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模式动物在共生微生物研究中的作用
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  • 英文篇名:The role of model animals in the study of symbiotic microorganisms
  • 作者:肖雅倩 ; 刘传 ; 肖亮
  • 英文作者:Yaqian Xiao;Chuan Liu;Liang Xiao;College of Water Sciences,Beijing Normal University;BGI-Shenzhen;
  • 关键词:共生微生物 ; 宿主 ; 模式动物 ; 肠道微生物
  • 英文关键词:symbiotic microorganisms;;host;;animal models;;gut microbiota
  • 中文刊名:生物多样性
  • 英文刊名:Biodiversity Science
  • 机构:北京师范大学水科学研究院;深圳华大生命科学研究院宏基因组研究中心;
  • 出版日期:2019-05-15
  • 出版单位:生物多样性
  • 年:2019
  • 期:05
  • 语种:中文;
  • 页:35-45
  • 页数:11
  • CN:11-3247/Q
  • ISSN:1005-0094
  • 分类号:Q93-33
摘要
共生微生物是一类定殖于宿主体表或体内,可执行宿主本身无法完成的功能,并依赖于宿主所提供的生长环境的微生物。众多研究表明,人体肠道共生微生物与免疫、营养、代谢,甚至精神健康等生理功能密切相关,是重要的"微生物器官"。在早期的肠道微生物研究中,模式动物就已经作为研究工具被使用。随着肠道微生物研究的不断深入,模式动物作为不可替代的研究对象发挥了越来越重要的作用。本综述主要对几种重要的模式动物如斑马鱼(Danio rerio)、小鼠(Mus musculus)、猪(Sus scrofa domesticus)和猕猴(Macaca mulatta)在肠道微生物研究中的应用进行了总结,介绍了各种模式动物的发展过程及特点,各自在应用于研究时的优缺点,以及利用这些动物模型在共生微生物领域所取得的一些标志性的科研成果。同时,也就近年来在共生微生物领域新兴的一些模式生物如蜜蜂(Apis)、果蝇(Drosophila)、秀丽隐杆线虫(Caenorhabditis elegans)等进行了一些探讨。旨在让该领域的研究者们了解模式动物与人体在共生微生物方面的异同,为更好地利用这一研究工具提供参考。
        Symbiotic microorganisms colonize external or internal surfaces of a host depending on environmental factors,and may supply the host with special functions.More and more researchers have proven that symbiotic gut microorganisms are related to a diverse range of physiological functions of a host including immunity,nutrition,metabolism and even mental health.Thus,gut microorganisms comprise an important "microbial organ" in humans.Since the early days of microbiota research,animal models have been used frequently for their microbiota,contributing greatly to new research in this field.This review provides an overview of animals used as models in symbiotic microorganism studies,including zebrafish(Danio rerio),mice(Mus musculus),pigs(Sus scrofa domesticus),and monkeys(Macaca mulatta).We provide insight into the development and characteristics of these model animals,highlighting the advantages and disadvantages of each model,as well as any outstanding scientific achievements based on their use.We also note that honey bee(Apis),fruit fly(Drosophila) and nematode(Caenorhabditis elegans) models are emerging as more prevalent in recent gut microbiota studies.This paper will contribute to better understanding the similarities and differences between the microbiota of model animals and humans,while providing useful information for effectively implementing these animal models in future research.
引文
Abt MC,Pamer EG(2014)Commensal bacteria mediated defenses against pathogens.Current Opinion in Immunology,29,16-22.
