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IFN-I and IL-22 mediate protective effects of intestinal viral infection

Neil JA, Matsuzawa-Ishimoto Y, Kernbauer-Hölzl E, Schuster SL, Sota S, Venzon M, Dallari S, Galvao Neto A, Hine A, Hudesman D, Loke P, Nice TJ, Cadwell K

Nature Microbiol 2020

Decoy exosomes provide protection against bacterial toxins

Keller MD, Ching KL, Liang FX, Dhabaria A, Tam K, Ueberheide BM, Unutmaz D, Torres VJ*, Cadwell K*.

Nature. 2020

Rewilding Nod2 and Atg16l1 Mutant Mice Uncovers Genetic and Environmental Contributions to Microbial Responses and Immune Cell Composition

Lin JD, Devlin JC, Yeung F, McCauley C, Leung JM, Chen YH, Cronkite A, Hansen C, Drake-Dunn C, Ruggles KV, Cadwell K*, Graham AL*, Loke P*

Cell Host & Microbe. 2020

Altered immunity of laboratory mice in the natural environment is associated with fungal colonization

Yeung F, Chen YH, Lin JD, Leung JM, McCauley C, Devlin JC, Hansen C, Cronkite A, Stephen J, Drake-Dunn C, Fulmer Y, Shopsin B, Ruggles KV, Round JL, Loke P*, Graham AL*, Cadwell K*

Cell Host & Microbe. 2020

An intestinal organoid-based platform that recreates susceptibility to T cell-mediated tissue injury

Matsuzawa-Ishimoto Y, Hine A, Shono Y, Rudensky E, Lazrak A, Yeung F, Neil JA, Yao X, Chen YH, Heaney T, Schuster SL, Zwack EE, Axelrad JE, Hudesman D, Tsai JJ, Nichols K, Dewan MZ, Cammer M, Beal A, Hoffman S, Geddes B, Bertin J, Liu C, Torres VJ, Loke P, van den Brink MRM*, and Cadwell K*

Blood. 2020

Single Cell Transcriptional Survey of Ileal-Anal Pouch Immune Cells from Ulcerative Colitis Patients

Devlin JC, Axelrad J, Hine AM, Chang S, Sarkar S, Lin JD, Ruggles KV, Hudesman D, Cadwell K*, Loke P*

Gastroenterology. 2021

Enteric viruses evoke broad host immune responses resembling bacterial microbiome

Dallari S, Heaney T, Rosas-Villegas A, Neil JA, SY, Brown JJ, Urbanek K, Herrmann C, Depledge DP, Dermody TS, Cadwell K

Cell Host & Microbe 2021

Serological response to mRNA COVID-19 vaccines in IBD patients receiving biological therapies

Wong SY, Dixon R, Pazos VM, Gnjatic S, Colombel JF, Cadwell K. ICARUS-IBD Working Group

Gastroenterology 2021

IL-17RA-signaling in Lgr5+ intestinal stem cells induces expression of transcription factor ATOH1 to promote secretory cell lineage commitment

Lin X, Gaudino SJ, Jang KK, Bahadur T, Singh A, Banerjee A, Beaupre M, Chu T, Wong HT, Kim CK, Kempen C, Axelrad J, Huang H, Khalid S, Shah V, Eskiocak O, Parks OB, Berisha A, McAleer JP, Good M, Hoshino M, Blumberg R, Bialkowska AB, Gaffen SL, Kolls JK, Yang VW, Beyaz S, Cadwell K*, Kumar P*

Immunity 2022

Variable susceptibility of intestinal organoid–derived monolayers to SARS-CoV-2 infection.

Jang K, Kaczmarek ME, Dallari S, Chen Y, Axelrad J, Stapleford KA*, Cadwell K*

PLoS Biol. 2022

Microbial byproducts determine reproductive fitness of free-living and parasitic nematodes

Venzon M, Das R, Luciano DJ, Burnett J, Park HS, Devlin JC, Kool ET, Belasco JG, Hubbard EJA*, Cadwell K*

Cell Host & Microbe 2022

ACE2-containing defensosomes serve as decoys to inhibit SARS-CoV-2 infection

Ching KL, de Vries M, Gago J, Dancel-Manning K, Sall J, Rice WJ, Barnett C, Liang FX, Thorpe LE, Shopsin B, Segal LN, Dittmann M*, Torres VJ*, Cadwell K*

PLoS Biol 2022

γδ IEL effector API5 masks genetic susceptibility to Paneth cell death

Matsuzawa-Ishimoto Y, Yao X, Koide A, Ueberheide BM, Axelrad JE, Reis BS, Parsa R, Neil JA, Devlin JC, Rudensky E, Dewan MZ, Cammer M, Blumberg RS, Ding Y, Ruggles KV, Mucida D, Koide S* and Cadwell K*

Nature. 2022

Gut microbiome dysbiosis in antibiotic-treated COVID-19 patients is associated with microbial translocation and bacteremia

Bernard-Raichon L, Venzon M, Klein J, Axelrad JE, Zhang C, Sullivan AP, Hussey GA, Casanovas-Massana A, Noval MG, Valero-Jimenez AM, Gago J, Putzel G, Pironti A, Wilder E; Yale IMPACT Research Team, Thorpe LE, Littman DR, Dittmann M, Stapleford KA, Shopsin B, Torres VJ, Ko AI, Iwasaki A, Cadwell K*, Schluter J

Nat Commun. 2022

Clostridia isolated from helminth-colonized humans promote the life cycle of Trichuris species

Sargsian S, Chen Z, Lee SC, Robertson A, Thur RS, Sproch J, Devlin JC, Tee MZ, Er YX, Copin R, Heguy A, Pironti A, Torres VJ, Ruggles KV, Lim YAL, Bethony J, Loke P*, Cadwell K*

