Natural infection with Giardia is associated with altered community structure of the human and canine gut microbiome

Berry ASF, Johnson K, Martins R, Sullivan M, Amorim CF, Putre A, Scott A, Wang S, Lindsay B, Baldassano R, Nolan TJ, Beiting DP. mSphere. Aug 05 2020. PDF | Code

Activation of p38α stress-activated protein kinase drives the formation of the pre-metastatic niche in the lungs

Gui J, Zahedi F, Ortiz A, Cho C, Katlinski KV, Alicea-Torres K, Li J, Todd L, Zhang H, Beiting DP, Sander C, Kirkwood JM, Snow BE, Wakeham AC, Mak TW, Diehl JA, Koumenis C, Ryeom SW, Stanger BZ, Puré E, Gabrilovich DI, Fuchs SY Nature Cancer. May 25 2020 PDF.

Xenosiderophore utilization promotes Bacteroides thetaiotaomicron resilience during colitis

Zhu W, Winter MG, Spiga L, Hughes ER, Chanin R, Mulgaonkar A, Pennington J, Maas M, Behrendt CL, Kim J, Sun X, Beiting DP, Hooper LV, Winter S Cell Host Microbe. Feb 18 2020 PDF.

The parasite kinase ROP16 is a key virulence factor that acts in cis and trans and mediates suppression of T cell responses

Chen L*, Christian DA*, Kochanowsky JA, Phan AT, Clark J, Wang S, Berry C, Oh J, Chen X, Roos DS, Beiting DP, Koshy AA, Hunter CA. Journal of Experimental Medicine. Jan 20 2020 PDF.


OHMI: The Ontology of Host-Microbiome Interactions

He Y, Wang H, Zheng J, Beiting DP, Masci AM, Yu H, Curtis JL, Smith B, Alekseyenko AV, Obeid JS Journal of Biomedical Semantics. Dec 30 2019 PDF.

Variable gene expression and parasite load predict treatment outcome in cutaneous leishmaniasis

Amorim CF, Novais FO, Nguyen B, Misic AM, Carvalho LP, Carvalho EM, Beiting DP*, Scott P*. Science Translational Medicine. Nov 20; 2019 PDF | Code

Lifecycle progression and sexual development of the apicomplexan parasite Cryptosporidium parvum

Tandel J, English ED, Sateriale A, Gullicksrud JA, Beiting DP, Sullivan MC, Pinkston B, Striepen B Nature Microbiology. Sept 02; 2019. PDF | Code

Diet-induced remission in chronic enteropathy is associated with altered microbial community structure and synthesis of secondary bile acids

Wang S, Martins R, Sullivan MC, Friedman ES, Misic AM, El-Fahmawi A, De Martinis ECP, O’Brien K, Chen Y, Bradley C, Zhang G, Berry ASF, Hunter CA, Baldassano RN, Rondeau MP, Beiting DP. Microbiome. Aug 31; 2019. PDF | . Code

Gut microbiota features associated with Clostridioides difficile colonization in puppies

Berry ASF, Kelly BJ, Barnhart D, Kelly DJ, Beiting DP, Baldassano RN, Redding LE. PLOS One. Aug 30; 2019. PDF.

Fibroblast activation protein restrains adipogenic differentiation and regulats matrix-mediated mTOR signaling

Blomberg R, Beiting DP, Wabitsch M, Puré E. Matrix Biology. July 17; 2019. PDF.

Infection-Induced Intestinal Dysbiosis Is Mediated by Macrophage Activation and Nitrate Production

Wang S, El-Fahmawi A, Christian DA, Fang Q, Radaelli E, Chen L, Sullivan MC, Misic AM, Ellringer JA, Zhu XQ, Winter SE, Hunter CA*, Beiting DP*. MBio. May 28; 2019. PDF.

IL-27 and TCR Stimulation Promote T Cell Expression of Multiple Inhibitory Receptors

DeLong JH, O’Hara Hall A, Rausch M, Moodley D, Perry J, Park J, Phan AT, Beiting DP, Kedl RM, Hill JA, Hunter CA. ImmunoHorizons. Jan 01; 2019. PDF.


Alarmin S100A11 initiates a chemokine response to the human pathogen Toxoplasma gondii

Safronova A, Araujo A, Camanzo ET, Moon TJ, Elliott MR, Beiting DP, Yarovinsky F Nature Immunology. Nov 19; 2018. PDF.

Glycolysis is important for optimal asexual growth and formation of mature tissue cysts by Toxoplasma gondii

Shukla A, Olszewski KL, Llinás M, Rommereim LM, Fox BA, Bzik DJ, Xia D, Wastling J, Beiting D, Roos DS, Shanmugam D. International journal for parasitology. Aug 31; 2018. PDF.

