Coronavirus testing indicates transmission risk increases along wildlife supply chains for human consumption in Viet Nam, 2013-2014

Nguyen Quynh Huong, Nguyen Thi Thanh Nga, Nguyen van Long, Bach Duc Luu, Alice Latinne, Mathieu Pruvot, Nguyen Thanh Phuong, Le Tin Vinh Quang, Vo van Hung, Nguyen Thi Lan, Nguyen Thi Hoa, Phan Quang Minh, Nguyen Thi Diep, Nguyen Tung, Van Dang Ky, Scott I. Roberton, Hoang Bich Thuy, Nguyen van Long, Martin Gilbert, Leanne WickerJonna A.K. Mazet, Christine Kreuder Johnson, Tracey Goldstein, Alex Tremeau-Bravard, Victoria Ontiveros, Damien O. Joly, Chris Walzer, Amanda E. Fine, Sarah H. Olson

Research output: Contribution to journalReview article

Abstract

Outbreaks of emerging coronaviruses in the past two decades and the current pandemic of a novel coronavirus (SARS-CoV-2) that emerged in China highlight the importance of this viral family as a zoonotic public health threat. To gain a better understanding of coronavirus presence and diversity in wildlife at wildlife-human interfaces in three southern provinces in Viet Nam 2013-2014, we used consensus Polymerase Chain Reactions to detect coronavirus sequences. In comparison to previous studies, we observed high proportions of positive samples among field rats (34.0%, 239/702) destined for human consumption and insectivorous bats in guano farms (74.8%, 234/313) adjacent to human dwellings. Most notably among field rats, the odds of coronavirus RNA detection significantly increased along the supply chain from field rats sold by traders (reference group; 20.7% positivity, 39/188) by a factor of 2.2 for field rats sold in large markets (32.0%, 116/363) and 10.0 for field rats sold and served in restaurants (55.6%, 84/151). Coronaviruses were also detected in rodents on the majority of wildlife farms sampled (60.7%, 17/28). These coronaviruses were found in the Malayan porcupines (6.0%, 20/331) and bamboo rats (6.3%, 6/96) that are raised on wildlife farms for human consumption as food. We identified six known coronaviruses in bats and rodents, clustered in three Coronaviridae genera, including the Alpha-, Beta-, and Gammacoronaviruses. Our analysis also suggested either mixing of animal excreta in the environment or interspecies transmission of coronaviruses, as both bat and avian coronaviruses were detected in rodent feces on wildlife farms. The mixing of multiple coronaviruses, and their apparent amplification along the wildlife supply chain into restaurants, suggests maximal risk for end consumers and likely underpins the mechanisms of zoonotic spillover to people.

Original languageEnglish (US)
Article numbere0237129
JournalPloS one
Volume15
Issue number8 August
DOIs
StatePublished - Aug 2020

ASJC Scopus subject areas

  • Biochemistry, Genetics and Molecular Biology(all)
  • Agricultural and Biological Sciences(all)
  • General

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    Huong, N. Q., Nga, N. T. T., van Long, N., Luu, B. D., Latinne, A., Pruvot, M., Phuong, N. T., Quang, L. T. V., van Hung, V., Lan, N. T., Hoa, N. T., Minh, P. Q., Diep, N. T., Tung, N., Ky, V. D., Roberton, S. I., Thuy, H. B., van Long, N., Gilbert, M., ... Olson, S. H. (2020). Coronavirus testing indicates transmission risk increases along wildlife supply chains for human consumption in Viet Nam, 2013-2014. PloS one, 15(8 August), [e0237129]. https://doi.org/10.1371/journal.pone.0237129