20.500.12556/DiRROS-32187 SARS-CoV-2 molecular epidemiology in Slovenia, January to September 2021 Background: Sequencing of SARS-CoV-2 PCR-positive samples was introduced in Slovenia in January 2021. Our surveillance programme comprised three complementary schemes: (A) non-targeted sequencing of at least 10% of samples, (B) sequencing of samples positive after PCR screening for variants of concern (VOC) and (C) sequencing as per epidemiological indication. Aim: We present the analysis of cumulative data of the non-targeted surveillance of SARS-CoV-2 and variantdependent growth kinetics for the five most common variants in Slovenia for the first 9 months of 2021. Methods: SARS-CoV-2 PCR-positive samples, from January to September 2021, were selected for sequencing according to the national surveillance plan. Growth kinetics studies were done on Vero E6 cells. Results: Altogether 15,175 genomes were sequenced and 64 variants were detected, of which three successively prevailed. Variant B.1.258.17 was detected in ca 80% of samples in January and was replaced, within 9 weeks, by the Alpha variant. The number of cases decreased substantially during the summer of 2021. However, the introduction of the Delta variant caused a fourth wave and completely outcompeted other variants. Other VOC were only detected in small numbers. Infection of Vero E6 cells showed higher replication rates for the variants Alpha and Delta, compared with B.1.258.17, B.1.258, and B.1.1.70, which dominated in Slovenia before the introduction of the Alpha and Delta variants. Conclusion: Information on SARS-CoV-2 variant diversity provided context to the epidemiological data of PCR-positive cases, contributed to control of the initial spread of known VOC and influenced epidemiological measures. SARS-CoV-2 molecular epidemiology true false true Angleški jezik Ni določen Neznano 2026-08-31 14:07:37 2026-08-31 14:07:39 2026-09-01 03:50:35 0000-00-00 00:00:00 2023 0 0 Nasl. z nasl. zaslona; Opis vira z dne 24. 2. 2023; Št. članka: 2200451; str. 1-10 iss. 8, [article no.] 2200451 Vol. 28 2023 0000-00-00 Zaloznikova Objavljeno NiDoloceno 0000-00-00 0000-00-00 0000-00-00 578 1560-7917 10.2807/1560-7917.ES.2023.28.8.2200451 142964739 RAZ_Janezic_Sandra_2023.pdf RAZ_Janezic_Sandra_2023.pdf 1 CF68A64005C064381BE61B2872438EBD c05a24353fcedc31524d55e3777c50cf9a517812c268c0fb62444b852f613b52 433f8308-a535-11f1-8a94-001a4af901a5 https://dirros.openscience.si/Dokument.php?lang=slv&id=50222 https://www.eurosurveillance.org/content/10.2807/1560-7917.ES.2023.28.8.2200451 1 9dcbfbe8-a534-11f1-8a94-001a4af901a5 https://dirros.openscience.si/Dokument.php?lang=slv&id=50221 Univerzitetni klinični center Ljubljana 0 0 0