This list shows publications with contributions from AgriGenomics doctoral candidates. Faculty-only publications are not included.

(Highlighted are AgriGenomics doctoral candidates and faculty members) 

2026 

Agyiri M, Onzima R, Costa A, Fuerst-waltl B, Steininger F, Egger-Danner C, Meszaros G, Solkner J (2026) Analysing Resilience Indicator Traits in Austrian Fleckvieh, Brown Swiss and Holstein-Friesian Cattle. Journal of Animal Breeding and Genetics 143:613-624. doi:10.1111/jbg.70046

Bueschl C, Rypar T, Molcanova L, Markus J, Seidl B, Doppler M, Ruso D, Maisl C, Smejkal K, Schuhmacher R (2026) AnnoMe: user-defined classification of HR-MS/MS spectra for natural product discovery. Bioinformatics Advances 6:vbag111-Article No.: vbag111. doi:10.1093/bioadv/vbag111

Gruber S, Kock A, Egger-Danner C, Iwersen M, Fuerst-Waltl B, Solkner J (2026) Prediction and genetic analysis of blood β-hydroxybutyrate based on milk mid-infrared spectra in Fleckvieh dairy cows. Journal of Dairy Science 109:1742-1753. doi:10.3168/jds.2025-27308

Holzweber T, Dorn KM, Rasaki LA, Dohm JC, Himmelbauer H (2026) Genome and methylome of the root crop table beet (Beta vulgaris). Sci Rep. doi:10.1038/s41598-026-77397-6

Yardeni G, Holzweber T, Dohm JC, Himmelbauer H (2026) Identification of a candidate self-incompatibility locus in beet (Beta vulgaris). Theor Appl Genet 139:279. doi:10.1007/s00122-026-05368-6

2025 

Atanasoff-Kardjalieff AK, Steinert K, Bergander K, Kalinina S, Studt-Reinhold L (2025) From Genes to Molecules: The Fusarium PKS16 Gene Cluster Facilitates the Biosynthesis of Proliferapyrones. ChemBioChem 26:39983048-Article No.: 39983048. doi:10.1002/cbic.202401039

Gruber S, Terler G, Steinwidder A, Guggenberger T, Koeck A, Egger-Danner C, Mayerhofer M, Burn SJ, Zollitsch W, Fuerst-Waltl B, Soelkner J (2025) Application of milk mid-infrared spectroscopy for prediction of energy balance and associated traits in Fleckvieh and Holstein Friesian dairy cows. Animal 19:101645-Article No.: 101645. doi:10.1016/j.animal.2025.101645

Maisl C, Schuhmacher R, Bueschl C (2025) Accuracy, linearity, and statistical differences in comparative quantification in untargeted plant metabolomics using LC-ESI-Orbitrap-MS. Analytical and Bioanalytical Chemistry 417:2293-2309. doi:10.1007/s00216-025-05818-y

Noura S, Ferreira Da Silva Santos J, Feraru E, Hoernstein SNW, Feraru MI, Montero-Morales L, Rößling A-K, Scheuring D, Strasser R, Huesgen PF, Waidmann S, Kleine-Vehn J (2025) ERAD machinery controls the conditional turnover of PIN-LIKES in plants. Sci Adv 11:eadx5027. doi:10.1126/sciadv.adx5027

Sulaj E, Sandell FL, Schwaigerlehner L, Marzban G, Dohm JC, Kunert R (2025) Systems Biology of Recombinant 2G12 and 353/11 mAb Production in CHO-K1 Cell Lines at Phosphoproteome Level. Proteomes 13:9. doi:10.3390/proteomes13010009

 

2024

Atanasoff-Kardjalieff, A.K., Berger, H., Steinert, K., Janevska, S., Ponts, N., Humpf, H.U., Kalinina, S., Studt-Reinhold, L. (2024) Incorporation of the histone variant H2A.Z counteracts gene silencing mediated by H3K27 trimethylation in Fusarium fujikuroi. Epigenetics Chromatin 17(1), 7. doi: 10.1186/s13072-024-00532-y

Bennett AA, Steininger-Mairinger T, Eroglu CG, Gfeller A, Wirth J, Puschenreiter M, Hann S (2024) Dual column chromatography combined with high-resolution mass spectrometry improves coverage of non-targeted analysis of plant root exudates. Analytica Chimica Acta 1327. doi:10.1016/j.aca.2024.343126

