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1. Genome sequence of an aichivirus detected in a common pipistrelle bat (Pipistrellus pipistrellus)
Georgia Diakoudi, Urška Jamnikar Ciglenečki, Gianvito Lanave, Davide Lelli, Vito Martella, Urška Kuhar, 2020, original scientific article

Keywords: Genome sequence, picornavirus, bats
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2. A molecular survey, whole genome sequencing and phylogenetic analysis of astroviruses from roe deer
Urška Jamnikar Ciglenečki, Vita Čivnik, Andrej Kirbiš, Urška Kuhar, 2020, original scientific article

Keywords: astrovirus, Mamastrovirus, roe deer, phylogenetic analysis, wildlife, next generation sequencing, taxonomic classification
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3. A molecular survey and phylogenetic analysis of porcine circovirus type 3 using oral fluid, faeces and serum
Jan Plut, Urška Jamnikar Ciglenečki, Irena Golinar, Tanja Knific, Marina Štukelj, 2020, original scientific article

Keywords: viral disease, pig oral fluid, faeces, serum, PCV3, PCR, first report, Slovenia, Circoviridae infections - virology - veterinary, polymerse chain reaction - methods, phylogeny, genome viral - genetics, sequence analysis, DNA, swine
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4. Identification of a novel papillomavirus type (MfoiPV1) associated with acrochordon in a stone marten (Martes foina)
Urška Kuhar, Diana Žele, Urška Jamnikar Ciglenečki, Gorazd Vengušt, 2021, original scientific article

Keywords: papillomavirus, Dyonupapillomavirus, stone marten, Martes foina, NGS, MfoiPV1, Papillomaviridae, genome, viral
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5. Molecular detection of porcine reproductive and respiratory syndrome virus, porcine circovirus 2 and hepatitis E virus in oral fluid compared to their detection in faeces and serum
Jan Plut, Urška Jamnikar Ciglenečki, Marina Štukelj, 2020, original scientific article

Keywords: pig oral fluid, faeces, serum, PRRS, hepatitis E virus, PCV2, porcine reproductive and respiratory syndrome, hepatitis e virus - virology, Circoviridae infections - virology, swine
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6. Identification of novel reassortant mammalian orthoreoviruses from bats in Slovenia
Tina Mikuletič, Danijela Černe, Peter Hostnik, Nataša Toplak, Simon Koren, Urška Kuhar, Urška Jamnikar Ciglenečki, Denis Kutnjak, Andrej Steyer, 2018, original scientific article

Keywords: bats, genome reassortment, mammalian orthoreovirus, whole genome sequencing
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7. Genetic diversity of deformed wing virus from Apis mellifera carnica (Hymenoptera:Apidae) and varroa mite (Mesostigmata: Varroidae)
Urška Jamnikar Ciglenečki, Metka Pislak, Ivan Toplak, 2019, original scientific article

Keywords: bees, deformed wing virus - genetics, varroidae, phylogeny
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8. High detection rate and high genetic diversity of genogroup I Picobirnaviruses from roe deer
Urška Kuhar, Urška Jamnikar Ciglenečki, 2019, original scientific article

Keywords: Picobirnavirus, epidemiology, roe deer, phylogenetic analysis
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9. Učinkovitost higienskih programov v izbranih enotah vrtcev
Maša Štrakl, 2020, master's thesis

Keywords: magistrska dela, sanitarno inženirstvo, bakterije, umivanje rok, razkuževanje rok, čiščenje, razkuževanje, vrtci
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10. Uporabnost ustne tekočine prašičev v laboratorijski diagnostiki prašičjega reprodukcijskega in respiratornega sindroma ter njena učinkovitost pri kontroliranem prekuževanju mladic
Jan Plut, 2022, doctoral dissertation

Keywords: prašičji reprodukcijski in respiratorni sindrom, klinične laboratorijske tehnike, protitelesa proti virusom, slina, encimsko imunski test, reverzna transkripcija in verižna reakcija s polimerazo, adaptacija
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