2024
Gautam S, Pandey J, Scheuring DC, Koym JW, Vales MI. 2024. Genetic Basis of Potato Tuber Defects and Identification of Heat-Tolerant Clones. Plants 13(5):616. https://doi.org/10.3390/plants13050616
2023
Pandey, J., S. Gautam, D.C. Scheuring, J.W. Koym, and M.I. Vales. 2023. Variation and genetic basis of mineral content in potato tubers and prospects for genomic selection. Frontiers in Plant Science. https://www.frontiersin.org/articles/10.3389/fpls.2023.1301297
Pandey, P., D.C. Scheuring, J.W. Koym, J.B. Endelman, and M.I. Vales. 2023. Genomic selection and genome-wide association studies in tetraploid chipping potatoes. The Plant Genome. https://doi.org/10.1002/tpg2.20297
Cristiane Hayumi Taniguti, Lucas Mitsuo Taniguti, Rodrigo Rampazo Amadeu, Jeekin Lau, Gabriel de Siqueira Gesteira, Thiago de Paula Oliveira, Getulio Caixeta Ferreira, Guilherme da Silva Pereira, David Byrne, Marcelo Mollinari, Oscar Riera-Lizarazu, Antonio Augusto Franco Garcia. 2023. Developing best practices for genotyping-by-sequencing analysis in the construction of linkage maps. GigaScience 12:giad092, https://doi.org/10.1093/gigascience/giad092
Zhao, D., Mejia-Guerra, K. M., Mollinari, M., Samac, D., Irish, B., Heller-Uszynska, K., Beil, C. T. and Sheehan, M. J. 2023. A public mid-density genotyping platform for alfalfa (Medicago sativa L.), Genetic Resources 4(8):55–63. https://doi.org/10.46265/genresj.EMOR6509
Pandey, J., Thompson, D., Joshi, M., Scheuring, D.C., Koym, J., Joshi, V., and Vales, M.I. Genetic architecture of tuber-bound free amino acids in potato and effect of growing environment on the amino acid content. Sci Rep 13, 13940 (2023). https://doi.org/10.1038/s41598-023-40880-5
Rawandoozi, Z., Young, E. L., Liang, S., Wu, X., Fu, Q., Hochhaus, T., Yan, M., Rawandoozi, M. Y., Klein, P. E., Byrne, D. H., & Riera-Lizarazu, O. (2023). Pedigree-based QTL analysis of flower size traits in two multi-parental diploid rose populations. Frontiers in Plant Science, 14, 1226713. https://doi.org/10.3389/fpls.2023.1226713
Lau, J., Gill, H., Taniguti, C. H., Young, E. L., Klein, P. E., Byrne, D. H., & Riera-Lizarazu, O. (2023). QTL discovery for resistance to black spot and cercospora leaf spot, and defoliation in two interconnected F1 bi-parental tetraploid garden rose populations. Frontiers in Plant Science, 14, 1209445. https://doi.org/10.3389/fpls.2023.1209445
Chizk, T. M., Clark, J. R., Johns, C., Nelson, L., Ashrafi, H., Aryal, R., & Worthington, M. L. (2023). Genome-wide association identifies key loci controlling blackberry postharvest quality. Frontiers in Plant Science, 14, 1182790. https://doi.org/10.3389/fpls.2023.1182790
Olmedo-Velarde, A., Ochoa-Corona, F. M., Larrea-Sarmiento, A. E., Elbeaino, T., & Flores, F. (2023). In-silico prediction of RT-qPCR-high resolution melting for broad detection of emaraviruses. PLOS ONE, 18(5), e0272980. https://doi.org/10.1371/journal.pone.0272980
Angelin-Bonnet, O., Thomson, S., Vignes, M. et al. Investigating the genetic components of tuber bruising in a breeding population of tetraploid potatoes. BMC Plant Biol 23, 238 (2023). https://doi.org/10.1186/s12870-023-04255-2
