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ARS Home » Southeast Area » Stuttgart, Arkansas » Dale Bumpers National Rice Research Center » Research » Research Project #434318

Research Project: Gene Discovery and Crop Design for Current and New Rice Management Practices and Market Opportunities

Location: Dale Bumpers National Rice Research Center

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

Identification of QTLs associated with tillering and root biomass that are robust across different developmental stages and environments in rice Reprint Icon - (Peer Reviewed Journal)
Barnaby, J.Y., McClung, A.M., Edwards, J., Jackson, A.K., Pinson, S.R. 2022. Identification of QTLs associated with tillering and root biomass that are robust across different developmental stages and environments in rice. Scientific Reports. https://doi.org/10.1038/s41598-022-17109-y.

Effect of nitrogen application rate under organic and conventional systems on rice (Oryza sativa L.) growth, grain yield, soil properties, and greenhouse gas emissions Reprint Icon - (Peer Reviewed Journal)
Li, X., Jiang, J., Guo, J., McClung, A.M., Chen, K., Velarca, M., Torbert Iii, H.A., Dou, F. 2022. Effect of nitrogen application rate under organic and conventional systems on rice (Oryza sativa L.) growth, grain yield, soil properties, and greenhouse gas emissions. Journal of Plant Nutrition. https://doi.org/10.1080/01904167.2022.2093746.

mRNA N6-methyladenosine is critical for cold tolerance in Arabidopsis Reprint Icon - (Peer Reviewed Journal)
Govindan, G., Sharma, B., Li, Y., Armstrong, C.D., Merum, P., Rohila, J.S., Gregory, B.D., Sunkar, R. 2022. mRNA N6-methyladenosine is critical for cold tolerance in Arabidopsis. Plant Journal. https://doi.org/10.1111/tpj.15872.

Registration of a blast resistant premium medium grain rice germplasm Eclipse - (Peer Reviewed Journal)

Assessment of rice sheath blight resistance including associations with plant architecture, as revealed by genome-wide association studies Reprint Icon - (Peer Reviewed Journal)
Li, D., Zhang, F., Pinson, S.R., Edwards, J., Jackson, A.K., Xia, X., Eizenga, G.C. 2022. Assessment of rice sheath blight resistance including associations with plant architecture, as revealed by genome-wide association studies. Rice. https://doi.org/10.1186/s12284-022-00574-4.

Phenotypic variation and the impact of admixture in the Oryza rufipogon Species Complex (ORSC) Reprint Icon - (Peer Reviewed Journal)
Eizenga, G.C., Kim, H., Jung, J., Greenberg, A.J., Edwards, J., Naredo, E.B., Banaticla-Hilario, C.N., Harrington, S.E., Shi, Y., Kimball, J.A., Harper, L.A., Mcnally, K.L., McCouch, S.R. 2022. Phenotypic variation and the impact of admixture in the Oryza rufipogon Species Complex (ORSC). Frontiers in Plant Science. https://doi.org/10.3389/fpls.2022.787703.

Identification of Sheath Blight QTL in a LaGrue x O. nivara rice advanced backcross population - (Peer Reviewed Journal)

Breedbase: a digital ecosystem for modern plant breeding Reprint Icon - (Peer Reviewed Journal)
Morales, N., Ogbonna, A.C., Ellerbrock, B.J., Bauchet, G.J., Tantikanjana, T., Tecle, I.Y., Powell, A.F., Lyon, D., Naama, M., Simoes, C.C., Saha, S., Hosmani, P., Flores, M., Panitz, N., Preble, R.S., Agbona, A., Rabbi, I., Kulakow, P., Peteti, P., Kawuki, R., Esuma, W., Kanaabi, M., Chelagant, D.M., Uba, E., Olojede, A., Onyeka, J., Shah, T., Karanja, M., Egesi, C., Tufan, H., Paterne, A., Asfaw, A., Jannink, J., Wolfe, M., Birkett, C.L., Hershberger, J.M., Gore, M.A., Robbins, K.R., Rife, T., Chaney, C., Poland, J., Arnaud, E., Laporte, M., Waring, D.J., Brown, A., Bayo, S., Uwimana, B., Akech, V., Yencho, C., De Boeck, B., Campos, H., Swennen, R., Edwards, J., Mueller, L.A., Kulembeka, H., Salum, K., Mrema, E. 2022. Breedbase: a digital ecosystem for modern plant breeding. G3, Genes/Genomes/Genetics. https://doi.org/10.1093/g3journal/jkac078.

Exploring relationships between phenotypic groups and genotypic subpopulations in ancestral rice, the Oryza rufipogon Species Complex (ORSC) - (Abstract Only)
Eizenga, G.C., Kim, H., Jung, J., McNally, K.L., Greenberg, A.J., Edwards, J., Naredo, E.B., Banaticla-Hilario, C.N., Harrington, S.E., Shi, Y., Kimball, J.A., Harper, L.A., McCouch, S.R. 2022. Exploring relationships between phenotypic groups and genotypic subpopulations in ancestral rice, the Oryza rufipogon Species Complex (ORSC). Abstract. Plant and Animal Genome Conference. San Diego, California. January 8-12, 2022.

High resistant starch rice: variation in starch related SNPs, and functional, and sensory properties Reprint Icon - (Peer Reviewed Journal)
Chen, M., Bett Garber, K.L., Lea, J.M., McClung, A.M., Bergman, C.J. 2021. High resistant starch rice: variation in starch related SNPs, and functional, and sensory properties. Foods. https://doi.org/10.3390/foods11010094.

Relationships among arsenic-related traits, including grain arsenic concentration and rice straighthead resistance, as revealed by genome-wide association Reprint Icon - (Peer Reviewed Journal)
Pinson, S.R., Heuschele, D.J., Edwards, J., Jackson, A.K., Sharma, S., Barnaby, J.Y. 2022. Relationships among arsenic-related traits, including grain arsenic concentration and rice straighthead resistance, as revealed by genome-wide association. Frontiers in Genetics. https://doi.org/10.3389/fgene.2021.787767.

Physiological and multi-omics approaches for explaining drought stress tolerance and supporting sustainable production of rice Reprint Icon - (Peer Reviewed Journal)
Zargar, S.M., Mir, R.A., Ebinezer, L.B., Masi, A., Hami, A., Manzoor, M., Salgotra, R., Sofi, N.R., Mushtaq, R., Rohila, J.S., Rakwal, R. 2022. Physiological and multi-omics approaches for explaining drought stress tolerance and supporting sustainable production of rice. Frontiers in Plant Science. https://doi.org/10.3389/fpls.2021.803603.

