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      High fat diet is associated with gut microbiota dysbiosis and decreased gut microbial derived metabolites related to metabolic health in young Göttingen Minipigs

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          Abstract

          The objectives were 1) to characterize a Göttingen Minipig model of metabolic syndrome regarding its colon microbiota and circulating microbial products, and 2) to assess whether ovariectomized female and castrated male minipigs show similar phenotypes. Twenty-four nine-week-old Göttingen Minipigs were allocated to four groups based on sex and diet: ovariectomized females and castrated males fed either chow or high-fat diet (HFD) for 12 weeks. At study end, body composition and plasma biomarkers were measured, and a mixed meal tolerance test (MMT) and an intravenous glucose tolerance test (IVGTT) were performed. The HFD groups had significantly higher weight gain, fat percentage, fasting plasma insulin and glucagon compared to the chow groups. Homeostatic model assessment of insulin resistance index (HOMA-IR) was increased and glucose effectiveness derived from the IVGTT and Matsuda´s insulin sensitivity index from the MMT were decreased in the HFD groups. The HFD groups displayed dyslipidemia, with significantly increased total-, LDL- and HDL-cholesterol, and decreased HDL/non-HDL cholesterol ratio. The colon microbiota of HFD minipigs clearly differed from the lean controls (GuniFrac distance matrix). The main bacteria families driving this separation were Clostridiaceae, Fibrobacteraceae, Flavobacteriaceae and Porphyromonadaceae. Moreover, the species richness was significantly decreased by HFD. In addition, HFD decreased the circulating level of short chain fatty acids and beneficial microbial metabolites hippuric acid, xanthine and trigonelline, while increasing the level of branched chain amino acids. Six and nine metabolically relevant genes were differentially expressed between chow-fed and HFD-fed animals in liver and omental adipose tissue, respectively. The HFD-fed pigs presented with metabolic syndrome, gut microbial dysbiosis and a marked decrease in healthy gut microbial products and thus displayed marked parallels to human obesity and insulin resistance. HFD-fed Göttingen Minipig therefore represents a relevant animal model for studying host-microbiota interactions. No significant differences between the castrated and ovariectomized minipigs were observed.

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          Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing

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            Metagenomic biomarker discovery and explanation

            This study describes and validates a new method for metagenomic biomarker discovery by way of class comparison, tests of biological consistency and effect size estimation. This addresses the challenge of finding organisms, genes, or pathways that consistently explain the differences between two or more microbial communities, which is a central problem to the study of metagenomics. We extensively validate our method on several microbiomes and a convenient online interface for the method is provided at http://huttenhower.sph.harvard.edu/lefse/.
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              A metagenome-wide association study of gut microbiota in type 2 diabetes.

              Assessment and characterization of gut microbiota has become a major research area in human disease, including type 2 diabetes, the most prevalent endocrine disease worldwide. To carry out analysis on gut microbial content in patients with type 2 diabetes, we developed a protocol for a metagenome-wide association study (MGWAS) and undertook a two-stage MGWAS based on deep shotgun sequencing of the gut microbial DNA from 345 Chinese individuals. We identified and validated approximately 60,000 type-2-diabetes-associated markers and established the concept of a metagenomic linkage group, enabling taxonomic species-level analyses. MGWAS analysis showed that patients with type 2 diabetes were characterized by a moderate degree of gut microbial dysbiosis, a decrease in the abundance of some universal butyrate-producing bacteria and an increase in various opportunistic pathogens, as well as an enrichment of other microbial functions conferring sulphate reduction and oxidative stress resistance. An analysis of 23 additional individuals demonstrated that these gut microbial markers might be useful for classifying type 2 diabetes.
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                Author and article information

