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Medical Sciences; Health Sciences

Marcio Costa

L'interaction entre les animaux domestiques et leur microbiome.

Professeur agrégé

Faculté de médecine vétérinaire - Département de biomédecine vétérinaire

Pavillon 3200, rue Sicotte - Aile A, room 3980

514 343-6111 #37397

Secondary number: 450 773-8521 #37397 (Travail 1)


Awards and recognitions

  • XXIX World Buiatrics Congress Scholarship (2016)
  • Best research abstract ACVIM Forum (2013)
  • ESCMID Travel Grant (2010)
  • OVC PhD Fellowship (2010)
  • Best research abstract ACVIM Forum (2009)
  • XXV World Buiatrics Congress Scholarship (2008)
  • OVC'49 and Dr. Ray Cormack Graduate Entrance Scholarship (2008)
  • CNPq Master’s Fellowship (2006)


  • 2014 — PhD — — University of Guelph
  • 2010 — DVSc — — University of Guelph
  • 2003 — DVM — Médecine vétérinaireUniversity of Londrina

Affiliations and responsabilities

Professional titles and affiliations

Titles: corporations and professional organizations

Morris Animal Foundation (Large Animal Scientific Advisory Board)

Teaching and supervision

Student supervision

Theses and dissertation supervision (Papyrus Institutional Repository)


Research projects

2022 - 2029

Appui au Centre de recherche en infectiologie porcine et avicole (CRIPA)

Lead researcher : Mariela Segura
Funding sources: Fédération des producteurs d'oeufs du Québec
Grant programs:
2022 - 2029

Centre de Recherche en Infectiologie Porcine et Avicole (CRIPA)

Lead researcher : Mariela Segura
Funding sources: FRQNT/Fonds de recherche du Québec - Nature et technologies (FQRNT)
Grant programs: PVXXXXXX-(RS) Programme de regroupements stratégiques
2022 - 2029

Appui au Centre de recherche en infectiologie porcine et avicole (CRIPA)

Lead researcher : Mariela Segura
Funding sources: PORCIMA
Grant programs:
2022 - 2029

Appui au Centre de recherche en infectiologie porcine et avicole (CRIPA)

Lead researcher : Mariela Segura
Funding sources: Producteurs d'œufs d'incubation du Qc
Grant programs:
2021 - 2027

Intestinal Microbiota manipulation used to improve public and animal health.

Lead researcher : Marcio Costa
Funding sources: Université de Montréal
Grant programs: PVXXXXXX-FEI sans restriction
2022 - 2025

Nouvelles Initiatives du CRIPA en partenariat avec IRSST

Lead researcher : Mariela Segura
Funding sources: IRSST/Institut de recherche Robert-Sauvé en santé et en sécurité du travail
Grant programs: PVXXXXXX-Programme de recherche
2022 - 2025

Appui au Centre de recherche en infectiologie porcine et avicole (CRIPA)

Funding sources: Municipalité régionale de comté des Maskoutains
Grant programs:
2022 - 2024

Development of a bacterial ecosystem to improve poultry health and performance

Funding sources: Conseil De Recherche Avicoles Du Canada
Grant programs:
2022 - 2024

Detection of microbiota profiles related to resistance to necrotic enteritis in chickens

Lead researcher : Marcio Costa
Funding sources: MITACS Inc.
Grant programs: PVXXXXXX-Stage Accélération Québec - MITACS
2021 - 2023

Intestinal Microbiota manipulation used to improve public and animal health.

Lead researcher : Marcio Costa
Funding sources: FCI/Fondation canadienne pour l'innovation
Grant programs: PVXXXXXX-Fonds des leaders
2020 - 2023

Utilisation de culturomics pour améliorer la santé intestinale chez les poulets

Lead researcher : Marcio Costa
2020 - 2022

Detection of fecal microbiota imbalances to predict calf diarrhea

Lead researcher : Marcio Costa
Co-researchers : Gilles Fecteau , Sébastien Buczinski
Funding sources: Zoetis Canada Inc.
Grant programs:
2019 - 2022

Improving Fecal Microbiota Transplantation in Horses.