Cell Rep. 2022

Rewilding of laboratory mice enhances granulopoiesis and immunity through intestinal fungal colonization

Chen YH, Yeung F, Lacey KA, Zaldana K, Lin JD, Bee GCW, McCauley C, Barre RS, Liang SH, Hansen CB, Downie AE, Tio K, Weiser JN, Torres VJ, Bennett RJ, Loke P, Graham AL, Cadwell K

Sci Immunol. 2023

Antimicrobial overproduction sustains intestinal inflammation by inhibiting Enterococcus colonization

Jang KK, Heaney T, London M, Ding Y, Yeung F, Ercelen D, Chen YH, Axelrad J, Gurunathan S, Marijke Keestra-Gounder A, Griffin ME, Hang HC, Cadwell K

Cell Host Microbe 2023

Bacterial contact induces polar plug disintegration to mediate whipworm egg hatching

Robertson A, Sall J, Venzon M, Olivas JJ, Zheng X, Cammer M, Antao N, Zhou C, Devlin JC, Saes Thur R, Bethony J, Nejsum P, Shopsin B, Torres VJ, Liang FX, Cadwell K

PLoS Pathog 2023

Tofacitinib Uptake by Patient-Derived Intestinal Organoids Predicts Individual Clinical Responsiveness

Kyung Ku Jang, David Hudesman, Drew R. Jones, P’ng Loke, Jordan E. Axelrad, Ken Cadwell, Tofacitinib Working Group

Gastroenterology 2024

All Publications

• Rewilding catalyzes maturation of the humoral immune system.
  Science advances. 2025 Mar 7;11(10):eads2364; Authors: Chen YH, Zaldana K, Yeung F, Vujkovic-Cvijin I, Downie AE, Lin JD, Yang Y, ...

• Sex-dependent gastrointestinal colonization resistance to MRSA is microbiota and Th17 dependent.
  bioRxiv : the preprint server for biology. 2025 Feb 21; Authors: Lejeune A, Zhou C, Ercelen D, Putzel G, Yao X, Guy AR, Pawline M, ...

• Concomitant suppression of COX-1 and COX-2 is insufficient to induce enteropathy associated with chronic NSAID use.
  bioRxiv : the preprint server for biology. 2025 Jan 8; Authors: Barekat K, Ricciotti E, Ghosh S, Herrmann C, Keat K, Assenmacher CA, Tanes C, ...

• Tofacitinib Uptake by Patient-Derived Intestinal Organoids Predicts Individual Clinical Responsiveness.
  Gastroenterology. 2024 Dec;167(7):1453-1456.e5 Epub 2024 Jul 31; Authors: Jang KK, Hudesman D, Jones DR, Loke P, Axelrad JE, Cadwell K, Tofacitinib Working Group

• Stress from environmental change drives clearance of a persistent enteric virus.
  bioRxiv : the preprint server for biology. 2024 Nov 7; Authors: Herrmann C, Zaldana K, Agostino EL, Koralov SB, Cadwell K

• SARS-CoV-2 infection predisposes patients to coinfection with Staphylococcus aureus.
  mBio. 2024 Aug 14;15(8):e0166724 Epub 2024 Jul 22; Authors: Lubkin A, Bernard-Raichon L, DuMont AL, Valero Jimenez AM, Putzel GG, Gago J, Zwack EE, ...

• Genetic and environmental interactions contribute to immune variation in rewilded mice.
  Nature immunology. 2024 Jul;25(7):1270-1282 Epub 2024 Jun 14; Authors: Oyesola O, Downie AE, Howard N, Barre RS, Kiwanuka K, Zaldana K, Chen YH, ...

• Assessing immune phenotypes using simple proxy measures: promise and limitations.
  Discovery immunology. 2024;3(1):kyae010 Epub 2024 Jun 28; Authors: Downie AE, Barre RS, Robinson A, Yang J, Chen YH, Lin JD, Oyesola O, ...

• Microbiota and metabolic adaptation shape Staphylococcus aureus virulence and antimicrobial resistance during intestinal colonization.
  bioRxiv : the preprint server for biology. 2024 May 11; Authors: Zhou C, Pawline MB, Pironti A, Morales SM, Perault AI, Ulrich RJ, Podkowik M, ...

• Functional characterization of helminth-associated Clostridiales reveals covariates of Treg differentiation.
  Microbiome. 2024 May 10;12(1):86; Authors: Sargsian S, Mondragón-Palomino O, Lejeune A, Ercelen D, Jin WB, Varghese A, Lim YAL, ...

• Antibody, not Cellular, Immune Responses to SARS-CoV-2 Vaccination Outperform Infection in Inflammatory Bowel Disease Patients.
  Inflammatory bowel diseases. 2024 May 2;30(5):859-862; Authors: González Cueto E, Edmans M, Wellens J, Cadwell K, Thompson C, Satsangi J, Wong SY, ...

• Mitigation of Osteoclast-Mediated Arthritic Bone Remodeling By Short Chain Fatty Acids.
  Arthritis & rheumatology (Hoboken, N.J.). 2024 Apr;76(4):647-659 Epub 2024 Feb 18; Authors: Yang KL, Mullins BJ, Lejeune A, Ivanova E, Shin J, Bajwa S, Possemato R, ...

• Tofacitinib uptake by patient-derived intestinal organoids predicts individual clinical responsiveness.
  bioRxiv : the preprint server for biology. 2024 Mar 6; Authors: Jang KK, Ercelen D, Cen Feng JYC, Gurunathan S, Zhou C, Korman A, Newell L, ...