    Adams MD,Celniker SE,Holt RA,Evans CA,Gocayne JD,Amanatides PG,Scherer SE,Li PW,Hoskins RA,Galle RF,George RA,Lewis SE,Richards S,Ashburner M,Henderson SN,Sutton GG,Wortman JR,Yandell MD,Zhang Q,Chen LX,Brandon RC,Rogers YH,Blazej RG,Champe M,Pfeiffer BD,Wan KH,Doyle C,Baxter EG,Helt G,Nelson CR,Gabor GL,Abril JF,Agbayani A,An HJ,Andrews-Pfannkoch C,Baldwin D,Ballew RM,Basu A,Baxendale J,Bayraktaroglu L,Beasley EM,Beeson KY,Benos PV,Berman BP,Bhandari D,Bolshakov S,Borkova D,Botchan MR,Bouck J,Brokstein P,Brottier P,Burtis KC,Busam DA,Butler H,Cadieu E,Center A,Chandra I,Cherry JM,Cawley S,Dahlke C,Davenport LB,Davies P,de Pablos B,Delcher A,Deng Z,Mays AD,Dew I,Dietz SM,Dodson K,Doup LE,Downes M,Dugan-Rocha S,Dunkov BC,Dunn P,Durbin KJ,Evangelista CC,Ferraz C,Ferriera S,Fleischmann W,Fosler C,Gabrielian AE,Garg NS,Gelbart WM,Glasser K,Glodek A,Gong F,Gorrell JH,Gu Z,Guan P,Harris M,Harris NL,Harvey D,Heiman TJ,Hernandez JR,Houck J,Hostin D,Houston KA,Howland TJ,Wei MH,Ibegwam C,Jalali M,Kalush F,Karpen GH,Ke Z,Kennison JA,Ketchum KA,Kimmel BE,Kodira CD,Kraft C,Kravitz S,Kulp D,Lai Z,Lasko P,Lei Y,Levitsky AA,Li J,Li Z,Liang Y,Lin X,Liu X,Mattei B,McIntosh TC,McLeod MP,McPherson D,Merkulov G,Milshina NV,Mobarry C,Morris J,Moshrefi A,Mount SM,Moy M,Murphy B,Murphy L,Muzny DM,Nelson DL,Nelson DR,Nelson KA,Nixon K,Nusskern DR,Pacleb JM,Palazzolo M,Pittman GS,Pan S,Pollard J,Puri V,Reese MG,Reinert K,Remington K,Saunders RD,Scheeler F,Shen H,Shue BC,Sidén-Kiamos I,Simpson M,Skupski MP,Smith T,Spier E,Spradling AC,Stapleton M,Strong R,Sun E,Svirskas R,Tector C,Turner R,Venter E,Wang AH,Wang X,Wang ZY,Wassarman DA,Weinstock GM,Weissenbach J,Williams SM,Woodage T,Worley KC,Wu D,Yang S,Yao QA,Ye J,Yeh RF,Zaveri JS,Zhan M,Zhang G,Zhao Q,Zheng L,Zheng XH,Zhong FN,Zhong W,Zhou X,Zhu S,Zhu X,Smith HO,Gibbs RA,Myers EW,Rubin GM,Venter JC(2000)The genome sequence of Drosophila melanogaster.Science,287,2185-2195.
    Al-Shehri SS,Sweeney EL,Cowley DM,Liley HG,Ranasinghe PD,Charles BG,Shaw PN,Vagenas D,Duley JA,Knox CL(2016)Deep sequencing of the 16S ribosomal RNA of the neonatal oral microbiome:A comparison of breast-fed and formula-fed infants.Scientific Reports,6,38309.
    álvarez-Rendón JP,Salceda R,Riesgo-Escovar JR(2018)Drosophila melanogaster as a model for diabetes type 2progression.BioMed Research International,8,1417528.
    Angelakis E,Yasir M,Bachar D,Azhar EI,Lagier JC,Bibi F,Jiman-Fatani AA,Alawi M,Bakarman MA,Robert C,Raoult D(2016)Gut microbiome and dietary patterns in different Saudi populations and monkeys.Scientific Reports,6,32191.
    Baothman OA,Zamzami MA,Taher I,Abubaker J,Abu-Farha M(2016)The role of gut microbiota in the development of obesity and diabetes.Lipids in Health and Disease,15,108-116.
    Belkaid Y,Hand TW(2014)Role of the microbiota in immunity and inflammation.Cell,157,121-141.
    Berer K,Gerdes LA,Cekanaviciute E,Jia X,Xiao L,Xia Z,Liu C,Klotz L,Stauffer U,Baranzini SE,Kümpfel T,Hohlfeld R,Krishnamoorthy G,Wekerle H(2017)Gut microbiota from multiple sclerosis patients enables spontaneous autoimmune encephalomyelitis in mice.Proceedings of the National Academy of Sciences,USA,114,10719-10724.
    Bik EM,Eckburg PB,Gill SR,Nelson KE,Purdom EA,Francois F,Perez-Perez G,Blaser MJ,Relman DA(2006)Molecular analysis of the bacterial microbiota in the human stomach.Proceedings of the National Academy of Sciences,USA,103,732-737.
    Bry L,Falk PG,Midtvedt T,Gordon JI(1996)A model of host-microbial interactions in an open mammalian ecosystem.Science,273,1380-1383.
    Buffie CG,Bucci V,Stein RR,McKenney PT,Ling L,Gobourne A,No D,Liu H,Kinnebrew M,Viale A,Littmann E,van den Brink MRM,Jenq RR,Taur Y,Sander C,Cross JR,Toussaint NC,Xavier JB,Pamer EG(2015)Precision microbiome reconstitution restores bile acid mediated resistance to Clostridium difficile.Nature,517,205-208.
    Burns AR,Stephens WZ,Stagaman K,Wong S,Rawls JF,Guillemin K,Bohannan BJ(2016)Contribution of neutral processes to the assembly of gut microbial communities in the zebrafish over host development.The ISME Journal,10,655-664.
