fecal microbiota composition differed between groups (P=.005), and fecal samples collected from MRE during INT were identified with88% accuracy using random forest models. The genera making the strongest contribution to that prediction accuracy included multiple lactic acid bacteria (Lactobacillus, Lactococcus, Leuconostoc), which demonstrated lower relative abundance in MRE, and several genera known to dominate the ileal microbiota (Streptococcus, Veillonella, Clostridium), the latter two demonstrating higher relative abundance in MRE. IP and hsCRP were both lower (34% and 41%, respectively) in MRE relative to CON on day 21 (P<.05), but did not differ otherwise. Findings demonstrate that a Meal, Ready-to-Eat ration diet alters fecal microbiota composition, and does not increase IP or inflammation.
    Keywords C-reactive protein ; Clostridium ; Lactobacillus ; Lactococcus ; Leuconostoc ; Streptococcus ; Veillonella ; adults ; diet ; environmental factors ; feces ; ileum ; inflammation ; intestinal microorganisms ; lactic acid bacteria ; models ; permeability ; prediction ; ready-to-eat foods ; United States
    Language English
    Dates of publication 2019-0722
    Publishing place Elsevier Inc.
    Document type Article
    Note Pre-press version
    ZDB-ID 1014929-6
    ISSN 1873-4847 ; 0955-2863
    ISSN (online) 1873-4847
    ISSN 0955-2863
    DOI 10.1016/j.jnutbio.2019.108217
    Database NAL-Catalogue (AGRICOLA)

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    In stock of ZB MED Bonn / Germany

    Z 5044: Show issues

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  7. Article ; Online: A diet of U.S. military food rations alters gut microbiota composition and does not increase intestinal permeability.

    Karl, J Philip / Armstrong, Nicholes J / McClung, Holly L / Player, Robert A / Rood, Jennifer C / Racicot, Kenneth / Soares, Jason W / Montain, Scott J

    The Journal of nutritional biochemistry

    2019  Volume 72, Page(s) 108217

    Abstract: Interactions between gut microbes and dietary components modulate intestinal permeability (IP) and inflammation. Recent studies have reported altered fecal microbiota composition together with increased IP and inflammation in individuals consuming ... ...

    Abstract Interactions between gut microbes and dietary components modulate intestinal permeability (IP) and inflammation. Recent studies have reported altered fecal microbiota composition together with increased IP and inflammation in individuals consuming military food rations in austere environments, but could not isolate effects of the diet from environmental factors. To determine how the U.S. Meal, Ready-to-Eat food ration affects fecal microbiota composition, IP and inflammation, 60 adults (95% male,18-61 years) were randomized to consume their usual ad libitum diet for 31 days (CON) or a strictly controlled Meal, Ready-to-Eat-only diet for 21 days followed by their usual diet for 10 days (MRE). In both groups, fecal microbiota composition was measured before, during (INT, days 1-21) and after the intervention period. IP and inflammation [high-sensitivity C-reactive protein (hsCRP)] were measured on days 0, 10, 21 and 31. Longitudinal changes in fecal microbiota composition differed between groups (P=.005), and fecal samples collected from MRE during INT were identified with 88% accuracy using random forest models. The genera making the strongest contribution to that prediction accuracy included multiple lactic acid bacteria (Lactobacillus, Lactococcus, Leuconostoc), which demonstrated lower relative abundance in MRE, and several genera known to dominate the ileal microbiota (Streptococcus, Veillonella, Clostridium), the latter two demonstrating higher relative abundance in MRE. IP and hsCRP were both lower (34% and 41%, respectively) in MRE relative to CON on day 21 (P<.05) but did not differ otherwise. Findings demonstrate that a Meal, Ready-to-Eat ration diet alters fecal microbiota composition and does not increase IP or inflammation.
    MeSH term(s) Adolescent ; Adult ; Diet ; Fast Foods ; Fatty Acids, Volatile/metabolism ; Feces/microbiology ; Female ; Gastroenteritis/etiology ; Gastrointestinal Microbiome ; Gastrointestinal Tract/physiology ; Humans ; Intestinal Mucosa/physiology ; Male ; Middle Aged ; Military Personnel ; Permeability ; United States ; Young Adult
    Chemical Substances Fatty Acids, Volatile
    Language English
    Publishing date 2019-07-30
    Publishing country United States
    Document type Journal Article ; Randomized Controlled Trial ; Research Support, U.S. Gov't, Non-P.H.S.
    ZDB-ID 1014929-6
    ISSN 1873-4847 ; 0955-2863
    ISSN (online) 1873-4847
    ISSN 0955-2863
    DOI 10.1016/j.jnutbio.2019.108217
    Database MEDical Literature Analysis and Retrieval System OnLINE

    Full text online

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    In stock of ZB MED Cologne/Königswinter

    Zs.A 2838: Show issues Location:
    Je nach Verfügbarkeit (siehe Angabe bei Bestand)
    bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular
    Jg. 1995 - 2021: Lesesall (2.OG)
    ab Jg. 2022: Lesesaal (EG)

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