Identification of a gut microbiota member that ameliorates DSS-induced colitis in intestinal barrier enhanced Dusp6-deficient mice

Strengthening the gut epithelial barrier is a potential strategy for management of gut microbiota-associated illnesses. Here, we demonstrate that dual-specificity phosphatase 6 (Dusp6) knockout enhances baseline colon barrier integrity and ameliorates dextran sulfate sodium (DSS)-induced colonic inj...

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Published inCell reports (Cambridge) Vol. 37; no. 8; p. 110016
Main Authors Chang, Cherng-Shyang, Liao, Yi-Chu, Huang, Chih-Ting, Lin, Chiao-Mei, Cheung, Chantal Hoi Yin, Ruan, Jhen-Wei, Yu, Wen-Hsuan, Tsai, Yi-Ting, Lin, I-Jung, Huang, Chien-Hsun, Liou, Jong-Shian, Chou, Ya-Hsien, Chien, Hung-Jen, Chuang, Hsiao-Li, Juan, Hsueh-Fen, Huang, Hsuan-Cheng, Chan, Hong-Lin, Liao, Yu-Chieh, Tang, Shiue-Cheng, Su, Yu-Wen, Tan, Tse-Hua, Bäumler, Andreas J., Kao, Cheng-Yuan
Format Journal Article
LanguageEnglish
Published United States Elsevier Inc 23.11.2021
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Abstract Strengthening the gut epithelial barrier is a potential strategy for management of gut microbiota-associated illnesses. Here, we demonstrate that dual-specificity phosphatase 6 (Dusp6) knockout enhances baseline colon barrier integrity and ameliorates dextran sulfate sodium (DSS)-induced colonic injury. DUSP6 mutation in Caco-2 cells enhances the epithelial feature and increases mitochondrial oxygen consumption, accompanied by altered glucose metabolism and decreased glycolysis. We find that Dusp6-knockout mice are more resistant to DSS-induced dysbiosis, and the cohousing and fecal microbiota transplantation experiments show that the gut/fecal microbiota derived from Dusp6-knockout mice also confers protection against colitis. Further culturomics and mono-colonialization experiments show that one gut microbiota member in the genus Duncaniella confers host protection from DSS-induced injury. We identify Dusp6 deficiency as beneficial for shaping the gut microbiota eubiosis necessary to protect against gut barrier-related diseases. [Display omitted] •Dusp6 deficiency protects against DSS-induced colitis in mice•Dusp6 knockout induces tight junction- and microvilli-associated gene expression•Dusp6 knockout results in elevation of mitochondrial oxygen consumption•A potential anti-colitis bacterium, NHRI-C1-K-H-1-87, is found in Dusp6-knockout mice Chang et al. report that Dusp6 deficiency strengthens the junctions and extends the microvilli, thereby enhancing colonic barrier integrity. Dusp6 deficiency also promotes glucose-to-lipid metabolic switch and elevates mitochondrial oxygen consumption, thereby maintaining the anaerobic state for preserving obligatory bacteria. An anti-colitis anaerobe, NHRI-C1-K-H-1-87, is identified in Dusp6-knockout mice.
AbstractList Strengthening the gut epithelial barrier is a potential strategy for management of gut microbiota-associated illnesses. Here, we demonstrate that dual-specificity phosphatase 6 (Dusp6) knockout enhances baseline colon barrier integrity and ameliorates dextran sulfate sodium (DSS)-induced colonic injury. DUSP6 mutation in Caco-2 cells enhances the epithelial feature and increases mitochondrial oxygen consumption, accompanied by altered glucose metabolism and decreased glycolysis. We find that Dusp6-knockout mice are more resistant to DSS-induced dysbiosis, and the cohousing and fecal microbiota transplantation experiments show that the gut/fecal microbiota derived from Dusp6-knockout mice also confers protection against colitis. Further culturomics and mono-colonialization experiments show that one gut microbiota member in the genus Duncaniella confers host protection from DSS-induced injury. We identify Dusp6 deficiency as beneficial for shaping the gut microbiota eubiosis necessary to protect against gut barrier-related diseases. [Display omitted] •Dusp6 deficiency protects against DSS-induced colitis in mice•Dusp6 knockout induces tight junction- and microvilli-associated gene expression•Dusp6 knockout results in elevation of mitochondrial oxygen consumption•A potential anti-colitis bacterium, NHRI-C1-K-H-1-87, is found in Dusp6-knockout mice Chang et al. report that Dusp6 deficiency strengthens the junctions and extends the microvilli, thereby enhancing colonic barrier integrity. Dusp6 deficiency also promotes glucose-to-lipid metabolic switch and elevates mitochondrial oxygen consumption, thereby maintaining the anaerobic state for preserving obligatory bacteria. An anti-colitis anaerobe, NHRI-C1-K-H-1-87, is identified in Dusp6-knockout mice.
Strengthening the gut epithelial barrier is a potential strategy for management of gut microbiota-associated illnesses. Here, we demonstrate that dual-specificity phosphatase 6 (Dusp6) knockout enhances baseline colon barrier integrity and ameliorates dextran sulfate sodium (DSS)-induced colonic injury. DUSP6 mutation in Caco-2 cells enhances the epithelial feature and increases mitochondrial oxygen consumption, accompanied by altered glucose metabolism and decreased glycolysis. We find that Dusp6-knockout mice are more resistant to DSS-induced dysbiosis, and the cohousing and fecal microbiota transplantation experiments show that the gut/fecal microbiota derived from Dusp6-knockout mice also confers protection against colitis. Further culturomics and mono-colonialization experiments show that one gut microbiota member in the genus Duncaniella confers host protection from DSS-induced injury. We identify Dusp6 deficiency as beneficial for shaping the gut microbiota eubiosis necessary to protect against gut barrier-related diseases.
Strengthening the gut epithelial barrier is a potential strategy for management of gut microbiota-associated illnesses. Here, we demonstrate that dual-specificity phosphatase 6 (Dusp6) knockout enhances baseline colon barrier integrity and ameliorates dextran sulfate sodium (DSS)-induced colonic injury. DUSP6 mutation in Caco-2 cells enhances the epithelial feature and increases mitochondrial oxygen consumption, accompanied by altered glucose metabolism and decreased glycolysis. We find that Dusp6-knockout mice are more resistant to DSS-induced dysbiosis, and the cohousing and fecal microbiota transplantation experiments show that the gut/fecal microbiota derived from Dusp6-knockout mice also confers protection against colitis. Further culturomics and mono-colonialization experiments show that one gut microbiota member in the genus Duncaniella confers host protection from DSS-induced injury. We identify Dusp6 deficiency as beneficial for shaping the gut microbiota eubiosis necessary to protect against gut barrier-related diseases.Strengthening the gut epithelial barrier is a potential strategy for management of gut microbiota-associated illnesses. Here, we demonstrate that dual-specificity phosphatase 6 (Dusp6) knockout enhances baseline colon barrier integrity and ameliorates dextran sulfate sodium (DSS)-induced colonic injury. DUSP6 mutation in Caco-2 cells enhances the epithelial feature and increases mitochondrial oxygen consumption, accompanied by altered glucose metabolism and decreased glycolysis. We find that Dusp6-knockout mice are more resistant to DSS-induced dysbiosis, and the cohousing and fecal microbiota transplantation experiments show that the gut/fecal microbiota derived from Dusp6-knockout mice also confers protection against colitis. Further culturomics and mono-colonialization experiments show that one gut microbiota member in the genus Duncaniella confers host protection from DSS-induced injury. We identify Dusp6 deficiency as beneficial for shaping the gut microbiota eubiosis necessary to protect against gut barrier-related diseases.
ArticleNumber 110016
Author Tang, Shiue-Cheng
Lin, Chiao-Mei
Tsai, Yi-Ting
Chang, Cherng-Shyang
Liou, Jong-Shian
Juan, Hsueh-Fen
Bäumler, Andreas J.
Huang, Hsuan-Cheng
Chan, Hong-Lin
Yu, Wen-Hsuan
Chuang, Hsiao-Li
Tan, Tse-Hua
Huang, Chih-Ting
Su, Yu-Wen
Liao, Yi-Chu
Ruan, Jhen-Wei
Cheung, Chantal Hoi Yin
Huang, Chien-Hsun
Chou, Ya-Hsien
Lin, I-Jung
Kao, Cheng-Yuan
Chien, Hung-Jen
Liao, Yu-Chieh
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  organization: Department of Life Science, National Taiwan University, Taipei, 10617, Taiwan
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  orcidid: 0000-0002-0636-1937
  surname: Ruan
  fullname: Ruan, Jhen-Wei
  organization: Department of Medical Laboratory Science and Biotechnology, National Cheng Kung University, Tainan, 70101, Taiwan
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  organization: Graduate Institute of Biomedical Electronics and Bioinformatics, National Taiwan University, Taipei, 10617, Taiwan
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  organization: Department of Life Science, National Taiwan University, Taipei, 10617, Taiwan
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  orcidid: 0000-0002-3386-0934
  surname: Huang
  fullname: Huang, Hsuan-Cheng
  organization: Institute of Biomedical Informatics, National Yang Ming Chiao Tung University, Taipei, 11221, Taiwan
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  givenname: Hong-Lin
  orcidid: 0000-0001-9675-2554
  surname: Chan
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  surname: Tan
  fullname: Tan, Tse-Hua
  organization: Immunology Research Center, National Health Research Institutes, Zhunan, Miaoli, 35053, Taiwan
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  givenname: Andreas J.