    Cheng Y,Ma Z,Kim B-H,Wu W,Cayting P,Boyle AP,Sundaram V,Xing X,Dogan N,Li J,Euskirchen G,Lin S,Lin Y,Visel A,Kawli T,Yang X,Patacsil D,Keller CA,Giardine B,Consortium TME,Kundaje A,Wang T,Pennacchio LA,Weng Z,Hardison RC,Snyder MP(2014)Principles of regulatory information conservation between mouse and human.Nature,515,371-375.
    Church DM,Goodstadt L,Hillier LW,Zody MC,Goldstein S,She X,Bult CJ,Agarwala R,Cherry JL,DiCuccio M,Hlavina W,Kapustin Y,Meric P,Maglott D,Birtle Z,Marques AC,Graves T,Zhou S,Teague B,Potamousis K,Churas C,Place M,Herschleb J,Runnheim R,Forrest D,Amos-Landgraf J,Schwartz DC,Cheng Z,Lindblad-Toh K,Eichler EE,Ponting CP,Consortium TMGS(2009)Lineage-specific biology revealed by a finished genome assembly of the mouse.PLoS Biology,7,e1000112.
    Clark RI,Salazar A,Yamada R,Fitz-Gibbon S,Morselli M,Alcaraz J,Rana A,Rera M,Pellegrini M,Ja WW,Walker DW(2015)Distinct shifts in microbiota composition during Drosophila aging impair intestinal function and drive mortality.Cell Reports,12,1656-1667.
    Clayton JB,Vangay P,Huang H,Ward T,Hillmann BM,Al-Ghalith GA,Travis DA,Long HT,Tuan BV,Minh VV,Cabana F,Nadler T,Toddes B,Murphy T,Glander KE,Johnson TJ,Knights D(2016)Captivity humanizes the primate microbiome.Proceedings of the National Academy of Sciences,USA,113,10376-10381.
    Clemente JC,Ursell LK,Parfrey LW,Knight R(2012)The impact of the gut microbiota on human health:An integrative view.Cell,148,1258-1270.
    Cox-Foster DL,Conlan S,Holmes EC,Palacios G,Evans JD,Moran NA,Quan PL,Briese T,Hornig M,Geiser DM,Martinson V,vanEngelsdorp D,Kalkstein AL,Drysdale A,Hui J,Zhai J,Cui L,Hutchison SK,Simons JF,Egholm M,Pettis JS,Lipkin WI(2007)A metagenomic survey of microbes in honey bee colony collapse disorder.Science,318,283-287.
    Cyranoski D(2015)Gene-edited“micropigs”to be sold as pets at Chinese institute.Nature News,526,18.
    Davis DJ,Doerr HM,Grzelak AK,Busi SB,Jasarevic E,Ericsson AC,Bryda EC(2016)Lactobacillus plantarum attenuates anxiety-related behavior and protects against stress-induced dysbiosis in adult zebrafish.Scientific Reports,6,33726.
    de Clercq NC,Groen AK,Romijn JA,Nieuwdorp M(2016)Gut microbiota in obesity and undernutrition.Advances in Nutrition,7,1080-1089.
    Dinan TG,Stilling RM,Stanton C,Cryan JF(2015)Collective unconscious:How gut microbes shape human behavior.Journal of Psychiatric Research,63,1-9.
    Emerson GA,Smith DG,Wurtz E,Clark D(1945)Induction of nutritional deficiency by oral administration of streptomycin.Journal of Pharmacology and Experimental Therapeutics,85,336-342.
    Engel P,Kwong WK,McFrederick Q,Anderson KE,Barribeau SM,Chandler JA,Cornman RS,Dainat J,de Miranda JR,Doublet V,Emery O,Evans JD,Farinelli L,Flenniken ML,Granberg F,Grasis JA,Gauthier L,Hayer J,Koch H,Kocher S,Martinson VG,Moran N,Munoz-Torres M,Newton I,Paxton RJ,Powell E,Sadd BM,Schmid-Hempel P,Schmid-Hempel R,Song SJ,Schwarz RS,vanEngelsdorp D,Dainat B(2016)The bee microbiome:Impact on bee health and model for evolution and ecology of host-microbe interactions.mBio,7,e02164-15.
    Falcinelli S,Rodiles A,Hatef A,Picchietti S,Cossignani L,Merrifield DL,Unniappan S,Carnevali O(2017)Dietary lipid content reorganizes gut microbiota and probiotic L.rhamnosus attenuates obesity and enhances catabolic hormonal milieu in zebrafish.Scientific Reports,7,5512.
    Frese SA,Benson AK,Tannock GW,Loach DM,Kim J,Zhang M,Oh PL,Heng NCK,Patil PB,Juge N,MacKenzie DA,Pearson BM,Lapidus A,Dalin E,Tice H,Goltsman E,Land M,Hauser L,Ivanova N,Kyrpides NC,Walter J(2011)The evolution of host specialization in the vertebrate gut symbiont Lactobacillus reuteri.PLoS Genetics,7,e1001314.
