Research Project: Database Tools for Managing and Analyzing Big Data Sets to Enhance Small Grains Breeding

Location: Plant, Soil and Nutrition Research

Publications (Clicking on the reprint icon will take you to the publication reprint.)

Genetic dissection of cassava brown streak disease in a genomic selection population - (Peer Reviewed Journal)
Nandudu, L., Kawuki, R., Ogbonna, A., Kanaabi, M., Jannink, J. 2023. Genetic dissection of cassava brown streak disease in a genomic selection population. Frontiers in Plant Science. 13:1099409. https://doi.org/10.3389/fpls.2022.1099409.

Increasing cassava root yield: Additive-dominant genetic models for selection of parents and clones - (Peer Reviewed Journal)
Braatz De Andrade, L.R., Bandeira E Sousa, M., Wolfe, M., Jannink, J., Vilela De Resende, M.D., Azevedo, C.F., De Oliveira, E.J. 2022. Increasing cassava root yield: Additive-dominant genetic models for selection of parents and clones. Frontiers in Plant Science. 13.1071156. https://doi.org/10.3389/fpls.2022.1071156.

Parsimonious genotype by environment interaction covariance models for cassava (Manihot esculenta) - (Peer Reviewed Journal)
Bakare, M.A., Kayondo, I.S., Aghogho, C.I., Wolfe, M.D., Parkes, E.Y., Kulakow, P., Egesi, C., Jannink, J., Rabbi, I.Y. 2022. Parsimonious genotype by environment interaction covariance models for cassava (Manihot esculenta). Frontiers in Plant Science. 13:978248. https://doi.org/10.3389/fpls.2022.978248.

Skinny kelp (Saccharina angustissima) provides valuable genetics for the biomass improvement of farmed sugar kelp (Saccharina latissima) - (Peer Reviewed Journal)
Li, Y., Umanzor, S., Ng, C., Huang, M., Marty-Rivera, M., Bailey, D., Aydlett, M., Jannink, J., Lindell, S., Yarish, C. 2022. Skinny kelp (Saccharina angustissima) provides valuable genetics for the biomass improvement of farmed sugar kelp (Saccharina latissima). Journal of Applied Phycology. 34:2551-2563. https://doi.org/10.1007/s10811-022-02811-1.

Towards equitable public sector plant breeding in the US - (Peer Reviewed Journal)
Brzozowski, L., Hanson, S., Jannink, J., Meints, B., Moore, V., Tufan, H., Villwock, S. 2022. Towards equitable public sector plant breeding in the US. Crop Science. https://doi.org/10.1002/csc2.20800.

Exploring genotype by environment interaction on cassava yield and yield related traits using classical statistical methods - (Peer Reviewed Journal)
Bakare, M.A., Kayondo, I.S., Aghogho, C.I., Wolfe, M.D., Parkes, E.Y., Kulakow, P., Egesi, C., Rabbi, I.Y., Jannink, J. 2022. Exploring genotype by environment interaction on cassava yield and yield related traits using classical statistical methods. PLOS ONE. 17(7): Article e0268189. https://doi.org/10.1371/journal.pone.0268189.

Generalizable approaches for genomic prediction of metabolites in plants - (Peer Reviewed Journal)
Brzozowski, L.J., Campbell, M.T., Hu, H., Caffee, M., Gutierrez, L., Smith, K.P., Sorrells, M.E., Gore, M., Jannink, J. 2022. Generalizable approaches for genomic prediction of metabolites in plants. The Plant Genome. 15: Article e20205. https://doi.org/10.1002/tpg2.20205.

Simulation of sugar kelp (Saccharina latissima) breeding guided by practices to accelerate genetic gains - (Peer Reviewed Journal)
Huang, M., Robbins, K.R., Li, Y., Umanzor, S., Marty-Rivera, M., Bailey, D., Yarish, C., Lindell, S., Jannink, J. 2022. Simulation of sugar kelp (Saccharina latissima) breeding guided by practices to accelerate genetic gains. Genes, Genomes, Genetics. 12(3). https://doi.org/10.1093/g3journal/jkac186.