  surname: Bäumler
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  surname: Kao
  fullname: Kao, Cheng-Yuan
  email: chengyuankao@nhri.edu.tw
  organization: Immunology Research Center, National Health Research Institutes, Zhunan, Miaoli, 35053, Taiwan
BackLink https://www.ncbi.nlm.nih.gov/pubmed/34818535$$D View this record in MEDLINE/PubMed
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Cites_doi 10.1093/nar/gks1055
10.1016/j.diff.2011.10.005
10.1128/AEM.68.10.5186-5190.2002
10.1038/s41587-019-0209-9
10.1038/nmicrobiol.2016.220
10.1084/jem.20071416
10.1371/journal.pone.0171580
10.1186/s40168-019-0637-2
10.1016/j.cell.2019.06.029
10.1016/j.rvsc.2008.05.014
10.1093/bioinformatics/bts635
10.1038/ismej.2011.139
10.1093/nar/gks1219
10.4161/tisb.26713
10.1371/journal.pone.0217457
10.1099/ijs.0.038075-0
10.1126/science.aat9076
10.1038/ctg.2016.54
10.1093/nar/gkq1156
10.1161/CIRCULATIONAHA.115.019645
10.1152/ajpcell.00275.2012
10.1002/ibd.20879
10.3390/nu12030726
10.1016/j.cell.2006.07.035
10.1002/jcp.27420
10.1038/nature25019
10.1128/IAI.00543-18
10.1038/ng.764
10.1038/mi.2013.6
10.1152/ajpgi.00183.2012
10.1002/pro.2858
10.1038/s41598-019-45441-3
10.1371/journal.pone.0119781
10.1186/s12866-018-1186-8
10.1042/BJ20110587
10.1172/JCI200421086
10.1186/s12918-017-0522-1
10.1038/s41598-017-13440-x
10.1186/s12929-019-0554-5
10.1074/jbc.M109.016766
10.1111/febs.13270
10.3233/NPM-190302
10.3945/jn.110.135657
10.1007/s00441-013-1734-3
10.1111/pin.12021
10.1016/j.molmet.2016.10.008
10.1136/gutjnl-2012-302167
10.1038/s41388-018-0384-z
10.1038/ng.483
10.1371/journal.pone.0013984
10.1016/j.tiv.2012.03.009
10.1016/j.bpg.2013.03.005
10.1186/s13059-014-0550-8
10.1097/MD.0000000000005019
10.1016/j.mce.2014.06.001
10.1038/nprot.2008.211
10.1038/s41564-017-0089-z
10.1371/journal.pone.0203701
10.3390/nu9121329
10.1002/pmic.201400515
10.1038/ismej.2013.80
10.1128/IAI.66.11.5224-5231.1998
10.1053/j.gastro.2010.03.045
10.1038/nrgastro.2017.88
10.1186/1756-0500-6-360
10.1038/nrgastro.2010.39
10.1172/jci.insight.91700
10.1038/nrmicro2761
10.1038/s41556-019-0287-4
10.1038/nrmicro3330
10.1016/j.ab.2009.12.029
10.1186/s40348-016-0033-y
10.1002/jcp.22339
10.1186/s40168-018-0470-z
10.1186/s13073-017-0490-5
10.1038/nmeth.3869
10.1371/journal.pone.0094187
10.1038/ng.952
10.1038/nrgastro.2016.169
10.1038/mi.2014.84
10.1126/science.aan0814
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Issue 8
Keywords experimental colitis
barrier integrity
leaky gut
gut microbiota
DUSP6
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References Dobin, Davis, Schlesinger, Drenkow, Zaleski, Jha, Batut, Chaisson, Gingeras (bib19) 2013; 29
Bermudez, Jouandin, Rottier, Bourcier, Pagès, Gimond (bib6) 2011; 226
Smillie, Biton, Ordovas-Montanes, Sullivan, Burgin, Graham, Herbst, Rogel, Slyper, Waldman (bib72) 2019; 178
Chang, Kao (bib12) 2019; 26
Sawada (bib66) 2013; 63
Wang, Zeng, Lu, Wang, Liu, He, Zhao, Wang, Li, Lu (bib80) 2018; 37
Laukoetter, Nava, Lee, Severson, Capaldo, Babbin, Williams, Koval, Peatman, Campbell (bib41) 2007; 204
McDonald, Price, Goodrich, Nawrocki, DeSantis, Probst, Andersen, Knight, Hugenholtz (bib48) 2012; 6
Hirota, Fines, Ng, Traboulsi, Lee, Ihara, Li, Willmore, Chung, Scully (bib28) 2010; 139
Simrén, Barbara, Flint, Spiegel, Spiller, Vanner, Verdu, Whorwell, Zoetendal (bib71) 2013; 62
König, Wells, Cani, García-Ródenas, MacDonald, Mercenier, Whyte, Troost, Brummer (bib39) 2016; 7
Anderson, Boucher, Lees, Franke, D’Amato, Taylor, Lee, Goyette, Imielinski, Latiano (bib1) 2011; 43
Olsen, Gerds, Seidelin, Csillag, Bjerrum, Troelsen, Nielsen (bib56) 2009; 15
Henson, Phalak (bib27) 2017; 11
Kamburov, Stelzl, Lehrach, Herwig (bib34) 2013; 41
Rivas, Beaudoin, Gardet, Stevens, Sharma, Zhang, Boucher, Ripke, Ellinghaus, Burtt (bib62) 2011; 43
Tsai, Ruan, Chang, Ko, Chou, Lin, Lin, Huang, Wei, Liao (bib75) 2020; 12
Sangwung, Zhou, Nayak, Chan, Kumar, Kang, Zhang, Liao, Lu, Sugi (bib65) 2017; 2
Gericke, Amiri, Naim (bib24) 2016; 3
Bolyen, Rideout, Dillon, Bokulich, Abnet, Al-Ghalith, Alexander, Alm, Arumugam, Asnicar (bib10) 2019; 37
Schirmer, Franzosa, Lloyd-Price, McIver, Schwager, Poon, Ananthakrishnan, Andrews, Barron, Lake (bib68) 2018; 3
Bokulich, Kaehler, Rideout, Dillon, Bolyen, Knight, Huttley, Gregory Caporaso (bib9) 2018; 6
Cheung, Hsu, Chen, Chong, Wu, Huang, Juan (bib14) 2017; 7
Zhang, Jiao, Liu, Zhang, Ji, Zhang, Gao, Ma, Shi (bib83) 2018; 13
McCole (bib47) 2013; 1
Wragg, La Ragione, Best, Reichel, Anjum, Mafura, Woodward (bib81) 2009; 86
Zhou, Chen, He, Du, Hu, Li, Li, Zhou, Wang, Chen, Nie (bib84) 2016; 95
Feng, He, Xu (bib21) 2014; 393
Kelly, Glover, Campbell, Kominsky, Ehrentraut, Bowers, Bayless, Saeedi, Colgan (bib36) 2013; 6
Kim, Shajib, Manocha, Khan (bib37) 2012; 3678
Arias, Murray (bib3) 2012; 10
Osaka, Moriyama, Arai, Date, Yagi, Kikuchi, Tsuneda (bib57) 2017; 9
Sellon, Tonkonogy, Schultz, Dieleman, Grenther, Balish, Rennick, Sartor (bib70) 1998; 66
Talavera, Jin, Zmuda, Frick, Liu, McBride, Nelin, Trittmann (bib74) 2020; 13
Surana, Kasper (bib73) 2017; 552
Duncan, Barcenilla, Stewart, Pryde, Flint (bib20) 2002; 68
Odenwald, Turner (bib55) 2017; 14
Beaudry, Langlois, Montagne, Cagnol, Carrier, Rivard (bib5) 2019; 234
Leoni, Natoli, Nardella, Bucci, Zucco, D’Agnano, Felsani (bib42) 2012; 83
Pyla, Poulose, Jun, Segar (bib59) 2013; 304
Ni, Wu, Albenberg, Tomov (bib54) 2017; 14
Mohanan, Nakata, Desch, Lévesque, Boroughs, Guzman, Cao, Creasey, Yao, Boucher (bib50) 2018; 359
Bertin, Lozano-Ruiz, Bachiller, García-Martínez, Herdman, Zapater, Francés, Such, Lee, Raz, González-Navajas (bib8) 2015; 8
da Silva, Uno, Marie, Oba-Shinjo (bib16) 2015; 10
Natoli, Leoni, D’Agnano, Zucco, Felsani (bib53) 2012; 26
Hall, Yassour, Sauk, Garner, Jiang, Arthur, Lagoudas, Vatanen, Fornelos, Wilson (bib26) 2017; 9
Litvak, Byndloss, Bäumler (bib45) 2018; 362
Wang, Wang, Liu, Su (bib79) 2010; 399
Huang, Sherman, Lempicki (bib29) 2009; 4
Lieder, Hoi, Holik, Geissler, Hans, Friedl, Liszt, Krammer, Ley, Somoza (bib44) 2017; 12
Fornefett, Krause, Klose, Fingas, Hassert, Benga, Grunwald, Müller, Schrödl, Baums (bib23) 2018; 18
Quast, Pruesse, Yilmaz, Gerken, Schweer, Yarza, Peplies, Glöckner (bib60) 2013; 41
Berry, Reinisch (bib7) 2013; 27
Kamburov, Pentchev, Galicka, Wierling, Lehrach, Herwig (bib33) 2011; 39
Yarza, Yilmaz, Pruesse, Glöckner, Ludwig, Schleifer, Whitman, Euzéby, Amann, Rosselló-Móra (bib82) 2014; 12
Merico, Isserlin, Stueker, Emili, Bader (bib49) 2010; 5
Love, Huber, Anders (bib46) 2014; 15
Callahan, McMurdie, Rosen, Han, Johnson, Holmes (bib11) 2016; 13
Barrett, Lee, Lees, Prescott, Anderson, Phillips, Wesley, Parnell, Zhang, Drummond (bib4) 2009; 41
