Gut microbiome at the crossroad of genetic variants and behavior disorders

References

• An JY, Lin K, Zhu L, Werling DM, Dong S, Brand H, Wang HZ, Zhao X, Schwartz GB, Collins RL, et al. Genome-wide de novo risk score implicates promoter variation in autism spectrum disorder. Science. 2018;362(6420):6420. doi:10.1126/science.aat6576.
   Web of Science ®Google Scholar
• Levey DF, Stein MB, Wendt FR, Pathak GA, Zhou H, Aslan M, Quaden R, Harrington KM, Nuñez YZ, Overstreet C, et al. Bi-ancestral depression GWAS in the million veteran program and meta-analysis in >1.2 million individuals highlight new therapeutic directions. Nat Neurosci. 2021;24(7):954–18. doi:10.1038/s41593-021-00860-2.
   PubMed Web of Science ®Google Scholar
• Bipolar D, Ripke S, McQuillin A, Boocock J, Stahl EA, Pavlides JMW, Mullins N, Charney AW, Ori APS, Loohuis LMO, et al. Electronic address, D bipolar, and C schizophrenia working group of the psychiatric genomics, genomic dissection of bipolar disorder and schizophrenia, including 28 subphenotypes. Cell. 2018;173(7):1705–1715 e16. doi:10.1016/j.cell.2018.05.046.
   PubMed Web of Science ®Google Scholar
• Grove J, Ripke S, Als TD, Mattheisen M, Walters RK, Won H, Pallesen J, Agerbo E, Andreassen OA, Anney R, et al. Identification of common genetic risk variants for autism spectrum disorder. Nat Genet. 2019;51(3):431–444. doi:10.1038/s41588-019-0344-8.
   PubMed Web of Science ®Google Scholar
• Ni JJ, Xu Q, Yan SS, Han BX, Zhang H, Wei XT, Feng GJ, Zhao M, Pei YF, Zhang L. Gut microbiota and psychiatric disorders: a two-sample Mendelian randomization study. Front Microbiol. 2021;12:737197. doi:10.3389/fmicb.2021.737197.
   PubMed Web of Science ®Google Scholar
• Ma B, Liang J, Dai M, Wang J, Luo J, Zhang Z, Jing J. Altered gut microbiota in Chinese children with autism spectrum disorders. Front Cell Infect Microbiol. 2019;9:40. doi:10.3389/fcimb.2019.00040.
   PubMed Web of Science ®Google Scholar
• Strati F, Cavalieri D, Albanese D, De Felice C, Donati C, Hayek J, Jousson O, Leoncini S, Renzi D, Calabro A, et al. New evidences on the altered gut microbiota in autism spectrum disorders. Microbiome. 2017;5(1):24. doi:10.1186/s40168-017-0242-1.
   PubMed Web of Science ®Google Scholar
• Valles-Colomer M, Falony G, Darzi Y, Tigchelaar EF, Wang J, Tito RY, Schiweck C, Kurilshikov A, Joossens M, Wijmenga C, et al. The neuroactive potential of the human gut microbiota in quality of life and depression. Nat Microbiol. 2019;4(4):623–632. doi:10.1038/s41564-018-0337-x.
   PubMed Web of Science ®Google Scholar
• Levey DF, Stein MB, Wendt FR, Pathak GA, Zhou H, Aslan M, Quaden R, Harrington KM, Nunez YZ, Overstreet C, et al. Bi-ancestral depression GWAS in the million veteran program and meta-analysis in >1.2 million individuals highlight new therapeutic directions. Nat Neurosci. 2021;24(7):954–963. doi:10.1038/s41593-021-00860-2.
   PubMed Web of Science ®Google Scholar
• Zhuang Z, Yang R, Wang W, Qi L, Huang T. Associations between gut microbiota and Alzheimer’s disease, major depressive disorder, and schizophrenia. J Neuroinflammation. 2020;17(1):288. doi:10.1186/s12974-020-01961-8.
   PubMed Web of Science ®Google Scholar
• Li HJ, Zhang C, Hui L, Zhou DS, Li Y, Zhang CY, Wang C, Wang L, Li W, Yang Y, et al. Novel risk loci associated with genetic risk for bipolar disorder among han Chinese individuals: a genome-wide association study and meta-analysis. JAMA Psychiatry. 2021;78(3):320–330. doi:10.1001/jamapsychiatry.2020.3738.
   PubMed Web of Science ®Google Scholar
• Mullins N, Forstner AJ, O’Connell KS, Coombes B, Coleman JRI, Qiao Z, Als TD, Bigdeli TB, Børte S, Bryois J, et al. Genome-wide association study of more than 40,000 bipolar disorder cases provides new insights into the underlying biology. Nat Genet. 2021;53(6):817–829. doi:10.1038/s41588-021-00857-4.
   PubMed Web of Science ®Google Scholar
• McGuinness AJ, Davis JA, Dawson SL, Loughman A, Collier F, O’Hely M, Simpson CA, Green J, Marx W, Hair C, et al. A systematic review of gut microbiota composition in observational studies of major depressive disorder, bipolar disorder and schizophrenia. Mol Psychiatry. 2022;27(4):1920–1935. doi:10.1038/s41380-022-01456-3.