Selection for seed size has uneven effects on specialized metabolite abundance in oat (Avena sativa L.) - (Peer Reviewed Journal)
Brzozowski, L.J., Hu, H., Campbell, M.T., Broeckling, C.D., Caffe, M., Gutierrez, L., Smith, K.P., Sorrells, M.E., Gore, M.A., Jannink, J. 2021. Selection for seed size has uneven effects on specialized metabolite abundance in oat (Avena sativa L.). Genes, Genomes, Genetics. 12(3): Article ejkab419. https://doi.org/10.1093/g3journal/jkab419.

A population based expression atlas provides insights into disease resistance and other physiological traits in cassava (Manihot esculenta Crantz) - (Peer Reviewed Journal)
Ogbonna, A.C., Ramu, P., Esuma, W., Nandudu, L., Morales, N., Powell, A., Kawuki, R., Bauchet, G., Jannink, J., Mueller, L.A. 2021. A population based expression atlas provides insights into disease resistance and other physiological traits in cassava (Manihot esculenta Crantz). Scientific Reports. 11: Article e23520. https://doi.org/10.1038/s41598-021-02794-y.

Response to early generation genomic selection for yield in wheat - (Peer Reviewed Journal)
Bonnett, D., Li, Y., Crossa, J., Dreisigacker, S., Basnet, B., Perez-Rodriguez, P., Alvarado, G., Jannink, J., Poland, J., Sorrells, M. 2022. Response to early generation genomic selection for yield in wheat. Frontiers in Plant Science. 12.718611. https://doi.org/10.3389/fpls.2021.718611.

Sexual dimorphism and the effect of wild introgressions on recombination in cassava (Manihot esculenta Crantz) breeding germplasm - (Peer Reviewed Journal)
Chan, A.W., Villwock, S.S., Williams, A.L., Jannink, J. 2021. Sexual dimorphism and the effect of wild introgressions on recombination in cassava (Manihot esculenta Crantz) breeding germplasm. Genes, Genomes, Genetics. 12(1): Article jkab372. https://doi.org/10.1093/g3journal/jkab372.

Genome-wide association mapping and genomic prediction of yield-related traits and starch pasting properties in cassava - (Peer Reviewed Journal)
Phumichai, C., Aiemnaka, P., Nathaison, P., Hunsawattanakul, S., Fungfoo, P., Rojanaridpiched, C., Vichukit, V., Kongsil, P., Kittipadakul, P., Sorrells, M.E., Wannarat, W., Chunwongse, J., Tongyoo, P., Kijkhunasatian, C., Chotineeranat, S., Piyachomkwan, K., Wolfe, M.D., Jannink, J. 2021. Genome-wide association mapping and genomic prediction of yield-related traits and starch pasting properties in cassava. Theoretical and Applied Genetics. 135:145-171. https://doi.org/10.1007/s00122-021-03956-2.

Multi-omics prediction of oat agronomic and seed nutritional traits across environments and in distantly related populations - (Peer Reviewed Journal)
Hu, H., Campbell, M.T., Yeats, T.H., Zheng, X., Runcie, D.E., Covarrubias-Pazaran, G., Broeckling, C., Yao, L., Caffe-Treml, M., Jannink, J., Gutierrezlucia, Smith, K., Tanaka, J., Hoekenga, O., Sorrells, M.E., Gore, M.A. 2021. Multi-omics prediction of oat agronomic and seed nutritional traits across environments and in distantly related populations. Theoretical and Applied Genetics. 134:4043-4054. https://doi.org/10.1007/s00122-021-03946-4.

Data-driven decentralized breeding increases prediction accuracy in a challenging crop production environment - (Peer Reviewed Journal)
De Sousa, K., Van Etten, J., Poland, J., Fadda, C., Jannink, J., Gebrehawaryat, Y., Lakew, B.F., Mengistu, D.K., Pe, M.E., Dell'Acqua, M., Solberg, S. 2021. Data-driven decentralized breeding increases prediction accuracy in a challenging crop production environment. Communications Biology. https://doi.org/10.1038/s42003-021-02463-w.