• The hyphal-specific toxin candidalysin promotes fungal gut commensalism.
  Nature. 2024 Mar;627(8004):620-627 Epub 2024 Mar 6; Authors: Liang SH, Sircaik S, Dainis J, Kakade P, Penumutchu S, McDonough LD, Chen YH, ...

• S1PR1 inhibition induces proapoptotic signaling in T cells and limits humoral responses within lymph nodes.
  The Journal of clinical investigation. 2024 Jan 9;134(4); Authors: Dixit D, Hallisey VM, Zhu EY, Okuniewska M, Cadwell K, Chipuk JE, Axelrad JE, ...

• Cytokine signature in convalescent SARS-CoV-2 patients with inflammatory bowel disease receiving vedolizumab.
  Scientific reports. 2024 Jan 2;14(1):186; Authors: Dallari S, Martinez Pazos V, Munoz Eusse J, Wellens J, Thompson C, Colombel JF, Satsangi J, ...

• Beyond antiviral: Interferon induced by bacteria maintains tolerance in the gut.
  The Journal of experimental medicine. 2024 Jan 1;221(1) Epub 2023 Dec 13; Authors: Yang Y, Cadwell K

• Spatiotemporal-social association predicts immunological similarity in rewilded mice.
  Science advances. 2023 Dec 22;9(51):eadh8310; Authors: Downie AE, Oyesola O, Barre RS, Caudron Q, Chen YH, Dennis EJ, Garnier R, ...

• Temporal Tracking of Plasma Cells in vivo Using J-chain CreERT2 Reporter System.
  bioRxiv : the preprint server for biology. 2023 Dec 4; Authors: Borbet TC, Zaldaña K, Zavitsanou AM, Hines MJ, Bajwa S, Morrison T, Boehringer T, ...

• Activation of Nod2 signaling upon norovirus infection enhances antiviral immunity and susceptibility to colitis.
  Gut microbes. 2023 Dec;15(2):2249960; Authors: Muharram G, Thépaut M, Lobert PE, Grandjean T, Boulard O, Delacre M, Wakeford E, ...

• Colonization with extended spectrum beta-lactamase and carbapenemases producing Enterobacteriaceae among hospitalized patients at the global level: A systematic review and meta-analysis.
  PloS one. 2023;18(11):e0293528 Epub 2023 Nov 27; Authors: Abera D, Alemu A, Mihret A, Negash AA, Abegaz WE, Cadwell K

• Geography Influences Susceptibility to SARS-CoV-2 Serological Response in Patients With Inflammatory Bowel Disease: Multinational Analysis From the ICARUS-IBD Consortium.
  Inflammatory bowel diseases. 2023 Nov 2;29(11):1693-1705; Authors: Wong SY, Wellens J, Helmus D, Marlow L, Brann S, Martinez Pazos V, Weinberg A, ...

• Immunomodulation by Enteric Viruses.
  Annual review of virology. 2023 Sep 29;10(1):477-502 Epub 2023 Jun 28; Authors: Bernard-Raichon L, Cadwell K

• Bacterial contact induces polar plug disintegration to mediate whipworm egg hatching.
  PLoS pathogens. 2023 Sep;19(9):e1011647 Epub 2023 Sep 22; Authors: Robertson A, Sall J, Venzon M, Olivas JJ, Zheng X, Cammer M, Antao N, ...

• Antimicrobial overproduction sustains intestinal inflammation by inhibiting Enterococcus colonization.
  Cell host & microbe. 2023 Sep 13;31(9):1450-1468.e8 Epub 2023 Aug 30; Authors: Jang KK, Heaney T, London M, Ding Y, Putzel G, Yeung F, Ercelen D, ...

• Sphingosine 1-phosphate receptor 1 inhibition induces a pro-apoptotic signaling cascade in T cells.
  bioRxiv : the preprint server for biology. 2023 Aug 22; Authors: Dixit D, Hallisey VM, Zhu EYS, Okuniewska M, Cadwell K, Chipuk JE, Axelrad JE, ...

• Rewilding of laboratory mice enhances granulopoiesis and immunity through intestinal fungal colonization.
  Science immunology. 2023 Jun 23;8(84):eadd6910; Authors: Chen YH, Yeung F, Lacey KA, Zaldana K, Lin JD, Bee GCW, McCauley C, ...

• Functional characterization of helminth-associated Clostridiales reveals covariates of Treg differentiation.
  bioRxiv : the preprint server for biology. 2023 Jun 7; Authors: Sargsian S, Lejeune A, Ercelen D, Jin WB, Varghese A, Loke P, Lim YAL, ...

• Defensosomes: a new role for autophagy proteins in innate immune defense.
  Autophagy. 2023 Jun;19(6):1887-1889 Epub 2022 Nov 21; Authors: Ching KL, Torres VJ, Cadwell K

• A neonatal mouse model characterizes transmissibility of SARS-CoV-2 variants and reveals a role for ORF8.
  Nature communications. 2023 May 25;14(1):3026; Authors: Rodriguez-Rodriguez BA, Ciabattoni GO, Duerr R, Valero-Jimenez AM, Yeung ST, Crosse KM, Schinlever AR, ...

• Genetic and Environmental interactions contribute to immune variation in rewilded mice.
  bioRxiv : the preprint server for biology. 2023 May 2; Authors: Oyesola O, Downie AE, Howard N, Barre RS, Kiwanuka K, Zaldana K, Chen YH, ...

• Bacterial contact induces polar plug disintegration to mediate whipworm egg hatching.
  bioRxiv : the preprint server for biology. 2023 Mar 13; Authors: Robertson A, Sall J, Venzon M, Olivas JJ, Zheng X, Cammer M, Antao N, ...