   PubMed Web of Science ®Google Scholar
• Trubetskoy V, Pardiñas AF, Qi T, Panagiotaropoulou G, Awasthi S, Bigdeli TB, Bryois J, Chen CY, Dennison CA, Hall LS, et al. Mapping genomic loci implicates genes and synaptic biology in schizophrenia. Nature. 2022;604(7906):502–508. doi:10.1038/s41586-022-04434-5.
   PubMed Web of Science ®Google Scholar
• Lintas C, Sacco R, Persico AM. Genome-wide expression studies in autism spectrum disorder, Rett syndrome, and Down syndrome. Neurobiol Dis. 2012;45(1):57–68. doi:10.1016/j.nbd.2010.11.010.
   PubMed Web of Science ®Google Scholar
• Borghi E, Borgo F, Severgnini M, Savini MN, Casiraghi MC, Vignoli A. Rett syndrome: a focus on gut microbiota. Int J Mol Sci. 2017;18(2):344. doi:10.3390/ijms18020344.
   PubMed Web of Science ®Google Scholar
• Harper CB, Smillie KJ. Current molecular approaches to investigate pre-synaptic dysfunction. J Neurochem. 2021;157(2):107–129. doi:10.1111/jnc.15316.
   PubMed Web of Science ®Google Scholar
• Sullivan PF, Daly MJ, O’Donovan M. Genetic architectures of psychiatric disorders: the emerging picture and its implications. Nat Rev Genet. 2012;13(8):537–551. doi:10.1038/nrg3240.
   PubMed Web of Science ®Google Scholar
• Zhang Y, Fan Q, Hou Y, Zhang X, Yin Z, Cai X, Wei W, Wang J, He D, Wang G, et al. Bacteroides species differentially modulate depression-like behavior via gut-brain metabolic signaling. Brain Behav Immun. 2022;102:11–22. doi:10.1016/j.bbi.2022.02.007.
   PubMed Web of Science ®Google Scholar
• Morais LH, Schreiber H, Mazmanian SK. The gut microbiota-brain axis in behaviour and brain disorders. Nat Rev Microbiol. 2021;19(4):241–255. doi:10.1038/s41579-020-00460-0.
   PubMed Web of Science ®Google Scholar
• Buffington SA, Dooling SW, Sgritta M, Noecker C, Murillo OD, Felice DF, Turnbaugh PJ, Costa-Mattioli M. Dissecting the contribution of host genetics and the microbiome in complex behaviors. Cell. 2021;184(7):1740–1756.e16. doi:10.1016/j.cell.2021.02.009.
   PubMed Web of Science ®Google Scholar
• Vuong HE, Hsiao EY. Emerging roles for the gut microbiome in autism spectrum disorder. Biol Psychiatry. 2017;81(5):411–423. doi:10.1016/j.biopsych.2016.08.024.
   PubMed Web of Science ®Google Scholar
• Coury DL, Ashwood P, Fasano A, Fuchs G, Geraghty M, Kaul A, Mawe G, Patterson P, Jones NE. Gastrointestinal conditions in children with autism spectrum disorder: developing a research agenda. Pediatrics. 2012;130(Suppl 2):S160–8. doi:10.1542/peds.2012-0900N.
   PubMedGoogle Scholar
• Flowers SA, Ward KM, Clark CT. The gut microbiome in bipolar disorder and pharmacotherapy management. Neuropsychobiology. 2020;79(1):43–49. doi:10.1159/000504496.
   PubMed Web of Science ®Google Scholar
• Black CJ, Drossman DA, Talley NJ, Ruddy J, Ford AC. Functional gastrointestinal disorders: advances in understanding and management. Lancet. 2020;396(10263):1664–1674. doi:10.1016/S0140-6736(20)32115-2.
   PubMed Web of Science ®Google Scholar
• Yap CX, Henders AK, Alvares GA, Wood DLA, Krause L, Tyson GW, Restuadi R, Wallace L, McLaren T, Hansell NK, et al. Autism-related dietary preferences mediate autism-gut microbiome associations. Cell. 2021;184(24):5916–5931 e17. doi:10.1016/j.cell.2021.10.015.
   PubMed Web of Science ®Google Scholar
• Yu Y, Zhao F. Microbiota-gut-brain axis in autism spectrum disorder. J Genet Genomics. 2021;48(9):755–762. doi:10.1016/j.jgg.2021.07.001.
   PubMed Web of Science ®Google Scholar
• Lou M, Cao A, Jin C, Mi K, Xiong X, Zeng Z, Pan X, Qie J, Qiu S, Niu Y, et al. Deviated and early unsustainable stunted development of gut microbiota in children with autism spectrum disorder. Gut. 2021. doi:10.1136/gutjnl-2021-325115.
   Web of Science ®Google Scholar
• Pfaender S, Sauer AK, Hagmeyer S, Mangus K, Linta L, Liebau S, Bockmann J, Huguet G, Bourgeron T, Boeckers TM, et al. Zinc deficiency and low enterocyte zinc transporter expression in human patients with autism related mutations in SHANK3. Sci Rep. 2017;7(1):45190. doi:10.1038/srep45190.