Genomic mating in outbred species: predicting cross usefulness with additive and total genetic covariance matrices - (Peer Reviewed Journal)
Wolfe, M.D., Chan, A.W., Kulakow, P., Rabbi, I., Jannink, J. 2021. Genomic mating in outbred species: predicting cross usefulness with additive and total genetic covariance matrices. Genetics. 219(3). https://doi.org/10.1093/genetics/iyab122.

Outlook of cassava brown streak disease assessment: Perspectives of the screening methods of breeders and pathologists - (Peer Reviewed Journal)
Ozimati, A.A., Esuma, W., Alicai, T., Jannink, J., Egesi, C., Kawuki, R. 2021. Outlook of cassava brown streak disease assessment: Perspectives of the screening methods of breeders and pathologists. Frontiers in Plant Science. 12:648436. https://doi.org/10.3389/fpls.2021.648436.

Multi-species genomics-enabled selection for improving agroecosystems across space and time - (Peer Reviewed Journal)
Wolfe, M.D., Jannink, J., Kantar, M.B., Santantonio, N. 2021. Multi-species genomics-enabled selection for improving agroecosystems across space and time. Frontiers in Plant Science. 12:665349. https://doi.org/10.3389/fpls.2021.665349.

Improving genomic prediction for seed quality traits in oat (Avena sativa L.) using trait-specific relationship matrices - (Peer Reviewed Journal)
Campbell, M.T., Hu, H., Yeats, T.H., Bzozowski, L.J., Caffe-Treml, M., Gutierrez, L., Smith, K.P., Sorrells, M.E., Gore, M.A., Jannink, J. 2021. Improving genomic prediction for seed quality traits in oat (Avena sativa L.) using trait-specific relationship matrices. Frontiers in Genetics. 12:643733. https://doi.org/10.3389/fgene.2021.643733.

Comparative analysis of morphometric traits of farmed sugar kelp and skinny kelp, Saccharina spp., strains from the Northwest Atlantic - (Peer Reviewed Journal)
Umanzor, S., Li, Y., Bailey, D., Augyte, S., Huang, M., Marty-Rivera, M., Jannink, J., Yarish, C., Lindell, S. 2021. Comparative analysis of morphometric traits of farmed sugar kelp and skinny kelp, Saccharina spp., strains from the Northwest Atlantic. Journal of the World Aquaculture Society. 2021;1-10. https://doi.org/10.1111/jwas.12783.

Kelp, Saccharina spp, population genetics in New England, US, for guiding a breeding program of thermally resilient strains - (Peer Reviewed Journal)
Augyte, S., Jannink, J., Mao, X., Huang, M., Robbins, K., Hare, M., Umanzor, S., Marty-Rivera, M., Li, Y., Yarish, C., Lindell, S., Bailey, D. 2020. Kelp, Saccharina spp, population genetics in New England, US, for guiding a breeding program of thermally resilient strains. Bulletin of Fisheries Research Agency. 50:135-139.

Translating insights from the seed metabolome into improved prediction for lipid-composition traits in oat (Avena sativa L.) - (Peer Reviewed Journal)
Campbell, M.T., Hu, H., Yeats, T.H., Caffe-Treml, M., Gutierrez, L., Smith, K.P., Sorrells, M.E., Gore, M.A., Jannink, J. 2021. Translating insights from the seed metabolome into improved prediction for lipid-composition traits in oat (Avena sativa L.). Genetics. 217(3):iyaa043. https://doi.org/10.1093/genetics/iyaa043.

Population genetics of sugar kelp in the Northwest Atlantic region using genome-wide markers - (Peer Reviewed Journal)
Mao, X., Augyte, S., Huang, M., Hare, M.P., Bailey, D., Umanzor, S., Marty-Rivera, M., Robbins, K.R., Yarish, C., Lindell, S., Jannink, J. 2020. Population genetics of sugar kelp in the Northwest Atlantic region using genome-wide markers. Frontiers in Marine Science. 7:694. https://doi.org/10.3389/fmars.2020.00694.