Huber S, Bernardini LG, Bennett A, Fohrafellner J, Dohnke K, Bieber M, Vuolo F, Mentler A, Bodner G, Keiblinger K (2024) Suitability of microbial and organic matter indicators for on-farm soil health monitoring. Soil Use and Management 40. doi:10.1111/sum.12993

Moulinier-Anzola J, Schwihla M, Lugsteiner R, Leibrock N, Feraru MI, Tkachenko I, Luschnig C, Arcalis E, Feraru E, Lozano-Juste J, Korbei B (2024) Modulation of abscisic acid signaling via endosomal TOL proteins. New Phytologist 243:1065-1081. doi:10.1111/nph.19904

Nguyen-Hoang A, Sandell FL, Himmelbauer H, Dohm JC (2024) Spinach genomes reveal migration history and candidate genes for important crop traits. NAR Genom Bioinform 6:lqae034. doi:10.1093/nargab/lqae034

Sandell FL, Holzweber T, Street NR, Dohm JC, Himmelbauer H (2024) Genomic basis of seed colour in quinoa inferred from variant patterns using extreme gradient boosting. Plant Biotechnology Journal 22:1312-1324. doi:10.1111/pbi.14267

Studt-Reinhold, L., Atanasoff-Kardjalieff, A. K., Berger, H., Petersen, C., Bachleitner, S., Sulyok, M., Fischle, A., Humpf, H.U., Kalinina,S., Søndergaard, T. E. (2024) H3K27me3 is vital for fungal development and secondary metabolite gene silencing, and substitutes for the loss of H3K9me3 in the plant pathogen Fusarium proliferatum. PLoS Genet 20(1), e1011075. doi: 10.1371/journal.pgen.1011075 

Sulaj E, Schwaigerlehner L, Sandell FL, Dohm JC, Marzban G, Kunert R (2024) Quantitative proteomics reveals cellular responses to individual mAb expression and tunicamycin in CHO cells. Applied Microbiology and Biotechnology 108:381-Article No.: 381. doi:10.1007/s00253-024-13223-1

2023

Dallinger HG, Löschenberger F, Azrak N, Ametz C, Michel S, Bürstmayr H (2023) Genome-wide association mapping for pre-harvest sprouting in European winter wheat detects novel resistance QTL, pleiotropic effects, and structural variation in multiple genomes. The Plant Genome n/a:e20301. doi:10.1002/tpg2.20301

Linhart L, Moretti B, Herrera JC, Forneck A (2023) Maximum stomatal conductance rather than stomatal sensitivity to drought differentiates the PIWI grapevine cultivar Souvignier gris from Muscaris and Donauriesling. OENO One 57:129-138. doi:10.20870/oeno-one.2023.57.2.7307

Lunzer M, Buerstmayr M, Grausgruber H, Muellner AE, Fallbacher I, Buerstmayr H (2023) Wheat (Triticum aestivum) chromosome 6D harbours the broad spectrum common bunt resistance gene Bt11. Theoretical and Applied Genetics 136:207-Article No.: 207. doi:10.1007/s00122-023-04452-5

Maisl C, Doppler M, Seidl B, Bueschl C, Schuhmacher R (2023) Untargeted Plant Metabolomics: Evaluation of Lyophilization as a Sample Preparation Technique. Metabolites 13:686-Article No.: 686. doi:10.3390/metabo13060686

Missbach K, Flatschacher D, Bueschl C, Samson JM, Leibetseder S, Marchetti-Deschmann M, Zeilinger S, Schuhmacher R (2023) Light-Induced Changes in Secondary Metabolite Production of Trichoderma atroviride. Journal of Fungi 9:785-Article No.: 785. doi:10.3390/jof9080785

Moser B, Jandric Z, Troyer C, Priemetzhofer L, Domig KJ, Jaeger H, van den Oever SP, Mayer HK, Hann S, Zitek A (2023) Evaluation of spectral handheld devices for freshness assessment of carp and trout fillets in relation to standard methods including non-targeted metabolomics. Food Control 152:109835-Article No.: 109835. doi:10.1016/j.foodcont.2023.109835

