Host Genotype and Gut Microbiome Modulate Insulin Secretion and Diet-Induced Metabolic Phenotypes

Amyot, 2012, Lipopolysaccharides impair insulin gene expression in isolated islets of Langerhans via Toll-like receptor-4 and NF-κB signalling, PloS One, 7, e36200, 10.1371/journal.pone.0036200 Aylor, 2011, Genetic analysis of complex traits in the emerging Collaborative Cross, Genome Res., 21, 1213, 10.1101/gr.111310.110 Batta, 1990, Side chain conjugation prevents bacterial 7-dehydroxylation of bile acids, J. Biol. Chem., 265, 10925, 10.1016/S0021-9258(19)38535-7 Benson, 2016, The gut microbiome-an emerging complex trait, Nat. Genet., 48, 1301, 10.1038/ng.3707 Bergström, 2014, Establishment of intestinal microbiota during early life: a longitudinal, explorative study of a large cohort of Danish infants, Appl. Environ. Microbiol., 80, 2889, 10.1128/AEM.00342-14 Caporaso, 2010, QIIME allows analysis of high-throughput community sequencing data, Nat. Methods, 7, 335, 10.1038/nmeth.f.303 Carmody, 2015, Diet dominates host genotype in shaping the murine gut microbiota, Cell Host Microbe, 17, 72, 10.1016/j.chom.2014.11.010 Churchill, 2004, The Collaborative Cross, a community resource for the genetic analysis of complex traits, Nat. Genet., 36, 1133, 10.1038/ng1104-1133 Clemente, 2012, The impact of the gut microbiota on human health: an integrative view, Cell, 148, 1258, 10.1016/j.cell.2012.01.035 Degnan, 2014, Vitamin B12 as a modulator of gut microbial ecology, Cell Metab., 20, 769, 10.1016/j.cmet.2014.10.002 den Besten, 2013, The role of short-chain fatty acids in the interplay between diet, gut microbiota, and host energy metabolism, J. Lipid Res., 54, 2325, 10.1194/jlr.R036012 Deutscher, 2006, How phosphotransferase system-related protein phosphorylation regulates carbohydrate metabolism in bacteria, Microbiol. Mol. Biol. Rev., 70, 939, 10.1128/MMBR.00024-06 Düfer, 2012, Bile acids acutely stimulate insulin secretion of mouse β-cells via farnesoid X receptor activation and K(ATP) channel inhibition, Diabetes, 61, 1479, 10.2337/db11-0815 Gao, 2009, Butyrate improves insulin sensitivity and increases energy expenditure in mice, Diabetes, 58, 1509, 10.2337/db08-1637 Gauffin Cano, 2012, Bacteroides uniformis CECT 7771 ameliorates metabolic and immunological dysfunction in mice with high-fat-diet induced obesity, PloS One, 7, e41079, 10.1371/journal.pone.0041079 Goodman, 2009, Identifying genetic determinants needed to establish a human gut symbiont in its habitat, Cell Host Microbe, 6, 279, 10.1016/j.chom.2009.08.003 Handelsman, 2011, Role of bile acid sequestrants in the treatment of type 2 diabetes, Diabetes Care, 34, S244, 10.2337/dc11-s237 Hartstra, 2015, Insights into the role of the microbiome in obesity and type 2 diabetes, Diabetes Care, 38, 159, 10.2337/dc14-0769 Hildebrandt, 2009, High-fat diet determines the composition of the murine gut microbiome independently of obesity, Gastroenterology, 137, 1716, 10.1053/j.gastro.2009.08.042 Houten, 2006, Endocrine functions of bile acids, EMBO J., 25, 1419, 10.1038/sj.emboj.7601049 Islam, 2011, Bile acid is a host factor that regulates the composition of the cecal microbiota in rats, Gastroenterology, 141, 1773, 10.1053/j.gastro.2011.07.046 Karlsson, 2013, Gut metagenome in European women with normal, impaired and diabetic glucose control, Nature, 498, 99, 