دورية أكاديمية
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Key features of the genetic architecture and evolution of host-microbe interactions revealed by high-resolution genetic mapping of the mucosa-associated gut microbiome in hybrid mice.

التفاصيل البيبلوغرافية
العنوان: Key features of the genetic architecture and evolution of host-microbe interactions revealed by high-resolution genetic mapping of the mucosa-associated gut microbiome in hybrid mice.
المؤلفون: Doms S; Max Planck Institute for Evolutionary Biology, Plön, Germany.; Section of Evolutionary Medicine, Institute for Experimental Medicine, Kiel University, Kiel, Germany., Fokt H; Max Planck Institute for Evolutionary Biology, Plön, Germany.; Section of Evolutionary Medicine, Institute for Experimental Medicine, Kiel University, Kiel, Germany., Rühlemann MC; Institute for Clinical Molecular Biology (IKMB), Kiel University, Kiel, Germany.; Institute for Medical Microbiology and Hospital Epidemiology, Hannover Medical School, Hannover, Germany., Chung CJ; Max Planck Institute for Evolutionary Biology, Plön, Germany.; Section of Evolutionary Medicine, Institute for Experimental Medicine, Kiel University, Kiel, Germany., Kuenstner A; Institute of Experimental Dermatology, University of Lübeck, Lübeck, Germany., Ibrahim SM; Institute of Experimental Dermatology, University of Lübeck, Lübeck, Germany.; Sharjah Institute of Medical Research, Sharjah, United Arab Emirates., Franke A; Institute for Clinical Molecular Biology (IKMB), Kiel University, Kiel, Germany., Turner LM; Milner Centre for Evolution, Department of Biology & Biochemistry, University of Bath, Bath, United Kingdom., Baines JF; Max Planck Institute for Evolutionary Biology, Plön, Germany.; Section of Evolutionary Medicine, Institute for Experimental Medicine, Kiel University, Kiel, Germany.
المصدر: ELife [Elife] 2022 Jul 19; Vol. 11. Date of Electronic Publication: 2022 Jul 19.
نوع المنشور: Journal Article; Research Support, Non-U.S. Gov't
اللغة: English
بيانات الدورية: Publisher: eLife Sciences Publications, Ltd Country of Publication: England NLM ID: 101579614 Publication Model: Electronic Cited Medium: Internet ISSN: 2050-084X (Electronic) Linking ISSN: 2050084X NLM ISO Abbreviation: Elife Subsets: MEDLINE
أسماء مطبوعة: Original Publication: Cambridge, UK : eLife Sciences Publications, Ltd., 2012-
مواضيع طبية MeSH: Gastrointestinal Microbiome*/genetics , Host Microbial Interactions*/genetics, Animals ; Bacteria/genetics ; Genome-Wide Association Study ; Mice ; Mucous Membrane ; RNA, Ribosomal, 16S/genetics
مستخلص: Determining the forces that shape diversity in host-associated bacterial communities is critical to understanding the evolution and maintenance of metaorganisms. To gain deeper understanding of the role of host genetics in shaping gut microbial traits, we employed a powerful genetic mapping approach using inbred lines derived from the hybrid zone of two incipient house mouse species. Furthermore, we uniquely performed our analysis on microbial traits measured at the gut mucosal interface, which is in more direct contact with host cells and the immune system. Several mucosa-associated bacterial taxa have high heritability estimates, and interestingly, 16S rRNA transcript-based heritability estimates are positively correlated with cospeciation rate estimates. Genome-wide association mapping identifies 428 loci influencing 120 taxa, with narrow genomic intervals pinpointing promising candidate genes and pathways. Importantly, we identified an enrichment of candidate genes associated with several human diseases, including inflammatory bowel disease, and functional categories including innate immunity and G-protein-coupled receptors. These results highlight key features of the genetic architecture of mammalian host-microbe interactions and how they diverge as new species form.
Competing Interests: SD, HF, MR, CC, AK, SI, AF, LT, JB No competing interests declared
(© 2022, Doms et al.)
