Phylogenetic analysis of porcine reproductive and respiratory syndrome virus in Vietnam, 2021.

The porcine reproductive and respiratory syndrome virus (PRRSV) causes more economic losses in the swine industry than any other virus. This study aimed to investigate the genetic diversity of PRRSV to assist in evaluating the effectiveness of PRRS vaccines. Twenty-eight samples from clinical cases were collected from 19 farms in seven provinces of Vietnam in 2021. Full-length PRRSV ORF5 genes from the 19 samples were amplified, sequenced, and compared to the corresponding sequences of referenced PRRSV strains from Genbank. The genetic analysis showed that 12 isolates were the highly pathogenic PRRSV subtype (HP-PRRSV) lineage 8, sublineage 8.7; six isolates were the classical North American PRRSV subtype (US-PRRSV), NADC-like group, lineage 1, sublineage 1.4, which were reported in Vietnam for the first time; and the final isolate was a vaccine-like strain. The field isolates of HP-PRRSV had relatively higher genetic diversity with US-PRRSV vaccine strains (84.0-94.5%) than HP-PRRSV vaccine strains (95.3-98.6%). Meanwhile, the six NADC-like isolates had low nucleotide similarity with US-PRRSV and HP-PRRSV vaccine strains (83.4-85.4% and 83.2-84.0%, respectively). Many amino acid substitutions were found in antigenic regions of GP5 involved in response to early antibody production, neutralizing antibodies, and viral immune evasion between these field strains and PRRSV vaccine strains. These findings provide insights into the molecular characteristics, genetic diversity, antigenicity, and evolution of PRRSV strains in Vietnam and postulate a compelling explanation for the limitations of current vaccination efforts.

Genotypic diversity of CSFV field strains: A silent risk reduces vaccination efficacy of CSFV vaccines in Vietnam.

Classical swine fever (CSF) is a highly contagious, devastating, and transboundary viral disease that afflicts swine industries worldwide. Immunization with vaccines is one of the most effective strategies for controlling this disease. However, shifts in the antigenicity and pathogenicity of novel evolving viral strains have the potential to evade vaccination. In this study, 352 samples from swines exhibiting fever, hemorrhages, lethargy, and diarrhea in different pig farms located in 9 provinces of Vietnam were collected. CSFV was identified even within farms that had been vaccinated against CSFV. Several farms had swine which had been co-infection with CSFV and other pathogens. Copies of the E2 gene of 21 samples were isolated, cloned, sequenced, analyzed, and compared with copies of E2 in four vaccine strains. We identified a total of 42 amino acid substitutions in this glycoprotein, including 11 positions that affect the antigenic properties of E2 and 7 positions that are associated with neutralizing epitopes. The E2 glycoprotein of CSFV strains circulating in Vietnam and vaccine strains differ in their antigenicity. These findings provide deep insights into the molecular characteristics, genetic diversity, pathogenicity, antigenicity, and evolution of CSFV strains in Vietnam. Understanding the pathogenicity, antigenicity, and evolution of circulating CSFV strains will provide avenues for developing new vaccines and efficient approaches to control this disease.