Lead researcher : Marcio Costa , Luis Arroyo
Funding sources: Equine Guelph
Grant programs:
2020 - 2021

Special Issue - Equine Microbiota

Lead researcher : Marcio Costa


Publications and presentations


  • WINSTON et al., Clinical Guidelines for Fecal Microbiota Transplantation in Companion Animals. 2024, Advances in Small Animal Care (accepted).

  • SANTOS BP, LISBÔA JAN, BESSEGATTO JA, MONTEMOR CH, PAULINO LR, ALFIERI AA,  WEESE JS, COSTA MC. Impact of Virginiamycin on the Ruminal Microbiota of Feedlot Cattle, 2023 CJVR (accepted).

  • ZANGIROLAMO AF, SOUZA AK, YOKOMIZO DN, MIGUEL AKA, COSTA MC, ALFIERI AA AND SENEDA MM. Fertility and reproductive microbiome in cows: Updates and current challenges. 2024, Animals (accepted).

  • BESSEGATTO JA, LISBÔA JAN, SANTOS BP, CURTI JM, MONTEMOR C, ALFIERI AA, MACH N, COSTA MC. Fecal Microbial Communities of Nellore and Crossbred Beef Calves Raised at Pasture. Animals. 2024; 14(10):1447.

  • BOUCHER, L.; LEDUC, L.; LECLÈRE, M.; COSTA, M.C. Current Understanding of Equine Gut Dysbiosis and Microbiota Manipulation Techniques: Comparison with Current Knowledge in Other Species. Animals (Basel). 2024; 14, 758.

  • LEDUC L, COSTA M, LECLÈRE M. The Microbiota and Equine Asthma: An Integrative View of the Gut-Lung Axis. Animals (Basel). 2024 Jan 13;14(2):253.

  • BERGERON CC, COSTA MC, SEGURA M, SOUZA LB, BLEUZÉ M, SAUVÉ F. Bacterial microbiota and proinflammatory cytokines in the anal sacs of treated and untreated atopic dogs: Comparison with a healthy control group. PLoS One, 2024, Accepted.

  • LACHAPELLE V, COMEAU G, QUESSY S, ZANABRIA R, RHOUMA M, VAN VONDEREN T, SNELGROVE P, and et al. 2024. "The Development of a Risk Assessment Model for Inedible Rendering Plants in Canada: Identifying and Selecting Feed Safety-Related Factors" Animals 14, no. 7: 1020.

  • FRANCO, L; BOULIANNE, M; PARENT, E; BARJESTEH, N; COSTA, MC. Colonization of the Gastrointestinal Tract of Chicks with Different Bacterial Microbiota Profiles. Animals 2023, 13, 2633.

  • SOUZA AK, ZANGIROLAMO AF, DROHER RG, BONATO FGC, ALFIERI AA, CARVALHO DA COSTA M, SENEDA MM. Investigation of the vaginal microbiota of dairy cows through genetic sequencing of short (Illumina) and long (PacBio) reads and associations with gestational status. PLoS One. 2023;18(8):e0290026. doi: 10.1371/journal.pone.0290026.

  • GOMEZ DE, TORIBIO RE, CADDEY B, COSTA MC, VIJAN S, DEMBEK KA Longitudinal Effects of Oral Antimicrobial Drugs on the Equine Fecal Microbiota, Journal of Veterinary Internal Medicine, 2023, accepted.  DOI: 10.1111/jvim.16853

  • LI L, RENAUD DL, GOETZ HM, JESSOP E, COSTA MC, GAMSJÄGER L, GOMEZ DE. Effect of time of sample collection after onset of diarrhea on fecal microbiota composition of calves. J Vet Intern Med. 2023;37(4):1588-1593.

  • RAMOS JS, VILLETTAZ-ROBICHAUD M, ARSENAULT J, CHORFI Y, COSTA MC, DUBUC J, FERRARO S, FRANCOZ D, ROUSSEAU M, FECTEAU G, BUCZINSKI S. Health indicators in surplus calves at the time of arrival at auction markets: associations with distance from farms of origin in Québec, Canada. J Dairy Sci. 2023:S0022-0302(23)00236-9.