• Pathogen-Specific Alterations in the Gut Microbiota Predict Outcomes in Flare of Inflammatory Bowel Disease Complicated by Gastrointestinal Infection.
  Clinical and translational gastroenterology. 2023 Feb 1;14(2):e00550; Authors: Axelrad JE, Chen Z, Devlin J, Ruggles KV, Cadwell K

• Antimicrobial overproduction sustains intestinal inflammation by inhibiting Enterococcus colonization.
  bioRxiv : the preprint server for biology. 2023 Feb 1; Authors: Jang KK, Heaney T, London M, Ding Y, Yeung F, Ercelen D, Chen YH, ...

• Gut microbiome of helminth-infected indigenous Malaysians is context dependent.
  Microbiome. 2022 Dec 7;10(1):214; Authors: Tee MZ, Er YX, Easton AV, Yap NJ, Lee IL, Devlin J, Chen Z, ...

• Clostridia isolated from helminth-colonized humans promote the life cycle of Trichuris species.
  Cell reports. 2022 Nov 29;41(9):111725; Authors: Sargsian S, Chen Z, Lee SC, Robertson A, Thur RS, Sproch J, Devlin JC, ...

• Gut microbiome dysbiosis in antibiotic-treated COVID-19 patients is associated with microbial translocation and bacteremia.
  Nature communications. 2022 Nov 1;13(1):5926; Authors: Bernard-Raichon L, Venzon M, Klein J, Axelrad JE, Zhang C, Sullivan AP, Hussey GA, ...

• Into the wild: How exposure to wild or domesticated fungi shapes immune responses in mice.
  PLoS pathogens. 2022 Oct;18(10):e1010841 Epub 2022 Oct 13; Authors: Chen YH, Cadwell K

• The γδ IEL effector API5 masks genetic susceptibility to Paneth cell death.
  Nature. 2022 Oct;610(7932):547-554 Epub 2022 Oct 5; Authors: Matsuzawa-Ishimoto Y, Yao X, Koide A, Ueberheide BM, Axelrad JE, Reis BS, Parsa R, ...

• APOL1 variant-expressing endothelial cells exhibit autophagic dysfunction and mitochondrial stress.
  Frontiers in genetics. 2022;13:769936 Epub 2022 Sep 27; Authors: Blazer A, Qian Y, Schlegel MP, Algasas H, Buyon JP, Cadwell K, Cammer M, ...

• ACE2-containing defensosomes serve as decoys to inhibit SARS-CoV-2 infection.
  PLoS biology. 2022 Sep;20(9):e3001754 Epub 2022 Sep 13; Authors: Ching KL, de Vries M, Gago J, Dancel-Manning K, Sall J, Rice WJ, Barnett C, ...

• Efficacy of triple dose albendazole treatment for soil-transmitted helminth infections.
  PloS one. 2022;17(8):e0272821 Epub 2022 Aug 12; Authors: Tee MZ, Lee SC, Er YX, Yap NJ, Ngui R, Easton AV, Siow VWY, ...

• Microbiome-Independent Effects of Antibiotics in a Murine Model of Nosocomial Infections.
  mBio. 2022 Jun 28;13(3):e0124022 Epub 2022 May 25; Authors: Lacey KA, Gonzalez S, Yeung F, Putzel G, Podkowik M, Pironti A, Shopsin B, ...

• Microbial byproducts determine reproductive fitness of free-living and parasitic nematodes.
  Cell host & microbe. 2022 Jun 8;30(6):786-797.e8 Epub 2022 Apr 11; Authors: Venzon M, Das R, Luciano DJ, Burnett J, Park HS, Devlin JC, Kool ET, ...

• Pathogen Species Is Associated With Mortality in Nosocomial Bloodstream Infection in Patients With COVID-19.
  Open forum infectious diseases. 2022 Jun;9(6):ofac083 Epub 2022 Apr 5; Authors: Gago J, Filardo TD, Conderino S, Magaziner SJ, Dubrovskaya Y, Inglima K, Iturrate E, ...

• Variable susceptibility of intestinal organoid-derived monolayers to SARS-CoV-2 infection.
  PLoS biology. 2022 Mar;20(3):e3001592 Epub 2022 Mar 31; Authors: Jang KK, Kaczmarek ME, Dallari S, Chen YH, Tada T, Axelrad J, Landau NR, ...

• Gut microbiome dysbiosis during COVID-19 is associated with increased risk for bacteremia and microbial translocation.
  bioRxiv : the preprint server for biology. 2022 Mar 2; Authors: Venzon M, Bernard-Raichon L, Klein J, Axelrad JE, Zhang C, Hussey GA, Sullivan AP, ...

• IL-17RA-signaling in Lgr5(+) intestinal stem cells induces expression of transcription factor ATOH1 to promote secretory cell lineage commitment.
  Immunity. 2022 Feb 8;55(2):237-253.e8 Epub 2022 Jan 25; Authors: Lin X, Gaudino SJ, Jang KK, Bahadur T, Singh A, Banerjee A, Beaupre M, ...

• Playing dirty with virus transmission.
  The Journal of experimental medicine. 2022 Feb 7;219(2) Epub 2021 Dec 28; Authors: Herrmann C, Cadwell K

• COVID-19 and the Forgotten Organ: Prolonged Changes to the Metabolic Output of the Gut Microbiome.
  Gastroenterology. 2022 Feb;162(2):394-396 Epub 2021 Nov 17; Authors: Venzon M, Cadwell K

• Interactions of Autophagy and the Immune System in Health and Diseases.
  Autophagy reports. 2022;1(1):438-515 Epub 2022 Oct 5; Authors: Pant A, Yao X, Lavedrine A, Viret C, Dockterman J, Chauhan S, Chong-Shan Shi, ...

