Research Project: Broadening and Strengthening the Genetic Base of Rice for Adaptation to a Changing Climate, Crop Production Systems, and Markets

Location: Dale Bumpers National Rice Research Center

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

Registration of three long grain rice germplasm lines with improved blast resistance with the Ptr gene, low chalk, excellent milling quality, and good yield - (Peer Reviewed Journal)

Characterization and genomic insights for the emerging rice pathogen, Pantoea ananatis - (Abstract Only)
Giebler, M., Luna, E., Jia, Y., Leach, J.E. 2024. Characterization and genomic insights for the emerging rice pathogen, Pantoea ananatis. Abstract. International Phytobiomes Conference, St. Louis, Missouri, November 19-21, 2024.

Impacts of multiple dry downs on rice yield, processing grain quality traits and greenhouse gases - (Proceedings)

Effect of alternate wetting and drying and organic matter addition on greenhouse gas and arsenic dynamics in rice paddy soil - (Abstract Only)

Polyphenol-mediated covalent bonds on glutelin structural changes in rice with different bran colors - (Peer Reviewed Journal)

Challenges and opportunities of rice disease managements in the USA - (Proceedings)
Jia, Y., Osakina, A., Huang, Y., Pedrozo, R., Wang, L., Huggins, T.D., Jia, M.H., Ponniah, S., Nicolli, C., Dalla Lana, F., Wang, G., Yang, Y., Luna, E., Leach, J. 2024. Challenges and opportunities of rice disease managements in the USA. Meeting Abstract. 2024 International Symposium of Rice Functional Genomics, September 9-11, 2024. Little Rock/Stuttgart, Arkansas.

Identification of genetic loci for grain traits and disease resistance reveals a potential trade off in rice - (Peer Reviewed Journal)
Jia, Y., Jia, M.H., Dunlap, H.N. 2024. Identification of genetic loci for grain traits and disease resistance reveals a potential trade off in rice. PhytoFrontiers. https://doi.org/10.1094/PHYTOFR-03-24-0025-R.

The effects of abiotic stressors on rice resistance responses to the blast fungus Magnaporthe oryzae - (Proceedings)
Huang, Y., Jia, Y. 2024. The effects of abiotic stressors on rice resistance responses to the blast fungus Magnaporthe oryzae. Abstract. 2024 International Symposium on Rice Functional Genomics, September 9-11, 2024. Little Rock/Stuttgart, Arkansas.

Understanding blast resistance through overexpression of the Pita-2 gene in rice - (Proceedings)
Ponniah, S., Mutethia, R., Jia, Y. 2024. Understanding blast resistance through overexpression of the Pita-2 gene in rice. Abstract. 2024 International Symposium on Rice Functional Genomics, September 9-11, 2024. Little Rock/Stuttgart, Arkansas.

Genomic analysis of sheath blight resistance in rice: identifying resistant accessions and key genetic markers - (Proceedings)
Pedrozo, R., Osakina, A., Nicolli, C., Jia, Y. 2024. Genomic analysis of sheath blight resistance in rice: identifying resistant accessions and key genetic markers. Abstract. 2024 International Symposium on Rice Functional Genomics, September 9-11, 2024. Little Rock/Stuttgart, Arkansas.

Functional analysis of a new allele of the broad-spectrum rice blast resistance gene Ptr in weedy species of rice - (Proceedings)
Osakina, A., Olsen, K., Jia, Y. 2024. Functional analysis of a new allele of the broad-spectrum rice blast resistance gene Ptr in weedy species of rice. Abstract. 2024 International Symposium on Rice Functional Genomics, September 9-11, 2024. Little Rock/Stuttgart, Arkansas.

Receptor-ligand interactions in the rice blast system revealed by AlphaFold protein structure prediction - (Proceedings)
Wang, L., Jia, Y., Olsen, K., Huang, Y., Jia, M.H., Sathish, P., Pedrozo, R., Nicolli, C., Edwards, J. 2024. Receptor-ligand interactions in the rice blast system revealed by AlphaFold protein structure prediction. Abstract. 2024 International Symposium on Rice Functional Genomics, September 9-11, 2024. Little Rock/Stuttgart, Arkansas.

Development, gene discovery and allele mining of a global tropical japonica core collection - (Proceedings)
Huggins, T.D., Edwards, J., Mcclung, A., Jia, Y., Jia, M.H., Jackson, A.K., Sells, L.J., Lawrence, B.S. 2024. Development, gene discovery and allele mining of a global tropical japonica core collection. Abstract. 2024 International Symposium on Rice Functional Genomics, September 9-11, 2024. Little Rock/Stuttgart, Arkansas.