Unraveling the relationship between phenotype based classification of the oryza rufipogon species complex and genotypic subpopulations - (Abstract Only)
Eizenga, G.C., Kim,H., Jung, J., McNally, K.L., Greenberg, A.J., Edwards, J., Naredo, E.B., Banaticla-Hilario, C.N., Harrington, S.E., Shi, Y., Kimball, J.A., Harper, L.A., McCouch, S.R. 2021. Unraveling the relationship between phenotype based classification of the oryza rufipogon species complex and genotypic subpopulations. Abstract. ASA,CSSA,SSSA International Annual Meeting. Salt Lake City, Utah.

Evaluation of seedling cold stress in the Krasnodarskij 3352 x Carolino 164 Recombinant Inbred Line population - (Abstract Only)
Eizenga, G.C., Shimoyama, N.S., Jia, M.H., Jackson, A.K., Edwards, J., Jessel, A.D., Schlappi, M.R. 2021. Evaluation of seedling cold stress in the Krasnodarskij 3352 x Carolino 164 Recombinant Inbred Line population. Abstract. ASA,CSSA,SSSA International Annual Meeting, Salt Lake City, Utah.

Modeling phenotypic groups reflects genetic relationships between cultivars and their wild relatives in rice - (Abstract Only)
Greenberg, A.J., Edwards, J., McNally, K.L., Jung, J., Kim, H., Naredo, E.B., Banaticla-Hilario, C.N., Eizenga, G.C., McCouch, S.R. 2021. Modeling phenotypic groups reflects genetic relationships between cultivars and their wild relatives in rice. Abstract. ASA,CSSA,SSSA International Annual Meeting. Salt Lake City, Utah.

Evaluation of water-deficit responses in wild-by-cultivated rice introgression lines - (Abstract Only)
Imel, R., Camberato, J.J., Jiang, Y., Hoagland, C., Yang, Y., Eizenga, G.C., Wang, D. 2021. Evaluation of water-deficit responses in wild-by-cultivated rice introgression lines. Abstract. ASA,CSSA,SSSA International Annual Meeting, Salt Lake City, Utah.

Characterization of rice grown under traditional and alternative irrigation strategies: As, Cd, and Zn dynamics across multiple varieties, growing seasons, and pore water chemical conditions - (Abstract Only)
Abu-Ali, L., Yoon, H., Maguffin, S., Rohila, J.S., McClung, A.M., Reid, M.C. 2021. Characterization of rice grown under traditional and alternative irrigation strategies: As, Cd, and Zn dynamics across multiple varieties, growing seasons, and pore water chemical conditions. ASA-CSSA-SSSA Annual Meeting Abstracts. Salt Lake City, Utah. November 7-10, 2021.

Rice yield prediction using unmanned aircraft systems - (Abstract Only)

Mapping blast resistance genes in rice varieties ‘Minghui 63’ and ‘M-202’ Reprint Icon - (Peer Reviewed Journal)
Jia, Y., Jia, M.H., Yan, Z. 2021. Mapping blast resistance genes in rice varieties ‘Minghui 63’ and ‘M-202’. Plant Disease. https://doi.org/10.1094/PDIS-09-21-2095-RE.

Identification of QTL affecting inorganic arsenic levels in rice grain - (Abstract Only)
Barnaby, J.Y., Fernandez-Baca, C., McClung, A.M., Edwards, J. 2021. Identification of QTL affecting inorganic arsenic levels in rice grain. ASA-CSSA-SSSA Proceedings. Salt Lake City, Utah, November 7-10, 2021.

Identification of the chromosomal regions controlling grain chalkiness that are sensitive to elevated temperature and CO2 levels during grainfill - (Abstract Only)
Barnaby, J.Y., Fleisher, D.H., McClung, A.M., Ziska, L.H. 2021. Identification of the chromosomal regions controlling grain chalkiness that are sensitive to elevated temperature and CO2 levels during grainfill. ASA-CSSA-SSSA Proceedings. Salt Lake City, Utah, November 7-10, 2021.

An allelic variant of the broad-spectrum blast resistance gene Ptr in weedy rice is associated with resistance to the most virulent blast race IB-33 Reprint Icon - (Peer Reviewed Journal)
Zhao, H., Liu, Y., Jia, M.H., Jia, Y. 2021. An allelic variant of the broad-spectrum blast resistance gene Ptr in weedy rice is associated with resistance to the most virulent blast race IB-33. Plant Disease. https://doi.org/10.1094/PDIS-09-21-2043-RE.

Analysis of differentially expressed rice genes reveals the ATP-Binding Cassette (ABC) transporters as a candidate gene against the sheath blight pathogen, rhizoctonia solani Reprint Icon - (Peer Reviewed Journal)
Oh, Y., Lee, S., Rioux, R., Singh, P., Jia, M.H., Jia, Y., Mysore, K.S. 2021. Analysis of differentially expressed rice genes reveals the ATP-Binding Cassette (ABC) transporters as a candidate gene against the sheath blight pathogen, rhizoctonia solani. Rice. https://doi.org/10.1094/PHYTOFR-05-21-0035-R.

Impact of genetic improvements of rice on its water use and effects of climate variability in Egypt Reprint Icon - (Peer Reviewed Journal)
Mehana, M., Abdelrahman, M., Emadeldin, Y., Rohila, J.S., Karthikeyan, R. 2021. Impact of genetic improvements of rice on its water use and effects of climate variability in Egypt. Agriculture. https://doi.org/10.3390/agriculture11090865.

Multiplex genome editing technologies for revolutionizing plant biology and crop Improvement Reprint Icon - (Peer Reviewed Journal)
Abdelrahman, M., Wei, Z., Rohila, J.S., Zhao, K. 2021. Multiplex genome editing technologies for revolutionizing plant biology and crop Improvement. Frontiers in Plant Science. https://doi.org/10.3389/fpls.2021.721203.

Genetic variation in methane emissions in rice alters seasonal profiles of methanogenic microbial communities in anaerobic soils - (Abstract Only)
Barnaby, J.Y., Fernandez-Baca, C.P., McClung, A.M. 2021. Genetic variation in methane emissions in rice alters seasonal profiles of methanogenic microbial communities in anaerobic soils. Food and Drug Administration (FDA) Science Forum. https://jam-2021.virtualpostersession.org/

Exploring adaptation to changing environments (E) and mitigation strategies through genetics (G) and management (M) for crop improvement - (Abstract Only)
Barnaby, J.Y., Fernandez-Baca, C.P., McClung, A.M., Edwards, J., Huggins, T.D., Rivers, A.R., Fleisher, D.H. 2021. Exploring adaptation to changing environments (E) and mitigation strategies through genetics (G) and management (M) for crop improvement. Korean Women in Science Symposium. https://www.kwise.org/blog/kwse-kwise-joint-web-seminar/

Arsenic speciation in rice bran: agronomic practices, postharvest fermentation, and human health risk assessment across the lifespan Reprint Icon - (Peer Reviewed Journal)
Weber, A.M., Baxter, B.A., McClung, A.M., Lamb, M.M., Becker-Dreps, S., Vilchez, S., Koita, O., Wieringa, F., Ryan, E.P. 2021. Arsenic speciation in rice bran: agronomic practices, postharvest fermentation, and human health risk assessment across the lifespan. Environmental Pollution. https://doi.org/10.1016/j.envpol.2021.117962.