References: Microb Ecol Health Dis. 2015 Feb 02;26:26191. (PMID: 25651997)
Curr Opin Cell Biol. 2015 Apr;33:125-31. (PMID: 25703630)
Mol Ecol. 2008 Dec;17(24):5349-63. (PMID: 19121002)
Cell Host Microbe. 2016 May 11;19(5):731-43. (PMID: 27173935)
Int Rev Neurobiol. 2016;131:91-126. (PMID: 27793228)
Cell Host Microbe. 2019 Aug 14;26(2):273-282.e7. (PMID: 31378678)
Nat Protoc. 2009;4(8):1184-91. (PMID: 19617889)
Genetics. 2014 May;197(1):405-20. (PMID: 24652999)
Biochem J. 2008 Dec 1;416(2):e11-3. (PMID: 18990086)
J Biol Chem. 2021 Jan-Jun;296:100668. (PMID: 33865853)
Cell. 2019 May 16;177(5):1217-1231.e18. (PMID: 31006530)
Nat Genet. 2021 Feb;53(2):156-165. (PMID: 33462485)
Diabetes. 2008 Jun;57(6):1470-81. (PMID: 18305141)
Pathogens. 2020 Sep 16;9(9):. (PMID: 32947778)
Nat Microbiol. 2016 Nov 28;2:16221. (PMID: 27892936)
Immunol Rev. 2016 Nov;274(1):33-58. (PMID: 27782325)
Science. 2020 Dec 4;370(6521):. (PMID: 33273073)
Nat Rev Microbiol. 2011 Apr;9(4):279-90. (PMID: 21407244)
ISME J. 2018 Feb;12(2):610-622. (PMID: 29192904)
Int J Syst Evol Microbiol. 2002 Mar;52(Pt 2):423-428. (PMID: 11931151)
Drug Discov Today Dis Models. 2018 Summer;28:61-71. (PMID: 32831858)
Int J Mol Sci. 2021 Mar 08;22(5):. (PMID: 33800452)
Nat Rev Endocrinol. 2011 Aug 09;7(11):639-46. (PMID: 21826100)
Mol Ecol. 2019 Jul;28(13):3197-3207. (PMID: 31141224)
Proc Natl Acad Sci U S A. 2021 Apr 13;118(15):. (PMID: 33876746)
Nat Methods. 2016 Jul;13(7):581-3. (PMID: 27214047)
Mol Ecol Resour. 2018 Jul;18(4):908-921. (PMID: 29520982)
Nat Commun. 2015 Mar 04;6:6440. (PMID: 25737238)
Mamm Genome. 2014 Dec;25(11-12):583-99. (PMID: 25159725)
Science. 2018 Oct 26;362(6413):453-457. (PMID: 30361372)
PLoS One. 2017 Mar 22;12(3):e0172914. (PMID: 28328972)
PLoS One. 2013 Apr 22;8(4):e61217. (PMID: 23630581)
Neurotherapeutics. 2018 Jan;15(1):135-145. (PMID: 29340928)
PLoS Genet. 2013;9(2):e1003264. (PMID: 23408905)
Mol Pharmacol. 2018 Apr;93(4):251-258. (PMID: 29298813)
PLoS Biol. 2016 Nov 18;14(11):e2000225. (PMID: 27861590)
OMICS. 2012 May;16(5):284-7. (PMID: 22455463)
J Proteome Res. 2019 Feb 1;18(2):623-632. (PMID: 30450911)
Proc Natl Acad Sci U S A. 2004 Nov 2;101(44):15718-23. (PMID: 15505215)
BMC Vet Res. 2020 Sep 29;16(1):363. (PMID: 32993639)
PLoS One. 2010 Oct 22;5(10):e13607. (PMID: 21042588)
Eur J Nutr. 2018 Feb;57(1):1-24. (PMID: 28393285)
PLoS One. 2012;7(6):e39191. (PMID: 22723961)
Front Microbiol. 2018 Apr 13;9:737. (PMID: 29706947)
Genetics. 2002 Jul;161(3):1257-67. (PMID: 12136028)
Science. 2012 Jun 8;336(6086):1262-7. (PMID: 22674330)
Biochem Biophys Res Commun. 2018 Jun 18;501(1):16-23. (PMID: 29730287)
PLoS Biol. 2010 Nov 16;8(11):e1000546. (PMID: 21103409)
Gigascience. 2015 Feb 25;4:7. (PMID: 25722852)