Colgan, Taylor (bib15) 2010; 7
Viggiano, Ianiro, Vanella, Bibbò, Bruno, Simeone, Mele (bib78) 2015; 19
De Lisle (bib17) 2014; 355
Archambaud, Derré-Bobillot, Lapaque, Rigottier-Gois, Serror (bib2) 2019; 9
Fischer, Gluth, Pape, Wiedenmann, Theuring, Baumgart (bib22) 2013; 304
Kim, Cho, Lee, Yoon, Kim, Na, Park, Jeon, Lee, Yi (bib38) 2012; 62
Rigottier-Gois (bib61) 2013; 7
Gil-Marqués, Pachón-Ibáñez, Pachón, Smani (bib25) 2018; 86
Lagkouvardos, Lesker, Hitch, Gálvez, Smit, Neuhaus, Wang, Baines, Abt, Stecher (bib40) 2019; 7
Li, Lin, Vanhoutte, Woo, Xu (bib43) 2016; 133
Ulluwishewa, Anderson, McNabb, Moughan, Wells, Roy (bib76) 2011; 141
Chen, Bakke, Kolodziej, Lodolce, Weber, Boone, Toback (bib13) 2015; 21
Murakami, Felinski, Antonetti (bib51) 2009; 284
Rodríguez-Flores, Mata-Espinosa, Barrios-Payan, Marquina-Castillo, Castañón-Arreola, Hernández-Pando (bib63) 2019; 14
Viennois, Chen, Laroui, Baker, Merlin (bib77) 2013; 6
Karhausen, Furuta, Tomaszewski, Johnson, Colgan, Haase (bib35) 2004; 114
Pathan, Keerthikumar, Ang, Gangoda, Quek, Williamson, Mouradov, Sieber, Simpson, Salim (bib58) 2015; 15
Ruan, Statt, Huang, Tsai, Kuo, Chan, Liao, Tan, Kao (bib64) 2016; 2
Jain, Suzuki, Seth, Samak, Rao (bib31) 2011; 437
Nacarelli, Lau, Fukumoto, Zundell, Fatkhutdinov, Wu, Aird, Iwasaki, Kossenkov, Schultz (bib52) 2019; 21
Jiang, Wallerman, Younis, Rubin, Gilbert, Sundström, Ghazal, Zhang, Wang, Mikkelsen (bib32) 2014; 9
Schmitt, Aranias, Viel, Chateau, Le Gall, Waligora-Dupriet, Melchior, Rouxel, Kapel, Gourcerol (bib69) 2016; 6
Ivanov, McKenzie, Zhou, Tadokoro, Lepelley, Lafaille, Cua, Littman (bib30) 2006; 126
Schaffer, Taylor (bib67) 2015; 282
Deng, Yan (bib18) 2016; 25
Schaffer (10.1016/j.celrep.2021.110016_bib67) 2015; 282
Rivas (10.1016/j.celrep.2021.110016_bib62) 2011; 43
da Silva (10.1016/j.celrep.2021.110016_bib16) 2015; 10
Feng (10.1016/j.celrep.2021.110016_bib21) 2014; 393
Fischer (10.1016/j.celrep.2021.110016_bib22) 2013; 304
Jain (10.1016/j.celrep.2021.110016_bib31) 2011; 437
Murakami (10.1016/j.celrep.2021.110016_bib51) 2009; 284
Wang (10.1016/j.celrep.2021.110016_bib79) 2010; 399
Leoni (10.1016/j.celrep.2021.110016_bib42) 2012; 83
Colgan (10.1016/j.celrep.2021.110016_bib15) 2010; 7
Osaka (10.1016/j.celrep.2021.110016_bib57) 2017; 9
Archambaud (10.1016/j.celrep.2021.110016_bib2) 2019; 9
Ulluwishewa (10.1016/j.celrep.2021.110016_bib76) 2011; 141
Love (10.1016/j.celrep.2021.110016_bib46) 2014; 15
Wang (10.1016/j.celrep.2021.110016_bib80) 2018; 37
Schirmer (10.1016/j.celrep.2021.110016_bib68) 2018; 3
Kamburov (10.1016/j.celrep.2021.110016_bib34) 2013; 41
Zhou (10.1016/j.celrep.2021.110016_bib84) 2016; 95
Bertin (10.1016/j.celrep.2021.110016_bib8) 2015; 8
Duncan (10.1016/j.celrep.2021.110016_bib20) 2002; 68
Merico (10.1016/j.celrep.2021.110016_bib49) 2010; 5
Anderson (10.1016/j.celrep.2021.110016_bib1) 2011; 43
Talavera (10.1016/j.celrep.2021.110016_bib74) 2020; 13
Quast (10.1016/j.celrep.2021.110016_bib60) 2013; 41
Natoli (10.1016/j.celrep.2021.110016_bib53) 2012; 26
McCole (10.1016/j.celrep.2021.110016_bib47) 2013; 1
Cheung (10.1016/j.celrep.2021.110016_bib14) 2017; 7
Beaudry (10.1016/j.celrep.2021.110016_bib5) 2019; 234
Laukoetter (10.1016/j.celrep.2021.110016_bib41) 2007; 204
Ivanov (10.1016/j.celrep.2021.110016_bib30) 2006; 126
Hirota (10.1016/j.celrep.2021.110016_bib28) 2010; 139
Olsen (10.1016/j.celrep.2021.110016_bib56) 2009; 15
Ni (10.1016/j.celrep.2021.110016_bib54) 2017; 14
Bokulich (10.1016/j.celrep.2021.110016_bib9) 2018; 6
Kamburov (10.1016/j.celrep.2021.110016_bib33) 2011; 39
Henson (10.1016/j.celrep.2021.110016_bib27) 2017; 11
Bolyen (10.1016/j.celrep.2021.110016_bib10) 2019; 37
Kelly (10.1016/j.celrep.2021.110016_bib36) 2013; 6
Viennois (10.1016/j.celrep.2021.110016_bib77) 2013; 6
Schmitt (10.1016/j.celrep.2021.110016_bib69) 2016; 6
Chen (10.1016/j.celrep.2021.110016_bib13) 2015; 21
Lieder (10.1016/j.celrep.2021.110016_bib44) 2017; 12
Bermudez (10.1016/j.celrep.2021.110016_bib6) 2011; 226
Surana (10.1016/j.celrep.2021.110016_bib73) 2017; 552
Kim (10.1016/j.celrep.2021.110016_bib37) 2012; 3678
Pyla (10.1016/j.celrep.2021.110016_bib59) 2013; 304
Hall (10.1016/j.celrep.2021.110016_bib26) 2017; 9
Fornefett (10.1016/j.celrep.2021.110016_bib23) 2018; 18
König (10.1016/j.celrep.2021.110016_bib39) 2016; 7
Yarza (10.1016/j.celrep.2021.110016_bib82) 2014; 12
Sangwung (10.1016/j.celrep.2021.110016_bib65) 2017; 2
De Lisle (10.1016/j.celrep.2021.110016_bib17) 2014; 355
Tsai (10.1016/j.celrep.2021.110016_bib75) 2020; 12
Chang (10.1016/j.celrep.2021.110016_bib12) 2019; 26
Gericke (10.1016/j.celrep.2021.110016_bib24) 2016; 3
Huang (10.1016/j.celrep.2021.110016_bib29) 2009; 4
Sawada (10.1016/j.celrep.2021.110016_bib66) 2013; 63
Litvak (10.1016/j.celrep.2021.110016_bib45) 2018; 362
Rigottier-Gois (10.1016/j.celrep.2021.110016_bib61) 2013; 7
Callahan (10.1016/j.celrep.2021.110016_bib11) 2016; 13
Ruan (10.1016/j.celrep.2021.110016_bib64) 2016; 2
Gil-Marqués (10.1016/j.celrep.2021.110016_bib25) 2018; 86
Simrén (10.1016/j.celrep.2021.110016_bib71) 2013; 62
Smillie (10.1016/j.celrep.2021.110016_bib72) 2019; 178
Berry (10.1016/j.celrep.2021.110016_bib7) 2013; 27
Lagkouvardos (10.1016/j.celrep.2021.110016_bib40) 2019; 7
Sellon (10.1016/j.celrep.2021.110016_bib70) 1998; 66
Deng (10.1016/j.celrep.2021.110016_bib18) 2016; 25
Mohanan (10.1016/j.celrep.2021.110016_bib50) 2018; 359
Arias (10.1016/j.celrep.2021.110016_bib3) 2012; 10
Barrett (10.1016/j.celrep.2021.110016_bib4) 2009; 41
Zhang (10.1016/j.celrep.2021.110016_bib83) 2018; 13
Li (10.1016/j.celrep.2021.110016_bib43) 2016; 133
Viggiano (10.1016/j.celrep.2021.110016_bib78) 2015; 19
Wragg (10.1016/j.celrep.2021.110016_bib81) 2009; 86
Odenwald (10.1016/j.celrep.2021.110016_bib55) 2017; 14
Nacarelli (10.1016/j.celrep.2021.110016_bib52) 2019; 21
Karhausen (10.1016/j.celrep.2021.110016_bib35) 2004; 114
Pathan (10.1016/j.celrep.2021.110016_bib58) 2015; 15
Kim (10.1016/j.celrep.2021.110016_bib38) 2012; 62
Rodríguez-Flores (10.1016/j.celrep.2021.110016_bib63) 2019; 14
Dobin (10.1016/j.celrep.2021.110016_bib19) 2013; 29
Jiang (10.1016/j.celrep.2021.110016_bib32) 2014; 9
McDonald (10.1016/j.celrep.2021.110016_bib48) 2012; 6
References_xml – volume: 2
  start-page: e91700
  year: 2017
  ident: bib65
  article-title: KLF2 and KLF4 control endothelial identity and vascular integrity
  publication-title: JCI Insight
– volume: 66
  start-page: 5224
  year: 1998
  end-page: 5231
  ident: bib70
  article-title: Resident enteric bacteria are necessary for development of spontaneous colitis and immune system activation in interleukin-10-deficient mice
  publication-title: Infect. Immun.