Moser B, Steininger-Mairinger T, Jandric Z, Zitek A, Scharl T, Hann S, Troyer C (2023) Spoilage markers for freshwater fish: A comprehensive workflow for non-targeted analysis of VOCs using DHS-GC-HRMS. Food Research International 172:113123-Article No.: 113123. doi:10.1016/j.foodres.2023.113123

Morales L, Ametz C, Dallinger HG, Loschenberger F, Neumayer A, Zimmerl S, Buerstmayr H (2023) Comparison of linear and semi-parametric models incorporating genomic, pedigree, and associated loci information for the prediction of resistance to stripe rust in an Austrian winter wheat breeding program. Theoretical and Applied Genetics 136. doi:10.1007/s00122-023-04249-6

Waidmann S, Béziat C, Ferreira Da Silva Santos J, Feraru E, Feraru MI, Sun L, Noura S, Boutté Y, Kleine-Vehn J (2023) Endoplasmic reticulum stress controls PIN-LIKES abundance and thereby growth adaptation. Proc Natl Acad Sci U S A 120:e2218865120. doi:10.1073/pnas.2218865120

2022

Atanasoff-Kardjalieff AK, Seidl B, Steinert K, Daniliuc CG, Schuhmacher R, Humpf HU, Kalinina S, Studt-Reinhold L (2022) Biosynthesis of the Isocoumarin Derivatives Fusamarins is Mediated by the PKS8 Gene Cluster in Fusarium. Chembiochem:e202200342. doi:10.1002/cbic.202200342

Atanasoff-Kardjalieff AK, Studt L (2022) Secondary Metabolite Gene Regulation in Mycotoxigenic Fusarium Species: A Focus on Chromatin. Toxins 14:96. doi:10.3390/toxins14020096 

Ehn M, Michel S, Morales L, Gordon T, Dallinger HG, Buerstmayr H (2022) Genome-wide association mapping identifies common bunt (Tilletia caries) resistance loci in bread wheat (Triticum aestivum) accessions of the USDA National Small Grains Collection. Theoretical and Applied Genetics 135:3103-3115. doi:10.1007/s00122-022-04171-3

Feraru E, Feraru MI, Moulinier-Anzola J, Schwihla M, Santos JFD, Sun L, Waidmann S, Korbei B, Kleine-Vehn J (2022) PILS proteins provide a homeostatic feedback on auxin signaling output. Development 149. doi:10.1242/dev.200929

Konstantinova N, Hormayer L, Glanc M, Keshkeih R, Tan ST, Di Donato M, Retzer K, Moulinier-Anzola J, Schwihla M, Korbei B, Geisler M, Friml J, Luschnig C (2022) WAVY GROWTH Arabidopsis E3 ubiquitin ligases affect apical PIN sorting decisions. Nature Communications 13. doi:10.1038/s41467-022-32888-8

Michel S, Loschenberger F, Moreno-Amores J, Ametz C, Sparry E, Abel E, Ehn M, Burstmayr H (2022) Balancing selection gain and genetic diversity in the genomic planning of crosses. Plant Breeding 141:184-193. doi:10.1111/pbr.13003

Naji MM, Jiang YF, Utsunomiya YT, Rosen BD, Solkner J, Wang CD, Jiang L, Zhang Q, Zhang Y, Ding XD, Meszaros G (2022) Favored single nucleotide variants identified using whole genome Re-sequencing of Austrian and Chinese cattle breeds. Frontiers in Genetics 13. doi:10.3389/fgene.2022.974787

Retzer K, Moulinier-Anzola J, Lugsteiner R, Konstantinova N, Schwihla M, Korbei B, Luschnig C (2022) Endosomally Localized RGLG-Type E3 RING-Finger Ligases Modulate Sorting of Ubiquitylation-Mimic PIN2. International Journal of Molecular Sciences 23. doi:10.3390/ijms23126767

Rienesl L, Khayatzdadeh N, Kock A, Egger-Danner C, Gengler N, Grelet C, Dale LM, Werner A, Auer FJ, Leblois J, Solkner J (2022) Prediction of Acute and Chronic Mastitis in Dairy Cows Based on Somatic Cell Score and Mid-Infrared Spectroscopy of Milk. Animals 12. doi:10.3390/ani12141830