10.1038/nature12198 Kars, 2010, Tauroursodeoxycholic acid may improve liver and muscle but not adipose tissue insulin sensitivity in obese men and women, Diabetes, 59, 1899, 10.2337/db10-0308 Kawamata, 2003, A G protein-coupled receptor responsive to bile acids, J. Biol. Chem., 278, 9435, 10.1074/jbc.M209706200 Kibirige, 2013, Vitamin B12 deficiency among patients with diabetes mellitus: is routine screening and supplementation justified?, J. Diabetes Metab. Disord., 12, 17, 10.1186/2251-6581-12-17 Koh, 2016, From dietary fiber to host physiology: short-chain fatty acids as key bacterial metabolites, Cell, 165, 1332, 10.1016/j.cell.2016.05.041 Krishnaveni, 2009, Low plasma vitamin B12 in pregnancy is associated with gestational ‘diabesity’ and later diabetes, Diabetologia, 52, 2350, 10.1007/s00125-009-1499-0 Kuipers, 2014, Beyond intestinal soap--bile acids in metabolic control, Nat. Rev. Endocrinol., 10, 488, 10.1038/nrendo.2014.60 Kumar, 2012, Activation of transmembrane bile acid receptor TGR5 stimulates insulin secretion in pancreatic β cells, Biochem. Biophys. Res. Commun., 427, 600, 10.1016/j.bbrc.2012.09.104 Lee, 2006, FXR, a multipurpose nuclear receptor, Trends Biochem. Sci., 31, 572, 10.1016/j.tibs.2006.08.002 Ley, 2005, Obesity alters gut microbial ecology, Proc. Natl. Acad. Sci. USA, 102, 11070, 10.1073/pnas.0504978102 Lozupone, 2005, UniFrac: a new phylogenetic method for comparing microbial communities, Appl. Environ. Microbiol., 71, 8228, 10.1128/AEM.71.12.8228-8235.2005 Makishima, 1999, Identification of a nuclear receptor for bile acids, Science, 284, 1362, 10.1126/science.284.5418.1362 Martens, 2002, Microbial production of vitamin B12, Appl. Microbiol. Biotechnol., 58, 275, 10.1007/s00253-001-0902-7 Mehrabian, 1998, Genetic loci controlling body fat, lipoprotein metabolism, and insulin levels in a multifactorial mouse model, J. Clin. Invest., 101, 2485, 10.1172/JCI1748 Mehrabian, 2000, Genetic control of HDL levels and composition in an interspecific mouse cross (CAST/Ei x C57BL/6J), J. Lipid Res., 41, 1936, 10.1016/S0022-2275(20)32354-3 Nguyen, 2014, Lipopolysaccharides-mediated increase in glucose-stimulated insulin secretion: involvement of the GLP-1 pathway, Diabetes, 63, 471, 10.2337/db13-0903 O’Connor, 2014, Responsiveness of cardiometabolic-related microbiota to diet is influenced by host genetics, Mamm. Genome, 25, 583, 10.1007/s00335-014-9540-0 Ozcan, 2006, Chemical chaperones reduce ER stress and restore glucose homeostasis in a mouse model of type 2 diabetes, Science, 313, 1137, 10.1126/science.1128294 Parks, 1999, Bile acids: natural ligands for an orphan nuclear receptor, Science, 284, 1365, 10.1126/science.284.5418.1365 Parks, 2013, Genetic control of obesity and gut microbiota composition in response to high-fat, high-sucrose diet in mice, Cell Metab., 17, 141, 10.1016/j.cmet.2012.12.007 Perry, 2016, Acetate mediates a microbiome-brain-β-cell axis to promote metabolic syndrome, Nature, 534, 213, 10.1038/nature18309 Prawitt, 2011, Bile acid metabolism and the pathogenesis of type 2 diabetes, Curr. Diab. Rep., 11, 160, 10.1007/s11892-011-0187-x Priyadarshini, 2015, An acetate-specific GPCR, FFAR2, regulates insulin secretion, Mol. Endocrinol., 29, 1055, 10.1210/me.2015-1007 Qin, 2010, A human gut microbial gene catalogue established by metagenomic sequencing, Nature, 464, 59, 