The maternal vaginal microbiome partially mediates the effects of prenatal stress on offspring gut and hypothalamus.

Jasarevic E, Howard CD, Morrison KE, Misic AM, Weinkopff T, Scott P, Hunter CA, Beiting DP, Bale TL Nature Neuroscience. July 9; 2018

Culture-independent profiling of the stool microbiome to identify microbial species associated with a diarrheal outbreak in an immunocompromised mouse colony.

Misic AM, Miedel EL, Brice AK, Cole S, Zhang GF, Dyer CD, Secreto A, Smith AL, Danet-Desnoyers G, Beiting DP Comparative Medicine. June 13; 2018

Commensal microbes induce serum IgA responses that protect against polymicrobial sepsis.

Wilmore JR, Gaudette BT, Gomez Atria D, Hashemi T, Jones DD, Gardner CA, Cole SD, Misic A, Beiting DP, Allman D Cell Host Microbe. Feb 22; 2018

CD8+ T cells lack local signals to produce IFN-γ in the skin during leishmania infection.

Novais FO, Wong AC, Villarea DO, Beiting DP, Scott P Journal of Immunology. Jan 24; 2018

MicrobiomeDB: a systems biology platform for integrating, mining and analyzing microbiome experiments

Oliveira F, Brestelli J, Cade S, Zheng J, Iodice J, Fisher S, Aurrecoechea C, Kissinger JC, Brunk BP, Stoeckert Jr., CJ, Fernandes GR, Roos DS*, Beiting DP* (asterisk denotes co-corresponding authors) Nucleic Acids Research. Jan 4; 2018


Involvement of Innate Immune System in Late Stages of Inherited Photoreceptor Degeneration.

Sudharsan R, Beiting DP, Aguirre GD, Beltran, WA Scientific Reports. Dec 20; 2017

Replication Defective Viral Genomes Exploit A Cellular Pro-Survival Mechanism To Establish Viral Persistence.

Xu J, Sun Y, Li Y, Ruthel G, Weiss SR, Raj A, Beiting DP, Lopez C Nature Communications. Oct 6; 2017

An oxidative central metabolism enables Salmonella to utilize microbiota-derived succinate.

Spiga L, Winter MG, Furtado de Carvalho T, Zhu W, Hughes ER, Gillis CC, Chanin R, Behrendt CL, Kim J, Chessa D, Andrews-Polymenis H, Beiting DP, Santos RL, Hooper LV, Winter SE Cell Host and Microbe. Sept 13; 2017

Cutaneous leishmaniasis induces a transmissible dysbiotic skin microbiome that promotes increased skin inflammation.

Gimblet C, Meisel JS, Loesche MA, Cole SD, Horwinski J, Novais FO, Misic AM, Bradley CW, Beiting DP, Rankin SC, Carvalho LP, Scott P, Grice EA Cell Host and Microbe. July 12; 2017

Stress during pregnancy alters temporal and spatial dynamics of the maternal and offspring microbiome in a sex-specific manner

Jasarevic E, Howard CD, Misic AM, Beiting DP, and Bale TL Scientific Reports. Mar 7; 2017

T Regulatory Cells Support Plasma Cell Populations in the Bone Marrow.

Glatman Zaretsky A, Konradt C, Dépis F, Wing JB, Goenka R, Gomez Atria D, Silver JS, Cho S, Wolf AI, Quinn WJ, Engiles JB, Brown DC, Beiting DP, Erikson J, Allman D, Cancro MP, Sakaguchi S, Lu L, Benoist CO, Hunter CA Cell Reports. Feb 21; 2017

CD8 T cell cytotoxicity mediates pathology in the skin by inflammasome activation and IL-1β production.

Novais FO, Carvalho AM, Carvalho LP, Beiting DP, Brodsky IE, Carvalho EM, Scott P PLOS Pathogens. Feb 13; 2017

Inactivation of interferon receptor promotes the establishment of immune privileged tumor microenvironment.

Katlinski KV, Gui J, Katlinskaya KV, Ortiz A, Chakraborty R, Bhattacharya S, Carbone CC, Beiting DP, Girondo MA, Peck AR, Puré E, Chatterji P, Rustgi AK, Diehl JA, Koumenis C, Rui H and Fuchs SY Cancer Cell. Feb 13; 2017


STAT1 signaling in astrocytes is essential for control of Toxoplasma gondii in the central nervous system.

Hidano S, Randall LM, Dawson L, Dietrich HK, Konradt C, Klover PJ, John B, Harris TH, Fang Q, Turek B, Kobayashi T, Hennighausen L, Beiting DP, Koshy A, Hunter CA MBio. Nov 8; 2016

Activity of uncleaved caspase-8 controls anti-bacterial immune defense and TLR-induced cytokine production independent of cell death.

