Location: Plant, Soil and Nutrition Research
Publications
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DeltaBreed: A BrAPI-centric breeding data information system
- (Peer Reviewed Journal)
Yarnes, S.C., Palladino, N., Meidlinger, D.J., Phillips, D.R., Sweeney, H.M., Mandych, M.L., Mustafa, S.A., Boubane, S., Parsons, T., Slonecki, T.J., Zhao, D., Rife, T.W., Ellerbrock, B.J., Courtney, C., Selby, P., Flores-Gonzalez, M., Mueller, L.A., Aparicio, J.S., Al-Sham'Aa, K., Raubach, S., Jannink, J., Buckler Iv, E.S., Beil, C.T., Sheehan, M.J. 2025. DeltaBreed: A BrAPI-centric breeding data information system. PLOS ONE. 21(1): e0341691. https://doi.org/10.1371/journal.pone.0341691.
Designing superior crosses in cassava using genomic mating to boost yield and genetic diversity
- (Peer Reviewed Journal)
Scaffolded and annotated nuclear and organelle genomes of the North American brown alga Saccharina latissima
- (Peer Reviewed Journal)
Deweese, K., Molano, G., Calhourn, S., Lipzen, A., Jenkins, J., Williams, M., Plott, C., Talag, J., Grimwood, J., Jannink, J., Grigoriev, I.V., Schmutz, J., Yarish, C., Nuzhdin, S., Lindell, S. 2025. Scaffolded and annotated nuclear and organelle genomes of the North American brown alga Saccharina latissima. Frontiers in Genetics. 16:1494480. https://doi.org/10.3389/fgene.2025.1494480.
Global genomic diversity analysis of wild and cultivated oat reveals population structure and signatures of chromosome rearrangements
- (Peer Reviewed Journal)
Bekele, W.A., Avni, R., Birkett, C.L., Itaya, A., Wight, C.P., Brodfuhrer, S., Canalea, F.J., Carlson, C.H., Fiebig, A., Li, Y., Nandety, R., Waring, D.J., Arbelaez, J.D., Beattie, A., Caffe, M., Del Blanco, I.A., Fiedler, J.D., Gutierrez, L., Harris, J., Harrison, S., Herrmann, M., Huang, Y., Isidro Y Sanchez, J., Mcmullen, M.S., Mitchell Fetch, J.W., Nilsen, K.T., Parkin, I.A., Peng, Y., Smith, K.P., Sutton, T., Yan, W., Zwer, P., Diederichsen, A., Esvelt Klos, K.L., Fu, Y., Howarth, C.J., Jannink, J., Jellen, E.N., Langdon, T., Maughan, P.J., Paczos-Grzeda, E., Prats, E., Sen, T.Z., Mascher, M., Tinker, N.A., Gupta, R. 2025. Global genomic diversity analysis of wild and cultivated oat reveals population structure and signatures of chromosome rearrangements. Nature Communications. 16, Article number: 9486 (2025). https://doi.org/10.1038/s41467-025-57895-3.
Evaluating a cassava crop growth model by optimizing genotype-specific parameters using multienvironment trial breeding data
- (Peer Reviewed Journal)
Okoma, P., Kayondo, S., Rabbi, I., Moreno-Cadena, P.L., Hoogenboom, G., Jannink, J. 2025. Evaluating a cassava crop growth model by optimizing genotype-specific parameters using multienvironment trial breeding data. Frontiers in Plant Science. 16:1535058. https://doi.org/10.3389/fpls.2025.1535058.
Assessing genetic variation, genotype-environment interactions, and genomic prediction for cassava garri quality
- (Peer Reviewed Journal)
Amaefula, C., Setotaw, T., Okoronkwo, J., Chijioke, U., Ezenwaka, L., Onyeka, J., Rabbi, I., Hall, A., Egesi, C., Jannink, J. 2025. Assessing genetic variation, genotype-environment interactions, and genomic prediction for cassava garri quality. Crop Science. 65. Article e70032. https://doi.org/10.1002/csc2.70032.
Carotenoid-carbohydrate crosstalk: evidence for genetic and physiological interactions in storage tissues across crop species
- (Peer Reviewed Journal)
Villwock, S.S., Li, L., Jannink, J. 2024. Carotenoid-carbohydrate crosstalk: evidence for genetic and physiological interactions in storage tissues across crop species. New Phytologist. 244:1709-1722. https://doi.org/10.1111/nph.20196.
The potential of phenomic selection for the joint Ethiopian malt barley breeding program
- (Peer Reviewed Journal)
Setotaw, T., Wilde, P., Bernal Vasquez, A., Gebretsadik, R., Lakew, B., Shiferaw, T., Difabachew, Y., Jannink, J. 2024. The potential of phenomic selection for the joint Ethiopian malt barley breeding program. The Plant Phenome Journal. 7:e70003. https://doi.org/10.1002/ppj2.70003.
Genomic prediction for targeted populations of environments in oat (Avena sativa)
- (Peer Reviewed Journal)
Sandro, P., Bhatta, M., Bower, A., Carlson, S., Jannink, J., Waring, D.J., Birkett, C.L., Smith, K., Wiersma, J., Caffe, M., Kleinjan, J., Mcmullen, M.S., English, L., Gutierrez, L. 2024. Genomic prediction for targeted populations of environments in oat (Avena sativa). Crop and Pasture Science. 75. https://doi.org/10.1071/CP23126.
Genetic analysis of cassava brown streak disease root necrosis using image analysis and genome-wide association studies
- (Peer Reviewed Journal)
Nandudu, L., Strock, C., Ogbonna, A., Kawuki, R., Jannink, J. 2024. Genetic analysis of cassava brown streak disease root necrosis using image analysis and genome-wide association studies. Frontiers in Plant Science. 15. https://doi.org/10.3389/fpls.2024.1360729.
Genetic complexity of cassava brown streak disease: insights from qPCR-based viral titer analysis and genome-wide association studies
- (Peer Reviewed Journal)
Nandudu, L., Sheat, S., Winter, S., Ogbonna, A., Kawuki, R., Jannink, J. 2024. Genetic complexity of cassava brown streak disease: insights from qPCR-based viral titer analysis and genome-wide association studies. Frontiers in Plant Science. 15. https://doi.org/10.3389/fpls.2024.1365132.
Evaluating breeding for broad versus narrow adaptation for cassava in Nigeria using stochastic simulation
- (Peer Reviewed Journal)
Bakare, M.A., Kayondo, S., Kulakow, P., Rabbi, I., Jannink, J. 2023. Evaluating breeding for broad versus narrow adaptation for cassava in Nigeria using stochastic simulation. Crop Science. 64(2):603-616. https://doi.org/10.1002/csc2.21170.
Insight into a two-part plant breeding scheme through Bayesian optimization of budget allocations
- (Peer Reviewed Journal)
Jannink, J., Astudillo, R., Frazier, P. 2023. Insight into a two-part plant breeding scheme through Bayesian optimization of budget allocations. Crop Science. 65:e21124. https://doi.org/10.1002/csc2.21124.