  • DI PIETRO R, ARROYO LG, LECLERE M, COSTA MC. Effects of Concentrated Fecal Microbiota Transplant on the Equine Fecal Microbiota Post Antibiotic-Induced Dysbiosis. Canadian Journal of Veterinary Research. 2023; 87(2): 85-96.

  • ARANTES JA, BORGES AS, ZAKIA LS, SURETTE MG, WEESE JS, COSTA MC, ARROYO LG, Effect of dietary iron supplementation on the equine fecal microbiome. Canadian Journal of Veterinary Research. 2023; 87(2): 97-105.

  • ARROYO LG, HODGINS DC, GUEST B, COSTA MC, MA Z, MONTEIRO MA Serum IgM antibody response to Clostridioides difficile polysaccharide PS-II vaccination in pony foals. Anaerobe. 2022;77:102635.

  • BUCZINSKI S, FECTEAU G, CICHOCKI M, FERRARO S, ARSENAULT J, CHORFI Y, COSTA M, DUBUC J, FRANCOZ D, ROUSSEAU M, VILLETTAZ-ROBICHAUD M. Development of a multivariable prediction model to identify dairy calves too young to be transported to auction markets in Canada using simple physical examination and body weight. J Dairy Sci. 2022;105(7):6144-6154

  • LIEPMAN RS, SWINK JM, HABING GG, BOYAKA PN, CADDEY B, COSTA MC, GOMEZ DE, TORIBIO RE. Effects of Intravenous Antimicrobial Drugs on the Equine Fecal Microbiome. Animals (Basel). 2022;12(8):1013.

  • PEREIRA GQ, GOMES LA, ALFIERI AF, COSTA MC, SATO JL Use of fecal microbiota transplantation in dogs with chronic diarrhea after parvovirus: report of two cases, Brazilian Journal of Hygiene and Animal Sanity, 2022, v.16 (3): 1-9.

  • DA SILVA CA, BENTIN LAT, DIAS CP, CALLEGARI MA, FACINA VB, DIAS FTF, PASSOS A, DA SILVA MARTINS CC, COSTA MC. Impact of zinc oxide, benzoic acid and probiotics on the performance and cecal microbiota of piglets. Anim Microbiome. 2021 Dec 20;3(1):86.

  • DI PIETRO R, ARROYO LG, LECLERE M, COSTA MC Species-Level Gut Microbiota Analysis after Antibiotic-Induced Dysbiosis in Horses, Animals (Basel), 2021;11(10):2859.

  • COSTA M, DI PIETRO R, BESSEGATTO JA, PEREIRA PFV, STIEVANI FC, GOMES RG, LISBÔA JAN, WEESE JS. Evaluation of Microbiota Changes After Fecal Microbiota Transplantation in Six Diarrheic Horses. Can Vet J, 2021;62(10):1123-1130.

  • HESTA M, COSTA MC. How can nutrition help with GIT based issues? Veterinary Clinics of North America: Equine Nutrition. 2021; 37(1): 63-87.