Characterization of the uniform regional rice nursery (URRN) for blast and quality using molecular markers for US rice breeding programs. - (Proceedings)
Jia, M.H., Christensen, E.F., Angira, B., Fjellstrom, R.G., Edwards, J., Jia, Y. 2024. Characterization of the uniform regional rice nursery (URRN) for blast and quality using molecular markers for US rice breeding programs. Abstract. 2024 International Symposium on Rice Functional Genomics, September 9-11-2024. Little Rock/Stuttgart, Arkansas.

Mapping yield related traits in a suite of six oryza rufipogon species complex chromosome segment substitution line libraries in Indica and Japonica rice backgrounds - (Proceedings)
Eizenga, G.C. 2024. Mapping yield related traits in a suite of six oryza rufipogon species complex chromosome segment substitution line libraries in Indica and Japonica rice backgrounds. Abstract. 21st International Symposium on Rice Functional Genomics, September 9-11, 2024, Little Rock, Arkansas.

Improving rice milling quality by identifying and deploying loci affecting kernel fissure resistance - (Proceedings)
Pinson, S.R., Jia, Y., Edwards, J. 2024. Improving rice milling quality by identifying and deploying loci affecting kernel fissure resistance. Proceedings. 21st International Symposium on Rice Functional Genomics, Little Rock, Arkansas. September 9-11, 2024.

Aus sub-population of Oryza sativa L.: a unique source for improving rice sustainability and climate resiliency related traits in elite US rice varieties - (Abstract Only)
Rohila, J.S., Mitchell, J., Sookaserm, T.B., Jackson, A.K., Huggins, T.D., Ponniah, S.K., Edwards, J. 2024. Aus sub-population of Oryza sativa L.: a unique source for improving rice sustainability and climate resiliency related traits in elite US rice varieties. Abstract. 21st Internation Symposium on Rice Functional Genomics, Little Rock, Arkansas. September 9-11, 2024.

Rice germplasm characterization and enhancement for the sustainability and resilience of the US rice industry using functional genomics toolsand stress tolerance - (Proceedings)
Jia, Y., Edwards, J., Pinson, S.R., Eizenga, G.C., Huggins, T.D., Rohila, J.S., Jia, M.H., Jackson, A.K. 2024. Rice germplasm characterization and enhancement for the sustainability and resilience of the US rice industry using functional genomics toolsand stress tolerance. Proceedings. 21st International Symposium on Rice Functional Genomics, Little Rock, Arkansas. September 9-11, 2024.

USDA ARS develops a new production system for food sustainability and security - (Other)
Jia, Y., Green, B.W., Fuller, S.A. 2024. USDA ARS develops a new production system for food sustainability and security. Abstract. 2024 University of Arkansas Field Day, August 1, 2024. Stuttgart, Arkansas.

USDA ARS DB NRRC research on rice sustainability and tolerance to biotic & abiotic stresses - (Other)
Edwards, J., Jia, Y., Pinson, S.R., Rohila, J.S., Huggins, T.D., Jia, M.H., Jackson, A.K., Eizenga, G.C. 2024. USDA ARS DB NRRC research on rice sustainability and tolerance to biotic & abiotic stresses. Abstract. 2024 University of Arkansas Field Day, August 1, 2024. Stuttgart, Arkansas.

USDA ARS develops pre-breeding rice germplasm for enhanced yield, grain quality and stress tolerance - (Other)
Jia, M.H., Jackson, A.K., Edwards, J., Pinson, S.R., Huggins, T.D., Eizenga, G.C., Rohila, J.S., Jia, Y. 2024. USDA ARS develops pre-breeding rice germplasm for enhanced yield, grain quality and stress tolerance. Abstract. University of Arkansas Rice Field Day, August 1, 2024, Stuttgart, Arkansas.

USDA ARS has hidden treasure! genetic discoveries in the USDA collection of world rice varieties - (Other)
Eizenga, G.C., Jia, Y., Edwards, J., Pinson, S.R., Huggins, T.D., Rohila, J.S., Jia, M.H., Jackson, A.K. 2024. USDA ARS has hidden treasure! genetic discoveries in the USDA collection of world rice varieties. Abstract. University of Arkansas 2024 Rice Field Day, August 1, 2024, Stuttgart, Arkansas.

Unraveling the genetic diversity of Magnaporthe oryzae through a graph pangenome approach - (Abstract Only)
Wang, L., Jia, Y., Edwards, J. 2024. Unraveling the genetic diversity of Magnaporthe oryzae through a graph pangenome approach. Abstract. 2024 Plant Health Conference, July 27-30, 2024. Memphia, Tennessee.

Surveys of Magnaporthe oryzae genotypes in breeding stations and commercial rice fields in Arkansas, Louisiana and Puerto Rico from 2017 to 2019 - (Abstract Only)
Yixiao, H., Jia, Y., Wamishe, Y., Jia, M.H. 2024. Surveys of Magnaporthe oryzae genotypes in breeding stations and commercial rice fields in Arkansas, Louisiana and Puerto Rico from 2017 to 2019. Abstract. Plant Health 2024, July 27-30, 2024. Memphia, Tennessee.

