Naslov
Genomska karakterizacija i genetska raznolikost SARS-CoV-2 u Hrvatskoj - osvrt na SARI slučajeve
(Genomic characterisation and genetic diversity of SARS-CoV-2 in Croatia – SARI cases overview)

Autori
Ferenčak, Ivana ; Jurić, Anita ; Kuzle, Josipa ; Smolić, Dora ; Jurić, Dragan ; Tabain, Irena

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

Izvornik
CROCMID 2022:knjiga sažetaka / - , 2022, O-78

Skup
13. hrvatski kongres kliničke mikrobiologije i 10. hrvatski kongres o infektivnim bolestima

Mjesto i datum
Šibenik, Hrvatska, 20.10.2022. - 23.04.2023

Vrsta sudjelovanja
Predavanje

Vrsta recenzije
Nije recenziran

Ključne riječi
SARS-CoV-2 ; SARI ; nadzor
(SARS-CoV-2 ; SARI ; surveillance)

Sažetak
To conduct epidemiologic surveillance of severe acute respiratory infections – SARI in Croatia, CIPH participated in EU projects in 2021 and 2022. As a part of this project, we utilised the contract with ECDC obtained through HERA Incubator and performed whole genome sequencing on SARS-CoV- 2 positive samples to get viral variants in SARI patients. Respiratory samples from SARI cases were collected in collaborative institutions from June to September 2021 and from March to August 2022 and were sent to CIPH, where qRT PCR was conducted. Isolated RNA from positive SARS-CoV-2 samples were sent to a commercial laboratory and sequenced. Whole genome sequencing with the Illumina platform was performed and analysed using an in- house developed pipeline. Generated consensus sequences were analysed, and SARS-CoV-2 lineages were identified using PANGOLIN and Global Initiative on Sharing All Influenza Data (GISAID) databases. One hundred thirty-five samples processed from February until June 2021 were predominantly positive for the Alpha variant, and the Delta quickly took primate in June. In 2022, 185 SARI samples were sequenced and were largely positive for the Omicron variant (88%). The distribution of Omicron sublineages was compared to samples from throughout Croatia, collected in the same timeframe and sequenced through surveillance conducted in our laboratory. When comparing the variant proportions in samples from representative monitoring and SARI samples, the observed discrepancies can be attributed to differences in the sampling distribution. We concluded that variant patterns in SARI patients throughout the project timeframe were the same as in the samples from general variant surveillance.

Izvorni jezik
Engleski

Znanstvena područja
Javno zdravstvo i zdravstvena zaštita, Biotehnologija u biomedicini (prirodno područje, biomedicina i zdravstvo, biotehničko područje)

POVEZANOST RADA