Translating insights from the seed metabolome into improved prediction for healthful compounds in oat (Avena sativa L.) - (Other)
Campbell, M.T., Hu, H., Yeats, T.H., Caffe-Treml, M., Gutierrez, L., Smith, K.P., Sorrells, M.E., Gore, M., Jannink, J. 2020. Translating insights from the seed metabolome into improved prediction for healthful compounds in oat (Avena sativa L.). bioRxiv. https://doi.org/10.1101/2020.07.06.190512.

Genome-wide association analysis reveals new insights into the genetic architecture of defensive, agro-morphological and quality-related traits in cassava - (Peer Reviewed Journal)
Rabbi, I., Kayondo, S., Bauchet, G., Yusuf, M., Aghogho, C., Ogunpaimo, K., Uwugiaren, R., Smith, I., Peteri, P., Agbona, A., Parkes, E., Lydia, E., Wolfe, M., Jannink, J., Egesi, C., Kulakow, P. 2020. Genome-wide association analysis reveals new insights into the genetic architecture of defensive, agro-morphological and quality-related traits in cassava. Plant Molecular Biology. https://doi.org/10.1007/s11103-020-01038-3.

Improving root characterisation for genomic prediction in cassava - (Peer Reviewed Journal)
Yonis, B., Pino Del Carpio, D., Wolfe, M., Jannink, J., Kulakow, P., Ismail, R. 2020. Improving root characterisation for genomic prediction in cassava. Scientific Reports. https://doi.org/10.1038/s41598-020-64963-9.

Using public databases for genomic prediction of tropical maize lines - (Peer Reviewed Journal)
Morais, P., Akdemir, D., Rogerio Braatz De Andrade, L., Jannink, J., Fritsche-Neto, R., Borem, A., Alvez, F.C., Lyra, D.H., Granato, I.S. 2020. Using public databases for genomic prediction of tropical maize lines. Plant Breeding. 139(4):697-707. https://doi.org/10.1111/pbr.12827.

Incorporating selfing to purge deleterious alleles in a cassava genomic selection program - (Other)
Somo, M., Jannink, J. 2020. Incorporating selfing to purge deleterious alleles in a cassava genomic selection program. bioRxiv. https://doi.org/10.1101/2020.04.04.025841.

Recurrent genomic selection for wheat grain fructans - (Peer Reviewed Journal)
Veenstra, L.D., Poland, J., Jannink, J., Sorrells, M.E. 2020. Recurrent genomic selection for wheat grain fructans. Crop Science. 60(3):1499-1512. https://doi.org/10.1002/csc2.20130.

Genomic prediction and quantitative trait locus discovery in a cassava training population constructed from multiple breeding stages - (Peer Reviewed Journal)
Somo, M., Kulembeka, H., Mtunda, K., Mrema, E., Salum, K., Wolfe, M., Rabbi, I., Egesi, C., Kawuki, R., Jannink, J., Ozimati, A., Lozano, R. 2020. Genomic prediction and quantitative trait locus discovery in a cassava training population constructed from multiple breeding stages. Crop Science. 60(2):896-913. https://doi.org/10.1002/csc2.20003.

Genetic correlation, genome-wide association and genomic prediction of portable NIRS predicted carotenoids in cassava roots - (Peer Reviewed Journal)
Ikeogu, U.N., Akdemir, D., Wolfe, M.D., Okeke, U.G., Chinedozi, A., Jannink, J., Egesi, C.N. 2019. Genetic correlation, genome-wide association and genomic prediction of portable NIRS predicted carotenoids in cassava roots. Frontiers in Plant Science. https://doi.org/10.3389/fpls.2019.01570.

Genome wide association study of 5 agronomic traits in olive (Olea europaea L.) - (Peer Reviewed Journal)
Kaya, H.B., Akdemir, D., Lozano, R., Cetin, O., Kaya, H.S., Sahin, M., Smith, J.L., Bahattin, Y., Jannink, J. 2019. Genome wide association study of 5 agronomic traits in olive (Olea europaea L.). Scientific Reports. 9:18764. https://doi.org/10.1038/s41598-019-55338-w.