• ACE2-containing defensosomes serve as decoys to inhibit SARS-CoV-2 infection.
  bioRxiv : the preprint server for biology. 2021 Dec 23; Authors: Ching KL, de Vries M, Gago J, Dancel-Manning K, Sall J, Rice WJ, Barnett C, ...

• Atovaquone and Berberine Chloride Reduce SARS-CoV-2 Replication In Vitro.
  Viruses. 2021 Dec 4;13(12); Authors: Rodriguez-Rodriguez BA, Noval MG, Kaczmarek ME, Jang KK, Thannickal SA, Cifuentes Kottkamp A, Brown RS, ...

• Autophagy in major human diseases.
  The EMBO journal. 2021 Oct 1;40(19):e108863 Epub 2021 Aug 30; Authors: Klionsky DJ, Petroni G, Amaravadi RK, Baehrecke EH, Ballabio A, Boya P, Bravo-San Pedro JM, ...

• Serologic Response to Messenger RNA Coronavirus Disease 2019 Vaccines in Inflammatory Bowel Disease Patients Receiving Biologic Therapies.
  Gastroenterology. 2021 Aug;161(2):715-718.e4 Epub 2021 Apr 20; Authors: Wong SY, Dixon R, Martinez Pazos V, Gnjatic S, Colombel JF, Cadwell K, ICARUS-IBD Working Group

• Editorial overview: The virome in health and disease.
  Current opinion in virology. 2021 Aug;49:139-141 Epub 2021 Jun 12; Authors: Cadwell K, Wang D

• Gut microbiome dysbiosis during COVID-19 is associated with increased risk for bacteremia and microbial translocation.
  Research square. 2021 Jul 27; Authors: Venzon M, Bernard-Raichon L, Klein J, Axelrad JE, Hussey GA, Sullivan AP, Casanovas-Massana A, ...

• Enteric viruses evoke broad host immune responses resembling those elicited by the bacterial microbiome.
  Cell host & microbe. 2021 Jun 9;29(6):1014-1029.e8 Epub 2021 Apr 23; Authors: Dallari S, Heaney T, Rosas-Villegas A, Neil JA, Wong SY, Brown JJ, Urbanek K, ...

• Single-Cell Transcriptional Survey of Ileal-Anal Pouch Immune Cells From Ulcerative Colitis Patients.
  Gastroenterology. 2021 Apr;160(5):1679-1693 Epub 2021 Feb 5; Authors: Devlin JC, Axelrad J, Hine AM, Chang S, Sarkar S, Lin JD, Ruggles KV, ...

• The role of gastrointestinal pathogens in inflammatory bowel disease: a systematic review.
  Therapeutic advances in gastroenterology. 2021;14:17562848211004493 Epub 2021 Mar 31; Authors: Axelrad JE, Cadwell KH, Colombel JF, Shah SC

• Effects of Intestinal Fungi and Viruses on Immune Responses and Inflammatory Bowel Diseases.
  Gastroenterology. 2021 Mar;160(4):1050-1066 Epub 2020 Dec 19; Authors: Iliev ID, Cadwell K

• Nod1 promotes colorectal carcinogenesis by regulating the immunosuppressive functions of tumor-infiltrating myeloid cells.
  Cell reports. 2021 Jan 26;34(4):108677; Authors: Maisonneuve C, Tsang DKL, Foerster EG, Robert LM, Mukherjee T, Prescott D, Tattoli I, ...

• Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition)(1).
  Autophagy. 2021 Jan;17(1):1-382 Epub 2021 Feb 8; Authors: Klionsky DJ, Abdel-Aziz AK, Abdelfatah S, Abdellatif M, Abdoli A, Abel S, Abeliovich H, ...

• Mapping the evolutionary landscape of Zika virus infection in immunocompromised mice.
  Virus evolution. 2020 Jul;6(2):veaa092 Epub 2020 Dec 11; Authors: Johnson KEE, Noval MG, Rangel MV, De Jesus E, Geber A, Schuster S, Cadwell K, ...

• Paneth Cell-Derived Lysozyme Defines the Composition of Mucolytic Microbiota and the Inflammatory Tone of the Intestine.
  Immunity. 2020 Aug 18;53(2):398-416.e8; Authors: Yu S, Balasubramanian I, Laubitz D, Tong K, Bandyopadhyay S, Lin X, Flores J, ...

• A single early-in-life antibiotic course increases susceptibility to DSS-induced colitis.
  Genome medicine. 2020 Jul 25;12(1):65; Authors: Ozkul C, Ruiz VE, Battaglia T, Xu J, Roubaud-Baudron C, Cadwell K, Perez-Perez GI, ...

• An intestinal organoid-based platform that recreates susceptibility to T-cell-mediated tissue injury.
  Blood. 2020 Jun 25;135(26):2388-2401; Authors: Matsuzawa-Ishimoto Y, Hine A, Shono Y, Rudensky E, Lazrak A, Yeung F, Neil JA, ...

• Systematic review: gastrointestinal infection and incident inflammatory bowel disease.
  Alimentary pharmacology & therapeutics. 2020 Jun;51(12):1222-1232 Epub 2020 May 5; Authors: Axelrad JE, Cadwell KH, Colombel JF, Shah SC

• Rewilding Nod2 and Atg16l1 Mutant Mice Uncovers Genetic and Environmental Contributions to Microbial Responses and Immune Cell Composition.
  Cell host & microbe. 2020 May 13;27(5):830-840.e4 Epub 2020 Mar 24; Authors: Lin JD, Devlin JC, Yeung F, McCauley C, Leung JM, Chen YH, Cronkite A, ...