– volume: 63
  start-page: 1
  year: 2013
  end-page: 12
  ident: bib66
  article-title: Tight junction-related human diseases
  publication-title: Pathol. Int.
– volume: 14
  start-page: 9
  year: 2017
  end-page: 21
  ident: bib55
  article-title: The intestinal epithelial barrier: a therapeutic target?
  publication-title: Nat. Rev. Gastroenterol. Hepatol.
– volume: 393
  start-page: 46
  year: 2014
  end-page: 55
  ident: bib21
  article-title: FOXO1-dependent up-regulation of MAP kinase phosphatase 3 (MKP-3) mediates glucocorticoid-induced hepatic lipid accumulation in mice
  publication-title: Mol. Cell. Endocrinol.
– volume: 41
  start-page: D793
  year: 2013
  end-page: D800
  ident: bib34
  article-title: The ConsensusPathDB interaction database: 2013 update
  publication-title: Nucleic Acids Res.
– volume: 2
  start-page: 16220
  year: 2016
  ident: bib64
  article-title: Dual-specificity phosphatase 6 deficiency regulates gut microbiome and transcriptome response against diet-induced obesity in mice
  publication-title: Nat. Microbiol.
– volume: 29
  start-page: 15
  year: 2013
  end-page: 21
  ident: bib19
  article-title: STAR: ultrafast universal RNA-seq aligner
  publication-title: Bioinformatics
– volume: 234
  start-page: 6731
  year: 2019
  end-page: 6745
  ident: bib5
  article-title: Dual-specificity phosphatase 6 deletion protects the colonic epithelium against inflammation and promotes both proliferation and tumorigenesis
  publication-title: J. Cell. Physiol.
– volume: 141
  start-page: 769
  year: 2011
  end-page: 776
  ident: bib76
  article-title: Regulation of tight junction permeability by intestinal bacteria and dietary components
  publication-title: J. Nutr.
– volume: 25
  start-page: 546
  year: 2016
  end-page: 558
  ident: bib18
  article-title: GLUT, SGLT, and SWEET: structural and mechanistic investigations of the glucose transporters
  publication-title: Protein Sci.
– volume: 14
  start-page: 573
  year: 2017
  end-page: 584
  ident: bib54
  article-title: Gut microbiota and IBD: causation or correlation?
  publication-title: Nat. Rev. Gastroenterol. Hepatol.
– volume: 7
  start-page: 28
  year: 2019
  ident: bib40
  article-title: Sequence and cultivation study of Muribaculaceae reveals novel species, host preference, and functional potential of this yet undescribed family
  publication-title: Microbiome
– volume: 178
  start-page: 714
  year: 2019
  end-page: 730.e22
  ident: bib72
  article-title: Intra- and inter-cellular rewiring of the human colon during ulcerative colitis
  publication-title: Cell
– volume: 12
  start-page: E726
  year: 2020
  ident: bib75
  article-title: confers obesity resistance and restores intestinal barrier integrity in leptin-deficient obese mice
  publication-title: Nutrients
– volume: 4
  start-page: 44
  year: 2009
  end-page: 57
  ident: bib29
  article-title: Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources
  publication-title: Nat. Protoc.
– volume: 8
  start-page: 505
  year: 2015
  end-page: 515
  ident: bib8
  article-title: Dual-specificity phosphatase 6 regulates CD4+ T-cell functions and restrains spontaneous colitis in IL-10-deficient mice
  publication-title: Mucosal Immunol.
– volume: 13
  start-page: 581
  year: 2016
  end-page: 583
  ident: bib11
  article-title: DADA2: High-resolution sample inference from Illumina amplicon data
  publication-title: Nat. Methods
– volume: 6
  start-page: 610
  year: 2012
  end-page: 618
  ident: bib48
  article-title: An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea
  publication-title: ISME J.
– volume: 13
  start-page: e0203701
  year: 2018
  ident: bib83
  article-title: The effect of exposure to high altitude and low oxygen on intestinal microbial communities in mice
  publication-title: PLoS ONE
– volume: 9
  start-page: 1329
  year: 2017
  ident: bib57
  article-title: Meta-analysis of fecal microbiota and metabolites in experimental colitic mice during the inflammatory and healing phases
  publication-title: Nutrients
– volume: 11
  start-page: 145
  year: 2017
  ident: bib27
  article-title: Microbiota dysbiosis in inflammatory bowel diseases: in silico investigation of the oxygen hypothesis
  publication-title: BMC Syst. Biol.
– volume: 399
  start-page: 211
  year: 2010
  end-page: 217
  ident: bib79
  article-title: Normalizing genes for real-time polymerase chain reaction in epithelial and nonepithelial cells of mouse small intestine
  publication-title: Anal. Biochem.
– volume: 27
  start-page: 47
  year: 2013
  end-page: 58
  ident: bib7
  article-title: Intestinal microbiota: a source of novel biomarkers in inflammatory bowel diseases?
  publication-title: Best Pract. Res. Clin. Gastroenterol.
– volume: 19
  start-page: 1077
  year: 2015
  end-page: 1085
  ident: bib78
  article-title: Gut barrier in health and disease: focus on childhood
  publication-title: Eur. Rev. Med. Pharmacol. Sci.
– volume: 83
  start-page: 116
  year: 2012
  end-page: 127
  ident: bib42
  article-title: Differentiation of Caco-2 cells requires both transcriptional and post-translational down-regulation of Myc
  publication-title: Differentiation
– volume: 437
  start-page: 289
  year: 2011
  end-page: 299
  ident: bib31
  article-title: Protein kinase Cζ phosphorylates occludin and promotes assembly of epithelial tight junctions
  publication-title: Biochem. J.
– volume: 6
  start-page: 61
  year: 2016
  end-page: 72
  ident: bib69
  article-title: Intestinal invalidation of the glucose transporter GLUT2 delays tissue distribution of glucose and reveals an unexpected role in gut homeostasis
  publication-title: Mol. Metab.
– volume: 62
  start-page: 716
  year: 2012
  end-page: 721
  ident: bib38
  article-title: Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species
  publication-title: Int. J. Syst. Evol. Microbiol.
– volume: 37
  start-page: 6025
  year: 2018
  end-page: 6040
  ident: bib80
  article-title: CPT1A-mediated fatty acid oxidation promotes colorectal cancer cell metastasis by inhibiting anoikis
  publication-title: Oncogene
– volume: 12
  start-page: e0171580
  year: 2017
  ident: bib44
  article-title: The flavanone homoeriodictyol increases SGLT-1-mediated glucose uptake but decreases serotonin release in differentiated Caco-2 cells
  publication-title: PLoS ONE
– volume: 5
  start-page: e13984
  year: 2010
  ident: bib49
  article-title: Enrichment map: a network-based method for gene-set enrichment visualization and interpretation
  publication-title: PLoS ONE
– volume: 14
  start-page: e0217457
  year: 2019
  ident: bib63
  article-title: A significant therapeutic effect of silymarin administered alone, or in combination with chemotherapy, in experimental pulmonary tuberculosis caused by drug-sensitive or drug-resistant strains: In vitro and in vivo studies
  publication-title: PLoS ONE
– volume: 18
  start-page: 45
  year: 2018
  ident: bib23
  article-title: Comparative analysis of humoral immune responses and pathologies of BALB/c and C57BL/6 wildtype mice experimentally infected with a highly virulent Rodentibacter pneumotropicus (Pasteurella pneumotropica) strain
  publication-title: BMC Microbiol.
– volume: 12
  start-page: 635
  year: 2014
  end-page: 645
  ident: bib82
  article-title: Uniting the classification of cultured and uncultured bacteria and archaea using 16S rRNA gene sequences
  publication-title: Nat. Rev. Microbiol.
– volume: 552
  start-page: 244
  year: 2017
  end-page: 247
  ident: bib73
  article-title: Moving beyond microbiome-wide associations to causal microbe identification
  publication-title: Nature
– volume: 41
  start-page: D590
  year: 2013
  end-page: D596
  ident: bib60
  article-title: The SILVA ribosomal RNA gene database project: improved data processing and web-based tools
  publication-title: Nucleic Acids Res.