    Friedman H(1936)A study of the fecal flora and the line test of normal rats,rachitic rats and heating rachitic rats.Journal of Nutrition,12,165-172.
    Friswell MK,Gika H,Stratford IJ,Theodoridis G,Telfer B,Wilson ID,Mc Bain AJ(2010)Site and strain-specific variation in gut microbiota profiles and metabolism in experimental mice.PLoS ONE,5,e8584.
    Gaboriau-Routhiau V,Rakotobe S,Lécuyer E,Mulder I,Lan A,Bridonneau C,Rochet V,Pisi A,De Paepe M,Brandi G,Eberl G,Snel J,Kelly D,Cerf-Bensussan N(2009)The key role of segmented eilamentous bacteria in the coordinated maturation of gut helper T cell responses.Immunity,31,677-689.
    García-González AP,Ritter AD,Shrestha S,Andersen EC,Yilmaz LS,Walhout AJM(2017)Bacterial metabolism affects the C.elegans response to cancer chemotherapeutics.Cell,169,431-441.
    Geurts L,Lazarevic V,Derrien M,Everard A,Van Roye M,Knauf C,Valet P,Girard M,Muccioli GG,Francois P,de Vos WM,Schrenzel J,Delzenne NM,Cani PD(2011)Altered gut microbiota and endocannabinoid system tone in obese and diabetic leptin-resistant mice:Impact on apelin regulation in adipose tissue.Frontiers in Microbiology,2,https://doi.org/10.3389/fmicb.2011.00149.
    Ghoshal NG,Bal HS(1989)Comparative morphology of the stomach of some laboratory mammals.Laboratory Animals,23,21-29.
    Glimstedt G(1936)Der Stoffwechsel bakterienfreier Tiere1.Skandinavisches Archiv Für Physiologie,73,48-62.(in German)
    Grover M,Kashyap PC(2014)Germ-free mice as a model to study effect of gut microbiota on host physiology.Neurogastroenterology&Motility,26,745-748.
    Han B,Sivaramakrishnan P,Lin CJ,Neve IAA,He J,Tay LWR,Sowa JN,Sizovs A,Du G,Wang J,Herman C,Wang MC(2017)Microbial genetic composition tunes host longevity.Cell,169,1249-1262.
    Haque MM,Merchant M,Kumar PN,Dutta A,Mande SS(2017)First-trimester vaginal microbiome diversity:Apotential indicator of preterm delivery risk.Scientific Reports,7,16145.
    Harris RA,Alcott CE,Sullivan EL,Takahashi D,McCurdy CE,Comstock S,Baquero K,Blundell P,Frias AE,Kahr M,Suter M,Wesolowski S,Friedman JE,Grove KL,Aagaard KM(2016)Genomic variants associated with resistance to high fat diet induced obesity in a primate model.Scientific Reports,6,36123.
    Hildebrand F,Ebersbach T,Nielsen HB,Li X,Sonne SB,Bertalan M,Dimitrov P,Madsen L,Qin J,Wang J,Raes J,Kristiansen K,Licht TR(2012)A comparative analysis of the intestinal metagenomes present in Guinea pigs(Cavia porcellus)and humans(Homo sapiens).BMC Genomics,13,514.
    Hooper LV,Gordon JI(2001)Commensal host-bacterial relationships in the gut.Science,292,1115-1118.
    Hosp H(1945)Sulfonamides and vitamin K deficiency.Nutrition Reviews,3,35-36.
    Howe K,Clark MD,Torroja CF,Torrance J,Berthelot C,Muffato M,Collins JE,Humphray S,McLaren K,Matthews L,McLaren S,Sealy I,Caccamo M,Churcher C,Scott C,Barrett JC,Koch R,Rauch GJ,White S,Chow W,Kilian B,Quintais LT,Guerra-Assun??o JA,Zhou Y,Gu Y,Yen J,Vogel JH,Eyre T,Redmond S,Banerjee R,Chi J,Fu B,Langley E,Maguire SF,Laird GK,Lloyd D,Kenyon E,Donaldson S,Sehra H,Almeida-King J,Loveland J,Trevanion S,Jones M,Quail M,Willey D,Hunt A,Burton J,Sims S,McLay K,Plumb B,Davis J,Clee C,Oliver K,Clark R,Riddle C,Elliot D,Threadgold G,Harden G,Ware D,Begum S,Mortimore B,Kerry G,Heath P,Phillimore B,Tracey A,Corby N,Dunn M,Johnson C,Wood J,Clark S,Pelan S,Griffiths G,Smith M,Glithero R,Howden P,Barker N,Lloyd C,Stevens C,Harley J,Holt K,Panagiotidis G,Lovell J,Beasley H,Henderson C,Gordon D,Auger K,Wright D,Collins J,Raisen C,Dyer L,Leung K,Robertson L,Ambridge K,Leongamornlert D,Mc Guire S,Gilderthorp R,Griffiths C,Manthravadi D,Nichol S,Barker G,Whitehead S,Kay M,Brown J,Murnane C,Gray E,Humphries M,Sycamore N,Barker D,Saunders D,Wallis J,Babbage A,Hammond S,Mashreghi-Mohammadi M,Barr L,Martin S,Wray P,Ellington A,Matthews N,Ellwood M,Woodmansey R,Clark G,Cooper J,Tromans A,Grafham D,Skuce C,Pandian R,Andrews R,Harrison E,Kimberley A,Garnett J,Fosker N,Hall R,Garner P,Kelly D,Bird C,Palmer S,Gehring I,Berger A,Dooley CM,Ersan-ürün Z,Eser C,Geiger H,Geisler M,Karotki L,Kirn A,Konantz J,Konantz M,Oberl?nder M,Rudolph-Geiger S,Teucke M,Lanz C,Raddatz G,Osoegawa K,Zhu B,Rapp A,Widaa S,Langford C,Yang F,Schuster SC,Carter NP,Harrow J,Ning Z,Herrero J,Searle SM,Enright A,Geisler R,Plasterk RH,Lee C,Westerfield M,de Jong PJ,Zon LI,Postlethwait JH,Nüsslein-Volhard C,Hubbard TJ,Roest Crollius H,Rogers J,Stemple DL(2013)The zebrafish reference genome sequence and its relationship to the human genome.Nature,496,498-503.
