2.1. Samples and RNA extraction:
In November 2019, a report of an enteric clinical disease outbreak in a
farm located in San Martin, Peru (see Figure 1A) was made by a local
veterinary professional to the National animal health authorities
(SENASA). The report indicated that almost 70% of pigs were affected at
all stages of growth with high morbidity in young piglets. Intestinal
samples were submitted by the farm professionals to the Laboratory of
Virology in the Faculty of Veterinary Medicine at the Universidad
Nacional Mayor de San Marcos in Lima, Peru; for testing and detection of
PEDV, TGEV and PDCoV by qRT-PCR. Intestinal content (1 ml) was processed
accordingly. In short, samples were diluted in 5ml of phosphate buffer
solution (PBS) and centrifuged at 250 g for 5 minutes. Following
centrifugation, 1 ml of supernatant was processed for RNA extraction
using the QIAmp viral RNA mini kit (Qiagen), following manufacturer’s
specifications.