   PubMedGoogle Scholar
• Katayama Y, Nishiyama M, Shoji H, Ohkawa Y, Kawamura A, Sato T, Suyama M, Takumi T, Miyakawa T, Nakayama KI. CHD8 haploinsufficiency results in autistic-like phenotypes in mice. Nature. 2016;537(7622):675–679. doi:10.1038/nature19357.
   PubMed Web of Science ®Google Scholar
• Liyanage VR, Rastegar M. Rett syndrome and MeCP2. Neuromolecular Med. 2014;16(2):231–264. doi:10.1007/s12017-014-8295-9.
   PubMed Web of Science ®Google Scholar
• Strati F, Cavalieri D, Albanese D, De Felice C, Donati C, Hayek J, Jousson O, Leoncini S, Pindo M, Renzi D, et al. Altered gut microbiota in Rett syndrome. Microbiome. 2016;4(1):41. doi:10.1186/s40168-016-0185-y.
   PubMedGoogle Scholar
• Palepu MSK, Dandekar MP. Remodeling of microbiota gut-brain axis using psychobiotics in depression. Eur J Pharmacol. 2022;931:175171. doi:10.1016/j.ejphar.2022.175171.
   PubMed Web of Science ®Google Scholar
• Yu Y, Zhang B, Ji P, Zuo Z, Huang Y, Wang N, Liu C, Liu SJ, Zhao F. Changes to gut amino acid transporters and microbiome associated with increased E/I ratio in Chd8(±) mouse model of ASD-like behavior. Nat Commun. 2022;13(1):1151. doi:10.1038/s41467-022-28746-2.
   PubMed Web of Science ®Google Scholar
• Sgritta M, Dooling SW, Buffington SA, Momin EN, Francis MB, Britton RA, Costa-Mattioli M. Mechanisms underlying microbial-mediated changes in social behavior in mouse models of autism spectrum disorder. Neuron. 2019;101(2):246–259.e6. doi:10.1016/j.neuron.2018.11.018.
   PubMed Web of Science ®Google Scholar
• Tabouy L, Getselter D, Ziv O, Karpuj M, Tabouy T, Lukic I, Maayouf R, Werbner N, Ben-Amram H, Nuriel-Ohayon M, et al. Dysbiosis of microbiome and probiotic treatment in a genetic model of autism spectrum disorders. Brain Behav Immun. 2018;73:310–319. doi:10.1016/j.bbi.2018.05.015.
   PubMed Web of Science ®Google Scholar
• Li Y, Luo ZY, Hu YY, Bi YW, Yang JM, Zou WJ, Song YL, Li S, Shen T, Li SJ, et al. The gut microbiota regulates autism-like behavior by mediating vitamin B(6) homeostasis in EphB6-deficient mice. Microbiome. 2020;8(1):120. doi:10.1186/s40168-020-00884-z.
   PubMed Web of Science ®Google Scholar
• Zhang Y, Huang R, Cheng M, Wang L, Chao J, Li J, Zheng P, Xie P, Zhang Z, Yao H. Gut microbiota from NLRP3-deficient mice ameliorates depressive-like behaviors by regulating astrocyte dysfunction via circHIPK2. Microbiome. 2019;7(1):116. doi:10.1186/s40168-019-0733-3.
   PubMed Web of Science ®Google Scholar
• Wang S, Ishima T, Qu Y, Shan J, Chang L, Wei Y, Zhang J, Pu Y, Fujita Y, Tan Y, et al. Ingestion of faecalibaculum rodentium causes depression-like phenotypes in resilient Ephx2 knock-out mice: a role of brain–gut–microbiota axis via the subdiaphragmatic vagus nerve. J Affect Disord. 2021;292:565–573. doi:10.1016/j.jad.2021.06.006.
   PubMed Web of Science ®Google Scholar
• Pu Y, Tan Y, Qu Y, Chang L, Wang S, Wei Y, Wang X, Hashimoto K. A role of the subdiaphragmatic vagus nerve in depression-like phenotypes in mice after fecal microbiota transplantation from Chrna7 knock-out mice with depression-like phenotypes. Brain Behav Immun. 2021;94:318–326. doi:10.1016/j.bbi.2020.12.032.
   PubMed Web of Science ®Google Scholar
• Sauer AK, Bockmann J, Steinestel K, Boeckers TM, Grabrucker AM. Altered intestinal morphology and microbiota composition in the autism spectrum disorders associated SHANK3 mouse model. Int J Mol Sci. 2019;20(9):2134. doi:10.3390/ijms20092134.
   PubMed Web of Science ®Google Scholar
• Gallucci A, Patterson KC, Weit AR, Van Der Pol WJ, Dubois LG, Percy AK, Morrow CD, Campbell SL, Olsen ML. Microbial community changes in a female rat model of Rett syndrome. Prog Neuropsychopharmacol Biol Psychiatry. 2021;109:110259. doi:10.1016/j.pnpbp.2021.110259.
   PubMed Web of Science ®Google Scholar
• Sudo N, Chida Y, Aiba Y, Sonoda J, Oyama N, Yu XN, Kubo C, Koga Y. Postnatal microbial colonization programs the hypothalamic-pituitary-adrenal system for stress response in mice. J Physiol. 2004;558(1):263–275. doi:10.1113/jphysiol.2004.063388.