10.1038/nature08821 Qin, 2012, A metagenome-wide association study of gut microbiota in type 2 diabetes, Nature, 490, 55, 10.1038/nature11450 Renga, 2010, The bile acid sensor FXR regulates insulin transcription and secretion, Biochim. Biophys. Acta, 1802, 363, 10.1016/j.bbadis.2010.01.002 Ridaura, 2013, Gut microbiota from twins discordant for obesity modulate metabolism in mice, Science, 341, 1241214, 10.1126/science.1241214 Ridlon, 2006, Bile salt biotransformations by human intestinal bacteria, J. Lipid Res., 47, 241, 10.1194/jlr.R500013-JLR200 Roberts, 2007, The polymorphism architecture of mouse genetic resources elucidated using genome-wide resequencing data: implications for QTL discovery and systems genetics, Mamm. Genome, 18, 473, 10.1007/s00335-007-9045-1 Russell, 2009, Fifty years of advances in bile acid synthesis and metabolism, J. Lipid Res., 50, S120, 10.1194/jlr.R800026-JLR200 Ryan, 2014, FXR is a molecular target for the effects of vertical sleeve gastrectomy, Nature, 509, 183, 10.1038/nature13135 Sayin, 2013, Gut microbiota regulates bile acid metabolism by reducing the levels of tauro-beta-muricholic acid, a naturally occurring FXR antagonist, Cell Metab., 17, 225, 10.1016/j.cmet.2013.01.003 Segata, 2011, Metagenomic biomarker discovery and explanation, Genome Biol., 12, R60, 10.1186/gb-2011-12-6-r60 Setola, 2004, Insulin resistance and endothelial function are improved after folate and vitamin B12 therapy in patients with metabolic syndrome: relationship between homocysteine levels and hyperinsulinemia, Eur. J. Endocrinol., 151, 483, 10.1530/eje.0.1510483 Sommer, 2013, The gut microbiota--masters of host development and physiology, Nat. Rev. Microbiol., 11, 227, 10.1038/nrmicro2974 Tremaroli, 2012, Functional interactions between the gut microbiota and host metabolism, Nature, 489, 242, 10.1038/nature11552 Turnbaugh, 2006, An obesity-associated gut microbiome with increased capacity for energy harvest, Nature, 444, 1027, 10.1038/nature05414 Turnbaugh, 2008, Diet-induced obesity is linked to marked but reversible alterations in the mouse distal gut microbiome, Cell Host Microbe, 3, 213, 10.1016/j.chom.2008.02.015 Turnbaugh, 2009, A core gut microbiome in obese and lean twins, Nature, 457, 480, 10.1038/nature07540 Ussar, 2015, Interactions between gut microbiota, host genetics and diet modulate the predisposition to obesity and metabolic syndrome, Cell Metab., 22, 516, 10.1016/j.cmet.2015.07.007 Vatanen, 2016, Variation in microbiome LPS immunogenicity contributes to autoimmunity in humans, Cell, 165, 842, 10.1016/j.cell.2016.04.007 Vrieze, 2010, The environment within: how gut microbiota may influence metabolism and body composition, Diabetologia, 53, 606, 10.1007/s00125-010-1662-7 Whitfield, 2014, Biosynthesis and export of bacterial lipopolysaccharides, Annu. Rev. Biochem., 83, 99, 10.1146/annurev-biochem-060713-035600 Wu, 2010, Molecular characterisation of the faecal microbiota in patients with type II diabetes, Curr. Microbiol., 61, 69, 10.1007/s00284-010-9582-9 Wu, 2015, Genetic determinants of in vivo fitness and diet responsiveness in multiple human gut Bacteroides, Science, 350, aac5992, 10.1126/science.aac5992 Zhang, 2006, Activation of the nuclear receptor FXR improves hyperglycemia and hyperlipidemia in diabetic mice, Proc. Natl. Acad. Sci. USA, 103, 1006, 10.1073/pnas.0506982103