Genotype-driven soil microbial profile associated with methane emissions - (Abstract Only)
Barnaby, J.Y., Fernandez-Baca, C.P., McClung, A.M. 2021. Genotype-driven soil microbial profile associated with methane emissions. Mid Atlantic Plant and Molecular Biology Proceedings, August 16, 2021, Virtual. p. 10.

Effect of protein denaturation and lipid removal on rice physicochemical properties Reprint Icon - (Peer Reviewed Journal)
Siaw, M.O., Yang, Y., McClung, A.M., Mauromoustakos, A.S. 2021. Effect of protein denaturation and lipid removal on rice physicochemical properties. LWT - Food Science and Technology. https://doi.org/10.1016/j.lwt.2021.112015.

Registration of two rice mapping populations using weedy rice ecotypes as a novel germplasm resource Reprint Icon - (Peer Reviewed Journal)
Jia, Y., Singh, V., Gealy, D.R., Liu, Y., Ma, J., Thurber, C.S., Roma-Burgos, N., Olsen, K.M., Caicedo, A.L. 2021. Registration of two rice mapping populations using weedy rice ecotypes as a novel germplasm resource. Journal of Plant Registrations. https://doi.org/10.1002/plr2.20174.

High-resolution spectral information enables phenotyping of leaf epicuticular wax in wheat Reprint Icon - (Peer Reviewed Journal)
Camarillo-Castillo, F., Huggins, T.D., Mondal, S., Reynolds, M.P., Tilley, M., Hays, D. 2021. High-resolution spectral information enables phenotyping of leaf epicuticular wax in wheat. Plant Methods. https://doi.org/10.1186/s13007-021-00759-w.

Increasing AWD irrigation severity during the reproductive stage reduces yields and alters outcrossing dynamics between rice and red rice - (Peer Reviewed Journal)

Prototype for developing SNP markers from GWAS and biparental QTL for rice panicle and grain traits Reprint Icon - (Peer Reviewed Journal)
Eizenga, G.C., Jackson, A.K., Edwards, J. 2021. Prototype for developing SNP markers from GWAS and biparental QTL for rice panicle and grain traits. Agricultural and Environmental Letters. https://doi.org/10.1002/ael2.20047.

Effects of alternate wetting and drying irrigation management and air temperature during grainfill on rice grain physicochemical and functionality traits of US inbred varieties Reprint Icon - (Peer Reviewed Journal)
Chen, M., McClung, A.M., Rohila, J.S., Barnaby, J.Y. 2021. Effects of alternate wetting and drying irrigation management and air temperature during grainfill on rice grain physicochemical and functionality traits of US inbred varieties. Cereal Chemistry. https://doi.org/10.1002/cche.10440.

Splice variants of superoxide dismutases in rice and their expression profiles under abiotic stresses Reprint Icon - (Peer Reviewed Journal)
Saini, A., Rohila, J.S., Govindan, G., Li, Y., Sunkar, R. 2021. Splice variants of superoxide dismutases in rice and their expression profiles under abiotic stresses. International Journal of Molecular Sciences. https://doi.org/10.3390/ijms22083997.

Changes in rhizosphere soil microbial communities across plant developmental stages of high and low methane emitting rice genotypes Reprint Icon - (Peer Reviewed Journal)
Fernandez-Baca, C.P., Rivers, A.R., Kim, W., McClung, A.M., Roberts, D.P., Reddy, V., Barnaby, J.Y. 2021. Changes in rhizosphere soil microbial communities across plant developmental stages of high and low methane emitting rice genotypes. Soil Biology and Biochemistry. http://doi.org/10.1016/j.soilbio.2021.108233.

Physiological, ecological and genetic interactions of rice with harmful microbes Reprint Icon - (Book / Chapter)
Jia, Y., Jia, M.H. 2021. Physiological, ecological and genetic interactions of rice with harmful microbes. IntechOpen. https://doi.org/10.5772/intechopen.97159.

Registration of two Oryza sativa tropical japonica germplasm lines selected for panicle architecture and grain size traits Reprint Icon - (Peer Reviewed Journal)
Eizenga, G.C., McClung, A.M., Huggins, T.D. 2021. Registration of two Oryza sativa tropical japonica germplasm lines selected for panicle architecture and grain size traits. Journal of Plant Registrations. https://doi.org/10.1002/plr2.20145.

Rice plant-soil microbiome interactions driven by root and shoot biomass Reprint Icon - (Peer Reviewed Journal)
Fernandez-Baca, C.P., Rivers, A.R., Maul, J.E., Kim, W., McClung, A.M., Roberts, D.P., Reddy, V., Barnaby, J.Y. 2021. Rice plant-soil microbiome interactions driven by root and shoot biomass. Diversity. https://doi.org/10.3390/d13030125.

Porosity and hardness of long-grain brown rice kernels in relation to their chemical compositions Reprint Icon - (Peer Reviewed Journal)
Siaw, M.O., Yang, Y., McClung, A.M., Mauromoustakos, A.S. 2021. Porosity and hardness of long-grain brown rice kernels in relation to their chemical compositions. LWT - Food Science and Technology. http://doi.org/10.1016/j.lwt.2021.111243.

Genomic methods for improving abiotic stress tolerance in field crops Reprint Icon - (Book / Chapter)
Rohila, J.S., Sunkar, R., Rakwal, R., Sarkar, A., Kim, D., Agrawal, G.K. 2021. Genomic methods for improving abiotic stress tolerance in field crops. Plant Biotechnology. https://doi.org/10.1007/978-3-030-68345-0_3.

Genomic prediction and QTL mapping of root system architecture and above-ground agronomic traits in rice (Oryza sativa L.) with a multi-trait index and Bayesian networks Reprint Icon - (Peer Reviewed Journal)
Sharma, S., Pinson, S.R., Gealy, D.R., Edwards, J. 2021. Genomic prediction and QTL mapping of root system architecture and above-ground agronomic traits in rice (Oryza sativa L.) with a multi-trait index and Bayesian networks. G3, Genes/Genomes/Genetics. https://doi.org/10.1093/g3journal/jkab178.

