title: Molecular characterization of a new porcine rotavirus P genotype found in an asymptomatic pig in Slovenia.
abstract: Rotaviral RNA was detected in the stool sample of an asymptomatic fattening pig at a Slovenian pig farm. To characterize the rotavirus, RT-PCR was used, employing primers specific for the VP7, VP4 and NSP4 genes. Specific products were purified and the sequencing reaction was performed for the molecular analysis of amplified genes. Nucleotide and amino acid sequences of the VP7 gene were found highly identical (85.3-88.1% and 90.7-91.6%) to G1 genotype strains. Phylogenetic and molecular analyses of the VP7 antigen regions revealed the sample to be from a new lineage of G1 genotype. In the molecular analysis of the VP4 gene, only 70.9% nucleotide (76.2% amino acid) identity was found with the most related rotavirus VP4 gene from GenBank. Following this, the NSP4 gene was also analyzed. After the phylogenetic analysis, it clustered with the NSP4 B genotype, but also seemed to represent a new lineage of this genotype. This new rotavirus strain, named P21-5, differed greatly from all rotaviruses characterized so far in all three genes analyzed. The virulence of this strain is not clear yet and has to be investigated.
authors.affiliation: Institute of Microbiology and Immunology, Faculty of Medicine, University of Ljubljana, Zaloska 4, SI-1104 Ljubljana, Slovenia. andrej.steyer@mf.uni-lj.si
authors.forename: Andrej
authors.initials: A
authors.lastname: Steyer
authors.forename: Mateja
authors.initials: M
authors.lastname: Poljsak-Prijatelj
authors.forename: Darja
authors.initials: D
authors.lastname: Barlic-Maganja
authors.forename: Uros
authors.initials: U
authors.lastname: Jamnikar
authors.forename: Janet Zimsek
authors.initials: JZ
authors.lastname: Mijovski
authors.forename: Jozica
authors.initials: J
authors.lastname: Marin
mesh_terms: D000595:Amino Acid Sequence; D000818:Animals; D005243:Feces / Q000821:virology; D005838:Genotype; D008969:Molecular Sequence Data; D010802:Phylogeny; D012401:Rotavirus / Q000145:classification / Q000235:genetics*; D017524:Slovenia; D013552:Swine / Q000821:virology*; D014764:Viral Proteins / Q000737:chemistry / Q000235:genetics / Q000378:metabolism
chemical_list: D014764:Viral Proteins