Research Project: Potato and Other Solanaceous Crop Improvement and Disease Management

Location: Genetic Improvement for Fruits & Vegetables Laboratory

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

QTL and PACE analysis identify candidate genes for anthracnose resistance in tomato - (Peer Reviewed Journal)
Lopez-Ortiz, C., Reddy, U., Zhang, C., Natarajan, P., Nimmakayala, P., Benedito, V., Fabian, M., Stommel, J.R. 2023. QTL and PACE analysis identify candidate genes for anthracnose resistance in tomato. Theoretical and Applied Genetics. https://doi.org/10.3389/fpls.2023.1200999.

Mistranslation of the genetic code by a new family of bacterial transfer RNAs - (Peer Reviewed Journal)
Schuntermann, D., Fischer, J., Bile, J., Gaier, S., Shelley, B., Jahn, M., Hoffman, K., Westhof, E., Soll, D., Clarke, C.R., Vargas-Rodriguez, O. 2023. Mistranslation of the genetic code by a new family of bacterial transfer RNAs. Journal of Biological Chemistry. https://doi.org/10.1016/j.jbc.2023.104852.

Steroidal glycoalkaloids contribute to anthracnose resistance in solanum lycopersicum - (Peer Reviewed Journal)
Fabian, M.L., Zhang, C., Sun, J., Price, N.P., Chen, P., Clarke, C.R., Jones, R.W., Stommel, J.R. 2023. Steroidal glycoalkaloids contribute to anthracnose resistance in solanum lycopersicum. Journal of Experimental Botany. 74(12):3700-3713. https://doi.org/10.1093/jxb/erad108.

Plant type and antidesiccants influence longevity of cut pepper stems for floriculture applications - (Peer Reviewed Journal)
Stommel, J.R., Dougherty, L.E., Collins, P.J., Wien, C., Uva, R. 2023. Plant type and antidesiccants influence longevity of cut pepper stems for floriculture applications. HortTechnology. 33:215-224. https://doi.org/10.21273/HORTTECH05144-22.

Differential plant response to toxins and elicitor proteins released by the potato and tomato pathogens Alternaria solani and Alternaria alternata - (Peer Reviewed Journal)
Jones, R.W., Perez, F.G. 2022. Differential plant response to toxins and elicitor proteins released by Alternaria solani. Journal of Plant Pathology. https://doi.org/10.1007/s42161-022-01286-w.

Germplasm release: true potato seed (TPS) from a late blight resistant, long-day adapted diploid potato population which is segregating for early blight resistance - (Peer Reviewed Journal)
Haynes, K.G., Qu, X., Bamberg, J.B. 2022. Germplasm release: true potato seed (TPS) from a late blight resistant, long-day adapted diploid potato population which is segregating for early blight resistance. American Journal of Potato Research. https://doi.org/10.1007/s12230-022-09882-3.

The phytotoxin Thaxtomin A is the primary virulence determinant for scab disease of beet, carrot, and radish caused by streptomyces scabiei - (Peer Reviewed Journal)
Clarke, C.R., Kramer, C.G., Kothka, R., Luthria, D.L. 2022. The phytotoxin Thaxtomin A is the primary virulence determinant for scab disease of beet, carrot, and radish caused by streptomyces scabiei. American Phytopathological Society. https://doi.org/10.1094/PHYTO-03-22-0072-R.

Genetic dissection of early blight resistance in tetraploid potato - (Peer Reviewed Journal)
Xue, W., Haynes, K.G., Clarke, C.R., Qu, X. 2022. Genetic dissection of early blight resistance in tetraploid potato. Frontiers in Plant Science. https://doi.org/10.3389/fpls.2022.851538.

Description of Streptomyces griseiscabiei sp. nov. and reassignment of Streptomyces sp. strain NRRL B-16521 to Streptomyces acidiscabies - (Peer Reviewed Journal)
Nguyen, H., Mowery, J.D., Clarke, C.R. 2022. Description of Streptomyces griseiscabiei sp. nov. and reassignment of Streptomyces sp. strain NRRL B-16521 to Streptomyces acidiscabies. International Journal of Systematic and Evolutionary Microbiology. https://doi.org/10.1099/ijsem.0.005574.

Streptomyces caniscabiei sp. nov., which causes potato common scab and is distributed across the world - (Peer Reviewed Journal)
Nguyen, H., Weisberg, A., Chang, J., Clarke, C.R. 2022. Streptomyces caniscabiei sp. nov., which causes potato common scab and is distributed across the world. International Journal of Systematic and Evolutionary Microbiology. https://doi.org/10.1099/ijsem.0.005225.