Transgenic rice expressing isoflavone synthase gene from soybean shows resistance against blast fungus (Magnaporthe oryzae) Reprint Icon - (Peer Reviewed Journal)
Pokhrel, S., Ponniah, S.K., Jia, Y., Yu, O., Manoharan, M. 2021. Transgenic rice expressing isoflavone synthase gene from soybean shows resistance against blast fungus (Magnaporthe oryzae). Plant Disease. https://doi.org/10.1094/PDIS-08-20-1777-RE.

Univariate and multivariate QTL analyses reveal covariance among elements in the rice ionome that is affected by production environment and tissue type. Reprint Icon - (Peer Reviewed Journal)
Liu, H., Long, S., Pinson, S.R., Tang, Z., Guerinot, M., Salt, D.E., Zhao, F., Huang, X. 2021. Univariate and multivariate QTL analyses reveal covariance among elements in the rice ionome that is affected by production environment and tissue type. Frontiers in Genetics. https://doi.org/10.3389/fgene.2021.638555.

Grain inorganic arsenic content in rice managed through targeted introgressions and irrigation management Reprint Icon - (Peer Reviewed Journal)
Fernandez-Baca, C.P., McClung, A.M., Edwards, J., Codling, E.E., Reddy, V., Barnaby, J.Y. 2021. Grain inorganic arsenic content in rice managed through targeted introgressions and irrigation management. Frontiers in Plant Science. https://doi.org/10.3389/fpls.2020.612054.

Bacillus subtilis GB519 promotes rice growth and reduces the damages caused by rice blast fungus magnaporthe oryzae Reprint Icon - (Peer Reviewed Journal)
Zhu, F., Wang, J., Jia, Y., Tian, C., Zhao, D., Wu, X., Liu, Y., Jiang, Z., Liu, X., Li, L., Ren, J., Sun, H., Dong, Y. 2021. Bacillus subtilis GB519 promotes rice growth and reduces the damages caused by rice blast fungus magnaporthe oryzae. Phytofrontiers. https://doi.org/10.1094/PHYTOFR-12-20-0041-R.

Identification and characterization of rice blast resistance genes in Minghui 63- a restorer line widely used in hybrid rice production - (Proceedings)
Jia, Y., Box, H.N., Jia, M.H., Sites Jr, D.A., Herring, N.D., Yan, Z., Bianco, T.A. 2021. Identification and characterization of rice blast resistance genes in Minghui 63- a restorer line widely used in hybrid rice production. Proceedings of 38th Rice Technical Working Group Meeting, February 24-27, 2020, Orange Beach, Alabama. p 101. Electronic Publication.

Toward understanding of rice innate immunity to rice blast fungus - (Proceedings)
Jia, Y., Wang, X., Wamishe, Y., Valent, B. 2021. Toward understanding of rice innate immunity to rice blast fungus. Proceedings of 38th Rice Technical Working Group Meeting, February 24-27, 2020, Orange Beach, Alabama. p 114. Electronic Publication.

Three Cybonnet rice x wild introgression libraries evaluated for yield and yield components - (Abstract Only)
Eizenga, G.C. 2020. Three Cybonnet rice x wild introgression libraries evaluated for yield and yield components. Abstract. ASA-CSSA-SSSA Anual Meeting, Virtual. November 9-13, 2020.

Increasing resistant starch in rice through genetics and breeding - (Abstract Only)
Pinson, S.R., Chen, M. 2020. Increasing resistant starch in rice through genetics and breeding. ASA-CSSA-SSSA Annual Meeting. Abstract paper number 126455. Virtual Meeting, November 8-11, 2020.

Genome-wide association mapping for grain manganese in rice (Oryza sativa L.) using a multi-experiment approach Reprint Icon - (Peer Reviewed Journal)
Ruang-Areerate, P., Travis, A.J., Pinson, S.R., Tarpley, L., Eizenga, G.C., Guerinot, M., Salt, D.E., Douglas, A., Price, A.H., Norton, G.J. 2020. Genome-wide association mapping for grain manganese in rice (Oryza sativa L.) using a multi-experiment approach. Heredity. https://doi.org/10.1038/s41437-020-00390-w.

Texas organic rice production guidelines - (Experiment Station)
Zhou, X., Way, M.O., McClung, A.M., Dou, F. 2020. Texas organic rice production guidelines. Experiment Station Bulletins.

A coordinated suite of wild-introgression lines in Indica and Japonica elite backgrounds Reprint Icon - (Peer Reviewed Journal)
Singh, N., Wang, D.R., Eizenga, G.C., Ali, L.M., Kim, H., Akther, K.M., Harrington, S.E., Kang, J., Shakiba, E., Shi, Y., Declerck, G., Meadows, B., Govindaraj, V., Ahn, S., McCouch, S.R. 2020. A coordinated suite of wild-introgression lines in Indica and Japonica elite backgrounds. Frontiers in Plant Science. https://doi.org/10.3389/fpls.2020.564824.

Temperature impacts on the effectiveness of the rice blast resistance gene Ptr - (Abstract Only)
Jia, Y., Box, H.N., Wang, X., Zhao, H., Wang, G. 2020. Temperature impacts on the effectiveness of the rice blast resistance gene Ptr. National American Phytopathology Meeting, August 8-12, 2020, Denver, Colorado. Available: https://apsnet.confex.com/apsnet/2020/meetingapp.cgi/Paper/17485

Structural and functional characterization of an atypical rice blast resistance gene Ptr - (Abstract Only)
Jia, Y., Zhao, H., Want, X., Jia, M.H., Liu, Y., Box, H.N. 2020. Structural and functional characterization of an atypical rice blast resistance gene Ptr. American Phytopathological Society Annual Meeting.

Enhancing the searchability, breeding utility and efficient management of germplasm accessions in the USDA-ARS rice collection Reprint Icon - (Peer Reviewed Journal)
McClung, A.M., Edwards, J., Jia, M.H., Huggins, T.D., Bockelman, H.E., Ali, L., Eizenga, G.C. 2020. Enhancing the searchability, breeding utility and efficient management of germplasm accessions in the USDA-ARS rice collection. Crop Science. https://doi.org/10.1002/csc2.20256.

