Variability analysis and inter-genotype comparison of human respiratory syncytial virus small hydrophobic gene

Znanstveni rad - Izvorni znanstveni rad

• Autor: Jelena Ivančić-Jelečki
• Autor: Anamarija Slović
• Autor: Sunčanica Ljubin-Sternak
• Autor: Gordana Mlinarić Galinović
• Autor: Dubravko Forčić
• Autorova ustanova: Sveučilište u Zagrebu; Medicinski fakultet
• Znanstveno / umjetničko područje, polje i grana: BIOMEDICINA I ZDRAVSTVO; Kliničke medicinske znanosti

Sažetak (engleski)

BACKGROUND: Small hydrophobic (SH) gene is one of the mostly diverse genomic regions of human respiratory
syncytial virus (HRSV). Its coding region constitutes less than 50% of the complete gene length, enabling SH gene
to be highly variable and the SH protein highly conserved. In standard HRSV molecular epidemiology studies, solely
sequences of the second hypervariable region of the glycoprotein gene (HVR2) are analyzed. To what extent do the
strains identical in HVR2 differ elsewhere in genomes is rarely investigated. Our goal was to investigate whether
diversity and inter-genotype differences observed for HVR2 are also present in the SH gene. ----- METHODS: We sequenced 198 clinical samples collected within a limited area and time frame. In this HRSV
collection, rapid and significant changes in HVR2 occurred.
Results: Over 20% of strains from this pool (containing HRSV genotypes NA1, ON1, GA5, BA9 and BA10) would be
incorrectly assumed to be identical to another strain if only the HVR2 region was analysed. The majority of
differences found in SH gene were located in the 5′ untranslated region (UTR). Seven indels were detected, one
was genotype GA5 specific. An in-frame deletion of 9 nucleotides (coding for amino acids 49–51) was observed in
one of group A strains. Fifteen different SH protein sequences were detected; 68% of strains possessed the
consensus sequence and most of others differed from the consensus in only one amino acid (only 4 strains differed
in 2 amino acids). The majority of differing amino acids in group A viruses had the same identity as the
corresponding amino acids in group B strains. When analysis was restricted to strains with identical HVR2
nucleotide sequences and differing SH protein sequences, 75% of differences observed in the SH ectodomain were
located within region coding for amino acids 49–51. -----
CONCLUSIONS: Basing HRSV molecular epidemiology studies solely on HVR2 largely underestimates the complexity of
circulating virus populations. In strain identification, broadening of the genomic target sequence to SH gene would
provide a more comprehensive insight into viral pool versatility and its evolutionary processes.

• Ključne riječi (engleski): Amino Acid Sequence; Genetic Variation; Genotype; Humans; Phylogeny; Respiratory Syncytial Virus Infections/virology; Respiratory Syncytial Virus, Human/classification; Respiratory Syncytial Virus, Human/genetics; Sequence Analysis, DNA; Viral Proteins/genetics
• Jezik: engleski
• Vrsta publikacije: Znanstveni rad - Izvorni znanstveni rad
• Status objave: Objavljen
• Vrsta recenzije: Recenziran
• Verzija publikacije: Objavljena verzija rada (izdavačev PDF)
• Naslov časopisa: Virology Journal
• Brojčani podaci: vol. 15, br. 1, str. 109
• p-ISSN: 1743-422X
• DOI: https://doi.org/10.1186/s12985-018-1020-9
• URN:NBN: urn:nbn:hr:105:143600
• Datum objave publikacije: 2018-07-18
• URL dokumenta: https://doi.org/10.1186/s12985-018-1020-9
• Vrsta resursa: Tekst
• Prava pristupa: Otvoreni pristup
• Datum i vrijeme pohrane: 2024-03-28 10:06:22