   PubMed Web of Science ®Google Scholar
• O’Mahony SM, Marchesi JR, Scully P, Codling C, Ceolho AM, Quigley EM, Cryan JF, Dinan TG. Early life stress alters behavior, immunity, and microbiota in rats: implications for irritable bowel syndrome and psychiatric illnesses. Biol Psychiatry. 2009;65(3):263–267. doi:10.1016/j.biopsych.2008.06.026.
   PubMed Web of Science ®Google Scholar
• Li W, Dowd SE, Scurlock B, Acosta-Martinez V, Lyte M. Memory and learning behavior in mice is temporally associated with diet-induced alterations in gut bacteria. Physiol Behav. 2009;96(4–5):557–567. doi:10.1016/j.physbeh.2008.12.004.
   PubMed Web of Science ®Google Scholar
• MacFabe DF, Cain NE, Boon F, Ossenkopp KP, Cain DP. Effects of the enteric bacterial metabolic product propionic acid on object-directed behavior, social behavior, cognition, and neuroinflammation in adolescent rats: relevance to autism spectrum disorder. Behav Brain Res. 2011;217(1):47–54. doi:10.1016/j.bbr.2010.10.005.
   PubMed Web of Science ®Google Scholar
• Hsiao EY, McBride SW, Hsien S, Sharon G, Hyde ER, McCue T, Codelli JA, Chow J, Reisman SE, Petrosino JF, et al. Microbiota modulate behavioral and physiological abnormalities associated with neurodevelopmental disorders. Cell. 2013;155(7):1451–1463. doi:10.1016/j.cell.2013.11.024.
   PubMed Web of Science ®Google Scholar
• Desbonnet L, Clarke G, Shanahan F, Dinan TG, Cryan JF. Microbiota is essential for social development in the mouse. Mol Psychiatry. 2014;19(2):146–148. doi:10.1038/mp.2013.65.
   PubMed Web of Science ®Google Scholar
• Dowling LR, Strazzari MR, Keely S, Kaiko GE. Enteric nervous system and intestinal epithelial regulation of the gut-brain axis. J Allergy Clin Immunol. 2022;150(3):513–522. doi:10.1016/j.jaci.2022.07.015.
   PubMed Web of Science ®Google Scholar
• Sharon G, Cruz NJ, Kang DW, Gandal MJ, Wang B, Kim YM, Zink EM, Casey CP, Taylor BC, Lane CJ, et al. Human gut microbiota from autism spectrum disorder promote behavioral symptoms in mice. Cell. 2019;177(6):1600–1618.e17. doi:10.1016/j.cell.2019.05.004.
   PubMed Web of Science ®Google Scholar
• Lichtenstein P, Yip BH, Bjork C, Pawitan Y, Cannon TD, Sullivan PF, Hultman CM. Common genetic determinants of schizophrenia and bipolar disorder in Swedish families: a population-based study. Lancet. 2009;373(9659):234–239. doi:10.1016/S0140-6736(09)60072-6.
   PubMed Web of Science ®Google Scholar
• Sublette ME, Cheung S, Lieberman E, Hu S, Mann JJ, Uhlemann AC, Miller JM. Bipolar disorder and the gut microbiome: a systematic review. Bipolar Disord. 2021;23(6):544–564. doi:10.1111/bdi.13049.
   PubMed Web of Science ®Google Scholar
• Aizawa E, Tsuji H, Asahara T, Takahashi T, Teraishi T, Yoshida S, Koga N, Hattori K, Ota M, Kunugi H. Bifidobacterium and lactobacillus counts in the gut microbiota of patients with bipolar disorder and healthy controls. Front Psychiatry. 2018;9:730. doi:10.3389/fpsyt.2018.00730.
   PubMed Web of Science ®Google Scholar
• Zhu F, Ju Y, Wang W, Wang Q, Guo R, Ma Q, Sun Q, Fan Y, Xie Y, Yang Z, et al. Metagenome-wide association of gut microbiome features for schizophrenia. Nat Commun. 2020;11(1):1612. doi:10.1038/s41467-020-15457-9.
   PubMed Web of Science ®Google Scholar
• Altimiras F, Garcia JA, Palacios-García I, Hurley MJ, Deacon R, González B, Cogram P. Altered gut microbiota in a fragile X syndrome mouse model. Front Neurosci. 2021;15:653120. doi:10.3389/fnins.2021.653120.
   PubMed Web of Science ®Google Scholar
• Goo N, Bae HJ, Park K, Kim J, Jeong Y, Cai M, Cho K, Jung SY, Kim DH, Ryu JH. The effect of fecal microbiota transplantation on autistic-like behaviors in Fmr1 KO mice. Life Sci. 2020;262:118497. doi:10.1016/j.lfs.2020.118497.
   PubMed Web of Science ®Google Scholar
• An R, Wu Y, Li Y, Li X, Ai S, Xu Y, He C. Pain-related factors and their impact on quality of life in Chinese patients with amyotrophic lateral sclerosis. Front Neurosci. 2022;16:897598. doi:10.3389/fnins.2022.897598.