Hochhaus, T., Lau, J., Taniguti, C. H., Young, E. L., Byrne, D. H., & Riera-Lizarazu, O. (2023). Meta-Analysis of Rose Rosette Disease-Resistant Quantitative Trait Loci and a Search for Candidate Genes. Pathogens, 12(4), 575. https://doi.org/10.3390/pathogens12040575
Labroo, M.R., Endelman, J.B., Gemenet, D.C. et al. Clonal diploid and autopolyploid breeding strategies to harness heterosis: insights from stochastic simulation. Theor Appl Genet 136, 147 (2023). https://doi.org/10.1007/s00122-023-04377-z
Andrea L. Myers, Renee Terrell Threlfall, Luke R. Howard, Cindi R. Brownmiller, John R. Clark, Margaret L. Worthington, and Scott Lafontaine. "Identifying Unique Quality Attributes of Arkansas-Grown Fresh-Market Blackberries." ACS Food Science & Technology 3 (5), 816-830. 06 May 2023. https://doi.org/10.1021/acsfoodscitech.2c00398
Harmon DD, Chen H, Byrne D, Liu W, Ranney TG. 2023. “Cytogenetics, ploidy, and genome sizes of rose (Rosaspp.) cultivars and breeding lines.” Ornamental Plant Research 3:10. https://doi.org/10.48130/OPR-2023-0010
Yencho, Craig. Sweetpotato Plant Named ‘NCORNSP-030ILPL.’ 11 Apr. 2023. https://www.freepatentsonline.com/PP35096.html
Christopher W. Benson, Matthew R. Sheltra, Jeff P. Maughan et al. Homoeologous evolution of the allotetraploid genome of Poa annua L., 03 April 2023, PREPRINT, https://doi.org/10.21203/rs.3.rs-2729084/v1
2022
Endelman, Jeffrey. “Fully Efficient, Two-Stage Analysis of Multi-Environment Trials with Directional Dominance and Multi-Trait Genomic Selection.” 2022 PREPRINT, https://doi.org/10.1101/2022.09.28.509884.
Zena J Rawandoozi, Ellen L Young, Muqing Yan, Seza Noyan, Qiuyi Fu, Tessa Hochhaus, Maad Y Rawandoozi, Patricia E Klein, David H Byrne, Oscar Riera-Lizarazu. QTL mapping and characterization of black spot disease resistance using two multi-parental diploid rose populations. Horticulture Research, Volume 9, 2022, uhac183, https://doi.org/10.1093/hr/uhac183
Guilherme da Silva Pereira, Marcelo Mollinari, Zhao-Bang Zeng. "Multiple QTL Mapping in an Autotetraploid F1 population with QTLpoly." 2022, https://guilherme-pereira.github.io/QTLpoly/2-tetraploid_example.html
Pandey, Jeewan, D.C. Scheuring, J.W. Koym, and M.I. Vales. “Genomic Regions Associated with Tuber Traits in Tetraploid Potatoes and Identification of Superior Clones for Breeding Purposes.” Frontiers in Plant Science, vol. 13, 2022, https://doi.org/10.3389/fpls.2022.952263
Lau, Jeekin, et al. “Rose Rosette Disease Resistance Loci Detected in Two Interconnected Tetraploid Garden Rose Populations.” Frontiers in Plant Science, vol. 13, 2022, https://doi.org/10.3389/fpls.2022.916231.
Young, Ellen, et al. "Identification of QTLs for Reduced Susceptibility to Rose Rosette Disease in Diploid Roses." Pathogens, vol. 11, no. 6, p. 660, 2022, https://doi.org/10.3390/pathogens11060660.
Taniguti et al.VIEWpoly: a visualization tool to integrate and explore results of polyploid genetic analysis. Journal of Open Source Software, 7(74), 4242, 2022. https://doi.org/10.21105/joss.04242
Hoopes, Genevieve, et al. "Phased, Chromosome-Scale Genome Assemblies of Tetraploid Potato Reveal a Complex Genome, Transcriptome, and Predicted Proteome Landscape Underpinning Genetic Diversity." Molecular Plant, vol. 15, no. 3, 2022, pp. 520-536, https://doi.org/10.1016/j.molp.2022.01.003.