• Altered Immunity of Laboratory Mice in the Natural Environment Is Associated with Fungal Colonization.
  Cell host & microbe. 2020 May 13;27(5):809-822.e6 Epub 2020 Mar 24; Authors: Yeung F, Chen YH, Lin JD, Leung JM, McCauley C, Devlin JC, Hansen C, ...

• Gut epithelial TSC1/mTOR controls RIPK3-dependent necroptosis in intestinal inflammation and cancer.
  The Journal of clinical investigation. 2020 Apr 1;130(4):2111-2128; Authors: Xie Y, Zhao Y, Shi L, Li W, Chen K, Li M, Chen X, ...

• Autophagy and microbial pathogenesis.
  Cell death and differentiation. 2020 Mar;27(3):872-886 Epub 2020 Jan 2; Authors: Keller MD, Torres VJ, Cadwell K

• Decoy exosomes provide protection against bacterial toxins.
  Nature. 2020 Mar;579(7798):260-264 Epub 2020 Mar 4; Authors: Keller MD, Ching KL, Liang FX, Dhabaria A, Tam K, Ueberheide BM, Unutmaz D, ...

• Reinvigorating NIH Grant Peer Review.
  Immunity. 2020 Jan 14;52(1):1-3; Authors: Crotty S, Blish C, Cadwell K, Chi H, Goldrath A, Green D, Kaech SM, ...

• Tumor Necrosis Factor-α-Induced Apoptosis in the Intestinal Epithelium due to Chronic Nuclear Factor Kappa B Signaling Is Mediated by Receptor Interacting Serine/Threonine Kinase 1.
  Cellular and molecular gastroenterology and hepatology. 2020;9(2):337-338 Epub 2019 Nov 16; Authors: Yao X, Cadwell K

• Regulation of interferon signaling in response to gut microbes by autophagy.
  Gut microbes. 2020;11(1):126-134 Epub 2019 May 23; Authors: Martin PK, Cadwell K

• Universal Principled Review: A Community-Driven Method to Improve Peer Review.
  Cell. 2019 Dec 12;179(7):1441-1445; Authors: Krummel M, Blish C, Kuhns M, Cadwell K, Oberst A, Goldrath A, Ansel KM, ...

• IFN-I and IL-22 mediate protective effects of intestinal viral infection.
  Nature microbiology. 2019 Oct;4(10):1737-1749 Epub 2019 Jun 10; Authors: Neil JA, Matsuzawa-Ishimoto Y, Kernbauer-Hölzl E, Schuster SL, Sota S, Venzon M, Dallari S, ...

• Vasculature-associated fat macrophages readily adapt to inflammatory and metabolic challenges.
  The Journal of experimental medicine. 2019 Apr 1;216(4):786-806 Epub 2019 Mar 12; Authors: Silva HM, Báfica A, Rodrigues-Luiz GF, Chi J, Santos PDA, Reis BS, Hoytema van Konijnenburg DP, ...

• Staphylococcus aureus Leukocidins Target Endothelial DARC to Cause Lethality in Mice.
  Cell host & microbe. 2019 Mar 13;25(3):463-470.e9 Epub 2019 Feb 21; Authors: Lubkin A, Lee WL, Alonzo F 3rd, Wang C, Aligo J, Keller M, Girgis NM, ...

• Enteric Infections Are Common in Patients with Flares of Inflammatory Bowel Disease.
  The American journal of gastroenterology. 2018 Oct;113(10):1530-1539 Epub 2018 Aug 3; Authors: Axelrad JE, Joelson A, Green PHR, Lawlor G, Lichtiger S, Cadwell K, Lebwohl B

• Autophagy proteins suppress protective type I interferon signalling in response to the murine gut microbiota.
  Nature microbiology. 2018 Oct;3(10):1131-1141 Epub 2018 Sep 10; Authors: Martin PK, Marchiando A, Xu R, Rudensky E, Yeung F, Schuster SL, Kernbauer E, ...

• There was collusion: Microbes in inflammatory bowel disease.
  PLoS pathogens. 2018 Sep;14(9):e1007215 Epub 2018 Sep 20; Authors: Wong SY, Cadwell K

• Sugar Turns Bacteria Sweet: A Peace Offering in the Gut.
  Cell. 2018 Sep 20;175(1):36-37; Authors: Cadwell K

• The Intestinal Virome and Immunity.
  Journal of immunology (Baltimore, Md. : 1950). 2018 Sep 15;201(6):1615-1624; Authors: Neil JA, Cadwell K

• B Cell Defects Observed in Nod2 Knockout Mice Are a Consequence of a Dock2 Mutation Frequently Found in Inbred Strains.
  Journal of immunology (Baltimore, Md. : 1950). 2018 Sep 1;201(5):1442-1451 Epub 2018 Jul 16; Authors: Wong SY, Coffre M, Ramanan D, Hines MJ, Gomez LE, Peters LA, Schadt EE, ...

• Getting a Taste for Parasites in the Gut.
  Immunity. 2018 Jul 17;49(1):16-18; Authors: Loke P, Cadwell K

• Gut colonization with vancomycin-resistant Enterococcus and risk for subsequent enteric infection.
  Gut pathogens. 2018;10:28 Epub 2018 Jul 9; Authors: Axelrad JE, Lebwohl B, Cuaresma E, Cadwell K, Green PHR, Freedberg DE

• A20 and ABIN-1 team up against intestinal epithelial cell death.
  The Journal of experimental medicine. 2018 Jul 2;215(7):1771-1773 Epub 2018 Jun 22; Authors: Cadwell K

• Autophagy and Inflammation.
  Annual review of immunology. 2018 Apr 26;36:73-101 Epub 2017 Nov 16; Authors: Matsuzawa-Ishimoto Y, Hwang S, Cadwell K

• Tropism for tuft cells determines immune promotion of norovirus pathogenesis.
  Science (New York, N.Y.). 2018 Apr 13;360(6385):204-208; Authors: Wilen CB, Lee S, Hsieh LL, Orchard RC, Desai C, Hykes BL Jr, McAllaster MR, ...

