publication . Article . 2021

SARS-CoV-2 infection in nonhuman primates alters the composition and functional activity of the gut microbiota

Harry Sokol; Vanessa Contreras; Pauline Maisonnasse; Aurore Desmons; Benoit Delache; Valentin Sencio; Arnaud Machelart; Angela Brisebarre; Lydie Humbert; Lucie Deryuter; ...
Open Access English
  • Published: 08 Mar 2021
  • Publisher: HAL CCSD
  • Country: France
Abstract
International audience; The current pandemic of coronavirus disease (COVID) 2019 constitutes a global public health issue. Regarding the emerging importance of the gut-lung axis in viral respiratory infections, analysis of the gut microbiota's composition and functional activity during a severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection might be instrumental in understanding and controling COVID 19. We used a nonhuman primate model (the macaque), that recapitulates mild COVID-19 symptoms, to analyze the effects of a SARS-CoV-2 infection on dynamic changes of the gut microbiota. 16S rRNA gene profiling and analysis of β diversity indicated si...
Subjects
free text keywords: Gut microbiota, SARS-CoV-2, nonhuman primates, gut dysbiosis, metabolic output, [SDV.MP.VIR]Life Sciences [q-bio]/Microbiology and Parasitology/Virology, Microbiology (medical), Gastroenterology, Microbiology, Infectious Diseases, Gut microbiota;SARS-CoV-2;nonhuman primates;gut dysbiosis;metabolic output, Research Article, Research Paper, Diseases of the digestive system. Gastroenterology, RC799-869
Funded by
ANR| IDMIT
Project
IDMIT
Infrastructure nationale pour la modélisation des maladies infectieuses humaines
  • Funder: French National Research Agency (ANR) (ANR)
  • Project Code: ANR-11-INBS-0008
,
ANR| ACROBAT
Project
ACROBAT
Role of the lung/gut/bone marrow axis and of the microbiota during influenza A virus infection
  • Funder: French National Research Agency (ANR) (ANR)
  • Project Code: ANR-17-CE15-0020
Communities
COVID-19
63 references, page 1 of 5

1. Zhu N, Zhang D, Wang W, Li X, Yang B, Song J, Zhao X, Huang B, Shi W, Lu R, et al. A Novel Coronavirus from patients with pneumonia in China, 2019. N Engl J Med. 2020;382(8):727-733. doi:10.1056/ NEJMoa2001017. [OpenAIRE]

2. Chen T, Wu D, Chen H, Yan W, Yang D, Chen G, Ma K, Xu D, Yu H, Wang H, et al. Clinical characteristics of 113 deceased patients with coronavirus disease 2019: retrospective study. BMJ. 2020;368:m1091.

3. Huang C, Wang Y, Li X, Ren L, Zhao J, Hu Y, Zhang L, Fan G, Xu J, Gu X, et al. Clinical features of patients infected with 2019 novel coronavirus in Wuhan, China. Lancet. 2020;395:497-506.

4. Ruan Q, Yang K, Wang W, Jiang L, Song J. Clinical predictors of mortality due to COVID-19 based on an analysis of data of 150 patients from Wuhan, China. Intensive Care Med. 2020;46:846-848.

5. Esteve A, Permanyer I, Boertien D, Vaupel JW. National age and coresidence patterns shape COVID-19 vulnerability. Proc Natl Acad Sci USA. 2020;117:16118-16120. [OpenAIRE]

6. Guan W-J, Ni Z-Y, Hu Y, Liang W-H, Ou C-Q, He J-X, Liu L, Shan H, Lei C-L, Hui DSC, et al. Clinical Characteristics of Coronavirus Disease 2019 in China. N Engl J Med. 2020;382:1708-1720.

7. Jordan RE, Adab P, Cheng KK. Covid-19: risk factors for severe disease and death. BMJ. 2020;368:m1198.

8. Yang J, Zheng Y, Gou X, Pu K, Chen Z, Guo Q, Ji R, Wang H, Wang Y, Zhou Y. Prevalence of comorbidities and its efects in patients infected with SARS-CoV-2: a systematic review and meta-analysis. Int J Infect Dis. 2020;94:91-95.