Nat Genet. 2016 Nov;48(11):1396-1406. (PMID: 27723756)
Environ Microbiol Rep. 2014 Apr;6(2):191-5. (PMID: 24596293)
Heredity (Edinb). 2005 Sep;95(3):221-7. (PMID: 16077740)
Gut Microbes. 2015;6(2):137-42. (PMID: 25901892)
Mucosal Immunol. 2013 May;6(3):451-63. (PMID: 23515136)
Mol Ecol. 2020 Jun;29(12):2300-2311. (PMID: 32419280)
Genome Res. 2015 Oct;25(10):1558-69. (PMID: 26260972)
PLoS One. 2015 Nov 03;10(11):e0140301. (PMID: 26528553)
Nature. 2006 Dec 21;444(7122):1022-3. (PMID: 17183309)
Nature. 2012 May 09;486(7402):222-7. (PMID: 22699611)
Trends Microbiol. 2016 May;24(5):402-413. (PMID: 26996765)
Int Immunopharmacol. 2020 Feb;79:106112. (PMID: 31877495)
FASEB J. 2012 May;26(5):2187-96. (PMID: 22331196)
Sci Rep. 2020 Sep 11;10(1):14977. (PMID: 32917913)
Genetics. 2014 Sep;198(1):103-16. (PMID: 25236452)
Commun Biol. 2020 Nov 18;3(1):686. (PMID: 33208821)
Front Cell Neurosci. 2015 Oct 14;9:392. (PMID: 26528128)
Adipocyte. 2014 Oct 30;4(1):65-9. (PMID: 26167405)
Nat Genet. 2021 Feb;53(2):147-155. (PMID: 33462482)
Cell. 2014 Oct 23;159(3):514-29. (PMID: 25417104)
Nat Genet. 2012 Jun 17;44(7):821-4. (PMID: 22706312)
Nat Commun. 2020 May 22;11(1):2590. (PMID: 32444602)
Nutrients. 2019 Feb 02;11(2):. (PMID: 30717427)
Cell Metab. 2006 Jun;3(6):449-61. (PMID: 16753580)
Cell Host Microbe. 2015 Nov 11;18(5):613-20. (PMID: 26567512)
PLoS Biol. 2015 Dec 04;13(12):e1002311. (PMID: 26636661)
Neurobiol Stress. 2017 Mar 19;7:124-136. (PMID: 29276734)
Bioinformatics. 2014 Jul 15;30(14):2076-8. (PMID: 24681907)
Cell. 2014 Nov 6;159(4):789-99. (PMID: 25417156)
Sci Rep. 2020 Dec 10;10(1):21641. (PMID: 33303854)
Integr Comp Biol. 2017 Oct 1;57(4):756-769. (PMID: 28992216)
Nature. 2017 Sep 7;549(7670):48-53. (PMID: 28854168)
Nat Commun. 2017 Feb 23;8:14319. (PMID: 28230052)
Z Versuchstierkd. 1972;14(3):133-42. (PMID: 5077749)
Biol Rev Camb Philos Soc. 2020 Oct;95(5):1131-1166. (PMID: 32383208)
Cell Host Microbe. 2008 Apr 17;3(4):213-23. (PMID: 18407065)
Cell Host Microbe. 2019 Aug 14;26(2):160-162. (PMID: 31415748)
Nature. 2009 Jan 22;457(7228):480-4. (PMID: 19043404)
Genome Res. 2003 Nov;13(11):2498-504. (PMID: 14597658)
ISME J. 2019 Mar;13(3):576-587. (PMID: 29995839)
Am J Pathol. 2014 Mar;184(3):592-9. (PMID: 24418259)
PLoS One. 2015 Aug 10;10(8):e0134643. (PMID: 26258484)
Nat Genet. 2016 Nov;48(11):1413-1417. (PMID: 27694960)
Front Cell Infect Microbiol. 2020 Nov 02;10:515614. (PMID: 33224895)
Proc Natl Acad Sci U S A. 2010 Oct 26;107(43):18664-9. (PMID: 20937863)
Nature. 2012 Oct 4;490(7418):55-60. (PMID: 23023125)
Microbiome. 2017 Jun 6;5(1):59. (PMID: 28587635)
Front Microbiol. 2018 Jul 06;9:1510. (PMID: 30034384)
Elife. 2014 Dec 09;3:. (PMID: 25487987)
