|Next generation sequencing for detection and discovery of plant viruses and viroids: Comparison of two approaches|
A Pecman, D Kutnjak, I Gutiérrez-Aguirre, I Adams, A Fox, N Boonham, ...
Frontiers in microbiology 8, 1998, 2017
|Virus detection by high-throughput sequencing of small RNAs: Large-scale performance testing of sequence analysis strategies|
S Massart, M Chiumenti, K De Jonghe, R Glover, A Haegeman, I Koloniuk, ...
Phytopathology 109 (3), 488-497, 2019
|High similarity of novel orthoreovirus detected in a child hospitalized with acute gastroenteritis to mammalian orthoreoviruses found in bats in Europe|
A Steyer, I Gutiérrez-Aguire, M Kolenc, S Koren, D Kutnjak, M Pokorn, ...
Journal of clinical microbiology 51 (11), 3818-3825, 2013
|Deep sequencing of virus-derived small interfering RNAs and RNA from viral particles shows highly similar mutational landscapes of a plant virus population|
D Kutnjak, M Rupar, I Gutierrez-Aguirre, T Curk, JF Kreuze, M Ravnikar
Journal of virology 89 (9), 4760-4769, 2015
|Escaping to the summits: phylogeography and predicted range dynamics of Cerastium dinaricum, an endangered high mountain plant endemic to the western Balkan Peninsula|
D Kutnjak, M Kuttner, M Niketić, S Dullinger, P Schönswetter, B Frajman
Molecular Phylogenetics and Evolution 78, 365-374, 2014
|High‐throughput sequencing technologies for plant pest diagnosis: challenges and opportunities|
A Olmos, N Boonham, T Candresse, P Gentit, B Giovani, D Kutnjak, ...
EPPO Bulletin 48 (2), 219-224, 2018
|Complete genome sequences of new divergent potato virus X isolates and discrimination between strains in a mixed infection using small RNAs sequencing approach|
D Kutnjak, R Silvestre, W Cuellar, W Perez, G Müller, M Ravnikar, ...
Virus research 191, 45-50, 2014
|Viromics and infectivity analysis reveal the release of infective plant viruses from wastewater into the environment|
K Bačnik, D Kutnjak, A Pecman, N Mehle, MT Žnidarič, IG Aguirre, ...
Water Research 177, 115628, 2020
|Time-Sampled Population Sequencing Reveals the Interplay of Selection and Genetic Drift in Experimental Evolution of Potato Virus Y|
D Kutnjak, SF Elena, M Ravnikar
Journal of virology 91 (16), e00690-17, 2017
|Identification of novel reassortant mammalian orthoreoviruses from bats in Slovenia|
T Naglič, D Rihtarič, P Hostnik, N Toplak, S Koren, U Kuhar, ...
BMC veterinary research 14 (1), 1-10, 2018
|Water-mediated transmission of plant, animal, and human viruses|
N Mehle, I Gutierrez-Aguirre, D Kutnjak, M Ravnikar
Advances in Virus Research 101, 85-128, 2018
|A primer on the analysis of high-throughput sequencing data for detection of plant viruses|
D Kutnjak, L Tamisier, I Adams, N Boonham, T Candresse, M Chiumenti, ...
Microorganisms 9 (4), 841, 2021
|Global advances in tomato virome research: Current status and the impact of high-throughput sequencing|
MPS Rivarez, A Vučurović, N Mehle, M Ravnikar, D Kutnjak
Frontiers in Microbiology, 1064, 2021
|Transmission modes affect the population structure of potato virus Y in potato|
W da Silva, D Kutnjak, Y Xu, Y Xu, J Giovannoni, SF Elena, S Gray
PLoS pathogens 16 (6), e1008608, 2020
|New Insights into the evolutionary and genomic landscape of Molluscum Contagiosum Virus (MCV) based on nine MCV1 and six MCV2 complete genome sequences|
TM Zorec, D Kutnjak, L Hošnjak, B Kušar, K Trčko, BJ Kocjan, Y Li, ...
Viruses 10 (11), 586, 2018
|Detection and diagnosis of PVY|
L Glais, M Chikh Ali, AV Karasev, D Kutnjak, C Lacomme
Potato virus Y: biodiversity, pathogenicity, epidemiology and management …, 2017
|First Report of Cucurbit Aphid-Borne Yellows Virus in Cucurbita pepo and Cucurbita maxima in Slovenia|
N Mehle, D Kutnjak, N Jakoš, G Seljak, A Pecman, S Massart, M Ravnikar
Plant Disease 104 (2), 599-599, 2020
|First report of Apium virus y and carrot thin leaf virus in parsley in Slovenia|
N Mehle, D Kutnjak, M Tušek Žnidarič, M Ravnikar
Plant Disease 103 (3), 592, 2019
|Detection of Four New Tomato Viruses in Serbia Using Post Hoc High-Throughput Sequencing Analysis of Samples From a Large-Scale Field Survey|
A Vučurović, D Kutnjak, N Mehle, I Stanković, A Pecman, A Bulajić, ...
Plant Disease 105 (9), 2325-2332, 2021
|Semi-artificial datasets as a resource for validation of bioinformatics pipelines for plant virus detection|
L Tamisier, A Haegeman, Y Foucart, N Fouillien, M Al Rwahnih, N Buzkan, ...
Peer community Journal 1, 2021