   PubMed Web of Science ®Google Scholar
• Mejzini R, Flynn LL, Pitout IL, Fletcher S, Wilton SD, Akkari PA. ALS genetics, mechanisms, and therapeutics: where are we now? Front Neurosci. 2019;13:1310. doi:10.3389/fnins.2019.01310.
   PubMed Web of Science ®Google Scholar
• Zhang YG, Wu S, Yi J, Xia Y, Jin D, Zhou J, Sun J. Target intestinal microbiota to alleviate disease progression in amyotrophic lateral sclerosis. Clin Ther. 2017;39(2):322–336. doi:10.1016/j.clinthera.2016.12.014.
   PubMed Web of Science ®Google Scholar
• Blacher E, Bashiardes S, Shapiro H, Rothschild D, Mor U, Dori-Bachash M, Kleimeyer C, Moresi C, Harnik Y, Zur M, et al. Potential roles of gut microbiome and metabolites in modulating ALS in mice. Nature. 2019;572(7770):474–480. doi:10.1038/s41586-019-1443-5.
   PubMed Web of Science ®Google Scholar
• Burberry A, Wells MF, Limone F, Couto A, Smith KS, Keaney J, Gillet G, van Gastel N, Wang JY, Pietilainen O, et al. C9orf72 suppresses systemic and neural inflammation induced by gut bacteria. Nature. 2020;582(7810):89–94. doi:10.1038/s41586-020-2288-7.
   PubMed Web of Science ®Google Scholar
• Faith JJ, Ahern PP, Ridaura VK, Cheng J, Gordon JI. Identifying gut microbe-host phenotype relationships using combinatorial communities in gnotobiotic mice. Sci Transl Med. 2014;6(220):220ra11. doi:10.1126/scitranslmed.3008051.
   PubMed Web of Science ®Google Scholar
• Surana NK, Kasper DL. Moving beyond microbiome-wide associations to causal microbe identification. Nature. 2017;552(7684):244–247. doi:10.1038/nature25019.
   PubMed Web of Science ®Google Scholar
• Regen T, Isaac S, Amorim A, Núñez NG, Hauptmann J, Shanmugavadivu A, Klein M, Sankowski R, Mufazalov IA, Yogev N, et al. 2021. IL-17 controls central nervous system autoimmunity through the intestinal microbiome. Sci Immunol. 6(56). doi:10.1126/sciimmunol.aaz6563.
   PubMed Web of Science ®Google Scholar
• Elinav E, Strowig T, Kau AL, Henao-Mejia J, Thaiss CA, Booth CJ, Peaper DR, Bertin J, Eisenbarth SC, Gordon JI, et al. NLRP6 inflammasome regulates colonic microbial ecology and risk for colitis. Cell. 2011;145(5):745–757. doi:10.1016/j.cell.2011.04.022.
   PubMed Web of Science ®Google Scholar
• Rosen CE, Palm NW. Navigating the microbiota seas: triangulation finds a way forward. Cell Host & Microbe. 2018;23(1):1–3. doi:10.1016/j.chom.2017.12.015.
   PubMed Web of Science ®Google Scholar
• Guo H, Chou WC, Lai Y, Liang K, Tam JW, Brickey WJ, Chen L, Montgomery ND, Li X, Bohannon LM, et al. Multi-omics analyses of radiation survivors identify radioprotective microbes and metabolites. Science. 2020;370(6516):6516. doi:10.1126/science.aay9097.
   Web of Science ®Google Scholar
• Miyauchi E, Kim SW, Suda W, Kawasumi M, Onawa S, Taguchi-Atarashi N, Morita H, Taylor TD, Hattori M, Ohno H. Gut microorganisms act together to exacerbate inflammation in spinal cords. Nature. 2020;585(7823):102–106. doi:10.1038/s41586-020-2634-9.
   PubMed Web of Science ®Google Scholar
• Wu WL, Adame MD, Liou CW, Barlow JT, Lai TT, Sharon G, Schretter CE, Needham BD, Wang MI, Tang W, et al. Microbiota regulate social behaviour via stress response neurons in the brain. Nature. 2021;595(7867):409–414. doi:10.1038/s41586-021-03669-y.
   PubMed Web of Science ®Google Scholar
• Mayneris-Perxachs J, Castells-Nobau A, Arnoriaga-Rodriguez M, Martin M, de la Vega-Correa L, Zapata C, Burokas A, Blasco G, Coll C, Escrichs A, et al. Microbiota alterations in proline metabolism impact depression. Cell Metab. 2022;34(5):681–701 e10. doi:10.1016/j.cmet.2022.04.001.
   PubMed Web of Science ®Google Scholar
• Mars RAT, Yang Y, Ward T, Houtti M, Priya S, Lekatz HR, Tang X, Sun Z, Kalari KR, Korem T, et al. Longitudinal multi-omics reveals subset-specific mechanisms underlying irritable bowel syndrome. Cell. 2020;182(6):1460–1473.e17. doi:10.1016/j.cell.2020.08.007.
   PubMed Web of Science ®Google Scholar
• Schluter J, Peled JU, Taylor BP, Markey KA, Smith M, Taur Y, Niehus R, Staffas A, Dai A, Fontana E, et al. The gut microbiota is associated with immune cell dynamics in humans. Nature. 2020;588(7837):303–307. doi:10.1038/s41586-020-2971-8.