9. Zhou F, Yu T, Du R, Fan G, Liu Y, Liu Z, Xiang J, Wang Y, Song B, Gu X, et al. Clinical course and risk factors for mortality of adult inpatients with COVID-19 in Wuhan, China: a retrospective cohort study. Lancet. 2020;395:1054-1062.

10. Bastard P, Rosen LB, Zhang Q, Michailidis E, Hofmann -H-H, Zhang Y, Dorgham K, Philippot Q, Rosain J, Béziat V, et al. Auto-antibodies against type I IFNs in patients with life-threatening COVID-19. Science. 2020;370(6515):eabd4585.

11. Zhang Q, Bastard P, Liu Z, Le Pen J, Moncada-Velez M, Chen J, Ogishi M, Sabli IKD, Hodeib S, Korol C, et al. Inborn errors of type I IFN immunity in patients with life-threatening COVID-19. Science. 2020;370(6515): eabd4570.

12. Trottein F, Sokol H. Potential causes and consequences of gastrointestinal disorders during a SARS-CoV-2 infection. Cell Rep. 2020;32:107915. [OpenAIRE]

13. Mao R, Qiu Y, He J-S, Tan J-Y, Li X-H, Liang J, Shen J, Zhu L-R, Chen Y, Iacucci M, et al. Manifestations and prognosis of gastrointestinal and liver involvement in patients with COVID-19: a systematic review and meta-analysis. Lancet Gastroenterol Hepatol. 2020;5:667-678.

14. Lamers MM, Beumer J, Van Der Vaart J, Knoops K, Puschhof J, Breugem TI, Ravelli RBG, Paul Van Schayck J, Az M, Hq D, et al. SARS-CoV-2 productively infects human gut enterocytes. Science. 2020;369:50-54.

15. Zhou J, Li C, Liu X, Chiu MC, Zhao X, Wang D, Wei Y, Lee A, Zhang AJ, Chu H, et al. Infection of bat and human intestinal organoids by SARS-CoV-2. Nat Med. 2020;26:1077-1083.

63 references, page 1 of 5
Abstract
International audience; The current pandemic of coronavirus disease (COVID) 2019 constitutes a global public health issue. Regarding the emerging importance of the gut-lung axis in viral respiratory infections, analysis of the gut microbiota's composition and functional activity during a severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) infection might be instrumental in understanding and controling COVID 19. We used a nonhuman primate model (the macaque), that recapitulates mild COVID-19 symptoms, to analyze the effects of a SARS-CoV-2 infection on dynamic changes of the gut microbiota. 16S rRNA gene profiling and analysis of β diversity indicated si...
Subjects
free text keywords: Gut microbiota, SARS-CoV-2, nonhuman primates, gut dysbiosis, metabolic output, [SDV.MP.VIR]Life Sciences [q-bio]/Microbiology and Parasitology/Virology, Microbiology (medical), Gastroenterology, Microbiology, Infectious Diseases, Gut microbiota;SARS-CoV-2;nonhuman primates;gut dysbiosis;metabolic output, Research Article, Research Paper, Diseases of the digestive system. Gastroenterology, RC799-869
Funded by
ANR| IDMIT
Project
IDMIT
Infrastructure nationale pour la modélisation des maladies infectieuses humaines
  • Funder: French National Research Agency (ANR) (ANR)
  • Project Code: ANR-11-INBS-0008
,
ANR| ACROBAT
Project
ACROBAT
Role of the lung/gut/bone marrow axis and of the microbiota during influenza A virus infection
  • Funder: French National Research Agency (ANR) (ANR)
  • Project Code: ANR-17-CE15-0020
Communities
COVID-19
63 references, page 1 of 5

1. Zhu N, Zhang D, Wang W, Li X, Yang B, Song J, Zhao X, Huang B, Shi W, Lu R, et al. A Novel Coronavirus from patients with pneumonia in China, 2019. N Engl J Med. 2020;382(8):727-733. doi:10.1056/ NEJMoa2001017. [OpenAIRE]

2. Chen T, Wu D, Chen H, Yan W, Yang D, Chen G, Ma K, Xu D, Yu H, Wang H, et al. Clinical characteristics of 113 deceased patients with coronavirus disease 2019: retrospective study. BMJ. 2020;368:m1091.