• Beyond self-eating: The control of nonautophagic functions and signaling pathways by autophagy-related proteins.
  The Journal of cell biology. 2018 Mar 5;217(3):813-822 Epub 2017 Dec 13; Authors: Cadwell K, Debnath J

• Myeloid ATG16L1 does not affect adipose tissue inflammation or body mass in mice fed high fat diet.
  Obesity research & clinical practice. 2018 Mar-Apr;12(2):174-186 Epub 2017 Nov 2; Authors: Litwinoff EMS, Gold MY, Singh K, Hu J, Li H, Cadwell K, Schmidt AM

• Autophagy protein ATG16L1 prevents necroptosis in the intestinal epithelium.
  The Journal of experimental medicine. 2017 Dec 4;214(12):3687-3705 Epub 2017 Oct 31; Authors: Matsuzawa-Ishimoto Y, Shono Y, Gomez LE, Hubbard-Lucey VM, Cammer M, Neil J, Dewan MZ, ...

• A single early-in-life macrolide course has lasting effects on murine microbial network topology and immunity.
  Nature communications. 2017 Sep 11;8(1):518; Authors: Ruiz VE, Battaglia T, Kurtz ZD, Bijnens L, Ou A, Engstrand I, Zheng X, ...

• Tregs restrain dendritic cell autophagy to ameliorate autoimmunity.
  The Journal of clinical investigation. 2017 Jun 30;127(7):2789-2804 Epub 2017 Jun 5; Authors: Alissafi T, Banos A, Boon L, Sparwasser T, Ghigo A, Wing K, Vassilopoulos D, ...

• Crosstalk between autophagy and inflammatory signalling pathways: balancing defence and homeostasis.
  Nature reviews. Immunology. 2016 Nov;16(11):661-675 Epub 2016 Oct 3; Authors: Cadwell K

• Antibiotic-mediated gut microbiome perturbation accelerates development of type 1 diabetes in mice.
  Nature microbiology. 2016 Aug 22;1(11):16140; Authors: Livanos AE, Greiner TU, Vangay P, Pathmasiri W, Stewart D, McRitchie S, Li H, ...

• Helminth infection promotes colonization resistance via type 2 immunity.
  Science (New York, N.Y.). 2016 Apr 29;352(6285):608-12 Epub 2016 Apr 14; Authors: Ramanan D, Bowcutt R, Lee SC, Tang MS, Kurtz ZD, Ding Y, Honda K, ...

• Intrinsic Defense Mechanisms of the Intestinal Epithelium.
  Cell host & microbe. 2016 Apr 13;19(4):434-41 Epub 2016 Mar 31; Authors: Ramanan D, Cadwell K

• Guidelines for the use and interpretation of assays for monitoring autophagy (3rd edition).
  Autophagy. 2016;12(1):1-222; Authors: Klionsky DJ, Abdelmohsen K, Abe A, Abedin MJ, Abeliovich H, Acevedo Arozena A, Adachi H, ...

• Ubiquilin 1 Promotes IFN-γ-Induced Xenophagy of Mycobacterium tuberculosis.
  PLoS pathogens. 2015 Jul;11(7):e1005076 Epub 2015 Jul 30; Authors: Sakowski ET, Koster S, Portal Celhay C, Park HS, Shrestha E, Hetzenecker SE, Maurer K, ...

• The virome in host health and disease.
  Immunity. 2015 May 19;42(5):805-13; Authors: Cadwell K

• Autophagy mediates tolerance to Staphylococcus aureus alpha-toxin.
  Cell host & microbe. 2015 Apr 8;17(4):429-40 Epub 2015 Mar 26; Authors: Maurer K, Reyes-Robles T, Alonzo F 3rd, Durbin J, Torres VJ, Cadwell K

• Expanding the role of the virome: commensalism in the gut.
  Journal of virology. 2015 Feb;89(4):1951-3 Epub 2014 Dec 10; Authors: Cadwell K

• Gastrointestinal dissemination and transmission of Staphylococcus aureus following bacteremia.
  Infection and immunity. 2015 Jan;83(1):372-8 Epub 2014 Nov 10; Authors: Kernbauer E, Maurer K, Torres VJ, Shopsin B, Cadwell K

• Autophagy is a key tolerance mechanism during Staphylococcus aureus infection.
  Autophagy. 2015;11(7):1184-6; Authors: Maurer K, Torres VJ, Cadwell K

• An enteric virus can replace the beneficial function of commensal bacteria.
  Nature. 2014 Dec 4;516(7529):94-8 Epub 2014 Nov 19; Authors: Kernbauer E, Ding Y, Cadwell K

• Autophagy, viruses, and intestinal immunity.
  Current opinion in gastroenterology. 2014 Nov;30(6):539-46; Authors: Kernbauer E, Cadwell K

• Autophagy gene Atg16L1 prevents lethal T cell alloreactivity mediated by dendritic cells.
  Immunity. 2014 Oct 16;41(4):579-91 Epub 2014 Oct 9; Authors: Hubbard-Lucey VM, Shono Y, Maurer K, West ML, Singer NV, Ziegler CG, Lezcano C, ...