Do we need micronutrient applications to the rice crop if we reduce water use? - (Experiment Station)
Tarpley, L., Mohammad, A.R., Pinson, S.R., Ratna-Raj, R. 2020. Do we need micronutrient applications to the rice crop if we reduce water use?. Meeting Abstract. Texas Rice, special section, Highlighting Research in 2020. pp. 30-32. https://beaumont.tamu.edu/eLibrary/

Seeding rate effects on organic rice growth, yield, and economic returns Reprint Icon - (Peer Reviewed Journal)
Li, X., Dou, F., Watkins, K.B., Wang, S., Chen, K., Zhou, X., McClung, A.M., Storlien, J.O., Hons, F.M. 2020. Seeding rate effects on organic rice growth, yield, and economic returns. Agronomy Journal. https://doi.org/10.1002/agj2.20304.

Identification of novel QTLs conferring sheath blight resistance in two weedy rice mapping populations Reprint Icon - (Peer Reviewed Journal)
Goad, D.M., Jia, Y., Gibbons, A., Liu, Y., Gealy, D.R., Calcedo, A.L., Olsen, K.M. 2020. Identification of novel QTLs conferring sheath blight resistance in two weedy rice mapping populations. Rice. https://doi.org/10.1186/s12284-020-00381-9.

Influence of manganese abundances on iron and arsenic solubility in rice paddy soil Reprint Icon - (Peer Reviewed Journal)
Maguffin, S.C., Abu-Ali, L., Tappero, R., Woll, A., Pena, J., Rohila, J.S., McClung, A.M., Reid, M.C. 2020. Influence of manganese abundances on iron and arsenic solubility in rice paddy soil. Geochimica et Cosmochimica Acta. https://doi.org/10.1016/j.gca.2020.02.012.

Vis/NIR hyperspectral imaging distinguishes sub-population, production environment, and physicochemical properties in rice. Reprint Icon - (Peer Reviewed Journal)
Barnaby, J.Y., Huggins, T.D., Lee, H., McClung, A.M., Pinson, S.R., Oh, M., Bauchan, G.R., Tarpley, L., Lee, K., Kim, M.S., Edwards, J. 2020. Vis/NIR hyperspectral imaging distinguishes sub-population, production environment, and physicochemical properties in rice. Scientific Reports. https://doi.org/10.1038/s41598-020-65999-7.

Efficient accession management and characterization of the USDA-ARS rice germplasm collection through phenotyping and genotyping - (Abstract Only)
Huggins, T.D., McClung, A.M., Edwards, J., Jia, M.H., Bockelman, H.E., Ali, M.L., Eizenga, G.C. 2020. Efficient accession management and characterization of the USDA-ARS rice germplasm collection through phenotyping and genotyping. Meeting Abstract.

Effect of increasing severity of alternate wetting and drying (AWD) irrigation stress on yield and outcrossing potential of rice and weedy red rice - (Proceedings)
Gealy, D.R. 2020. Effect of increasing severity of alternate wetting and drying (AWD) irrigation stress on yield and outcrossing potential of rice and weedy red rice. Proceedings of the Southern Weed Science Society 73rd Annual Meeting, January 27-30, 2020, Biloxi, Mississippi. 73:199.

Genomic prediction and bayesian network analysis of multiple root architecture traits in rice - (Abstract Only)
Sharma, S., Gealy, D.R., Pinson, S.R., Edwards, J. 2020. Genomic prediction and bayesian network analysis of multiple root architecture traits in rice. Poster presentation. Arkansas Bioinformatics Consortium, Little Rock, Arkansas. February 10-11, 2020.

Rice plant biomass traits influencing rhizosphere soil microbial community composition - (Proceedings)
Fernandez-Baca, C., Rivers, A.R., Maul, J.E., Kim, W., McClung, A.M., Roberts, D.P., Barnaby, J.Y. 2020. Rice plant biomass traits influencing rhizosphere soil microbial community composition. Proceedings of Rice Technical Working Group Meeting, February 24-27, 2020, Orange Beach, Alabama. p 65. Electronic Publication.

Exploring naturally existing genetic variation in grain chalk formation in response to temperature and carbon dioxide - (Proceedings)
Barnaby, J.Y., McClung, A.M., Kim, W., Ziska, L.H., Fleisher, D.H., Reddy, V. 2021. Exploring naturally existing genetic variation in grain chalk formation in response to temperature and carbon dioxide. Proceedings of 38th Rice Technical Working Group Meeting, February 24-27, 2020, Orange Beach, Alabama. Pp 103-104. Electronic Publication.

Over expression of the candidate Pi-ta2 gene in rice (Oryza sativa L. japonica cv. Katy) for resistance against Blast Fungus (Magnaporthe oryzae) - (Abstract Only)
Chhetri, G., Ponniah, S., Jia, Y., Manoharan, M., Valent, B. 2020. Over expression of the candidate Pi-ta2 gene in rice (Oryza sativa L. japonica cv. Katy) for resistance against Blast Fungus (Magnaporthe oryzae) [abstract]. Plant and Animal Genome Conference, San Diego, California, January 11-15, 2020.

Co-evolutionary mechanisms of Oryza sativa and Magnaporthe oryzae pathosystem - (Abstract Only)
Jia, Y., Wang, X., Jia, M.H., Wamishe, Y., Valent, B. 2020. Co-evolutionary mechanisms of Oryza sativa and Magnaporthe oryzae pathosystem [abstract]. Plant and Animal Genome Conference, San Diego, California, January 11-15, 2020.

Identification of critical amino acid residues in Ptr mediated plant innate immunity - (Abstract Only)
Jia, Y., Zhai, H., Jia, M.H., Liu, Y. 2020. Identification of critical amino acid residues in Ptr mediated plant innate immunity [abstract]. Plant and Animal Genome Conference, San Diego, California, January 11-15, 2020.

Ricebase: A BreedBase implementation for rice with tools for gene discovery and marker development. - (Abstract Only)
Edwards, J. 2020. Ricebase: A BreedBase implementation for rice with tools for gene discovery and marker development. International Plant and Animal Genome Conference, San Diego, California, January 11-15, 2020. Abstract W155. Electronic Publication.

SNP markers for panicle architecture and grain traits based on RDP1 GWA-QTL and available for japonica rice improvement - (Abstract Only)
Eizenga, G.C., Jackson, A.K., Jia, M.H., Edwards, J., McClung, A.M. 2019. SNP markers for panicle architecture and grain traits based on RDP1 GWA-QTL and available for japonica rice improvement. Abstract, Plant and Animal Genome Conference XXVIII, San Diego, California, January 11-15, 2020.

SNP markers for panicle architecture and grain traits developed from GWA-QTL and available for japonica rice improvement - (Abstract Only)
Eizenga, G.C., Jackson, A.K., Jia, M.H., Edwards, J., McClung, A.M. 2019. SNP markers for panicle architecture and grain traits developed from GWA-QTL and available for japonica rice improvement. Abstract, Plant and Animal Genome Conference XXVIII, San Diego, California, January 11-15, 2020.