  • SANTOS BP, BESSEGATTO JA, ALFIERI AA, LISBOA JAN, WEESE JS, COSTA MC Transfaunation of the ruminal fluid from cows alters ruminal microbiota structure but not dominant protozoa in healthy sheep. Small Ruminant Research, 2021; 194: 106283.
  • BERGERON CC, COSTA MC, BERNARDI DE SOUZA L, SAUVÉ F, Characterization of bacterial microbiota of anal sacs in healthy dogs. Canadian Journal of Veterinary Research, 2021, 85(1):12-17.
  • OLIVEIRA ACD, SOUZA FN, SANT’ANNA FN, FAÚLA LL, CHANDE CG, CORTEZ A, LIBERA AMMPD, COSTA MC, SOUZA MR, HEINEMANN MB, CERQUEIRA MMOP. Temporal and geographical comparison of bulk tank milk and water microbiota composition in Brazilian dairy farms. Food Microbiology, 2021, 98 : 103793.
  • RHOUMA M, LACHAPELLE V, COMEAU G, QUESSY S, ZANABRIA R, PROVOST F, ITALIANO C, HOLLEY R, SMILLIE J, BROCKHOFF E, BOSCH ML, COLLINS S, DUMAS A, CHORFI Y, COSTA MC, GAUCHER ML, RACICOT M. Identification and selection of animal health and food safety-related risk factors to be included in the Canadian Food Inspection Agency's risk assessment model for livestock feed mills. Food Control, 2021, v.121, 107642
  • LACHAPELLE V, RACICOT M, COMEAU G, RHOUMA M, LEROUX A, WAFO NOUBISSIE O, PROVOST F, ZANABRIA R, GAUCHER ML, COSTA MC, CHORFI Y, HOLLEY R, SMILLIE J, BOSCH ML, DUMAS A, BROCKHOFF E, COLLINS S, SNELGROVE P, QUESSY S. Expert elicitation to estimate the feed safety impact of criteria included in the Canadian Food Inspection Agency risk assessment model for feed mills. J Food Prot. 2021;84(4):611-627.
  • ARROYO LG, ROSSI L, SANTOS BP, GOMEZ DE, SURETTE MG, COSTA MC. Luminal and Mucosal Microbiota of the Cecum and Large Colon of Healthy and Diarrheic Horses. Animals (Basel). 2020;10(8):1403. doi: 10.3390/ani10081403.
  • LECLERE, M., COSTA MC, Fecal Microbiota in Equine Asthma, Journal of Veterinary Internal Medicine J Vet Intern Med. 2020 Mar;34(2):996-1006.
  • The International Equine Colitis Research Group. Science-in-brief: Report on the Havemeyer Foundation workshop on acute colitis of the adult horse. Equine Veterinary Journal, 2020, 52: 163–164.
  • GOMEZ DE, GALVAO KN, RODRIGUEZ-LECOMPTE JC, COSTA MC. The cattle microbiota and the immune system: an evolving field. Veterinary Clinics of North America: Food Animal Practice, 2019, 35(3): 485-505. doi: 10.1016/j.cvfa.2019.08.002.
  • COSTA MC, WESSE JS. Methods and Basic Concepts for Microbiota Assessment. The Veterinary Journal, 2019; 249: 10-15.
  • MASSACCI FR, CLARK A, RUET A, COSTA MC, MACH N. Inter-breed diversity and temporal dynamics of the gut microbiota in healthy horses. Journal of Animal Breeding and Genetics, 2020;137(1):103-120
  • KAMUS LJ, THEORET C, COSTA MC. Use of high throughput sequencing to investigate the microbiota of experimentally induced wounds and the effect of bandaging in horses. PlosOne. 2018 Nov 26;13(11):e0206989.
  • COSTA MC, WESSE JS. Understanding the intestinal microbiome in health and disease. Vet Clin North Am Equine Pract. Advances in the Diagnosis and Management of Equine Gastrointestinal Disease, 2018 Apr;34(1):1-12.
  • PEREIRA, GQ, GOMES, LA, SANTOS, IF, ALFIERI, AF, WEESE, JS, COSTA, MC. Fecal Microbiota Transplantation in Puppies with Canine Parvovirus Infection. J Vet Intern Med. 2018;32(2):707-711.
  • ISHIKAWA AT, WEESE JS, BRACARENSE APFRL, ALFIERI AA, OLIVEIRA GG, KAWAMURA O, HIROOKA EY, ITANO EN, COSTA MC. Single aflatoxin B1 exposure induces changes in gut microbiota community in C57Bl/6 mice. World Mycotoxin Journal, 2017, v.10 (3) p.249-254.
  • ISHIKAWA AT, HIROOKA EY, ALVARES E SILVA PL, BRACARENSE APFRL, FLAIBAN KKMDC, AKAGI CY, KAWAMURA O, COSTA MC, ITANO EN. Impact of a Single Oral Acute Dose of Aflatoxin B₁ on Liver Function/Cytokines and the Lymphoproliferative Response in C57Bl/6 Mice. Toxins (Basel). 2017, v.9(11): E374.