Gut. 2016 Feb;65(2):238-48. (PMID: 25567118)
Br J Pharmacol. 2009 Dec;158(8):1874-83. (PMID: 20050185)
Nat Commun. 2020 Dec 4;11(1):6217. (PMID: 33277504)
BMC Bioinformatics. 2018 Feb 27;19(1):68. (PMID: 29486711)
Immunology. 2013 May;139(1):121-8. (PMID: 23289765)
Evolution. 2012 Feb;66(2):349-62. (PMID: 22276533)
Clin Pract. 2017 Sep 15;7(4):987. (PMID: 29071061)
Cell. 2017 Nov 16;171(5):1015-1028.e13. (PMID: 29056339)
Proc Natl Acad Sci U S A. 2010 Nov 2;107(44):18933-8. (PMID: 20937875)
Microbiome. 2019 Sep 14;7(1):133. (PMID: 31521200)
Trends Immunol. 2020 Jan;41(1):1-3. (PMID: 31806285)
Nucleic Acids Res. 2019 Jan 8;47(D1):D607-D613. (PMID: 30476243)
PLoS One. 2012;7(6):e39242. (PMID: 22768065)
Nat Immunol. 2013 Jul;14(7):668-75. (PMID: 23778794)
Nucleic Acids Res. 2014 Jan;42(Database issue):D633-42. (PMID: 24288368)
Curr Protein Pept Sci. 2015;16(7):655-71. (PMID: 26122786)
Biometrics. 1999 Dec;55(4):997-1004. (PMID: 11315092)
mSphere. 2019 Jul 10;4(4):. (PMID: 31292233)
Mol Ecol. 2014 Dec;23(23):5756-70. (PMID: 25319559)
Endocrinology. 2009 Jul;150(7):3101-9. (PMID: 19324999)
Nat Rev Genet. 2002 Jan;3(1):11-21. (PMID: 11823787)
PLoS Pathog. 2015 Oct 08;11(10):e1005113. (PMID: 26448621)
Mucosal Immunol. 2021 Sep;14(5):1006-1016. (PMID: 33772148)
Front Immunol. 2020 Jun 09;11:906. (PMID: 32582143)
Genome Biol. 2014;15(12):552. (PMID: 25516416)
Elife. 2022 Jul 19;11:. (PMID: 35866635)
Database (Oxford). 2021 Apr 30;2021:. (PMID: 33929018)
Nat Genet. 2016 Nov;48(11):1407-1412. (PMID: 27694959)
Science. 2021 Jul 9;373(6551):181-186. (PMID: 34244407)
PLoS Genet. 2019 Aug 29;15(8):e1008073. (PMID: 31465442)
G3 (Bethesda). 2015 Dec 18;6(2):263-79. (PMID: 26684931)
Cancer Immunol Res. 2020 Oct;8(10):1251-1261. (PMID: 32855157)
Cell. 2016 Dec 1;167(6):1495-1510.e12. (PMID: 27912059)
PLoS One. 2016 Mar 22;11(3):e0152159. (PMID: 27003919)
Nature. 2017 Nov 23;551(7681):507-511. (PMID: 29143816)
Nutrients. 2020 Jan 31;12(2):. (PMID: 32023943)
Microbiome. 2020 Oct 8;8(1):145. (PMID: 33032658)
Science. 2016 Jul 22;353(6297):380-2. (PMID: 27463672)
Trends Ecol Evol. 2012 Aug;27(8):443-51. (PMID: 22541872)
Evolution. 2012 Feb;66(2):443-58. (PMID: 22276540)
Nature. 2010 Apr 8;464(7290):908-12. (PMID: 20376150)
Front Microbiol. 2018 Oct 31;9:2626. (PMID: 30429843)
Front Microbiol. 2019 Oct 04;10:2291. (PMID: 31649637)
Mol Ecol. 2013 Apr;22(7):1904-16. (PMID: 23398547)
BMC Bioinformatics. 2003 Jan 13;4:2. (PMID: 12525261)
Dig Dis Sci. 2020 May;65(5):1277-1287. (PMID: 31471860)
Proc Biol Sci. 2020 Mar 11;287(1922):20192900. (PMID: 32126958)
Cell Host Microbe. 2014 Mar 12;15(3):382-392. (PMID: 24629344)
Nat Microbiol. 2020 Sep;5(9):1079-1087. (PMID: 32572223)
Nat Genet. 2022 Feb;54(2):134-142. (PMID: 35115689)