3. Huang C, Wang Y, Li X, Ren L, Zhao J, Hu Y, Zhang L, Fan G, Xu J, Gu X, et al. Clinical features of patients infected with 2019 novel coronavirus in Wuhan, China. Lancet. 2020;395:497-506.

4. Ruan Q, Yang K, Wang W, Jiang L, Song J. Clinical predictors of mortality due to COVID-19 based on an analysis of data of 150 patients from Wuhan, China. Intensive Care Med. 2020;46:846-848.

5. Esteve A, Permanyer I, Boertien D, Vaupel JW. National age and coresidence patterns shape COVID-19 vulnerability. Proc Natl Acad Sci USA. 2020;117:16118-16120. [OpenAIRE]

6. Guan W-J, Ni Z-Y, Hu Y, Liang W-H, Ou C-Q, He J-X, Liu L, Shan H, Lei C-L, Hui DSC, et al. Clinical Characteristics of Coronavirus Disease 2019 in China. N Engl J Med. 2020;382:1708-1720.

7. Jordan RE, Adab P, Cheng KK. Covid-19: risk factors for severe disease and death. BMJ. 2020;368:m1198.

8. Yang J, Zheng Y, Gou X, Pu K, Chen Z, Guo Q, Ji R, Wang H, Wang Y, Zhou Y. Prevalence of comorbidities and its efects in patients infected with SARS-CoV-2: a systematic review and meta-analysis. Int J Infect Dis. 2020;94:91-95.

9. Zhou F, Yu T, Du R, Fan G, Liu Y, Liu Z, Xiang J, Wang Y, Song B, Gu X, et al. Clinical course and risk factors for mortality of adult inpatients with COVID-19 in Wuhan, China: a retrospective cohort study. Lancet. 2020;395:1054-1062.

10. Bastard P, Rosen LB, Zhang Q, Michailidis E, Hofmann -H-H, Zhang Y, Dorgham K, Philippot Q, Rosain J, Béziat V, et al. Auto-antibodies against type I IFNs in patients with life-threatening COVID-19. Science. 2020;370(6515):eabd4585.

11. Zhang Q, Bastard P, Liu Z, Le Pen J, Moncada-Velez M, Chen J, Ogishi M, Sabli IKD, Hodeib S, Korol C, et al. Inborn errors of type I IFN immunity in patients with life-threatening COVID-19. Science. 2020;370(6515): eabd4570.

12. Trottein F, Sokol H. Potential causes and consequences of gastrointestinal disorders during a SARS-CoV-2 infection. Cell Rep. 2020;32:107915. [OpenAIRE]

13. Mao R, Qiu Y, He J-S, Tan J-Y, Li X-H, Liang J, Shen J, Zhu L-R, Chen Y, Iacucci M, et al. Manifestations and prognosis of gastrointestinal and liver involvement in patients with COVID-19: a systematic review and meta-analysis. Lancet Gastroenterol Hepatol. 2020;5:667-678.

14. Lamers MM, Beumer J, Van Der Vaart J, Knoops K, Puschhof J, Breugem TI, Ravelli RBG, Paul Van Schayck J, Az M, Hq D, et al. SARS-CoV-2 productively infects human gut enterocytes. Science. 2020;369:50-54.

15. Zhou J, Li C, Liu X, Chiu MC, Zhao X, Wang D, Wei Y, Lee A, Zhang AJ, Chu H, et al. Infection of bat and human intestinal organoids by SARS-CoV-2. Nat Med. 2020;26:1077-1083.

63 references, page 1 of 5
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