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September 14, 2026Transboundary and Emerging DiseasesOpen Access

Phylogenetic analysis of Chinese PEDV identifies three S-INDEL strains with a 3-nucleotide S gene deletion.

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Key result

Phylogenetic analysis of PEDV field strains across China identified three S-INDEL subtype strains with distinct branch-specific molecular features, including a three-nucleotide deletion in the S gene.

Authors

YCYue ChenLYLin YuanWWWenqiang Wang

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Overview

Emerging PEDV divergence may undermine current vaccines; leaves open need for updated strain surveillance and efficacy trials.

Key Points

  • Characterize the genetic divergence and branch-specific molecular signatures of PEDV S-INDEL field strains collected in China to improve viral subtyping.
  • Analyzed PEDV field strains collected across China between 2023 and 2026.
  • Performed phylogenetic analyses and spike (S) gene sequence evaluations to identify branch-specific deletions and predicted N-linked glycosylation polymorphisms.
  • Identified three S-INDEL subtype strains segregating onto three distinct phylogenetic branches, with S-INDEL-CH-1 and S-INDEL-CH-2 lineages sharing a 3-nucleotide deletion at positions 416–418 of the S gene.
  • Established a hierarchical classification scheme combining S-INDEL-specific deletions and glycosylation site polymorphisms (N1193 and N230) to enable direct preliminary differentiation between GIa, GIb, and S-INDEL directly from S gene sequences.

PICO

P
Population
Porcine epidemic diarrhea virus (PEDV)
E
Exposure / Comparator
Phylogenetic and molecular characterization
O
Primary Outcome
Genetic divergence and molecular features

Cite This Study

Chen et al. (2026) studied Porcine epidemic diarrhea virus (PEDV). Phylogenetic and molecular characterization was evaluated on Genetic divergence and molecular features. Phylogenetic analysis of PEDV field strains across China identified three S-INDEL subtype strains with distinct branch-specific molecular features, including a three-nucleotide deletion in the S gene.

synapsesocial.com/papers/6aa7afef79e9260bc85aacddhttps://doi.org/10.1155/tbed/1604677
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