Philip NH, DeLaney A, Santos-Marerro M, Grier J, Sun Y, Wynosky-Dolfi M, Peterson L, Zwack EE, Hu B, Olson TM, Rongvaux A, Pope SD, Lopez CB, Oberst A, Beiting DP, Henao-Mejia J, Brodsky IE PLOS Pathogens. Oct 13; 2016

Meta-transcriptome profiling of the human-Leishmania braziliensis cutaneous lesion.

Christensen S, Dillon LAL, Carvalho LP, Passos S, Novais F, Hughitt K, Beiting DP, Carvalho EM, Scott P, El-Sayed NM and Mosser DM PLOS Neglected Tropical Diseases. Sept 15; 2016

Cutting Edge: IL-4, IL-21, and IFN-g Interact to Govern TBET and CD11c Expression in TLR-Activated B Cells.

Naradikian MS, Myles A, Beiting DP, Roberts KJ, Dawson L, Herati RS, Bengsch B, Linderman SL, Stelekati E, Spolski R, Wherry EJ, Hunter C, Hensley SE, Leonard WJ, Cancro MP. Cutting Edge: Journal of Immunology. July 18; 2016

Suppression of type I interferon signaling overcomes the oncogene-induced senescence and mediates melanoma development and progression.

Katlinskaya YV, Katlinski KV, Yu Q, Ortiz A, Beiting DP, Brice A, Davar D, Sanders C, Kirkwood JM, Rui H, Xu X, Koumenis C, Diehl JA, Fuchs SY Cell Reports. April 5; 2016

T Cell Receptor-Induced NF-kB signaling and transcriptional activation are regulated by STIM1- and Orai1-mediated calcium entry.

Liu X, Berry CT, Ruthel G, Madara JJ, MacGillivray K, Gray CM, Madge LA, McCorkell KA, Beiting DP, Hershberg U, May MJ and Freedman BD J Biol Chem. Jan 29; 2016

Type I Interferons Control Proliferation and Function of Intestinal Epithelium.

Katlinskaya YV, Katlinski KV, Lasri A, Li N, Beiting DP, Durham AC, Yang T, Pikarsky E, lengner CJ, Johnson BF, Ben-Neriah Y, Fuchs SY Mol Cell Biol. Jan 25; 2016


IL-4 dependent, eosinophil-mediated support of nematode growth occurs in the context of an innate response to tissue injury.

Huang L, Beiting DP, Gebreselassie NG, Gagliardo LF, Ruyechan MC, lee NA, lee JJ, Appleton JA PLOS Pathogens. Dec 31;11(12)

image selected as PLOS Pathogens feature image for Jan 2016

Genome sequencing reveals clonal dynamics of methicillin-resistant Staphylococcus aureus in the same household in the context of clinical disease in a person and a dog

Davis MF, Misic AM, Morris DO, Moss JT, Tolomeo P, Beiting DP, Nachamkin I, Lautenbach E, Rankin SC Veterinary Microbiology. Nov 18;180(3-4):304-7

Skin Resident Memory CD4+ T Cells Enhance Protection Against leishmania major Infection.

Glennie ND, Yeramilli VA, Beiting DP, Volk SW, Weaver CT, Scott P Journal of Experimental Medicine. vol. 212 no. 9

also see symposis titled Skin-resident T cells keep parasites on a leish

The Orphan Nuclear Receptor TLX is an Enhancer of STAT1-mediated Transcription and Immunity to Toxoplasma gondii.

Beiting DP, Hidano S, Baggs JE, Geskes JM, Wherry EJ, Fang Q, Hunter CA, Roos DS, Cherry S PLOS Biology. Jul 21;13(7)

also see symposis titled Tuning up STAT1


Matrix metalloproteinase 9 production by monocytes is enhanced by TNF-α and participates in the pathology of human cutaneous leishmaniasis.

Campos TM, Passos ST, Novais FO, Beiting DP, Costa RS, Queiroz A, Mosser D, Scott P, Carvalho EM, and Carvalho LP PLOS Neglected Tropical Diseases. Nov 13;8(11)

Intermediate monocytes contribute to pathologic immune response during leishmania braziliensis infection.

Passos S, Carvalho LP, Costa RS, Campos TM, Novais FO, Magalhaes A, Machado PRL, Beiting DP, Mosser D, Carvalho EM, Scott P Journal of Infectious Diseases. Jan 15;211(2):274-82

Protozoan Parasites and Type I Interferon: A Cold Case Reopened.

Beiting DP Trends in Parasitology. Oct;30(10):491-8

Genomic Profiling of human leishmania braziliensis lesions identifies transcriptional modules associated with cutaneous immunopathology.