Use of objective imaging systems to assess subjective grain appearance traits important to the USA rice industry Reprint Icon - (Peer Reviewed Journal)
McClung, A.M., Chen, M., Jodari, F., Famoso, A.N., Addison, C.K., Linscombe, S.D., Ottis, B.V., Moldenhauer, K.A., Walker, T.W., Wilson, L.T., Mckenzie, K.S. 2019. Use of objective imaging systems to assess subjective grain appearance traits important to the USA rice industry. Cereal Chemistry. https://doi.org/10.1002/cche.10251.

Response of U.S. rice cultivars grown under non-flooded irrigation management. Reprint Icon - (Peer Reviewed Journal)
McClung, A.M., Rohila, J.S., Lorence, A., Henry, C.G. 2019. Response of U.S. rice cultivars grown under non-flooded irrigation management. Agronomy, 10(1). https://doi.org/10.3390/agronomy10010055.

Prediction of grain appearance traits as assessed by the USA rice industry using high throughput imaging systems - (Proceedings)
McClung, A.M., Chen, M., Jodari, F., Famoso, A.N., Addison, C.K., Linscombe, S.D., Ottis, B.V., Moldenhauer, K.A., Walker, T.W., Wilson, L.T., McKenzie, K.S. 2021. Prediction of grain appearance traits as assessed by the USA rice industry using high throughput imaging systems. Proceedings of 38th Rice Technical Working Group, February 24-27, 2020, Orange Beach, Alabama. p 180-181. Electronic Publication.

Cultivar differences in inorganic arsenic accumulation in the grain as influenced by irrigation management and soil amendments - (Proceedings)
Mcclung, A.M., Green, C.E., Codling, E.E., Chaney, R.L. 2021. Cultivar differences in inorganic arsenic accumulation in the grain as influenced by irrigation management and soil amendments. Rice Technical Working Group Meeting Proceedings. p. 88-89.

Effect of AWD irrigation on yield components and biological responses of recurrent inbred lines from a weed-suppressive indica x tropical japonica mapping population - (Proceedings)
Gealy, D.R., Rohila, J.S. 2021. Effect of AWD irrigation on yield components and biological responses of recurrent inbred lines from a weed-suppressive indica x tropical japonica mapping population. Proceedings of 38th Rice Technical Working Group Meeting, February 24-27, 2020, Orange Beach, Alabama. p 135. Electronic Publication

Estrela x NSFTV199 germplasm selected for panicle architecture traits - (Proceedings)
Eizenga, G.C., McClung, A.M. 2021. Estrela x NSFTV199 germplasm selected for panicle architecture traits. Proceedings of 38th Rice Technical Working Group Meeting, February 24-27, 2020, Orange Beach, Alabama. p 100-101. Electronic Publication.

Genetic loci and agronomic traits impacting grain-arsenic concentrations revealed by GWA and biparental QTL analyses - (Proceedings)
Pinson, S.R., Edwards, J., Jackson, A.K., Heuschele, D.J., Barnaby, J.Y., Tarpley, L., Green, C.E., Codling, E.E., Smith, A.P. 2021. Genetic loci and agronomic traits impacting grain-arsenic concentrations revealed by GWA and biparental QTL analyses. Proceedings of 38th Rice Technical Working Group Meeting, February 24-27, 2020, Orange Beach, Alabama. Pp 89-90. Electronic Publication.

Ricebase update: comparative GWAS annotation for gene discovery and marker development. - (Proceedings)
Edwards, J., Jackson, A.K., Jia, M.H., Eizenga, G.C. 2021. Ricebase update: comparative GWAS annotation for gene discovery and marker development. Proceedings of 38th Rice Technical Working Group Meeting, February 24-27, 2020, Orange Beach, Alabama. p 79. Electronic Publication.

Sensory evaluation of non-mutant rice varieties high in apparent amylose and resistant starch - (Proceedings)
Chen, M., Bett Garber, K.L., Lea, J.M., McClung, A.M., Linscombe, S. 2021. Sensory evaluation of non-mutant rice varieties high in apparent amylose and resistant starch. Proceedings of 38th Rice Technical Working Group Meeting, February 24-27, 2020, Orange Beach, Alabama. p. 178. Electronic Publication.

Differentiating sub-population, production environment and grain chalk by hyperspectral imaging - (Proceedings)
Barnaby, J.Y., Huggins, T.D., Lee, H., McClung, A.M., Pinson, S.R., Oh, M., Bauchan, G.R., Tarpley, L., Lee, K., Kim, M.S., Edwards, J. 2021. Differentiating sub-population, production environment and grain chalk by hyperspectral imaging. Proceedings of 38th Rice Technical Working Group Meeting, February 24-27, 2020, Orange Beach, Alabama. p 177. Electronic Publication.

Identification of GWA-QTLs and germplasm useful for enhancing sheath blight resistance - (Proceedings)
Eizenga, G.C., Pinson, S.R., Li, D., Zhang, F., Edwards, J., Jackson, A.K. 2021. Identification of GWA-QTLs and germplasm useful for enhancing sheath blight resistance. Proceedings of 38th Rice Technical Working Group Meeting, February 24-27, 2020, Orange Beach, Alabama. p. 114-115. Electronic Publication.

GWA mapping of cold tolerance traits at the seedling stage and validation in two rice biparental mapping populations - (Proceedings)
Eizenga, G.C., Shimoyama, N.S., Jackson, A.K., Edwards, J., Jessel, A.R., Schlappi, M.R. 2021. GWA mapping of cold tolerance traits at the seedling stage and validation in two rice biparental mapping populations. Proceedings of 38th Rice Technical Working Group Meeting, February 24-27, 2020, Orange Beach, Alabama. p 81-82. Electronic Publication.

A new haplotype of rice blast resistance gene Ptr in weedy rice confers resistance to the most virulent race of M. oryzae - (Proceedings)
Zhao, H., Jia, Y., Liu, Y. 2021. A new haplotype of rice blast resistance gene Ptr in weedy rice confers resistance to the most virulent race of M. oryzae. Proceedings of 38th Rice Technical Working Group Meeting, February 24-27, 2020, Orange Beach, Alabama. p 78. Electronic Publication.

Prospective genomic regions with superior alleles for seedling stage salt tolerance identified via GWAS in the USDA rice mini-core collection - (Proceedings)
Rohila, J.S., Edwards, J., Tran, G.D., Jackson, A.K., McClung, A.M. 2021. Prospective genomic regions with superior alleles for seedling stage salt tolerance identified via GWAS in the USDA rice mini-core collection. Proceedings of 38th Rice Technical Working Group Meeting, February 24-27, 2020, Orange Beach, Alabama. p 80. Electronic Publication.