   PubMed Web of Science ®Google Scholar
• Xiao LW, Zhang FY, Zhao FQ. Large-scale microbiome data integration enables robust biomarker identification. Nat Comput Sci. 2022;2(5):307–316. doi:10.1038/s43588-022-00247-8.
   PubMedGoogle Scholar
• Priya S, Burns MB, Ward T, Mars RAT, Adamowicz B, Lock EF, Kashyap PC, Knights D, Blekhman R. Identification of shared and disease-specific host gene-microbiome associations across human diseases using multi-omic integration. Nat Microbiol. 2022;7(6):780–795. doi:10.1038/s41564-022-01121-z.
   PubMed Web of Science ®Google Scholar
• Leonard I, Gao IH, Lin WY, Allen M, Li XV, Fiers WD, Celie MD, Putzel GG, Yantiss RK, Johncilla M, et al. Mucosal fungi promote gut barrier function and social behavior via type 17 immunity. Cell. 2022;185(5):831–846.e14. doi:10.1016/j.cell.2022.01.017.
   PubMed Web of Science ®Google Scholar
• Gershon MD, Margolis KG. The gut, its microbiome, and the brain: connections and communications. J Clin Invest. 2021 ;131(18). doi:10.1172/JCI143768.
   Web of Science ®Google Scholar
• Bravo JA, Forsythe P, Chew MV, Escaravage E, Savignac HM, Dinan TG, Bienenstock J, Cryan JF. Ingestion of lactobacillus strain regulates emotional behavior and central GABA receptor expression in a mouse via the vagus nerve. Proc Natl Acad Sci U S A. 2011;108(38):16050–16055. doi:10.1073/pnas.1102999108.
   PubMed Web of Science ®Google Scholar
• Muller PA, Schneeberger M, Matheis F, Wang P, Kerner Z, Ilanges A, Pellegrino K, Del Mármol J, Castro TBR, Furuichi M, et al. Microbiota modulate sympathetic neurons via a gut–brain circuit. Nature. 2020;583(7816):441–446. doi:10.1038/s41586-020-2474-7.
   PubMed Web of Science ®Google Scholar
• Kaelberer MM, Buchanan KL, Klein ME, Barth BB, Montoya MM, Shen X, Bohórquez DV. A gut-brain neural circuit for nutrient sensory transduction. Science. 2018;361(6408):6408. doi:10.1126/science.aat5236.
   Web of Science ®Google Scholar
• Ye L, Bae M, Cassilly CD, Jabba SV, Thorpe DW, Martin AM, Lu HY, Wang J, Thompson JD, Lickwar CR, et al. Enteroendocrine cells sense bacterial tryptophan catabolites to activate enteric and vagal neuronal pathways. Cell Host & Microbe. 2021;29(2):179–196 e9. doi:10.1016/j.chom.2020.11.011.
   PubMed Web of Science ®Google Scholar
• Needham BD, Funabashi M, Adame MD, Wang Z, Boktor JC, Haney J, Wu WL, Rabut C, Ladinsky MS, Hwang SJ, et al. A gut-derived metabolite alters brain activity and anxiety behaviour in mice. Nature. 2022;602(7898):647–653. doi:10.1038/s41586-022-04396-8.
   PubMed Web of Science ®Google Scholar
• Gabanyi I, Lepousez G, Wheeler R, Vieites-Prado A, Nissant A, Wagner S, Moigneu C, Dulauroy S, Hicham S, Polomack B, et al. Bacterial sensing via neuronal Nod2 regulates appetite and body temperature. Science. 2022;376(6590):eabj3986. doi:10.1126/science.abj3986.
   PubMed Web of Science ®Google Scholar
• Schretter CE, Vielmetter J, Bartos I, Marka Z, Marka S, Argade S, Mazmanian SK. A gut microbial factor modulates locomotor behaviour in Drosophila. Nature. 2018;563(7731):402–406. doi:10.1038/s41586-018-0634-9.
   PubMed Web of Science ®Google Scholar
• Zhang T, Perkins MH, Chang H, Han W, de Araujo IE. An inter-organ neural circuit for appetite suppression. Cell. 2022;185(14):2478–2494. doi:10.1016/j.cell.2022.05.007 .
   PubMed Web of Science ®Google Scholar
• Muscogiuri G, DeFronzo RA, Gastaldelli A, Holst JJ. Glucagon-like peptide-1 and the central/peripheral nervous system: crosstalk in diabetes. Trends Endocrinol Metab. 2017;28(2):88–103. doi:10.1016/j.tem.2016.10.001.
   PubMed Web of Science ®Google Scholar
• Medina-Rodriguez EM, Madorma D, O’Connor G, Mason BL, Han D, Deo SK, Oppenheimer M, Nemeroff CB, Trivedi MH, Daunert S, et al. Identification of a signaling mechanism by which the microbiome regulates Th17 cell-mediated depressive-like behaviors in mice. Am J Psychiatry. 2020;177(10):974–990. doi:10.1176/appi.ajp.2020.19090960.