– volume: 43
  start-page: 246
  year: 2011
  end-page: 252
  ident: bib1
  article-title: Meta-analysis identifies 29 additional ulcerative colitis risk loci, increasing the number of confirmed associations to 47
  publication-title: Nat. Genet.
– volume: 7
  start-page: e196
  year: 2016
  ident: bib39
  article-title: Human intestinal barrier function in health and disease
  publication-title: Clin. Transl. Gastroenterol.
– volume: 43
  start-page: 1066
  year: 2011
  end-page: 1073
  ident: bib62
  article-title: Deep resequencing of GWAS loci identifies independent rare variants associated with inflammatory bowel disease
  publication-title: Nat. Genet.
– volume: 6
  start-page: 360
  year: 2013
  ident: bib77
  article-title: Dextran sodium sulfate inhibits the activities of both polymerase and reverse transcriptase: lithium chloride purification, a rapid and efficient technique to purify RNA
  publication-title: BMC Res. Notes
– volume: 86
  start-page: 27
  year: 2009
  end-page: 35
  ident: bib81
  article-title: Characterisation of Escherichia fergusonii isolates from farm animals using an Escherichia coli virulence gene array and tissue culture adherence assays
  publication-title: Res. Vet. Sci.
– volume: 139
  start-page: 259
  year: 2010
  ident: bib28
  article-title: Hypoxia-inducible factor signaling provides protection in Clostridium difficile-induced intestinal injury
  publication-title: Gastroenterology
– volume: 21
  start-page: 2393
  year: 2015
  end-page: 2402
  ident: bib13
  article-title: Antrum mucosal protein-18 peptide targets tight junctions to protect and heal barrier structure and function in models of inflammatory bowel disease
  publication-title: Inflamm. Bowel Dis.
– volume: 68
  start-page: 5186
  year: 2002
  end-page: 5190
  ident: bib20
  article-title: Acetate utilization and butyryl coenzyme A (CoA):acetate-CoA transferase in butyrate-producing bacteria from the human large intestine
  publication-title: Appl. Environ. Microbiol.
– volume: 95
  start-page: e5019
  year: 2016
  ident: bib84
  article-title: Increased Enterococcus faecalis infection is associated with clinically active Crohn disease
  publication-title: Medicine (Baltimore)
– volume: 26
  start-page: 59
  year: 2019
  ident: bib12
  article-title: Current understanding of the gut microbiota shaping mechanisms
  publication-title: J. Biomed. Sci.
– volume: 3
  start-page: 2
  year: 2016
  ident: bib24
  article-title: The multiple roles of sucrase-isomaltase in the intestinal physiology
  publication-title: Mol. Cell Pediatr.
– volume: 41
  start-page: 1330
  year: 2009
  end-page: 1334
  ident: bib4
  article-title: Genome-wide association study of ulcerative colitis identifies three new susceptibility loci, including the HNF4A region
  publication-title: Nat. Genet.
– volume: 304
  start-page: G970
  year: 2013
  end-page: G979
  ident: bib22
  article-title: Adalimumab prevents barrier dysfunction and antagonizes distinct effects of TNF-α on tight junction proteins and signaling pathways in intestinal epithelial cells
  publication-title: Am. J. Physiol. Gastrointest. Liver Physiol.
– volume: 15
  start-page: 550
  year: 2014
  ident: bib46
  article-title: Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
  publication-title: Genome Biol.
– volume: 10
  start-page: 266
  year: 2012
  end-page: 278
  ident: bib3
  article-title: The rise of the Enterococcus: beyond vancomycin resistance
  publication-title: Nat. Rev. Microbiol.
– volume: 359
  start-page: 1161
  year: 2018
  end-page: 1166
  ident: bib50
  article-title: is a colitis risk gene that regulates stability of epithelial adherens junctions
  publication-title: Science
– volume: 13
  start-page: 373
  year: 2020
  end-page: 380
  ident: bib74
  article-title: Single nucleotide polymorphisms in the dual specificity phosphatase genes and risk of necrotizing enterocolitis in premature infant
  publication-title: J. Neonatal Perinatal Med.
– volume: 1
  start-page: e26713
  year: 2013
  ident: bib47
  article-title: Phosphatase regulation of intercellular junctions
  publication-title: Tissue Barriers
– volume: 126
  start-page: 1121
  year: 2006
  end-page: 1133
  ident: bib30
  article-title: The orphan nuclear receptor RORgammat directs the differentiation program of proinflammatory IL-17+ T helper cells
  publication-title: Cell
– volume: 26
  start-page: 1243
  year: 2012
  end-page: 1246
  ident: bib53
  article-title: Good Caco-2 cell culture practices
  publication-title: Toxicol. In Vitro
– volume: 304
  start-page: C574
  year: 2013
  end-page: C589
  ident: bib59
  article-title: Expression of conventional and novel glucose transporters, GLUT1, -9, -10, and -12, in vascular smooth muscle cells
  publication-title: Am. J. Physiol. Cell Physiol.
– volume: 114
  start-page: 1098
  year: 2004
  end-page: 1106
  ident: bib35
  article-title: Epithelial hypoxia-inducible factor-1 is protective in murine experimental colitis
  publication-title: J. Clin. Invest.
– volume: 7
  start-page: 13302
  year: 2017
  ident: bib14
  article-title: MCM2-regulated functional networks in lung cancer by multi-dimensional proteomic approach
  publication-title: Sci. Rep.
– volume: 62
  start-page: 159
  year: 2013
  end-page: 176
  ident: bib71
  article-title: Intestinal microbiota in functional bowel disorders: a Rome foundation report
  publication-title: Gut
– volume: 7
  start-page: 281
  year: 2010
  end-page: 287
  ident: bib15
  article-title: Hypoxia: an alarm signal during intestinal inflammation
  publication-title: Nat. Rev. Gastroenterol. Hepatol.
– volume: 226
  start-page: 276
  year: 2011
  end-page: 284
  ident: bib6
  article-title: Post-transcriptional regulation of the DUSP6/MKP-3 phosphatase by MEK/ERK signaling and hypoxia
  publication-title: J. Cell. Physiol.
– volume: 86
  start-page: e00543-18
  year: 2018
  ident: bib25
  article-title: Effect of hypoxia on the pathogenesis of acinetobacter baumannii and pseudomonas aeruginosa in vitro and in murine experimental models of infection
  publication-title: Infect. Immun.
– volume: 133
  start-page: 2434
  year: 2016
  end-page: 2446
  ident: bib43
  article-title: Akkermansia muciniphila protects against atherosclerosis by preventing metabolic endotoxemia-induced inflammation in Apoe-/- mice
  publication-title: Circulation
– volume: 204
  start-page: 3067
  year: 2007
  end-page: 3076
  ident: bib41
  article-title: JAM-A regulates permeability and inflammation in the intestine in vivo
  publication-title: J. Exp. Med.
– volume: 7
  start-page: 1256
  year: 2013
  end-page: 1261
  ident: bib61
  article-title: Dysbiosis in inflammatory bowel diseases: the oxygen hypothesis
  publication-title: ISME J.
– volume: 3678
  start-page: 3678
  year: 2012
  ident: bib37
  article-title: Investigating intestinal inflammation in DSS-induced model of IBD
  publication-title: J. Vis. Exp.
– volume: 3
  start-page: 337
  year: 2018
  end-page: 346
  ident: bib68
  article-title: Dynamics of metatranscription in the inflammatory bowel disease gut microbiome
  publication-title: Nat. Microbiol.
– volume: 6
  start-page: 1110
  year: 2013
  end-page: 1118
  ident: bib36
  article-title: Fundamental role for HIF-1α in constitutive expression of human β defensin-1
  publication-title: Mucosal Immunol.
– volume: 39
  start-page: D712
  year: 2011
  end-page: D717
  ident: bib33
  article-title: ConsensusPathDB: toward a more complete picture of cell biology
  publication-title: Nucleic Acids Res.
– volume: 362
  start-page: eaat9076
  year: 2018
  ident: bib45
  article-title: Colonocyte metabolism shapes the gut microbiota
  publication-title: Science
– volume: 9
  start-page: 8926
  year: 2019
  ident: bib2
  article-title: Intestinal translocation of enterococci requires a threshold level of enterococcal overgrowth in the lumen
  publication-title: Sci. Rep.
– volume: 15
  start-page: 1032
  year: 2009
  end-page: 1038
  ident: bib56
  article-title: Diagnosis of ulcerative colitis before onset of inflammation by multivariate modeling of genome-wide gene expression data
  publication-title: Inflamm. Bowel Dis.
– volume: 15
  start-page: 2597
  year: 2015
  end-page: 2601
  ident: bib58
  article-title: FunRich: an open access standalone functional enrichment and interaction network analysis tool
  publication-title: Proteomics
– volume: 282
  start-page: 2260
  year: 2015
  end-page: 2266
  ident: bib67
  article-title: The impact of hypoxia on bacterial infection
  publication-title: FEBS J.
– volume: 6
  start-page: 90
  year: 2018
  ident: bib9
  article-title: Optimizing taxonomic classification of marker-gene amplicon sequences with QIIME 2’s q2-feature-classifier plugin
  publication-title: Microbiome
– volume: 21
  start-page: 397
  year: 2019
  end-page: 407
  ident: bib52
  article-title: NAD
  publication-title: Nat. Cell Biol.