QTL mapping and genomic prediction of seedling root architectural traits in a rice RIL population. - (Proceedings)
Sharma, S., Edwards, J., Gealy, D.R., Pinson, S.R. 2021. QTL mapping and genomic prediction of seedling root architectural traits in a rice RIL population. Proceedings of 38th Rice Technical Working Group Meeting, February 24-27, 2020, Orange Beach, Alabama. p 83-84. Electronic Publication.

Curating the USDA-ARS rice germplasm collection: efficient accession management and characterization through phenotyping and genotyping - (Proceedings)
Huggins, T.D., McClung, A.M., Edwards, J., Jia, M.H., Bockelman, H.E., Ali, L.M., Eizenga, G.C. 2021. Curating the USDA-ARS rice germplasm collection: efficient accession management and characterization through phenotyping and genotyping. Proceedings of 38th Rice Technical Working Group Meeting, February 24-27, 2020, Orange Beach, Alabama. p 76. Electronic Publication.

Use of genetic resistance and biocontrol agents for management of sheath blight in organic rice - (Proceedings)
Zhou, X., McClung, A.M., Dou, F. 2021. Use of genetic resistance and biocontrol agents for management of sheath blight in organic rice. Proceedings of 38th Rice Technical Working Group Meeting Proceedings, February 24-27, 2020, Orange Beach, Alabama. p 127. Electronic Publication.

Strategies effective for integrated pest management in organic rice in the southern United States - (Proceedings)
Zhou, X., McClung, A.M., Dou, F., Huang, B., Bagavathiannan, M., Way, M.O., Watkins, B.K., Shade, J., Abugho, S.B., Ward, B., Ntamatungiro, S., Jun, S., Zhou, Y. 2021. Strategies effective for integrated pest management in organic rice in the southern United States. Proceedings of 38th Rice Technical Working Group Meeting Proceedings, February 24-27, 2020, Orange Beach, Alabama. p 123-124. Electronic Publication.

Assessment of weed suppression and straighthead occurrence in plastic mulched and high seed rate water seeded rice under organic condition - (Proceedings)
Huang, B., Mahato, G.R., McClung, A.M., Zhou, X. 2021. Assessment of weed suppression and straighthead occurrence in plastic mulched and high seed rate water seeded rice under organic condition. Proceedings of 38th Rice Technical Working Group Meeting Proceedings, February 24-27, 2020, Orange Beach, Alabama. p 134. Electronic Publication.

Gene disruption by structural mutations drives selection in U.S. rice breeding over the last century - (Proceedings)
Vaughn, J.N., Stein, J.C., Korani, W., Edwards, J., Peterson, D.G., Simpson, S.A., Grimwood, J., Ware, D., McClung, A.M., Scheffler, B.E. 2021. Gene disruption by structural mutations drives selection in U.S. rice breeding over the last century. Proceedings of 38th Rice Technical Working Group Meeting, February 24-27, 2020, Orange Beach, Alabama. p 77. Electronic Publication.

Rice seedling cold stress QTL revealed by genome-wide association mapping and biparental mapping - (Abstract Only)
Eizenga, G.C., Shimoyama, N.S., Jackson, A.K., Edwards, J., Jessel, A.R., Schlappi, M.R. 2019. Rice seedling cold stress QTL revealed by genome-wide association mapping and biparental mapping. Abstract, Plant and Animal Genome Conference XXVIII, San Diego, California, January 11-15, 2020.

A rice mutant with a giant embryo has increased levels of lipophilic antioxidants- E vitamers and gamma-oryzanol fraction Reprint Icon - (Peer Reviewed Journal)
Chen, M., Bergman, C.J., Grimm, C.C., McClung, A.M. 2019. A rice mutant with a giant embryo has increased levels of lipophilic antioxidants- E vitamers and gamma-oryzanol fraction. Cereal Chemistry. https://doi.org/10.1002/cche.10242.

Phylogenetic origin and dispersal pattern of Taiwan weedy rice. Reprint Icon - (Peer Reviewed Journal)
Wu, D., Gealy, D.R., Jia, M.H., Edwards, J., Lai, M., McClung, A.M. 2019. Phylogenetic origin and dispersal pattern of Taiwan weedy rice. Pest Management Science. https://doi.org/10.1002/ps.5683.

Identification of superior alleles for seedling stage salt tolerance in the USDA rice mini-core collection Reprint Icon - (Peer Reviewed Journal)
Rohila, J.S., Edwards, J., Tran, G.D., Jackson, A.K., McClung, A.M. 2019. Identification of superior alleles for seedling stage salt tolerance in the USDA rice mini-core collection. Plants. https://doi.org/10.3390/plants8110472.

Impact of genetics (G) x environment (E) x management (M) interactions on crop production and quality - (Abstract Only)
Barnaby, J.Y., McClung, A.M., Fleisher, D.H., Reddy, V. 2019. Impact of genetics (G) x environment (E) x management (M) interactions on crop production and quality. Meeting Abstract.

A rapid survey of avirulence genes in field isolates of Magnaporthe oryzae Reprint Icon - (Peer Reviewed Journal)
Zhang, Z., Jia, Y., Wang, Y., Sun, G. 2020. A rapid survey of avirulence genes in field isolates of Magnaporthe oryzae. Plant Disease. https://doi.org/10.1094/PDIS-08-19-1688-RE.

The genetic basis of cold stress tolerance in rice at the seedling stage identified in two independent high resolution genome-wide association mapping studies - (Abstract Only)
Eizenga, G.C., Shimoyama, N., Jackson, A.K., Edwards, J., Schlappi, M.R. 2019. The genetic basis of cold stress tolerance in rice at the seedling stage identified in two independent high resolution genome-wide association mapping studies. Abstract, ASA-CSSA-SSSA Annual Meeting, San Antonio, Texas, November 10-13, 2019.

Development and characterization of a large mutant population of a rice variety Katy for functional genomics studies and breeding Reprint Icon - (Peer Reviewed Journal)
Jia, Y., Wang, Z., Jia, M.H., Rutger, J.N., Moldenhauer, K. 2019. Development and characterization of a large mutant population of a rice variety Katy for functional genomics studies and breeding. Crop Breeding, Genetics and Genomics. https://doi.org/10.20900/cbgg20190014.