    Ivanov II,Atarashi K,Manel N,Brodie EL,Shima T,Karaoz U,Wei D,Goldfarb KC,Santee CA,Lynch SV,Tanoue T,Imaoka A,Itoh K,Takeda K,Umesaki Y,Honda K,Littman DR(2009)Induction of intestinal Th17 cells by segmented filamentous bacteria.Cell,139,485-498.
    Jemielita M,Taormina MJ,Burns AR,Hampton JS,Rolig AS,Guillemin K,Parthasarathy R(2014)Spatial and temporal features of the growth of a bacterial species colonizing the zebrafish gut.mBio,5,e01751-14.
    Jie Z,Xia H,Zhong S-L,Feng Q,Li S,Liang S,Zhong H,Liu Z,Gao Y,Zhao H,Zhang D,Su Z,Fang Z,Lan Z,Li J,Xiao L,Li J,Li R,Li X,Li F,Ren H,Huang Y,Peng Y,Li G,Wen B,Dong B,Chen JY,Geng QS,Zhang ZW,Yang H,Wang J,Wang J,Zhang X,Madsen L,Brix S,Ning G,Xu X,Liu X,Hou Y,Jia H,He K,Kristiansen K(2017)The gut microbiome in atherosclerotic cardiovascular disease.Nature Communications,8,845.
    Kau AL,Ahern PP,Griffin NW,Goodman AL,Gordon JI(2011)Human nutrition,the gut microbiome,and immune system:Envisioning the future.Nature,474,327-336.
    Keller PJ,Schmidt AD,Wittbrodt J,Stelzer EHK(2008)Reconstruction of zebrafish early embryonic development by scanned light sheet microscopy.Science,322,1065-1069.
    Kelly S(2016)Mouse microbes may make scientific studies harder to replicate.Science,353,741-743.
    Kilian M,Chapple ILC,Hannig M,Marsh PD,Meuric V,Pedersen AML,Tonetti MS,Wade WG,Zaura E(2016)The oral microbiome-An update for oral healthcare professionals.British Dental Journal,221,657-666.
    Kübeck R,Bonet-Ripoll C,Hoffmann C,Walker A,Müller VM,Schüppel VL,Lagkouvardos I,Scholz B,Engel K-H,Daniel H,Schmitt-Kopplin P,Haller D,Clavel T,Klingenspor M(2016)Dietary fat and gut microbiota interactions determine diet-induced obesity in mice.Molecular Metabolism,5,1162-1174.
    Lagier J-C,Khelaifia S,Alou MT,Ndongo S,Dione N,Hugon P,Caputo A,Cadoret F,Traore SI,Seck EH,Dubourg G,Durand G,Mourembou G,Guilhot E,Togo A,Bellali S,Bachar D,Cassir N,Bittar F,Delerce J,Mailhe M,Ricaboni D,Bilen M,Dangui Nieko NPM,Dia Badiane NM,Valles C,Mouelhi D,Diop K,Million M,Musso D,Abrah?o J,Azhar EI,Bibi F,Yasir M,Diallo A,Sokhna C,Djossou F,Vitton V,Robert C,Rolain JM,La Scola B,Fournier P-E,Levasseur A,Raoult D(2016)Culture of previously uncultured members of the human gut microbiota by culturomics.Nature Microbiology,1,16203.