Thérèse Navarro, A., Tumino, G., Voorrips, R.E. et al. Multiallelic models for QTL mapping in diverse polyploid populations. BMC Bioinformatics 23, 67 (2022). https://doi.org/10.1186/s12859-022-04607-z
Petrella, D.P., Breuillin-Sessoms, F. & Watkins, E. Layering contrasting photoselective filters improves the simulation of foliar shade. Plant Methods 18, 16 (2022). https://doi.org/10.1186/s13007-022-00844-8
2021
Peter M Bourke, Roeland E Voorrips, Christine A Hackett, Geert van Geest, Johan H Willemsen, Paul Arens, Marinus J M Smulders, Richard G F Visser, Chris Maliepaard, Detecting quantitative trait loci and exploring chromosomal pairing in autopolyploids using polyqtlR, Bioinformatics, Volume 37, Issue 21, 1 November 2021, Pages 3822–3829, https://doi.org/10.1093/bioinformatics/btab574
Macnee, N., Hilario, E., Tahir, J. et al. Peridermal fruit skin formation in Actinidia sp. (kiwifruit) is associated with genetic loci controlling russeting and cuticle formation. BMC Plant Biol 21, 334 (2021). https://rdcu.be/c960j
Stefaniak, Thomas, et al. "Genotype and Variable Nitrogen Effects on Tuber Yield and Quality for Red Fresh Market Potatoes in Minnesota." Agronomy, vol. 11, no. 2, 2021, p. 255, https://doi.org/10.3390/agronomy11020255.
2020
Jones, Colin, et al. "Nitrogen Uptake and Utilization in Advanced Fresh-Market Red Potato Breeding Lines." Crop Science, vol. 61, no. 2, 2021, pp. 878-895, https://doi.org/10.1002/csc2.20297.
Jason D Zurn, Mandie Driskill, Sook Jung, Dorrie Main, Melinda H Yin, Melissa C Clark, Lailiang Cheng, Hamid Ashrafi, Rishi Aryal, John R Clark, Margaret Worthington, Chad E Finn, Cameron Peace, Amy Iezzoni, Nahla Bassil, A Rosaceae Family-Level Approach To Identify Loci Influencing Soluble Solids Content in Blackberry for DNA-Informed Breeding, G3 Genes|Genomes|Genetics, Volume 10, Issue 10, 1 October 2020, Pages 3729–3740, https://doi.org/10.1534/g3.120.401449
Marcelo Mollinari, Bode A Olukolu, Guilherme da S Pereira, Awais Khan, Dorcus Gemenet, G Craig Yencho, Zhao-Bang Zeng, Unraveling the Hexaploid Sweetpotato Inheritance Using Ultra-Dense Multilocus Mapping, G3 Genes|Genomes|Genetics, Volume 10, Issue 1, 1 January 2020, Pages 281–292, https://doi.org/10.1534/g3.119.400620
2019
Foster, Toshi, et al. "Genetic and Genomic Resources for Rubus Breeding: a Roadmap for the Future." Horticulture Research, vol. 6, no. 1, 2019, pp. 1-9, https://doi.org/10.1038/s41438-019-0199-2.
2018
Byrne, David H., Patricia Klein, Muqing Yan, Ellen Young, Jeekin Lau, Kevin Ong, Madalyn Shires, Jennifer Olson, Mark Windham, Tom Evans, and Danielle Novick. "Challenges of Breeding Rose Rosette–resistant Roses". HortScience 53.5 (2018): 604-608. https://doi.org/10.21273/HORTSCI12553-17
Yan, Muqing, et al. "Genotyping-by-Sequencing Application on Diploid Rose and a Resulting High-Density SNP-Based Consensus Map." Horticulture Research, vol. 5, no. 1, 2018, pp. 1-14, https://doi.org/10.1038/s41438-018-0021-6.