Genetic mapping of host resistance to soybean sudden death syndrome - (Peer Reviewed Journal)
Collins, P.J., Tan, R., Wen, Z., Boyse, J., Chilvers, M.I., Wang, D. 2022. Genetic mapping of host resistance to soybean sudden death syndrome. Crop Science. https://doi.org/10.1002/csc2.20689.

First report of southern blight, caused by athelia rolfsii (syn. sclerotium rolfsii) on hellebores in north america - (Peer Reviewed Journal)
Jones, R.W., Perez, F.G. 2022. First report of southern blight, caused by athelia rolfsii (syn. sclerotium rolfsii) on hellebores in north america. Plant Disease. https://doi.org/10.1094/PDIS-09-21-2004-PDN.

Exploration into natural variation for genes associated with fruit shape and size among Capsicum chinense collections - (Peer Reviewed Journal)
Nimmakayala, P., Sahi, B., Abburi, V.L., Lopez-Ortiz, C., Kshetry, A., Shinde, S., Davenport, B., Stommel, J.R., Reddy, U. 2021. Exploration into natural variation for genes associated with fruit shape and size among Capsicum chinense collections. Genomics. 113:3002-3014. https://doi.org/10.1016/j.ygeno.2021.06.041.

Experimental evidence pointing to rain as a reservoir of tomato phyllosphere microbiota - (Peer Reviewed Journal)
Mechan-Llontop, M.E., Tian, L., Sharma, P., Heflin, L., Bernal-Galeano, V., Haak, D.C., Clarke, C.R., Vinatzer, B.A. 2021. Experimental evidence pointing to rain as a reservoir of tomato phyllosphere microbiota. Phytobiomes Journal. e-ISSN:2471-2906. https://doi.org/10.1094/PBIOMES-04-21-0025-R.

Identification of miRNAs and their targets involved in flower and fruit development across domesticated and wild capsicum species - (Peer Reviewed Journal)
Lopez-Ortiz, C., Pena-Garcia, Y., Bhandari, M., Abburi, V., Stommel, J.R., Nimmakayala, P., Reddy, U.K. 2021. Identification of miRNAs and their targets involved in flower and fruit development across domesticated and wild capsicum species. International Journal of Molecular Sciences. U.K. 2021. https://doi.org/10.3390/ijms22094866.

Quantifying Solanum chacoense root morphology responses to limited nitrogen supply using in vitro, hydroponic, and field monolith methods - (Peer Reviewed Journal)
Christensen, C., Zotarelli, L., Haynes, K.G., Colee, J. 2021. Quantifying Solanum chacoense root morphology responses to limited nitrogen supply using in vitro, hydroponic, and field monolith methods. American Journal of Potato Research. 98:157–170. https://doi.org/10.1007/s12230-021-09829-0.

Quantitative trait locus mapping for common scab resistance in a tetraploid potato full-sib population - (Peer Reviewed Journal)
Pereira, G., Mollinari, M., Zeng, Z., Yencho, C.G., Qu, X., Haynes, K.G., Thill, C. 2021. Quantitative trait locus mapping for common scab resistance in a tetraploid potato full-sib population. Plant Disease. https://doi.org/10.1094/PDIS-10-20-2270-RE.

Effect of ozone on inactivation of purified pepper mild mottle virus and contaminated pepper seed - (Peer Reviewed Journal)
Stommel, J.R., Dumm, J.M., Hammond, J. 2021. Effect of ozone on inactivation of purified pepper mild mottle virus and contaminated pepper seed. Phytofrontiers. 1: 85-93. https://doi.org/10.1094/PHYTOFR-09-20-0020-R.

A novel species-level group of streptomyces exhibits variation in phytopathogenicity despite conservation of virulence loci - (Peer Reviewed Journal)
Weisberg, A., Kotha, R., Kramer, C., Chang, J., Luthria, D.L., Clarke, C.R. 2020. Whole-genome sequencing of five Streptomyces isolates identifies a new pathogenic species group that causes common scab disease of potato. Molecular Plant-Microbe Interactions. 34(1):39-48. https://doi.org/10.1094/MPMI-06-20-0164-R.

Multiple immunity-related genes control susceptibility of Arabidopsis thaliana to the parasitic weed Phelipanche aegyptiaca - (Peer Reviewed Journal)
Clarke, C.R., Park, S., Tuosto, R., Jia, X., Mcgough, A., Vanmullekom, J., Westwood, J.H. 2020. Multiple immunity-related genes control susceptibility of Arabidopsis thaliana to the parasitic weed Phelipanche aegyptiaca. PeerJ. https://doi.org/10.7717/peerj.9268.