    Lagkouvardos I,Pukall R,Abt B,Foesel BU,Meier-Kolthoff JP,Kumar N,Bresciani A,Martínez I,Just S,Ziegler C,Brugiroux S,Garzetti D,Wenning M,Bui TPN,Wang J,Hugenholtz F,Plugge CM,Peterson DA,Hornef MW,Baines JF,Smidt H,Walter J,Kristiansen K,Nielsen HB,Haller D,Overmann J,Stecher B,Clavel T(2016)The Mouse Intestinal Bacterial Collection(miBC)provides host-specific insight into cultured diversity and functional potential of the gut microbiota.Nature Microbiology,1,16131.
    Leftwich PT,Clarke NVE,Hutchings MI,Chapman T(2018)Reply to Rosenberg et al:Diet,gut bacteria,and assortative mating in Drosophila melanogaster.Proceedings of the National Academy of Sciences,USA,115,E2154-E2155.
    Ley RE,B?ckhed F,Turnbaugh P,Lozupone CA,Knight RD,Gordon JI(2005)Obesity alters gut microbial ecology.Proceedings of the National Academy of Sciences,USA,102,11070-11075.
    Ley RE,Turnbaugh PJ,Klein S,Gordon JI(2006)Microbial ecology:Human gut microbes associated with obesity.Nature,444,1022-1023.
    Li X,Liang S,Xia Z,Qu J,Liu H,Liu C,Yang H,Wang J,Madsen L,Hou Y,Li J,Jia H,Kristiansen K,Xiao L(2018)Establishment of a Macaca fascicularis gut microbiome gene catalog and comparison with the human,pig,and mouse gut microbiomes.GigaScience,7,9.
    Liu R,Hong J,Xu X,Feng Q,Zhang D,Gu Y,Shi J,Zhao S,Liu W,Wang X,Xia H,Liu Z,Cui B,Liang P,Xi L,Jin J,Ying X,Wang X,Zhao X,Li W,Jia H,Lan Z,Li F,Wang R,Sun Y,Yang M,Shen Y,Jie Z,Li J,Chen X,Zhong H,Xie H,Zhang Y,Gu W,Deng X,Shen B,Xu X,Yang H,Xu G,Bi Y,Lai S,Wang J,Qi L,Madsen L,Wang J,Ning G,Kristiansen K,Wang W(2017)Gut microbiome and serum metabolome alterations in obesity and after weight-loss intervention.Nature Medicine,23,859-868.
    Lloyd TE,Taylor JP(2010)Flightless flies:Drosophila models of neuromuscular disease.Annals of the New York Academy of Sciences,1184,E1-E20.
    Lucas BA,Lavi E,Shiue L,Cho H,Katzman S,Miyoshi K,Siomi MC,Carmel L,Ares M,Maquat LE(2018)Evidence for convergent evolution of SINE-directed Staufen-mediated m RNA decay.Proceedings of the National Academy of Sciences,USA,115,965-973.
    Marchesi JR,Adams DH,Fava F,Hermes GDA,Hirschfield GM,Hold G,Quraishi MN,Kinross J,Smidt H,Tuohy KM,Thomas LV,Zoetendal EG,Hart A(2016)The gut microbiota and host health:A new clinical frontier.Gut,65,330-339.
    Menzel R(2012)The honeybee as a model for understanding the basis of cognition.Nature Reviews Neuroscience,13,758-768.
    Najjar VA(1943)Vitamin synthesis by intestinal bacteria.Nutrition Reviews,1,175-176.
    Obadia B,Keebaugh ES,Yamada R,Ludington WB,Ja WW(2018)Diet influences host-microbiota associations in Drosophila.Proceedings of the National Academy of Sciences,USA,115,E4547-E4548.
    Paigen K(2003)One hundred years of mouse genetics:An intellectual history.II.The molecular revolution(1981-2002).Genetics,163,1227-1235.
    Pan H,Guo R,Zhu J,Wang Q,Ju Y,Xie Y,Zheng Y,Wang Z,Li T,Liu Z,Lu L,Li F,Tong B,Xiao L,Xu X,Li R,Yuan Z,Yang H,Wang J,Kristiansen K,Jia H,Liu L(2018)Agene catalogue of the Sprague-Dawley rat gut metagenome.Giga Science,7,5.
    Pandey UB,Nichols CD(2011)Human disease models in Drosophila melanogaster and the role of the fly in therapeutic drug discovery.Pharmacological Reviews,63,411-436.
    Qin J,Li R,Raes J,Arumugam M,Burgdorf KS,Manichanh C,Nielsen T,Pons N,Levenez F,Yamada T,Mende DR,Li J,Xu J,Li S,Li D,Cao J,Wang B,Liang H,Zheng H,Xie Y,Tap J,Lepage P,Bertalan M,Batto JM,Hansen T,Le Paslier D,Linneberg A,Nielsen HB,Pelletier E,Renault P,Sicheritz-Ponten T,Turner K,Zhu H,Yu C,Li S,Jian M,Zhou Y,Li Y,Zhang X,Li S,Qin N,Yang H,Wang J,Brunak S,DoréJ,Guarner F,Kristiansen K,Pedersen O,Parkhill J,Weissenbach J,Meta HIT Consortium,Bork P,Ehrlich SD,Wang J(2010)A human gut microbial gene catalogue established by metagenomic sequencing.Nature,464,59-65.
