Molecular detection, phylogenetic and evolutionary analysis of porcine
bocavirus in central China
Abstract
To investigate the phylogenetic and evolutionary analysis of porcine
bocavirus (PBoV), 281 clinical samples including 236 intestinal tissue
samples and 45 fecal samples were collected from diarrheal piglets in 27
different pig farms of central China, and SYBR Green I-based qPCR assays
were developed to detect PBoVs. Among the 281 samples, 148 (52.67%)
were positive for PBoV1/2, 117 (41.63%) were positive for PBoV3/4/5,
and 55 (19.57%) were positive for both PBoV1/2 and PBoV3/4/5.
Subsequently, two complete genome sequences of PBoV strains CH/HNZM
(accession numbers KX017193) and PBoV-TY (accession numbers MH454686)
were cloned in this study. A multiple genomic sequence alignment showed
that the pairwise similarity of the two PBoV strains was 94.8%, and
they had 44.5%-95.8% genomic nucleotide sequence identity with 35
reference strains. The phylogenetic analysis demonstrated that the two
PBoV strains CH/HNZM and PBoV-TY clustered into the PBoV2 group, and
PBoV-TY was closely related to the PBoV strain GD18 strain (KJ755666)
which may be derived from PBoV strains 0912/2012 (MH558677) and 57AT-HU
(KF206160) through the recombination analysis. Compared with reference
strain ZJD (HM053694)-China, a higher variation in the NS1 amino acids
of PBoVs was found for CH/HNZM and PBoV-TY. These results had provided
further information of the PBoV prevalence in central China, and they
extend our understanding of the molecular epidemiology and evolution of
PBoV.