– volume: 9
  start-page: e94187
  year: 2014
  ident: bib32
  article-title: ZBED6 modulates the transcription of myogenic genes in mouse myoblast cells
  publication-title: PLoS ONE
– volume: 37
  start-page: 852
  year: 2019
  end-page: 857
  ident: bib10
  article-title: Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2
  publication-title: Nat. Biotechnol.
– volume: 355
  start-page: 131
  year: 2014
  end-page: 142
  ident: bib17
  article-title: Disrupted tight junctions in the small intestine of cystic fibrosis mice
  publication-title: Cell Tissue Res.
– volume: 10
  start-page: e0119781
  year: 2015
  ident: bib16
  article-title: LOX expression and functional analysis in astrocytomas and impact of IDH1 mutation
  publication-title: PLoS ONE
– volume: 9
  start-page: 103
  year: 2017
  ident: bib26
  article-title: A novel Ruminococcus gnavus clade enriched in inflammatory bowel disease patients
  publication-title: Genome Med.
– volume: 284
  start-page: 21036
  year: 2009
  end-page: 21046
  ident: bib51
  article-title: Occludin phosphorylation and ubiquitination regulate tight junction trafficking and vascular endothelial growth factor-induced permeability
  publication-title: J. Biol. Chem.
– volume: 41
  start-page: D793
  year: 2013
  ident: 10.1016/j.celrep.2021.110016_bib34
  article-title: The ConsensusPathDB interaction database: 2013 update
  publication-title: Nucleic Acids Res.
  doi: 10.1093/nar/gks1055
– volume: 83
  start-page: 116
  year: 2012
  ident: 10.1016/j.celrep.2021.110016_bib42
  article-title: Differentiation of Caco-2 cells requires both transcriptional and post-translational down-regulation of Myc
  publication-title: Differentiation
  doi: 10.1016/j.diff.2011.10.005
– volume: 68
  start-page: 5186
  year: 2002
  ident: 10.1016/j.celrep.2021.110016_bib20
  article-title: Acetate utilization and butyryl coenzyme A (CoA):acetate-CoA transferase in butyrate-producing bacteria from the human large intestine
  publication-title: Appl. Environ. Microbiol.
  doi: 10.1128/AEM.68.10.5186-5190.2002
– volume: 37
  start-page: 852
  year: 2019
  ident: 10.1016/j.celrep.2021.110016_bib10
  article-title: Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2
  publication-title: Nat. Biotechnol.
  doi: 10.1038/s41587-019-0209-9
– volume: 2
  start-page: 16220
  year: 2016
  ident: 10.1016/j.celrep.2021.110016_bib64
  article-title: Dual-specificity phosphatase 6 deficiency regulates gut microbiome and transcriptome response against diet-induced obesity in mice
  publication-title: Nat. Microbiol.
  doi: 10.1038/nmicrobiol.2016.220
– volume: 204
  start-page: 3067
  year: 2007
  ident: 10.1016/j.celrep.2021.110016_bib41
  article-title: JAM-A regulates permeability and inflammation in the intestine in vivo
  publication-title: J. Exp. Med.
  doi: 10.1084/jem.20071416
– volume: 12
  start-page: e0171580
  year: 2017
  ident: 10.1016/j.celrep.2021.110016_bib44
  article-title: The flavanone homoeriodictyol increases SGLT-1-mediated glucose uptake but decreases serotonin release in differentiated Caco-2 cells
  publication-title: PLoS ONE
  doi: 10.1371/journal.pone.0171580
– volume: 7
  start-page: 28
  year: 2019
  ident: 10.1016/j.celrep.2021.110016_bib40
  article-title: Sequence and cultivation study of Muribaculaceae reveals novel species, host preference, and functional potential of this yet undescribed family
  publication-title: Microbiome
  doi: 10.1186/s40168-019-0637-2
– volume: 178
  start-page: 714
  year: 2019
  ident: 10.1016/j.celrep.2021.110016_bib72
  article-title: Intra- and inter-cellular rewiring of the human colon during ulcerative colitis
  publication-title: Cell
  doi: 10.1016/j.cell.2019.06.029
– volume: 86
  start-page: 27
  year: 2009
  ident: 10.1016/j.celrep.2021.110016_bib81
  article-title: Characterisation of Escherichia fergusonii isolates from farm animals using an Escherichia coli virulence gene array and tissue culture adherence assays
  publication-title: Res. Vet. Sci.
  doi: 10.1016/j.rvsc.2008.05.014
– volume: 29
  start-page: 15
  year: 2013
  ident: 10.1016/j.celrep.2021.110016_bib19
  article-title: STAR: ultrafast universal RNA-seq aligner
  publication-title: Bioinformatics
  doi: 10.1093/bioinformatics/bts635
– volume: 6
  start-page: 610
  year: 2012
  ident: 10.1016/j.celrep.2021.110016_bib48
  article-title: An improved Greengenes taxonomy with explicit ranks for ecological and evolutionary analyses of bacteria and archaea
  publication-title: ISME J.
  doi: 10.1038/ismej.2011.139
– volume: 41
  start-page: D590
  year: 2013
  ident: 10.1016/j.celrep.2021.110016_bib60
  article-title: The SILVA ribosomal RNA gene database project: improved data processing and web-based tools
  publication-title: Nucleic Acids Res.
  doi: 10.1093/nar/gks1219
– volume: 1
  start-page: e26713
  year: 2013
  ident: 10.1016/j.celrep.2021.110016_bib47
  article-title: Phosphatase regulation of intercellular junctions
  publication-title: Tissue Barriers
  doi: 10.4161/tisb.26713
– volume: 14
  start-page: e0217457
  year: 2019
  ident: 10.1016/j.celrep.2021.110016_bib63
  article-title: A significant therapeutic effect of silymarin administered alone, or in combination with chemotherapy, in experimental pulmonary tuberculosis caused by drug-sensitive or drug-resistant strains: In vitro and in vivo studies
  publication-title: PLoS ONE
  doi: 10.1371/journal.pone.0217457
– volume: 62
  start-page: 716
  year: 2012
  ident: 10.1016/j.celrep.2021.110016_bib38
  article-title: Introducing EzTaxon-e: a prokaryotic 16S rRNA gene sequence database with phylotypes that represent uncultured species
  publication-title: Int. J. Syst. Evol. Microbiol.
  doi: 10.1099/ijs.0.038075-0
– volume: 362
  start-page: eaat9076
  year: 2018
  ident: 10.1016/j.celrep.2021.110016_bib45
  article-title: Colonocyte metabolism shapes the gut microbiota
  publication-title: Science
  doi: 10.1126/science.aat9076
– volume: 7
  start-page: e196
  year: 2016
  ident: 10.1016/j.celrep.2021.110016_bib39
  article-title: Human intestinal barrier function in health and disease
  publication-title: Clin. Transl. Gastroenterol.
  doi: 10.1038/ctg.2016.54
– volume: 39
  start-page: D712
  year: 2011
  ident: 10.1016/j.celrep.2021.110016_bib33
  article-title: ConsensusPathDB: toward a more complete picture of cell biology
  publication-title: Nucleic Acids Res.
  doi: 10.1093/nar/gkq1156
– volume: 133
  start-page: 2434
  year: 2016
  ident: 10.1016/j.celrep.2021.110016_bib43
  article-title: Akkermansia muciniphila protects against atherosclerosis by preventing metabolic endotoxemia-induced inflammation in Apoe-/- mice
  publication-title: Circulation
  doi: 10.1161/CIRCULATIONAHA.115.019645
– volume: 304
  start-page: C574
  year: 2013
  ident: 10.1016/j.celrep.2021.110016_bib59
  article-title: Expression of conventional and novel glucose transporters, GLUT1, -9, -10, and -12, in vascular smooth muscle cells
  publication-title: Am. J. Physiol. Cell Physiol.
  doi: 10.1152/ajpcell.00275.2012
– volume: 15
  start-page: 1032
  year: 2009
  ident: 10.1016/j.celrep.2021.110016_bib56
  article-title: Diagnosis of ulcerative colitis before onset of inflammation by multivariate modeling of genome-wide gene expression data
  publication-title: Inflamm. Bowel Dis.
  doi: 10.1002/ibd.20879
– volume: 12
  start-page: E726
  year: 2020
  ident: 10.1016/j.celrep.2021.110016_bib75
  article-title: Antrodia cinnamomea confers obesity resistance and restores intestinal barrier integrity in leptin-deficient obese mice
  publication-title: Nutrients
  doi: 10.3390/nu12030726
– volume: 126
  start-page: 1121
  year: 2006
  ident: 10.1016/j.celrep.2021.110016_bib30
  article-title: The orphan nuclear receptor RORgammat directs the differentiation program of proinflammatory IL-17+ T helper cells
  publication-title: Cell
  doi: 10.1016/j.cell.2006.07.035
– volume: 234
  start-page: 6731
  year: 2019
  ident: 10.1016/j.celrep.2021.110016_bib5
  article-title: Dual-specificity phosphatase 6 deletion protects the colonic epithelium against inflammation and promotes both proliferation and tumorigenesis
  publication-title: J. Cell. Physiol.
  doi: 10.1002/jcp.27420
– volume: 552
  start-page: 244
  year: 2017
  ident: 10.1016/j.celrep.2021.110016_bib73
  article-title: Moving beyond microbiome-wide associations to causal microbe identification
  publication-title: Nature
  doi: 10.1038/nature25019
– volume: 86
  start-page: e00543-18
  year: 2018
  ident: 10.1016/j.celrep.2021.110016_bib25
  article-title: Effect of hypoxia on the pathogenesis of acinetobacter baumannii and pseudomonas aeruginosa in vitro and in murine experimental models of infection
  publication-title: Infect. Immun.
  doi: 10.1128/IAI.00543-18
– volume: 43
  start-page: 246
  year: 2011
  ident: 10.1016/j.celrep.2021.110016_bib1
  article-title: Meta-analysis identifies 29 additional ulcerative colitis risk loci, increasing the number of confirmed associations to 47
  publication-title: Nat. Genet.
  doi: 10.1038/ng.764
– volume: 6
  start-page: 1110
  year: 2013
  ident: 10.1016/j.celrep.2021.110016_bib36
  article-title: Fundamental role for HIF-1α in constitutive expression of human β defensin-1
  publication-title: Mucosal Immunol.
  doi: 10.1038/mi.2013.6
– volume: 19
  start-page: 1077
  year: 2015
  ident: 10.1016/j.celrep.2021.110016_bib78
  article-title: Gut barrier in health and disease: focus on childhood
  publication-title: Eur. Rev. Med. Pharmacol. Sci.
