Naslov
The differentiation of virus strains by restriction enzyme analysis and determination of strain similarities

Autori
Lojkić, Ivana ; Konjevoda, Paško ; Biđin, Zdenko ; Pokrić, Biserka

Vrsta, podvrsta i kategorija rada
Sažeci sa skupova, sažetak, znanstveni

Izvornik
Book of Abstracts MATH/CHEM/COMP 2004 / Graovac, Ante ; Pokrić, Biserka ; Smrečki, Vilko - Zagreb : Institut Ruđer Bošković, 2004

Skup
MATH/CHEM/COMP 2004 - The 19th Dubrovnik International Course & Conference on the Interfaces among Mathematics, Chemistry and Computer Sciences

Mjesto i datum
Dubrovnik, Hrvatska, 21.06.2004. - 26.06.2004

Vrsta sudjelovanja
Poster

Vrsta recenzije
Međunarodna recenzija

Ključne riječi
classification; infectious bursal disease virus; monothetic clustering; partition around medoids; restriction enzyme analysis; RT/PCR; viral strains

Sažetak
The differentiation of 35 field isolates of the infectious bursal disease virus (IBDV) was carried out by the restriction enzyme (RE) analysis of the products obtained by reverse transcription (RT)/polymerase chain reaction (PCR). The 422 bp hypervariable region of the VP2 gene (nucleotides 732-1153), amplified by RT/PCR, was digested using the restriction endonucleases CfoI, SacI, SspI, StuI and TaqI. The knowledge of the nucleotide sequence recognized by the endonuclease, the literature and the GenBank nucleotide data for the analyzed VP2 gene region, as well as the size of the fragments obtained by the endonuclease digestion, enabled the determination of the nucleotide position corresponding to a restriction site. The differentiation of the analysed IBDV species was obtained by comparing the position of the restriction sites in analysed IBDV species with the data reported elsewhere. The experimentally obtained results were analysed by partition around medoids (PAM) and monothetetic clustering (MONA) algorithms for unsupervised learning. Five groups of viral strains were extracted by both methods and the viral strains classification based the restriction site similarities is presented by the banner plot of PAM method.

Izvorni jezik
Engleski

Znanstvena područja
Temeljne medicinske znanosti, Veterinarska medicina

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