Neurobiol Dis. 2020 Feb;135:104578. (PMID: 31454550)
Proc Natl Acad Sci U S A. 2018 Dec 18;115(51):E11951-E11960. (PMID: 30510004)
Nature. 1999 Jul 15;400(6741):265-9. (PMID: 10421368)
Front Endocrinol (Lausanne). 2012 Dec 18;3:157. (PMID: 23264768)
Genome Res. 2020 Feb;30(2):276-286. (PMID: 31992612)
Endocr Rev. 2015 Jun;36(3):245-71. (PMID: 25811237)
Nat Commun. 2020 Aug 28;11(1):4322. (PMID: 32859898)
N Engl J Med. 2016 Dec 15;375(24):2369-2379. (PMID: 27974040)
Int J Med Microbiol. 2016 Aug;306(5):343-355. (PMID: 27053239)
Heredity (Edinb). 1999 Oct;83 ( Pt 4):363-72. (PMID: 10583537)
Gut. 2004 May;53(5):685-93. (PMID: 15082587)
فهرسة مساهمة: Keywords: GWAS; codiversification; cospeciation; evolutionary biology; genetics; genomics; hybridization; microbiome; mouse; phylosymbiosis
Local Abstract: [plain-language-summary] The digestive system, particularly the large intestine, hosts many types of bacteria which together form the gut microbiome. The exact makeup of different bacterial species is specific to an individual, but microbiomes are often more similar between related individuals, and more generally, across related species. Whether this is because individuals share similar environments or similar genetic backgrounds remains unclear. These two factors can be disentangled by breeding different animal lineages – which have different genetic backgrounds while belonging to the same species – and then raising the progeny in the same environment. To investigate this question, Doms et al. studied the genes and microbiomes of mice resulting from breeding strains from multiple locations in a natural hybrid zone between different subspecies. The experiments showed that 428 genetic regions affected the makeup of the microbiome, many of which were known to be associated with human diseases. Further analysis revealed 79 genes that were particularly interesting, as they were involved in recognition and communication with bacteria. These results show how the influence of the host genome on microbiome composition becomes more specialized as animals evolve. Overall, the work by Doms et al. helps to pinpoint the genes that impact the microbiome; this knowledge could be helpful to examine how these interactions contribute to the emergence of conditions such as diabetes or inflammatory bowel disease, which are linked to perturbations in gut bacteria.
سلسلة جزيئية: SRA PRJNA759194
المشرفين على المادة: 0 (RNA, Ribosomal, 16S)
تواريخ الأحداث: Date Created: 20220722 Date Completed: 20220725 Latest Revision: 20220804
رمز التحديث: 20240628
مُعرف محوري في PubMed: PMC9307277
DOI: 10.7554/eLife.75419
PMID: 35866635
قاعدة البيانات: MEDLINE
الوصف
تدمد:2050-084X
DOI:10.7554/eLife.75419