– volume: 304
  start-page: G970
  year: 2013
  ident: 10.1016/j.celrep.2021.110016_bib22
  article-title: Adalimumab prevents barrier dysfunction and antagonizes distinct effects of TNF-α on tight junction proteins and signaling pathways in intestinal epithelial cells
  publication-title: Am. J. Physiol. Gastrointest. Liver Physiol.
  doi: 10.1152/ajpgi.00183.2012
– volume: 25
  start-page: 546
  year: 2016
  ident: 10.1016/j.celrep.2021.110016_bib18
  article-title: GLUT, SGLT, and SWEET: structural and mechanistic investigations of the glucose transporters
  publication-title: Protein Sci.
  doi: 10.1002/pro.2858
– volume: 9
  start-page: 8926
  year: 2019
  ident: 10.1016/j.celrep.2021.110016_bib2
  article-title: Intestinal translocation of enterococci requires a threshold level of enterococcal overgrowth in the lumen
  publication-title: Sci. Rep.
  doi: 10.1038/s41598-019-45441-3
– volume: 10
  start-page: e0119781
  year: 2015
  ident: 10.1016/j.celrep.2021.110016_bib16
  article-title: LOX expression and functional analysis in astrocytomas and impact of IDH1 mutation
  publication-title: PLoS ONE
  doi: 10.1371/journal.pone.0119781
– volume: 18
  start-page: 45
  year: 2018
  ident: 10.1016/j.celrep.2021.110016_bib23
  article-title: Comparative analysis of humoral immune responses and pathologies of BALB/c and C57BL/6 wildtype mice experimentally infected with a highly virulent Rodentibacter pneumotropicus (Pasteurella pneumotropica) strain
  publication-title: BMC Microbiol.
  doi: 10.1186/s12866-018-1186-8
– volume: 437
  start-page: 289
  year: 2011
  ident: 10.1016/j.celrep.2021.110016_bib31
  article-title: Protein kinase Cζ phosphorylates occludin and promotes assembly of epithelial tight junctions
  publication-title: Biochem. J.
  doi: 10.1042/BJ20110587
– volume: 114
  start-page: 1098
  year: 2004
  ident: 10.1016/j.celrep.2021.110016_bib35
  article-title: Epithelial hypoxia-inducible factor-1 is protective in murine experimental colitis
  publication-title: J. Clin. Invest.
  doi: 10.1172/JCI200421086
– volume: 11
  start-page: 145
  year: 2017
  ident: 10.1016/j.celrep.2021.110016_bib27
  article-title: Microbiota dysbiosis in inflammatory bowel diseases: in silico investigation of the oxygen hypothesis
  publication-title: BMC Syst. Biol.
  doi: 10.1186/s12918-017-0522-1
– volume: 7
  start-page: 13302
  year: 2017
  ident: 10.1016/j.celrep.2021.110016_bib14
  article-title: MCM2-regulated functional networks in lung cancer by multi-dimensional proteomic approach
  publication-title: Sci. Rep.
  doi: 10.1038/s41598-017-13440-x
– volume: 26
  start-page: 59
  year: 2019
  ident: 10.1016/j.celrep.2021.110016_bib12
  article-title: Current understanding of the gut microbiota shaping mechanisms
  publication-title: J. Biomed. Sci.
  doi: 10.1186/s12929-019-0554-5
– volume: 284
  start-page: 21036
  year: 2009
  ident: 10.1016/j.celrep.2021.110016_bib51
  article-title: Occludin phosphorylation and ubiquitination regulate tight junction trafficking and vascular endothelial growth factor-induced permeability
  publication-title: J. Biol. Chem.
  doi: 10.1074/jbc.M109.016766
– volume: 282
  start-page: 2260
  year: 2015
  ident: 10.1016/j.celrep.2021.110016_bib67
  article-title: The impact of hypoxia on bacterial infection
  publication-title: FEBS J.
  doi: 10.1111/febs.13270
– volume: 13
  start-page: 373
  year: 2020
  ident: 10.1016/j.celrep.2021.110016_bib74
  article-title: Single nucleotide polymorphisms in the dual specificity phosphatase genes and risk of necrotizing enterocolitis in premature infant
  publication-title: J. Neonatal Perinatal Med.
  doi: 10.3233/NPM-190302
– volume: 141
  start-page: 769
  year: 2011
  ident: 10.1016/j.celrep.2021.110016_bib76
  article-title: Regulation of tight junction permeability by intestinal bacteria and dietary components
  publication-title: J. Nutr.
  doi: 10.3945/jn.110.135657
– volume: 355
  start-page: 131
  year: 2014
  ident: 10.1016/j.celrep.2021.110016_bib17
  article-title: Disrupted tight junctions in the small intestine of cystic fibrosis mice
  publication-title: Cell Tissue Res.
  doi: 10.1007/s00441-013-1734-3
– volume: 63
  start-page: 1
  year: 2013
  ident: 10.1016/j.celrep.2021.110016_bib66
  article-title: Tight junction-related human diseases
  publication-title: Pathol. Int.
  doi: 10.1111/pin.12021
– volume: 6
  start-page: 61
  year: 2016
  ident: 10.1016/j.celrep.2021.110016_bib69
  article-title: Intestinal invalidation of the glucose transporter GLUT2 delays tissue distribution of glucose and reveals an unexpected role in gut homeostasis
  publication-title: Mol. Metab.
  doi: 10.1016/j.molmet.2016.10.008
– volume: 62
  start-page: 159
  year: 2013
  ident: 10.1016/j.celrep.2021.110016_bib71
  article-title: Intestinal microbiota in functional bowel disorders: a Rome foundation report
  publication-title: Gut
  doi: 10.1136/gutjnl-2012-302167
– volume: 37
  start-page: 6025
  year: 2018
  ident: 10.1016/j.celrep.2021.110016_bib80
  article-title: CPT1A-mediated fatty acid oxidation promotes colorectal cancer cell metastasis by inhibiting anoikis
  publication-title: Oncogene
  doi: 10.1038/s41388-018-0384-z
– volume: 41
  start-page: 1330
  year: 2009
  ident: 10.1016/j.celrep.2021.110016_bib4
  article-title: Genome-wide association study of ulcerative colitis identifies three new susceptibility loci, including the HNF4A region
  publication-title: Nat. Genet.
  doi: 10.1038/ng.483
– volume: 5
  start-page: e13984
  year: 2010
  ident: 10.1016/j.celrep.2021.110016_bib49
  article-title: Enrichment map: a network-based method for gene-set enrichment visualization and interpretation
  publication-title: PLoS ONE
  doi: 10.1371/journal.pone.0013984
– volume: 26
  start-page: 1243
  year: 2012
  ident: 10.1016/j.celrep.2021.110016_bib53
  article-title: Good Caco-2 cell culture practices
  publication-title: Toxicol. In Vitro
  doi: 10.1016/j.tiv.2012.03.009
– volume: 27
  start-page: 47
  year: 2013
  ident: 10.1016/j.celrep.2021.110016_bib7
  article-title: Intestinal microbiota: a source of novel biomarkers in inflammatory bowel diseases?
  publication-title: Best Pract. Res. Clin. Gastroenterol.
  doi: 10.1016/j.bpg.2013.03.005
– volume: 15
  start-page: 550
  year: 2014
  ident: 10.1016/j.celrep.2021.110016_bib46
  article-title: Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2
  publication-title: Genome Biol.
  doi: 10.1186/s13059-014-0550-8
– volume: 95
  start-page: e5019
  year: 2016
  ident: 10.1016/j.celrep.2021.110016_bib84
  article-title: Increased Enterococcus faecalis infection is associated with clinically active Crohn disease
  publication-title: Medicine (Baltimore)
  doi: 10.1097/MD.0000000000005019
– volume: 393
  start-page: 46
  year: 2014
  ident: 10.1016/j.celrep.2021.110016_bib21
  article-title: FOXO1-dependent up-regulation of MAP kinase phosphatase 3 (MKP-3) mediates glucocorticoid-induced hepatic lipid accumulation in mice
  publication-title: Mol. Cell. Endocrinol.
  doi: 10.1016/j.mce.2014.06.001
– volume: 4
  start-page: 44
  year: 2009
  ident: 10.1016/j.celrep.2021.110016_bib29
  article-title: Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources
  publication-title: Nat. Protoc.
  doi: 10.1038/nprot.2008.211
– volume: 3
  start-page: 337
  year: 2018
  ident: 10.1016/j.celrep.2021.110016_bib68
  article-title: Dynamics of metatranscription in the inflammatory bowel disease gut microbiome
  publication-title: Nat. Microbiol.
  doi: 10.1038/s41564-017-0089-z
– volume: 13
  start-page: e0203701
  year: 2018
  ident: 10.1016/j.celrep.2021.110016_bib83
  article-title: The effect of exposure to high altitude and low oxygen on intestinal microbial communities in mice
  publication-title: PLoS ONE
  doi: 10.1371/journal.pone.0203701
– volume: 21
  start-page: 2393
  year: 2015
  ident: 10.1016/j.celrep.2021.110016_bib13
  article-title: Antrum mucosal protein-18 peptide targets tight junctions to protect and heal barrier structure and function in models of inflammatory bowel disease
  publication-title: Inflamm. Bowel Dis.