    Qin J,Li Y,Cai Z,Li S,Zhu J,Zhang F,Liang S,Zhang W,Guan Y,Shen D,Peng Y,Zhang D,Jie Z,Wu W,Qin Y,Xue W,Li J,Han L,Lu D,Wu P,Dai Y,Sun X,Li Z,Tang A,Zhong S,Li X,Chen W,Xu R,Wang M,Feng Q,Gong M,Yu J,Zhang Y,Zhang M,Hansen T,Sanchez G,Raes J,Falony G,Okuda S,Almeida M,LeChatelier E,Renault P,Pons N,Batto JM,Zhang Z,Chen H,Yang R,Zheng W,Li S,Yang H,Wang J,Ehrlich SD,Nielsen R,Pedersen O,Kristiansen K,Wang J(2012)A metagenome-wide association study of gut microbiota in Type 2 diabetes.Nature,490,55-60.
    Rabot S,Membrez M,Bruneau A,Gérard P,Harach T,Moser M,Raymond F,Mansourian R,Chou CJ(2010)Germ-free C57BL/6J mice are resistant to high-fat-diet-induced insulin resistance and have altered cholesterol metabolism.The FASEB Journal,24,4948-4959.
    Rajilic-Stojanovic M,de Vos WM(2014)The first 1000cultured species of the human gastrointestinal microbiota.FEMS Microbiology Reviews,35,996-1047.
    Ramakrishna BS(2013)Role of the gut microbiota in human nutrition and metabolism.Journal of Gastroenterology and Hepatology,28(Suppl.4),9-17.
    Rawls JF,Mahowald MA,Ley RE,Gordon JI(2006)Reciprocal gut microbiota transplants from zebrafish and mice to germ-free recipients reveal host habitat selection.Cell,127,423-433.
    Rawls JF,Samuel BS,Gordon JI(2004)Gnotobiotic zebrafish reveal evolutionarily conserved responses to the gut microbiota.Proceedings of the National Academy of Sciences,USA,101,4596-4601.
    Reiter LT,Potocki L,Chien S,Gribskov M,Bier E(2001)Asystematic analysis of human disease-associated gene sequences in Drosophila melanogaster.Genome Research,11,1114-1125.
    Roeselers G,Mittge EK,Stephens WZ,Parichy DM,Cavanaugh CM,Guillemin K,Rawls JF(2011)Evidence for a core gut microbiota in the zebrafish.The ISME Journal,5,1595-1608.
    Rolig AS,Parthasarathy R,Burns AR,Bohannan BJM,Guillemin K(2015)Individual members of the microbiota disproportionately modulate host innate immune responses.Cell Host&Microbe,18,613-620.
    Round JL,Mazmanian SK(2009)The gut microbiota shapes intestinal immune responses during health and disease.Nature Reviews Immunology,9,313-323.
    Rowland I,Gibson G,Heinken A,Scott K,Swann J,Thiele I,Tuohy K(2018)Gut microbiota functions:Metabolism of nutrients and other food components.European Journal of Nutrition,57,1-24.
    Sachs DH,Galli C(2009)Genetic manipulation in pigs.Current Opinion in Organ Transplantation,14,148-153.
    Scott TA,Quintaneiro LM,Norvaisas P,Lui PP,Wilson MP,Leung K-Y,Herrera-Dominguez L,Sudiwala S,Pessia A,Clayton PT,Bryson K,Velagapudi V,Mills PB,Typas A,Greene NDE,Cabreiro F(2017)Host-microbe co-metabolism dictates cancer drug efficacy in C.elegans.Cell,169,442-456.
    Smith DG,Robinson HJ,Clark DM(1945)The influence of streptomycin and streptothricin on the intestinal flora of mice.Journal of Bacteriology,50,613-621.
    Snel J,Heinen PP,Blok HJ,Carman RJ,Duncan AJ,Allen PC,Collins MD(1995)Comparison of 16S rRNA sequences of segmented filamentous bacteria isolated from mice,rats,and chickens and proposal of“Candidatus Arthromitus”.International Journal of Systematic and Evolutionary Microbiology,45,780-782.
    Sommer F,B?ckhed F(2013)The gut microbiota-Masters of host development and physiology.Nature Reviews Microbiology,11,227-238.
    Stappenbeck TS,Virgin HW(2016)Accounting for reciprocal host-microbiome interactions in experimental science.Nature,534,191-199.