A new oat seed transcriptome identifies heritable temporal gene expression patterns in developing seeds of hexaploid oat - (Peer Reviewed Journal)
Hu, H., Gutierrez-Gonzalez, J.L., Liu, X., Yeats, T.H., Garvin, D.F., Hoekenga, O.A., Sorrels, M.E., Gore, M.A., Jannink, J. 2020. A new oat seed transcriptome identifies heritable temporal gene expression patterns in developing seeds of hexaploid oat. Plant Biotechnology Journal. 18(5):1211-1222. https://doi.org/10.1111/pbi.13286.

Heritable temporal gene expression patterns correlate with metabolomic seed content in developing hexaploid oat seed - (Peer Reviewed Journal)
Hu, H., Gutierrez-Gonzalez, J.J., Liu, X., Yeats, T.H., Garvin, D.F., Hoekenga, O.A., Sorrells, M.E., Gore, M.A., Jannink, J. 2019. Heritable temporal gene expression patterns correlate with metabolomic seed content in developing hexaploid oat seed. Plant Biotechnology Journal. 18:1211-1222. https://doi.org/10.1111/pbi.13286.

Historical introgressions from a wild relative of modern cassava improved important traits and may be under balancing selection - (Peer Reviewed Journal)
Wolfe, M.D., Bauchet, G.J., Chan, A.W., Lozano, R., Ramu, P., Egesi, C., Kawuki, R., Kulakow, P., Rabbi, I., Jannink, J. 2019. Historical introgressions from a wild relative of modern cassava improved important traits and may be under balancing selection. Genetics. 213(4):1237-1253. https://doi.org/10.1534/genetics.119.302757.

A framework for genomics-informed ecophysiological modeling in plants - (Peer Reviewed Journal)
Wang, D.R., Guadagno, C.R., Mao, X., Mackay, S.D., Pleban, J.R., Baker, J.R., Weinig, C., Jannink, J., Ewers, B.E. 2019. A framework for genomics-informed ecophysiological modeling in plants. Journal of Experimental Botany. 70(9):2561-2574. https://doi.org/10.1093/jxb/erz090.

High-throughput phenotyping platforms enhance genomic selection for wheat grain yield across populations and cycles in early stage - (Peer Reviewed Journal)
Sun, J., Poland, J.A., Mondal, S., Crossa, J., Philomin, J., Singh, R.P., Rutkoski, J.E., Jannink, J., Crespo-Herrera, L., Velu, G., Huerta-Espino, J., Sorrels, M. 2019. High-throughput phenotyping platforms enhance genomic selection for wheat grain yield across populations and cycles in early stage. Theoretical and Applied Genetics. 132:1705–1720. https://doi.org/10.1007/s00122-019-03309-0.

Homeologous epistasis in wheat: the search for an immortal hybrid - (Peer Reviewed Journal)
Santantonio, N., Jannink, J., Sorrels, M. 2019. Homeologous epistasis in wheat: the search for an immortal hybrid. Genetics. 211:1105-1122. https://doi.org/10.25386/genetics.6913253.

Multivariate genome-wide association analyses reveal the genetic basis of seed fatty acid composition in oat (Avena sativa L.) - (Peer Reviewed Journal)
Carlson, M.O., Montilla-Bascon, G., Hoekenga, O.A., Tinker, N.A., Poland, J., Baseggio, M., Sorrels, M.E., Jannink, J., Gore, M., Yeats, T.H. 2019. Multivariate genome-wide association analyses reveal the genetic basis of seed fatty acid composition in oat (Avena sativa L.). Genes, Genomes, Genetics. 1-39. https://doi.org/10.1101/589952.

A statistical framework for detecting mislabeled and contaminated samples using shallow-depth sequence data - (Peer Reviewed Journal)
Chan, A.W., Williams, A.L., Jannink, J. 2018. A statistical framework for detecting mislabeled and contaminated samples using shallow-depth sequence data. BMC Bioinformatics. 19:478. https://doi.org/10.1186/s12859-018-2512-8.