Receptor- ligand interactions in plant inmate immunity revealed by artificial intelligence AlphaFold - (Peer Reviewed Journal)
Wang, L., Jia, Y., Osakina, A., Olsen, K., Huang, Y., Jia, M.H., Ponniah, S., Pedrozo, R., Nicolli, C., Edwards, J. 2024. Receptor- ligand interactions in plant inmate immunity revealed by artificial intelligence AlphaFold. Bio-Archives. https://doi.org/10.1101/2024.06.12.598632.

Using major resistance genes to manage rice blast disease in the USA - (Abstract Only)
Jia, Y. 2024. Using major resistance genes to manage rice blast disease in the USA. Meeting Abstract. 9th International Rice and Wheat Blast Conference, June 10-14, 2024. Panama City, Panama.

Convergent evolution of plant prickles is driven by repeated gene co-option over deep time - (Peer Reviewed Journal)
Satterlee, J.W., Alonso, D.D., Gramazio, P.P., Jenike, K.K., He, J.J., Arrones, A.A., Villanueva, G.G., Plazas, M.M., Ramakrishnan, S.S., Benoit, M.B., Gentile, I.I., Hendelman, A.A., Shohat, H.H., Fitzgerald, B.B., Robitaille, G.G., Green, Y.Y., Swartwood, K.K., Passalacqua, M.M., Gagnon, E.E., Hilgenhof, R.R., Huggins, T.D., Eizenga, G.C., Gur, A., Rutten, R., Stein, N., Yao, S.S., Bellot, C.C., Bendahmane, M.M., Frar, A., Knapp, S.S., Sarkinen, T.T., Gills, J., Van Eck, J.J., Schatz, M.M., Eshed, Y., Prohens, J.Y., Vilanova, S.S., Lippman, Z.Z., Poncet, A. 2024. Convergent evolution of plant prickles is driven by repeated gene co-option over deep time. Science. https://doi.org/10.1101/2024.02.21.581474.

Identification of blast resistance QTLs in black hull awn weedy rice (RR14) and Aus-196 rice variety - (Abstract Only)
Osakina, A., Olsen, K., Jia, Y. 2024. Identification of blast resistance QTLs in black hull awn weedy rice (RR14) and Aus-196 rice variety. Abstract. Plant Health 2024, July 27-30, 2024. Memphis, Tennessee.

Genomic insights for enhanced sheath blight resistance in rice (Oryza sativa L.) - (Abstract Only)
Pedrozo, R., Osakina, A., Nicolli, C., Jia, Y. 2024. Genomic insights for enhanced sheath blight resistance in rice (Oryza sativa L.). Abstract. Plant Health 2024, July 27-30, 2024. Memphis, Tennessee.

Understanding the impact of seed-borne pantoea ananatis on rice crop - (Abstract Only)
Pedrozo, R., Huang, Y., Nicolli, C., Jia, Y. 2024. Understanding the impact of seed-borne pantoea ananatis on rice crop. Abstract. Plant Health 2024, July 27-30, 2024. Memphis, Tennessee.

Genomic insights and primer design for the rice pathogen, Pantoea ananatis - (Abstract Only)
Luna, E., Giebler, M., Nicolli, C., Jia, Y., Leach, J.E. 2024. Genomic insights and primer design for the rice pathogen, Pantoea ananatis. Abstract. Plant Health 2024, July 27-30, 2024. Memphia, Tennessee.

Pre-breeding studies focused on rice grown in temperate regions at the USDA-ARS Dale Bumpers National Rice Research Center - (Proceedings)

Elucidating the effect of polyphenol-protein interactions on rheological properties of purple waxy rice - (Peer Reviewed Journal)
Jannasch, A., Wang, Y., Thallapuranam, S., Alraawi, Z., McClung, A.M. 2024. Elucidating the effect of polyphenol-protein interactions on rheological properties of purple waxy rice. Journal of Cereal Science. https://doi.org/10.1016/j.jcs.2024.103877.

Introduction rice as a model for genetics, genomics, and breeding - (Abstract Only)
Jia, Y. 2024. Introduction rice as a model for genetics, genomics, and breeding. Meeting Abstract. Plant and Animal Genome, January 12-17, 2024. San Diego, California.

Establishing a global Tropical Japonica rice core collection for allele mining and gene discovery: construction, sequencing, and phenotyping - (Abstract Only)
Huggins, T.D., Edwards, J., McClung, A., Jia, Y., Jia, M.H., Jackson, A.K., Sells, L.J., Lawrence, B.S. 2024. Establishing a global Tropical Japonica rice core collection for allele mining and gene discovery: construction, sequencing, and phenotyping. Plant and Animal Genome Conference January 12-17, 2024, San Diego, California. Meeting Abstract.