    Stephens WZ,Burns AR,Stagaman K,Wong S,Rawls JF,Guillemin K,Bohannan BJM(2016)The composition of the zebrafish intestinal microbial community varies across development.The ISME Journal,10,644-654.
    Suzuki K,Meek B,Doi Y,Muramatsu M,Chiba T,Honjo T,Fagarasan S(2004)Aberrant expansion of segmented filamentous bacteria in IgA-deficient gut.Proceedings of the National Academy of Sciences,USA,101,1981-1986.
    Turnbaugh PJ,Ridaura VK,Faith JJ,Rey FE,Knight R,Gordon JI(2009)The effect of diet on the human gut microbiome:A metagenomic analysis in humanized gnotobiotic mice.Science Translational Medicine,1,6ra14.
    Valente EM,Salvi S,Ialongo T,Marongiu R,Elia AE,Caputo V,Romito L,Albanese A,Dallapiccola B,Bentivoglio AR(2004)PINK1 mutations are associated with sporadic early-onset parkinsonism.Annals of Neurology,56,336-341.
    Verbeke KA,Boobis AR,Chiodini A,Edwards CA,Franck A,Kleerebezem M,Nauta A,Raes J,van Tol EA,Tuohy KM(2015)Towards microbial fermentation metabolites as markers for health benefits of prebiotics.Nutrition Research Reviews,28,42-66.
    Wahlstr?m A,Sayin SI,Marschall H-U,B?ckhed F(2016)Intestinal crosstalk between bile acids and microbiota and its impact on host metabolism.Cell Metabolism,24,41-50.
    Wallace BD,Wang H,Lane KT,Scott JE,Orans J,Koo JS,Venkatesh M,Jobin C,Yeh L-A,Mani S,Redinbo MR(2010)Alleviating cancer drug toxicity by inhibiting a bacterial enzyme.Science,330,831-835.
    Wang J,Jia H(2016)Metagenome-wide association studies:Fine-mining the microbiome.Nature Reviews Microbiology,14,508-522.
    Wang S,Huang XF,Zhang P,Newell KA,Wang H,Zheng K,Yu Y(2017)Dietary teasaponin ameliorates alteration of gut microbiota and cognitive decline in diet-induced obese mice.Scientific Reports,7,12203.
    Wiles TJ,Jemielita M,Baker RP,Schlomann BH,Logan SL,Ganz J,Melancon E,Eisen JS,Guillemin K,Parthasarathy R(2016)Host gut motility promotes competitive exclusion within a model intestinal microbiota.PLoS Biology,14,e1002517.
    Xiao L,EstelléJ,Kiilerich P,Ramayo-Caldas Y,Xia Z,Feng Q,Liang S,Pedersen A?,Kjeldsen NJ,Liu C,Maguin E,DoréJ,Pons N,Le Chatelier E,Prifti E,Li J,Jia H,Liu X,Xu X,Ehrlich SD,Madsen L,Kristiansen K,Rogel-Gaillard C,Wang J(2016)A reference gene catalogue of the pig gut microbiome.Nature Microbiology,1,16161.
    Xiao L,Feng Q,Liang S,Sonne SB,Xia Z,Qiu X,Li X,Long H,Zhang J,Zhang D,Liu C,Fang Z,Chou J,Glanville J,Hao Q,Kotowska D,Colding C,Licht TR,Wu D,Yu J,Sung JJY,Liang Q,Li J,Jia H,Lan Z,Tremaroli V,Dworzynski P,Nielsen HB,B?ckhed F,DoréJ,Le Chatelier E,Ehrlich SD,Lin JC,Arumugam M,Wang J,Madsen L,Kristiansen K(2015)A catalog of the mouse gut metagenome.Nature Biotechnology,33,1103-1108.
    Xie H,Guo R,Zhong H,Feng Q,Lan Z,Qin B,Ward KJ,Jackson MA,Xia Y,Chen X,Chen B,Xia H,Xu C,Li F,Xu X,Al-Aama JY,Yang H,Wang J,Kristiansen K,Wang J,Steves CJ,Bell JT,Li J,Spector TD,Jia H(2016)Shotgun metagenomics of 250 adult twins reveals genetic and environmental impacts on the gut microbiome.Cell Systems,21,572-584.
    ZákostelskáZ,MálkováJ,Klime?ováK,Rossmann P,HornováM,NovosádováI,StehlíkováZ,Kostov?ík M,Hudcovic T,?tepánkováR,J?zlováK,HercogováJ,Tlaskalová-HogenováH,Kverka M(2016)Intestinal microbiota promotes psoriasis-like skin inflammation by enhancing Th17 response.PLoS ONE,11,e0159539.
    Zevin AS,Hensley-McBain T,Miller C,Smith E,Langevin S,Klatt NR(2017)Antibiotic treatment disrupts bacterial communities in the colon and rectum of simian immunodeficiency virus-infected macaques.FEMS Microbiology Letters,15,364.

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