Rienesl L, Marginter M, Stuckler P, Kock A, Egger-Danner C, Solkner J (2022) Use of differential somatic cell count, somatic cell score, and milk mid-infrared spectral analysis for monitoring mastitis in dairy cows during routine milk recording. Livestock Science 264. doi:10.1016/j.livsci.2022.105050

Wascher FL, Stralis-Pavese N, McGrath JM, Schulz B, Himmelbauer H, Dohm JC (2022) Genomic distances reveal relationships of wild and cultivated beets. Nature Communications 13. doi:10.1038/s41467-022-29676-9

2021

Atanasoff-Kardjalieff AK, Lünne F, Kalinina S, Strauss J, Humpf H-U, Studt L (2021) Biosynthesis of Fusapyrone Depends on the H3K9 Methyltransferase, FmKmt1, in Fusarium mangiferae. Frontiers in Fungal Biology 2. doi:10.3389/ffunb.2021.671796

Ceranic A, Svoboda T, Berthiller F, Sulyok M, Samson JM, Guldener U, Schuhmacher R, Adam G (2021) Identification and Functional Characterization of the Gene Cluster Responsible for Fusaproliferin Biosynthesis in Fusarium proliferatum. Toxins 13. doi:10.3390/toxins13070468

Lehner R, Blazek L, Minoche AE, Dohm JC, Himmelbauer H (2021) Assembly and characterization of the genome of chard (Beta vulgaris ssp. vulgaris var. cicla). Journal of Biotechnology 333:67-76. doi:10.1016/j.jbiotec.2021.04.007

Morales L, Michel S, Ametz C, Dallinger HG, Loschenberger F, Neumayer A, Zimmerl S, Buerstmayr H (2021) Genomic signatures of selection for resistance to stripe rust in Austrian winter wheat. Theoretical and Applied Genetics 134:3111-3121. doi:10.1007/s00122-021-03882-3

Naji MM, Utsunomiya YT, Solkner J, Rosen BD, Meszaros G (2021) Assessing Bos taurus introgression in the UOA Bos indicus assembly. Genetics Selection Evolution 53. doi:10.1186/s12711-021-00688-1

Naji MM, Utsunomiya YT, Solkner J, Rosen BD, Meszaros G (2021) Investigation of ancestral alleles in the Bovinae subfamily. Bmc Genomics 22. doi:10.1186/s12864-021-07412-9

Schwihla M, Luschnig C, Korbei B (2021) Modulation of the endosomal pathway for optimized response to drought stress: from model to crop plants. Die Bodenkultur: Journal of Land Management, Food and Environment 72:57-72. doi:doi:10.2478/boku-2021-0006

2020

Chen ZH, Zehraoui E, Atanasoff-Kardjalieff AK, Strauss J, Studt L, Ponts N (2020) Effect ofH2A.Zdeletion is rescued by compensatory mutations inFusarium graminearum. Plos Genetics 16. doi:10.1371/journal.pgen.1009125

Moreno-Ruiz D, Fuchs A, Missbach K, Schuhmacher R, Zeilinger S (2020) Influence of Different Light Regimes on the Mycoparasitic Activity and 6-Pentyl-alpha-pyrone Biosynthesis in Two Strains of Trichoderma atroviride. Pathogens 9. doi:10.3390/pathogens9100860

Moulinier-Anzola J, Schwihla M, De-Araujo L, Artner C, Jorg L, Konstantinova N, Luschnig C, Korbei B (2020) TOLs Function as Ubiquitin Receptors in the Early Steps of the ESCRT Pathway in Higher Plants. Molecular Plant 13:717-731. doi:10.1016/j.molp.2020.02.012

Schwihla M, Korbei B (2020) The Beginning of the End: Initial Steps in the Degradation of Plasma Membrane Proteins. Frontiers in Plant Science 11. doi:10.3389/fpls.2020.00680

2019

Steiner B, Buerstmayr M, Wagner C, Danler A, Eshonkulov B, Ehn M, Buerstmayr H (2019) Fine-mapping of the Fusarium head blight resistance QTL Qfhs.ifa-5A identifies two resistance QTL associated with anther extrusion. Theoretical and Applied Genetics 132:2039-2053. doi:10.1007/s00122-019-03336-x