   PubMed Web of Science ®Google Scholar
• Alves de Lima K, Rustenhoven J, Da Mesquita S, Wall M, Salvador AF, Smirnov I, Martelossi Cebinelli G, Mamuladze T, Baker W, Papadopoulos Z, et al. Meningeal γδ T cells regulate anxiety-like behavior via IL-17a signaling in neurons. Nat Immunol. 2020;21(11):1421–1429. doi:10.1038/s41590-020-0776-4.
   PubMed Web of Science ®Google Scholar
• Kim S, Kim H, Yim YS, Ha S, Atarashi K, Tan TG, Longman RS, Honda K, Littman DR, Choi GB, et al. Maternal gut bacteria promote neurodevelopmental abnormalities in mouse offspring. Nature. 2017;549(7673):528–532. doi:10.1038/nature23910.
   PubMed Web of Science ®Google Scholar
• Reed MD, Yim YS, Wimmer RD, Kim H, Ryu C, Welch GM, Andina M, King HO, Waisman A, Halassa MM, et al. IL-17a promotes sociability in mouse models of neurodevelopmental disorders. Nature. 2020;577(7789):249–253. doi:10.1038/s41586-019-1843-6.
   PubMed Web of Science ®Google Scholar
• Benson AK, Kelly SA, Legge R, Ma F, Low SJ, Kim J, Zhang M, Oh PL, Nehrenberg D, Hua K, et al. Individuality in gut microbiota composition is a complex polygenic trait shaped by multiple environmental and host genetic factors. Proc Natl Acad Sci U S A. 2010;107(44):18933–18938. doi:10.1073/pnas.1007028107.
   PubMed Web of Science ®Google Scholar
• Goodrich JK, Waters JL, Poole AC, Sutter JL, Koren O, Blekhman R, Beaumont M, Van Treuren W, Knight R, Bell JT, et al. Human genetics shape the gut microbiome. Cell. 2014;159(4):789–799. doi:10.1016/j.cell.2014.09.053.
   PubMed Web of Science ®Google Scholar
• Lee JY, Cevallos SA, Byndloss MX, Tiffany CR, Olsan EE, Butler BP, Young BM, Rogers AWL, Nguyen H, Kim K, et al. High-fat diet and antibiotics cooperatively impair mitochondrial bioenergetics to trigger dysbiosis that exacerbates pre-inflammatory bowel disease. Cell Host & Microbe. 2020;28(2):273–284.e6. doi:10.1016/j.chom.2020.06.001.
   PubMed Web of Science ®Google Scholar
• Byndloss MX, Olsan EE, Rivera-Chávez F, Tiffany CR, Cevallos SA, Lokken KL, Torres TP, Byndloss AJ, Faber F, Gao Y, et al. Microbiota-activated PPAR-γ signaling inhibits dysbiotic Enterobacteriaceae expansion. Science. 2017;357(6351):570–575. doi:10.1126/science.aam9949.
   PubMed Web of Science ®Google Scholar
• Wu Q, Liang X, Wang K, Lin J, Wang X, Wang P, Zhang Y, Nie Q, Liu H, Zhang Z, et al. Intestinal hypoxia-inducible factor 2α regulates lactate levels to shape the gut microbiome and alter thermogenesis. Cell Metab. 2021;33(10):1988–2003 e7. doi:10.1016/j.cmet.2021.07.007.
   PubMed Web of Science ®Google Scholar
• Kubinak JL, Petersen C, Stephens WZ, Soto R, Bake E, O’Connell RM, Round JL. MyD88 signaling in T cells directs IgA-Mediated control of the microbiota to promote health. Cell Host & Microbe. 2015;17(2):153–163. doi:10.1016/j.chom.2014.12.009.
   PubMed Web of Science ®Google Scholar
• Chagwedera DN, Ang QY, Bisanz JE, Leong YA, Ganeshan K, Cai J, Patterson AD, Turnbaugh PJ, Chawla A. Nutrient sensing in CD11c cells alters the gut microbiota to regulate food intake and body mass. Cell Metab. 2019;30(2):364–373.e7. doi:10.1016/j.cmet.2019.05.002.
   PubMed Web of Science ®Google Scholar
• Petersen C, Bell R, Klag KA, Lee SH, Soto R, Ghazaryan A, Buhrke K, Ekiz HA, Ost KS, Boudina S, et al. T cell–mediated regulation of the microbiota protects against obesity. Science. 2019;365(6451):6451. doi:10.1126/science.aat9351.
   Web of Science ®Google Scholar
• Zhang J, Yu Q, Jiang D, Yu K, Yu W, Chi Z, Chen S, Li M, Yang D, Wang Z, et al. Epithelial gasdermin D shapes the host-microbial interface by driving mucus layer formation. Sci Immunol. 2022;7(68):eabk2092. doi:10.1126/sciimmunol.abk2092.
   PubMed Web of Science ®Google Scholar
• Wu N, Sun H, Zhao X, Zhang Y, Tan J, Qi Y, Wang Q, Ng M, Liu Z, He L, et al. MAP3K2-regulated intestinal stromal cells define a distinct stem cell niche. Nature. 2021;592(7855):606–610. doi:10.1038/s41586-021-03283-y.