Prediction of subgenome additive and interaction effects in allohexaploid wheat - (Peer Reviewed Journal)
Santantonia, N., Jannink, J., Sorrels, M. 2019. Prediction of subgenome additive and interaction effects in allohexaploid wheat. Genes, Genomes, Genetics. 9(3):685-698. https://doi.org/10.1534/g3.118.200613

A Low resolution epistasis mapping approach to identify chromosome arm interactions in allohexaploid wheat - (Peer Reviewed Journal)
Santantonia, N., Jannink, J., Sorrels, M. 2018. A Low resolution epistasis mapping approach to identify chromosome arm interactions in allohexaploid wheat. Genes, Genomes, Genetics. 9:675-684. https://doi.org/10.25387/g3.7311797.

Training population optimization for prediction of cassava brown streak disease resistance in West African clones - (Peer Reviewed Journal)
Ozimati, A., Kawuki, R., Esuma, W., Kayondo, I.S., Wolfe, M., Lozano, R., Rabbi, I., Kulakow, P., Jannink, J. 2018. Training population optimization for prediction of cassava brown streak disease resistance in West African clones. Genes, Genomes, Genetics. 8(12):3903-3913. https://doi.org/10.1534/g3.118.200710.

Genetic variation and trait correlations in an East African cassava breeding population for genomic selection - (Peer Reviewed Journal)
Ozimati, A., Kawuki, R., Esuma, W., Kayondo, S.I., Pariyo, A., Wolfe, M., Jannink, J. 2019. Genetic variation and trait correlations in an East African cassava breeding population for genomic selection. Crop Science. 59(2):460-473. https://doi.org/10.2135/cropsci2018.01.0060.

Influence of genotype and environment on wheat grain fructan content - (Peer Reviewed Journal)
Veenstra, L.D., Santantonio, N., Jannink, J., Sorrells, M.E. 2018. Influence of genotype and environment on wheat grain fructan content. Crop Science. 59:190-198. https://doi.org/10.2135/cropsci2018.06.0363.

Genome-wide association study of resistance to Cassava Green Mite pest and related traits in cassava - (Peer Reviewed Journal)
Ezenwaka, L., Pino Del Carpio, D., Jannink, J., Rabbi, I., Danquah, E., Asante, I., Danquah, A., Blay, E., Egesi, C. 2018. Genome-wide association study of resistance to Cassava Green Mite pest and related traits in cassava. Crop Science. 58(5):1907-1918. https://doi.org/10.2135/cropsci2018.01.0024.

Association mapping in common bean revealed regions associated with Anthracnose and Angular Leaf Spot resistance - (Peer Reviewed Journal)
Fritsche-Neto, R., Oliveira De Souza, T.L., Pereira, H.S., Claudio De Faria, L., Mela, L.C., Novaes, E., Brum, I.J., Jannink, J. 2019. Association mapping in common bean revealed regions associated with Anthracnose and Angular Leaf Spot resistance. Scientia Agricola. 76(4):321-327. http://doi.org/10.1590/1678-992X-2017-0306.

Accuracy of genomic selection to predict maize single-crosses obtained through different mating designs - (Peer Reviewed Journal)
Fritsche-Neto, R., Akdemir, D., Jannink, J. 2018. Accuracy of genomic selection to predict maize single-crosses obtained through different mating designs. Theoretical and Applied Genetics. 131:1153-1162. https://doi.org/10.1007/s00122-018-3068-8

Genome-wide association studies and heritability estimation in the functional genomics era - (Book / Chapter)
Pino Del Carpio, D., Lozano, R., Wolfe, M., Jannink, J. 2018. Genome-wide association studies and heritability estimation in the functional genomics era. In: Population Genomics. Springer, Cam. Switzerland: Springer Nature. p. 1-65.