• Bacterial sensor Nod2 prevents inflammation of the small intestine by restricting the expansion of the commensal Bacteroides vulgatus.
  Immunity. 2014 Aug 21;41(2):311-24 Epub 2014 Jul 31; Authors: Ramanan D, Tang MS, Bowcutt R, Loke P, Cadwell K

• Autophagy facilitates Salmonella replication in HeLa cells.
  mBio. 2014 Mar 11;5(2):e00865-14; Authors: Yu HB, Croxen MA, Marchiando AM, Ferreira RB, Cadwell K, Foster LJ, Finlay BB

• Autophagy proteins control goblet cell function by potentiating reactive oxygen species production.
  The EMBO journal. 2013 Dec 11;32(24):3130-44 Epub 2013 Nov 1; Authors: Patel KK, Miyoshi H, Beatty WL, Head RD, Malvin NP, Cadwell K, Guan JL, ...

• Autophagy meets phagocytosis.
  Immunity. 2013 Sep 19;39(3):425-7; Authors: Cadwell K, Philips JA

• A deficiency in the autophagy gene Atg16L1 enhances resistance to enteric bacterial infection.
  Cell host & microbe. 2013 Aug 14;14(2):216-24; Authors: Marchiando AM, Ramanan D, Ding Y, Gomez LE, Hubbard-Lucey VM, Maurer K, Wang C, ...

• Bacteria, it's what's for dinner.
  Cell host & microbe. 2013 Jun 12;13(6):627-8; Authors: Cadwell K

• FIP200 regulates targeting of Atg16L1 to the isolation membrane.
  EMBO reports. 2013 Mar 1;14(3):284-91 Epub 2013 Feb 8; Authors: Nishimura T, Kaizuka T, Cadwell K, Sahani MH, Saitoh T, Akira S, Virgin HW, ...

• Atg16L1 deficiency confers protection from uropathogenic Escherichia coli infection in vivo.
  Proceedings of the National Academy of Sciences of the United States of America. 2012 Jul 3;109(27):11008-13 Epub 2012 Jun 19; Authors: Wang C, Mendonsa GR, Symington JW, Zhang Q, Cadwell K, Virgin HW, Mysorekar IU

• Guidelines for the use and interpretation of assays for monitoring autophagy.
  Autophagy. 2012 Apr;8(4):445-544; Authors: Klionsky DJ, Abdalla FC, Abeliovich H, Abraham RT, Acevedo-Arozena A, Adeli K, Agholme L, ...

• Viruses, autophagy genes, and Crohn's disease.
  Viruses. 2011 Jul;3(7):1281-311 Epub 2011 Jul 21; Authors: Hubbard VM, Cadwell K

• Crohn's disease susceptibility gene interactions, a NOD to the newcomer ATG16L1.
  Gastroenterology. 2010 Nov;139(5):1448-50 Epub 2010 Sep 25; Authors: Cadwell K

• Virus-plus-susceptibility gene interaction determines Crohn's disease gene Atg16L1 phenotypes in intestine.
  Cell. 2010 Jun 25;141(7):1135-45; Authors: Cadwell K, Patel KK, Maloney NS, Liu TC, Ng AC, Storer CE, Head RD, ...

• Identification of Atg5-dependent transcriptional changes and increases in mitochondrial mass in Atg5-deficient T lymphocytes.
  Autophagy. 2009 Jul;5(5):625-35 Epub 2009 Jul 10; Authors: Stephenson LM, Miller BC, Ng A, Eisenberg J, Zhao Z, Cadwell K, Graham DB, ...

• Quantitation of selective autophagic protein aggregate degradation in vitro and in vivo using luciferase reporters.
  Autophagy. 2009 May;5(4):511-9 Epub 2009 May 6; Authors: Ju JS, Miller SE, Jackson E, Cadwell K, Piwnica-Worms D, Weihl CC

• A common role for Atg16L1, Atg5 and Atg7 in small intestinal Paneth cells and Crohn disease.
  Autophagy. 2009 Feb;5(2):250-2 Epub 2009 Feb 8; Authors: Cadwell K, Patel KK, Komatsu M, Virgin HW 4th, Stappenbeck TS

• Role of autophagy and autophagy genes in inflammatory bowel disease.
  Current topics in microbiology and immunology. 2009;335:141-67; Authors: Cadwell K, Stappenbeck TS, Virgin HW

• A key role for autophagy and the autophagy gene Atg16l1 in mouse and human intestinal Paneth cells.
  Nature. 2008 Nov 13;456(7219):259-63 Epub 2008 Oct 5; Authors: Cadwell K, Liu JY, Brown SL, Miyoshi H, Loh J, Lennerz JK, Kishi C, ...

• Autophagosome-independent essential function for the autophagy protein Atg5 in cellular immunity to intracellular pathogens.
  Cell host & microbe. 2008 Nov 13;4(5):458-69; Authors: Zhao Z, Fux B, Goodwin M, Dunay IR, Strong D, Miller BC, Cadwell K, ...

• The autophagy gene ATG5 plays an essential role in B lymphocyte development.
  Autophagy. 2008 Apr;4(3):309-14 Epub 2007 Dec 24; Authors: Miller BC, Zhao Z, Stephenson LM, Cadwell K, Pua HH, Lee HK, Mizushima NN, ...

• The specificities of Kaposi's sarcoma-associated herpesvirus-encoded E3 ubiquitin ligases are determined by the positions of lysine or cysteine residues within the intracytoplasmic domains of their targets.
  Journal of virology. 2008 Apr;82(8):4184-9 Epub 2008 Feb 13; Authors: Cadwell K, Coscoy L

• Ubiquitination on nonlysine residues by a viral E3 ubiquitin ligase.
  Science (New York, N.Y.). 2005 Jul 1;309(5731):127-30; Authors: Cadwell K, Coscoy L