   PubMed Web of Science ®Google Scholar
• Schneditz G, Elias JE, Pagano E, Zaeem Cader M, Saveljeva S, Long K, Mukhopadhyay S, Arasteh M, Lawley TD, Dougan G, et al. 2019. GPR35 promotes glycolysis, proliferation, and oncogenic signaling by engaging with the sodium potassium pump. Sci Signal. 12(562). doi:10.1126/scisignal.aau9048.
   PubMed Web of Science ®Google Scholar
• Melhem H, Kaya B, Kaymak T, Wuggenig P, Flint E, Roux J, Oost KC, Cavelti-Weder C, Balmer ML, Walser JC, et al. Epithelial GPR35 protects from Citrobacter rodentium infection by preserving goblet cells and mucosal barrier integrity. Mucosal Immunol. 2022;15(3):443–458. doi:10.1038/s41385-022-00494-y.
   PubMed Web of Science ®Google Scholar
• Wu X, Chen S, Yan Q, Yu F, Shao H, Zheng X, Zhang X. Gpr35 shapes gut microbial ecology to modulate hepatic steatosis. Pharmacol Res. 2023;189:106690. doi:10.1016/j.phrs.2023.106690.
   PubMed Web of Science ®Google Scholar
• Yang D, Jacobson A, Meerschaert KA, Sifakis JJ, Wu M, Chen X, Yang T, Zhou Y, Anekal PV, Rucker RA, et al. Nociceptor neurons direct goblet cells via a CGRP-RAMP1 axis to drive mucus production and gut barrier protection. Cell. 2022;185(22):4190–4205.e25. doi:10.1016/j.cell.2022.09.024.
   PubMed Web of Science ®Google Scholar
• Hou Y, Wei W, Guan X, Liu Y, Bian G, He D, Fan Q, Cai X, Zhang Y, Wang G, et al. A diet-microbial metabolism feedforward loop modulates intestinal stem cell renewal in the stressed gut. Nat Commun. 2021;12(1):271. doi:10.1038/s41467-020-20673-4.
   PubMed Web of Science ®Google Scholar
• Sivan A, Corrales L, Hubert N, Williams JB, Aquino-Michaels K, Earley ZM, Benyamin FW, Lei YM, Jabri B, Alegre ML, et al. Commensal Bifidobacterium promotes antitumor immunity and facilitates anti–PD-L1 efficacy. Science. 2015;350(6264):1084–1089. doi:10.1126/science.aac4255.
   PubMed Web of Science ®Google Scholar
• Lobel L, Cao YG, Fenn K, Glickman JN, Garrett WS. Diet posttranslationally modifies the mouse gut microbial proteome to modulate renal function. Science. 2020;369(6510):1518–1524. doi:10.1126/science.abb3763.
   PubMed Web of Science ®Google Scholar
• Kasahara K, Krautkramer KA, Org E, Romano KA, Kerby RL, Vivas EI, Mehrabian M, Denu JM, Bäckhed F, Lusis AJ, et al. Interactions between roseburia intestinalis and diet modulate atherogenesis in a murine model. Nat Microbiol. 2018;3(12):1461–1471. doi:10.1038/s41564-018-0272-x.
   PubMed Web of Science ®Google Scholar
• Nagpal J, Cryan JF. Microbiota-brain interactions: moving toward mechanisms in model organisms. Neuron. 2021;109(24):3930–3953. doi:10.1016/j.neuron.2021.09.036.
   PubMed Web of Science ®Google Scholar
• O’Donnell MP, Fox BW, Chao PH, Schroeder FC, Sengupta P. A neurotransmitter produced by gut bacteria modulates host sensory behaviour. Nature. 2020;583(7816):415–420. doi:10.1038/s41586-020-2395-5.
   PubMed Web of Science ®Google Scholar
• Chen L, Zhernakova DV, Kurilshikov A, Andreu-Sanchez S, Wang D, Augustijn HE, Vich Vila A, Lifelines Cohort S, Weersma RK, Medema MH, et al. Influence of the microbiome, diet and genetics on inter-individual variation in the human plasma metabolome. Nat Med. 2022;28(11):2333–2343. doi:10.1038/s41591-022-02014-8.
   PubMed Web of Science ®Google Scholar
• Jin WB, Li TT, Huo D, Qu S, Li XV, Arifuzzaman M, Lima SF, Shi HQ, Wang A, Putzel GG, et al. Genetic manipulation of gut microbes enables single-gene interrogation in a complex microbiome. Cell. 2022;185(3):547–562.e22. doi:10.1016/j.cell.2021.12.035.
   PubMed Web of Science ®Google Scholar
• Morreale FE, Kleine S, Leodolter J, Junker S, Hoi DM, Ovchinnikov S, Okun A, Kley J, Kurzbauer R, Junk L, et al. BacPROTACs mediate targeted protein degradation in bacteria. Cell. 2022;185(13):2338–2353.e18. doi:10.1016/j.cell.2022.05.009.
   PubMed Web of Science ®Google Scholar
• Han W, Tellez LA, Perkins MH, Perez IO, Qu T, Ferreira J, Ferreira TL, Quinn D, Liu ZW, Gao XB, et al. A neural circuit for gut-induced reward. Cell. 2018;175(3):665–678 e23. doi:10.1016/j.cell.2018.08.049.
   PubMed Web of Science ®Google Scholar