Novais FO, Carvalho LP, Passos S, Roos DS, Carvalho EM, Scott P, Beiting DP Journal of Investigative Dermatology. Jan;135(1):94-101

Bystander chronic infection negatively impacts development of CD8+ T cell memory.

Stelekati E, Shin H, Doering TA, Dolfi DV, Ziegler CG, Beiting DP, Dawson L, Liboon J, Wolski D, Ali MA, Katsikis PD, Shen H, Roos DS, Haining WN, Lauer GM, and Wherry EJ Immunity. May 15;40(5):801-13

Differential Induction of TLR3-dependent Innate Immune Signaling by Closely Related Parasite Species.

Beiting DP, Peixoto L, Akopyants NS, Beverley SM, Wherry EJ, Christian DA, Hunter CA, Brodsky IE, Roos DS PLOS One. Feb 5;9(2)

Human Classical Monocytes Control the Intracellular Stage of leishmania braziliensis by Reactive Oxygen Species.

Novais FO, Nguyen BT, Beiting DP, Carvalho LP, Glennie ND, Passos S, Carvalho EM, Scott P Journal of Infectious Diseases. Apr 15;209(8):1288-96


Cytotoxic T cells Mediate Pathology and Metastasis in Cutaneous leishmaniasis.

Novais FO, Carvalho LP, Graff JW, Beiting DP, Ruthel G, Roos DS, Betts MR, Goldschmidt MH, Wilson ME, de Oliveira, Scott P PLOS Pathogens. July;9(7)

2012 and earlier

The cytokines interleukin 27 and interferon-γ promote distinct Treg cell populations required to limit infection-induced pathology.

Hall, AO, Beiting DP, C Tato, B John, G Oldenhove, CG Lombana, GH Pritchard, JS Silver, N Bouladoux, JS Stumhofer, TH Harris, J Grainger, EDT Wojno, S Wagage, DS Roos, P Scott, L A Turka, S Cherry, SL Reiner, D Cua, Y Belkaid, MM Elloso, and CA Hunter Immunity. Sep 21;37(3):511-23

Natural resistance-associated macrophage protein is a cellular receptor for sindbis virus in both insect and mammalian hosts.

Rose PP, SL Hanna, A Spiridigliozzi, N Wannissorn, Beiting DP, SR Ross, RW Hardy, SA Bambina, MT Heise, and S Cherry Cell Host and Microbe. Aug 18;10(2):97-104

A systems biological view of intracellular pathogens.

Beiting DP, and DS Roos Immunological Reviews. Mar;240(1):117-28

Integrative genomic approaches highlight a family of parasite-specific kinases that regulate host responses.

Peixoto L, F Chen, OS Harb, PH Davis, Beiting DP, CS Brownback, D Ouloguem, and DS Roos Cell Host and Microbe. Aug 19;8(2):208-18

Apicomplexan parasites co-opt host calpains to facilitate their escape from infected cells.

Chandramohanadas R, PH Davis, Beiting DP, MB Harbut, C Darling, G Velmourougane, MY lee, PA Greer, DS Roos, and DC Greenbaum Science. May 8;324(5928):794-7

Eosinophil deficiency compromises parasite survival in chronic nematode infection.

Fabre V, Beiting DP, SK Bliss, NG Gebreselassie, LF Gagliardo, NA lee, JJ lee, and JA Appleton The Journal of Immunology. Feb 1;182(3):1577-83

Immunity to Trichinella spiralis muscle infection.

Fabre MV*, Beiting DP*, SK Bliss, and JA Appleton Veterinary Parasitology. Feb 23;159(3-4):245-8

*Co-first authors

IL-10 regulates movement of intestinally derived CD4+ T cells to the liver.

Bliss SK, SP Bliss, Beiting DP, A Alcaraz, and JA Appleton The Journal of Immunology. Jun 15;178(12):7974-83

Coordinated control of immunity to muscle stage Trichinella spiralis by IL-10, regulatory T cells, and TGF-beta.

Beiting DP, LF Gagliardo, M Hesse, SK Bliss, D Meskill, and JA Appleton The Journal of Immunology. Jan 15;178(2):1039-47

Interleukin-10 limits local and body cavity inflammation during infection with muscle-stage Trichinella spiralis.

Beiting DP, SK Bliss, DH Schlafer, VL Roberts, and JA Appleton Infection and Immunity. Jun;72(6):3129-37

A putative serine protease among the excretory-secretory glycoproteins of L1 Trichinella spiralis.

Romaris F, S North, LF Gagliardo, B Butcher, K Ghosh, Beiting DP, M Panico, P Arasu, A Dell, HR Morris, JA Appleton Mol Biochem Parasitol. Jul;122(2):149-60

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