Low-dose foliar treatments of the auxin analog 2,4-D reduce potato common scab and powdery scab for multiple potato cultivars and enhance root development - (Peer Reviewed Journal)
Clarke, C.R., Tegg, R.S., Thompson, H.K., Frederick, C., Haynes, K.G., Kramer, M.H., Wilson, C. 2020. Low-dose foliar treatments of the auxin analog 2,4-D reduce potato common scab and powdery scab for multiple potato cultivars and enhance root development. Crop Protection Journal. https://doi.org/10.1016/j.cropro.2020.105208.

The ankyrin repeat gene family in Capsicum spp: Genome-wide survey, characterization and gene expression profile - (Peer Reviewed Journal)
Ortiz, C.L., Garcia, Y.P., Natarajan, P., Bhandari, M., Abburi, V., Dutta, S., Yadav, L., Stommel, J.R., Nimmakayala, P., Reddy, U. 2020. The ankyrin repeat gene family in Capsicum spp: Genome-wide survey, characterization and gene expression profile. Scientific Reports. Sci Rep 10, 4044 (2020). https://doi.org/10.1038/s41598-020-61057-4.

Integrated metabolomic and transcriptomic analysis to characterize cutin biosynthesis between low- and high-cutin genotypes of Capsicum chinense Jacq - (Peer Reviewed Journal)
Natarajan, P., Akinmoju, T.A., Nimmakayala, P., Lopez-Ortiz, C., Garcia-Lozano, M., Thompson, B.J., Stommel, J.R., Reddy, U.K. 2020. Integrated metabolomic and transcriptomic analysis to characterize cutin biosynthesis between low- and high-cutin genotypes of Capsicum chinense Jacq. International Journal of Molecular Sciences. Int. J. Mol. Sci. 2020, 21(4). https://doi.org/10.3390/ijms21041397.

Effect of pepper-containing diets on the diversity and composition of gut microbiome of Drosophila melanogaster - (Peer Reviewed Journal)
Garcia-Lozano, M., Haynes, J., Lopez, C., Natarajan, P., Pena-Garcia, Y., Nimmakayala, P., Stommel, J.R., Alaparthi, S.B., Sirbu, C., Balagurusamy, N., Reddy, U.K. 2020. Effect of pepper-containing diets on the diversity and composition of gut microbiome of Drosophila melanogaster. PLoS One. Int. J. Mol. Sci. 2020, 21(3), 945. https://doi.org/10.3390/ijms21030945.

Comparative evaluation of the effects of gibberellic acid concentrations on dormancy break in tubers of solanum chacoense - (Peer Reviewed Journal)
Christensen, C.T., Zotarelli, L., Haynes, K.G., Kelly, C.E. 2019. Solanum chacoense to Comparative evaluation of the effects of gibberellic acid concentrations on dormancy break in tubers of solanum chacoense. HortTechnology. https://doi.org/10.21273/HORTTECH04448-19.

Early generation selection within a diploid hybrid solanum tuberosum groups phureja and stenotomum population for the intense yellow-flesh creamer potato market - (Peer Reviewed Journal)
Haynes, K.G., Zotarelli, L., Christensen, C., Walker, S. 2019. Early generation selection within a diploid hybrid solanum tuberosum groups phureja and stenotomum population for the intense yellow-flesh creamer potato market. HortScience. 54(12):2118–2124. https://doi.org/10.21273/HORTSCI13576-18.

Cultivar resistance to common scab disease of potato is dependent on the pathogen species - (Peer Reviewed Journal)
Clarke, C.R., Kramer, C., Kramer, M.H. 2019. Cultivar resistance to common scab disease of potato is dependent on the pathogen species. Phytopathology. https://doi.org/10.1094/PHYTO-09-18-0368-R.

Assessing possible mechanisms of resistance to early blight caused by Alternaria solani - (Peer Reviewed Journal)
Jones, R.W., Perez, F.G. 2019. Assessing possible mechanisms of resistance to early blight caused by Alternaria solani. Potato Research. https://doi.org/10.1007/s11540-019-9420-9.

Reduced seed count improves versatility and propagation of small-fruited peppers (Capsicum annuum L.) for specialty markets - (Peer Reviewed Journal)
Stommel, J.R. 2019. Reduced seed count improves versatility and propagation of small-fruited peppers (Capsicum annuum L.) for specialty markets. HortScience. 54(4):652-655. https://doi.org/10.21273/HORTSCI13602-18.

Characterization of Early Blight Resistance in Potato Cultivars - (Peer Reviewed Journal)
Xue, W., Haynes, K.G., Qu, X. 2019. Characterization of Early Blight Resistance in Potato Cultivars. Plant Disease. https://doi.org/10.1094/PDIS-05-18-0794-RE.