  • BESSEGATTO JA, PAULINO LR, LISBÔA JAN, ALFIERI AA, MONTEMOR CH, MEDEIROS LP, KOBAYASHI RKT, WEESE JS, COSTA MC Changes in the Fecal Microbiota of Beef Cattle Caused by Confinement and the Use of Virginiamycin as Growth Promoter. Research in Veterinary Science 2017, v.114, p.355-362.
  • COSTA, MC; BESSEGATTO, JA; ALFIERI, AA; WEESE, JS; FILHO, JAB; OBA, A. Different antibiotic growth promoters induce specific changes in the cecal microbiota membership of broiler chicken. Plos One. 2017, v.12, e0171642
  • ARROYO LG, COSTA MC, GUEST BB, PLATTNER BL, LILLIE BN, WEESE JS Experimental Model of Duodenitis-Proximal Jejunitis in Horses Inoculated with Clostridium difficile Toxins. Journal of Veterinary Internal Medicine, 2017; 31(1):158-163.
  • GOMEZ, DE; ARROYO, LG; COSTA, MC; VIEL, L; WEESE, JS. Characterization of the Fecal Bacterial Microbiota of Healthy and Diarrheic Dairy Calves. J Vet Intern Med. 2017;31(3):928-939.
  • ALMEIDA, MLM, FERINGER, WH, … COSTA, MC, FERRAZ, GC. Effects of Intense Exercise and Aerobic Conditioning Associated with Chromium or Carnitine Supplementation on the Fecal Microbiota of Fillies. Plos One 2016, v.11, e0167108.
  • COSTA, MC, STÄMPFLI, HR, ALLEN-VERCOE, E, WEESE, JS. Development of the faecal microbiota in foals. Equine Vet J. 2016;48(6):681-688
  • COSTA, MC, STÄMPFLI, HR, ARROYO, LG, ALLEN-VERCOE, E, GOMES, RG, WEESE, JS. Changes in the equine fecal microbiota associated with the use of systemic antimicrobial drugs. BMC Veterinary Research, 2015, v.11, e19.
  • COSTA, MC, SILVA, G, RAMOS, RV, STÄMPFLI, HENRY R, ARROYO, LUIS G, WEESE, JS. Characterization and comparison of the bacterial microbiota in different gastrointestinal tract compartments in horses. The Veterinary Journal, 2015, v.205, 74-80.
  • STURGEON, A STULL, JW, COSTA, MC, WEESE, JS. Metagenomic analysis of the canine oral cavity as revealed by high-throughput pyrosequencing of the 16S rRNA gene In Veterinary Microbiology, 2013, v.162, 891-898.
  • COSTA, MC, REID-SMITH, R, GOW, S., HANNON, S, BENEDICT, KM, MORLEY, PS, WEESE, JS. Prevalence and molecular characterization of Clostridium difficile isolated from feedlot beef cattle upon arrival and mid-feeding period. BMC Veterinary Research, 2012, v.8, e38.
  • COSTA, MC, ARROYO, LG, ALLEN-VERCOE, E, STAEMPFLI, H, STURGEON, A., KIM, P, WEESE, JS. Comparison of the Fecal Microbiota of Healthy Horses and Horses with Colitis by High Throughput Sequencing of the V3-V5 Region of the 16S rRNA Gene. Plos One, 2012, v.7, e41484.
  • COSTA, MC, WEESE, JS. The equine intestinal microbiome. Animal Health Research Reviews, 2012, v.1, 1-8.
  • PARREIRA VR, COSTA, MC, EIKMEYER, F, BLOM, J, PRESCOTT, JF. Sequence of Two Plasmids from Clostridium perfringens Chicken Necrotic Enteritis Isolates and Comparison with C. perfringens Conjugative Plasmids. Plos One, 2012, v.7, e49753.
  • STURGEON, A., PINDER SL, COSTA, MC, WEESE, JS. Characterization of the oral microbiota of healthy cats using next-generation sequencing. The Veterinary Journal, 2012, v.201, 223-229.
  • COSTA, MC, STAEMPFLI, H, ARROYO, LG, PEARL, DL, WEESE, JS. Epidemiology of Clostridium difficile on a veal farm: Prevalence, molecular characterization and tetracycline resistance. Veterinary Microbiology, 2011, v.152, 379-384.


  • Veterinary Sciences
  • Biomedical Sciences

Areas of expertise

  • Microbiology
  • Bactériologie
  • Médecine interne des grands animaux
  • Animaux de la ferme
  • Animaux de compagnie

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