                Contributors
                Role: Data curationRole: Formal analysisRole: VisualizationRole: Writing – original draftRole: Writing – review & editing
                Role: Data curationRole: Writing – original draft
                Role: Data curationRole: Formal analysisRole: Visualization
                Role: Data curationRole: SupervisionRole: Writing – review & editing
                Role: SupervisionRole: Writing – review & editing
                Role: Data curationRole: Formal analysisRole: VisualizationRole: Writing – review & editing
                Role: ConceptualizationRole: InvestigationRole: Project administrationRole: Writing – review & editing
                Role: Formal analysisRole: Writing – review & editing
                Role: InvestigationRole: Writing – review & editing
                Role: SupervisionRole: Writing – review & editing
                Role: SupervisionRole: Writing – review & editing
                Role: ConceptualizationRole: Data curationRole: InvestigationRole: Project administrationRole: Writing – review & editing
                Role: Data curationRole: Formal analysisRole: SupervisionRole: Writing – original draftRole: Writing – review & editing
                Role: ConceptualizationRole: Data curationRole: Funding acquisitionRole: SupervisionRole: Writing – original draftRole: Writing – review & editing
                Role: Editor
                Journal
                PLoS One
                PLoS One
                plos
                PLOS ONE
                Public Library of Science (San Francisco, CA USA )
                1932-6203
                1 March 2024
                2024
                : 19
                : 3
                : e0298602
                Affiliations
                [1 ] Department of Veterinary and Animal Sciences, Faculty of Health and Medical Sciences, University of Copenhagen, Frederiksberg C, Denmark
                [2 ] School of Human Development and Health, Faculty of Medicine, University of Southampton, Southampton, United Kingdom
                [3 ] Novo Nordisk A/S, Maaloev, Denmark
                [4 ] Ellegaard Göttingen Minipigs A/S, Dalmose, Denmark
                [5 ] Department of Food Science, Faculty of Science, University of Copenhagen, Frederiksberg C, Denmark
                [6 ] Scantox A/S, Lille Skensved, Denmark
                University of Louisville, UNITED STATES
                Author notes

                Competing Interests: All authors have have read the journal’s policy and the authors of this manuscript have the following competing interests: BØC, KMP, EMS, HDP and KK are full time employees at Novo Nordisk A/S and minor share-holders. LM and MKB were employed at Scantox A/S at the time of the study. HDP was employed at Ellegaard Göttingen Minipigs A/S at the time of the study. AHK declares potential conflict of interest as stated on https://ivh.ku.dk/english/employees/?pure=en/persons/107126. DOL declares potential conflict of interest as stated on https://ivh.ku.dk/ansatte/?pure=da/persons/392109. Otherwise, the authors have no conflicts of interest to declare

                [¤]

                Current address: Novo Nordisk A/S, Maaloev, Denmark

                Author information
                https://orcid.org/0000-0001-8471-4489
                https://orcid.org/0000-0002-6867-2757
                Article
                PONE-D-23-20796
                10.1371/journal.pone.0298602
                10906878
                38427692
                c2075247-2586-4430-962d-dfd10e32286c
                © 2024 Lützhøft et al

                This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

                History
                : 6 July 2023
                : 26 January 2024
                Page count
                Figures: 6, Tables: 2, Pages: 27
                Funding
                Funded by: https://www.lifepharm.ku.dk/research/phd-projects/
                Award ID: 00000000
                Award Recipient :
                Funded by: Novo Nordisk A/S, Denmark
                Funded by: Scantox A/S
                Funded by: funder-id http://dx.doi.org/10.13039/100019147, Universitätsmedizin Göttingen;
                This study was co-financed by Ellegaard Göttingen Minipigs A/S, Scantox A/S and Novo Nordisk A/S, and employees at these three companies were part of he study design, data collection and analysis, decision to publish and preparation of the manuscript. DOL was financed by the LIFEPHARM center, www.lifepharm.ku.dk.
                Categories
                Research Article
                Biology and Life Sciences
                Nutrition
                Diet
                Medicine and Health Sciences
                Nutrition
                Diet
                Biology and Life Sciences
                Physiology
                Physiological Parameters
                Body Weight
                Obesity
                Biology and Life Sciences
                Anatomy
                Biological Tissue
                Connective Tissue
                Adipose Tissue
                Medicine and Health Sciences
                Anatomy
                Biological Tissue
                Connective Tissue
                Adipose Tissue
                Biology and Life Sciences
                Biochemistry
                Metabolism
                Carbohydrate Metabolism
                Glucose Metabolism
                Biology and Life Sciences
                Organisms
                Bacteria
                Gut Bacteria
                Medicine and Health Sciences
                Endocrinology
                Diabetic Endocrinology
                Insulin
                Biology and Life Sciences
                Biochemistry
                Hormones
                Insulin
                Biology and Life Sciences
                Biochemistry
                Metabolism
                Metabolites
                Medicine and Health Sciences
                Endocrinology
                Endocrine Physiology
                Insulin Resistance
                Biology and Life Sciences
                Physiology
                Endocrine Physiology
                Insulin Resistance
                Custom metadata
                The datasets generated and analysed during the current study are available at Open Science Framework ( http://osf.io), DOI 10.17605/OSF.IO/QKAWJ. Sequences are available at the Sequence Read Archive (SRA - NCBI) with accession number PRJNA1021380.

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