Improving genomic prediction in Cassava field experiments by accounting for interplot competition - (Peer Reviewed Journal)
Elias, A., Rabbi, I., Kulakow, P., Jannink, J. 2018. Improving genomic prediction in Cassava field experiments by accounting for interplot competition. G3, Genes/Genomes/Genetics. https://doi.org/10.1534/g3.117.300354

Genome-wide association mapping and genomic prediction for CBSD resistance in Manihot esculenta - (Peer Reviewed Journal)
Kayondo, I., Pino Del Carpio, D., Lozano, R., Ozimati, A., Wolfe, M., Baguma, Y., Gracen, V., Offei, S., Ferguson, M., Kawuki, R., Jannink, J. 2018. Genome-wide association mapping and genomic prediction for CBSD resistance in Manihot esculenta. Scientific Reports. 8:1549. https://doi.org/10.1038/s41598-018-19696-1.

Impact of mislabeling on genomic selection in cassava breeding - (Peer Reviewed Journal)
Yabe, S., Iwata, H., Jannink, J. 2018. Impact of mislabeling on genomic selection in cassava breeding. Crop Science. 58:1470-1480. doi: 10.2135/cropsci2017.07.0442

Accuracies of univariate and multivariate genomic prediction models in African cassava - (Peer Reviewed Journal)
Okeke, U., Akdemir, D., Rabbi, I., Kulakow, P., Jannink, J. 2017. Accuracies of univariate and multivariate genomic prediction models in African cassava. Genetics Selection Evolution. 49:88. https://doi.org/10.1186/s12711-017-0361-y

Rapid analyses of dry matter content and carotenoids in fresh cassava roots using a portable visible and near infrared spectrometer (Vis/NIRS) - (Peer Reviewed Journal)
Ikeogu, U., Davrieux, F., Dufour, D., Ceballos, H., Egesi, C., Jannink, J. 2017. Rapid analyses of dry matter content and carotenoids in fresh cassava roots using a portable visible and near infrared spectrometer (Vis/NIRS). PLoS One. 12(12):e0188918. https://doi.org/10.1371/journal.pone.0188918

Improving genomic prediction in cassava field experiments using spatial analysis - (Peer Reviewed Journal)
Elias, A., Rabbi, I., Kulakow, P., Jannink, J. 2018. Improving genomic prediction in cassava field experiments using spatial analysis. G3, Genes/Genomes/Genetics. 8:53-62. https://doi.org/10.1534/g3.117.300323

Locally epistatic models for genome-wide prediction and association by importance sampling - (Peer Reviewed Journal)
Adkemir, D., Jannink, J., Isidro-Sanchez, J. 2017. Locally epistatic models for genome-wide prediction and association by importance sampling. Genetics Selection Evolution. 49:74. https://doi.org/10.1186/s12711-017-0348-8.

Resistance to multiple temperate and tropical stem and sheath diseases of rice - (Peer Reviewed Journal)
Rosas, J., Martinez, S., Blanco, P., Perez De Vida, F., Bonnecarrere, V., Mosquera, G., Cruz, M., Garayochea, S., Monteverde, E., McCouch, S., German, S., Jannink, J., Gutierrez, L. 2017. Resistance to multiple temperate and tropical stem and sheath diseases of rice. The Plant Genome. 11(1). https://doi.org/10.3835/plantgenome2017.03.0029.

Whole-genome prediction of reaction norms to environmental stress in bread wheat (Triticum aestivum L.) by genomic random regression - (Peer Reviewed Journal)
Ly, D., Huet, S., Gauffreteau, A., Rincent, R., Touzy, G., Mini, A., Jannink, J., Cormier, F., Paux, E., Lafarge, S., Le Gouis, J., Charmet, G. 2017. Whole-genome prediction of reaction norms to environmental stress in bread wheat (Triticum aestivum L.) by genomic random regression. Field Crops Research. 216:32-41. https://doi.org/10.1016/j.fcr.2017.08.020

Genome-wide association mapping of correlated traits in cassava: dry matter and total carotenoid content - (Peer Reviewed Journal)
Rabbi, I., Udoh, L., Wolfe, M., Parkes, E., Gedil, M., Dixon, A., Punna, R., Jannink, J., Kulakow, P. 2017. Genome-wide association mapping of correlated traits in cassava: dry matter and total carotenoid content. The Plant Genome. 10(3):1-14.