– volume: 3678
  start-page: 3678
  year: 2012
  ident: 10.1016/j.celrep.2021.110016_bib37
  article-title: Investigating intestinal inflammation in DSS-induced model of IBD
  publication-title: J. Vis. Exp.
– volume: 9
  start-page: 1329
  year: 2017
  ident: 10.1016/j.celrep.2021.110016_bib57
  article-title: Meta-analysis of fecal microbiota and metabolites in experimental colitic mice during the inflammatory and healing phases
  publication-title: Nutrients
  doi: 10.3390/nu9121329
– volume: 15
  start-page: 2597
  year: 2015
  ident: 10.1016/j.celrep.2021.110016_bib58
  article-title: FunRich: an open access standalone functional enrichment and interaction network analysis tool
  publication-title: Proteomics
  doi: 10.1002/pmic.201400515
– volume: 7
  start-page: 1256
  year: 2013
  ident: 10.1016/j.celrep.2021.110016_bib61
  article-title: Dysbiosis in inflammatory bowel diseases: the oxygen hypothesis
  publication-title: ISME J.
  doi: 10.1038/ismej.2013.80
– volume: 66
  start-page: 5224
  year: 1998
  ident: 10.1016/j.celrep.2021.110016_bib70
  article-title: Resident enteric bacteria are necessary for development of spontaneous colitis and immune system activation in interleukin-10-deficient mice
  publication-title: Infect. Immun.
  doi: 10.1128/IAI.66.11.5224-5231.1998
– volume: 139
  start-page: 259
  year: 2010
  ident: 10.1016/j.celrep.2021.110016_bib28
  article-title: Hypoxia-inducible factor signaling provides protection in Clostridium difficile-induced intestinal injury
  publication-title: Gastroenterology
  doi: 10.1053/j.gastro.2010.03.045
– volume: 14
  start-page: 573
  year: 2017
  ident: 10.1016/j.celrep.2021.110016_bib54
  article-title: Gut microbiota and IBD: causation or correlation?
  publication-title: Nat. Rev. Gastroenterol. Hepatol.
  doi: 10.1038/nrgastro.2017.88
– volume: 6
  start-page: 360
  year: 2013
  ident: 10.1016/j.celrep.2021.110016_bib77
  article-title: Dextran sodium sulfate inhibits the activities of both polymerase and reverse transcriptase: lithium chloride purification, a rapid and efficient technique to purify RNA
  publication-title: BMC Res. Notes
  doi: 10.1186/1756-0500-6-360
– volume: 7
  start-page: 281
  year: 2010
  ident: 10.1016/j.celrep.2021.110016_bib15
  article-title: Hypoxia: an alarm signal during intestinal inflammation
  publication-title: Nat. Rev. Gastroenterol. Hepatol.
  doi: 10.1038/nrgastro.2010.39
– volume: 2
  start-page: e91700
  year: 2017
  ident: 10.1016/j.celrep.2021.110016_bib65
  article-title: KLF2 and KLF4 control endothelial identity and vascular integrity
  publication-title: JCI Insight
  doi: 10.1172/jci.insight.91700
– volume: 10
  start-page: 266
  year: 2012
  ident: 10.1016/j.celrep.2021.110016_bib3
  article-title: The rise of the Enterococcus: beyond vancomycin resistance
  publication-title: Nat. Rev. Microbiol.
  doi: 10.1038/nrmicro2761
– volume: 21
  start-page: 397
  year: 2019
  ident: 10.1016/j.celrep.2021.110016_bib52
  article-title: NAD+ metabolism governs the proinflammatory senescence-associated secretome
  publication-title: Nat. Cell Biol.
  doi: 10.1038/s41556-019-0287-4
– volume: 12
  start-page: 635
  year: 2014
  ident: 10.1016/j.celrep.2021.110016_bib82
  article-title: Uniting the classification of cultured and uncultured bacteria and archaea using 16S rRNA gene sequences
  publication-title: Nat. Rev. Microbiol.
  doi: 10.1038/nrmicro3330
– volume: 399
  start-page: 211
  year: 2010
  ident: 10.1016/j.celrep.2021.110016_bib79
  article-title: Normalizing genes for real-time polymerase chain reaction in epithelial and nonepithelial cells of mouse small intestine
  publication-title: Anal. Biochem.
  doi: 10.1016/j.ab.2009.12.029
– volume: 3
  start-page: 2
  year: 2016
  ident: 10.1016/j.celrep.2021.110016_bib24
  article-title: The multiple roles of sucrase-isomaltase in the intestinal physiology
  publication-title: Mol. Cell Pediatr.
  doi: 10.1186/s40348-016-0033-y
– volume: 226
  start-page: 276
  year: 2011
  ident: 10.1016/j.celrep.2021.110016_bib6
  article-title: Post-transcriptional regulation of the DUSP6/MKP-3 phosphatase by MEK/ERK signaling and hypoxia
  publication-title: J. Cell. Physiol.
  doi: 10.1002/jcp.22339
– volume: 6
  start-page: 90
  year: 2018
  ident: 10.1016/j.celrep.2021.110016_bib9
  article-title: Optimizing taxonomic classification of marker-gene amplicon sequences with QIIME 2’s q2-feature-classifier plugin
  publication-title: Microbiome
  doi: 10.1186/s40168-018-0470-z
– volume: 9
  start-page: 103
  year: 2017
  ident: 10.1016/j.celrep.2021.110016_bib26
  article-title: A novel Ruminococcus gnavus clade enriched in inflammatory bowel disease patients
  publication-title: Genome Med.
  doi: 10.1186/s13073-017-0490-5
– volume: 13
  start-page: 581
  year: 2016
  ident: 10.1016/j.celrep.2021.110016_bib11
  article-title: DADA2: High-resolution sample inference from Illumina amplicon data
  publication-title: Nat. Methods
  doi: 10.1038/nmeth.3869
– volume: 9
  start-page: e94187
  year: 2014
  ident: 10.1016/j.celrep.2021.110016_bib32
  article-title: ZBED6 modulates the transcription of myogenic genes in mouse myoblast cells
  publication-title: PLoS ONE
  doi: 10.1371/journal.pone.0094187
– volume: 43
  start-page: 1066
  year: 2011
  ident: 10.1016/j.celrep.2021.110016_bib62
  article-title: Deep resequencing of GWAS loci identifies independent rare variants associated with inflammatory bowel disease
  publication-title: Nat. Genet.
  doi: 10.1038/ng.952
– volume: 14
  start-page: 9
  year: 2017
  ident: 10.1016/j.celrep.2021.110016_bib55
  article-title: The intestinal epithelial barrier: a therapeutic target?
  publication-title: Nat. Rev. Gastroenterol. Hepatol.
  doi: 10.1038/nrgastro.2016.169
– volume: 8
  start-page: 505
  year: 2015
  ident: 10.1016/j.celrep.2021.110016_bib8
  article-title: Dual-specificity phosphatase 6 regulates CD4+ T-cell functions and restrains spontaneous colitis in IL-10-deficient mice
  publication-title: Mucosal Immunol.
  doi: 10.1038/mi.2014.84
– volume: 359
  start-page: 1161
  year: 2018
  ident: 10.1016/j.celrep.2021.110016_bib50
  article-title: C1orf106 is a colitis risk gene that regulates stability of epithelial adherens junctions
  publication-title: Science
  doi: 10.1126/science.aan0814
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Snippet Strengthening the gut epithelial barrier is a potential strategy for management of gut microbiota-associated illnesses. Here, we demonstrate that...
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SubjectTerms Animals
barrier integrity
Caco-2 Cells
Colitis - microbiology
Colitis - prevention & control
Colon - metabolism
Dextran Sulfate - pharmacology
Disease Models, Animal
Dual Specificity Phosphatase 6 - deficiency
Dual Specificity Phosphatase 6 - genetics
Dual Specificity Phosphatase 6 - metabolism
DUSP6
Dysbiosis - metabolism
Epithelial Cells - metabolism
experimental colitis
Feces
Female
Gastrointestinal Microbiome - physiology
gut microbiota
Humans
Intestinal Mucosa - microbiology
leaky gut
Male
Mice
Mice, Inbred C57BL
Mice, Knockout
RNA, Ribosomal, 16S - metabolism
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Title Identification of a gut microbiota member that ameliorates DSS-induced colitis in intestinal barrier enhanced Dusp6-deficient mice
URI https://dx.doi.org/10.1016/j.celrep.2021.110016
https://www.ncbi.nlm.nih.gov/pubmed/34818535
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