Exploring naturally existing genetic variation in grain chalk formation in response to changing climate - (Abstract Only)
Barnaby, J.Y., Kim, W., Ziska, L.H., Fleisher, D.H., Reddy, V., McClung, A.M. 2019. Exploring naturally existing genetic variation in grain chalk formation in response to changing climate. 36th Annual Mid Atlantic Plant and Molecular Biology Society. Poster #2.

Exploring naturally exisiting genetic variation in grain chalk formation in response to changing climate - (Abstract Only)
Barnaby, J.Y., Kim, W., Ziska, L.H., Fleisher, D.H., Reddy, V., McClung, A.M. 2019. Exploring naturally exisiting genetic variation in grain chalk formation in response to changing climate. Mid Atlantic Plant and Molecular Biology Proceedings.

Identifying genomic regions influencing variations in inorganic arsenic accumulation in rice cultivars - (Abstract Only)
Fernandez-Baca, C.P., Codling, E.E., Reddy, V., Pinson, S.R., McClung, A.M., Barnaby, J.Y. 2019. Identifying genomic regions influencing variations in inorganic arsenic accumulation in rice cultivars. 36th Annual Mid Atlantic Plant and Molecular Biology Society. Poster #3.

Elucidating the molecular mechanism of the Ptr-mediated rice blast resistance - (Abstract Only)
Yin, W., Jia, Y., Yang, Y. 2019. Elucidating the molecular mechanism of the Ptr-mediated rice blast resistance [abstract]. American Phytopathological Society Abstracts, Cleveland, Ohio, August 307, 2019.

Uniform Regional Rice Nursery (URRN) and Arkansas Rice Performance Test (ARPT) field evaluation for bacterial panicle blight disease of rice in Arkansas - (Experiment Station)
Wamishe, Y., Mulaw, T., Jia, Y., Gebremarlam, T., Sha, X. 2019. Uniform Regional Rice Nursery (URRN) and Arkansas Rice Performance Test (ARPT) field evaluation for bacterial panicle blight disease of rice in Arkansas. B. R. Wells Rice Research Studies. Research Series. pp 119-127.

Registration of the ‘Estrela/NSFTV199’ Rice Recombinant Inbred Line Mapping Population - (Peer Reviewed Journal)
Eizenga, G.C., Chen, M., Jia, M.H., Jackson, A.K., Edwards, J. 2019. Registration of the ‘Estrela/NSFTV199’ Rice Recombinant Inbred Line Mapping Population. Journal of Plant Registrations. 13:469-478.

Structural and functional analysis of the broad spectrum rice blast resistance gene Ptr in US rice germplasm - (Proceedings)

Introductory chapter: Protecting rice grains in the post-genomic era- are we there yet? Reprint Icon - (Book / Chapter)
Jia, Y. 2019. Introductory chapter: Protecting rice grains in the post-genomic era- are we there yet? Book Chapter. https://doi.org/10.5772/intechopen.86390.

A toolbox for managing blast and sheath blight diseases of rice in the United States of America Reprint Icon - (Book / Chapter)
Jia, Y., Jia, M.H., Want, X., Zhao, H. 2019. A toolbox for managing blast and sheath blight diseases of rice in the United States of America. Book Chapter. https://doi.org/10.5772/intechopen.86901.

Genetic potential of rice under AWD irrigation management for barnyardgrass suppression and grain yield production - (Peer Reviewed Journal)
Gealy, D.R., Rohila, J.S., Boykin, D.L. 2019. Genetic potential of rice under AWD irrigation management for barnyardgrass suppression and grain yield production. Weed Science. 67:453-462.

Cultivar variation in brown rice inorganic arsenic accumulation - (Abstract Only)
Fernandez-Baca, C.P., Codling, E.E., Reddy, V., McClung, A.M., Barnaby, J.Y. 2019. Cultivar variation in brown rice inorganic arsenic accumulation [abstract]. 30th Annual Beltsville Poster Day.

BrAPI - An application programming interface for plant breeding applications Reprint Icon - (Peer Reviewed Journal)
Abbeloos, R., Bauchet, G., Benites-Alfaro, O., Birkett, C.L., Carceller, P., Costa, B.V., Edwards, J., Finkers, R., Guignon, V., Hok, P., Kilian, A., Laporte, M., Lebauer, D., Lyon, D., Marshall, D., Matthews, D.E., Milne, I., Morales, N., Mueller, L., Papoutsoglou, E., Pearce, B., Perez-Masias, I., Ramirez-Gonzalez, R.H., Rauback, S., Rife, T., Robbins, K., Rouard, M., Selby, P., Sempere, G., Shaw, P., Gordon, S., Uszynski, G., Verouden, M., Backlund, J.E., Salido, M.B., Cornut, G., Gao, S.Y., Patrick, K., Lagare, J.E., Lange, M., Larmande, P., Neveu, P., Prommier, C., Tahore, A., Sarma, C., Scholz, U., Mistry, N., Simon, R., Soldevilla, N., Tovar, C. 2019. BrAPI - An application programming interface for plant breeding applications. Bioinformatics. https://doi.org/10.1093/bioinformatics/btz190.

Rice soil microbiome interactions with plant growth characteristics and methane emissions - (Abstract Only)
Fernandez-Baca, C.P., Rivers, A.R., Maul, J.E., Kim, W., Yarwood, S.A., Roberts, D.P., McClung, A.M., Barnaby, J.Y. 2019. Rice soil microbiome interactions with plant growth characteristics and methane emissions. American Society for Microbiology.

Covariation among root biomass, shoot biomass, and tiller number in three rice populations Reprint Icon - (Peer Reviewed Journal)
Barnaby, J.Y., Pinson, S.R., Chun, J., Bui, L.T. 2019. Covariation among root biomass, shoot biomass, and tiller number in three rice populations. Crop Science. 59:1516-1530. https://doi.org/10.2135/cropsci2018.09.0595.

Hydrolytic rancidity and its association with phenolics in rice bran Reprint Icon - (Peer Reviewed Journal)
Chen, M., Bergman, C.J., McClung, A.M. 2019. Hydrolytic rancidity and its association with phenolics in rice bran. Food Chemistry. https://doi.org/10.1016/j.foodchem.2019.01.139.

The role of manganese redox dynamics in controlling arsenic mobility in paddy soils - (Abstract Only)
Maguffin, S., Abu-Ali, L., Woll, A., Smleska, L., Rohila, J.S., McClung, A.M., Reid, M.C. 2019. The role of manganese redox dynamics in controlling arsenic mobility in paddy soils. International Soil Science Society Conference Proceedings. Available: https://scisoc.confex.com/scisoc/2019sssa/meetingapp.cgi/Paper/116394.

Periodic dry-downs affect interactions between manganese redox dynamics and arsenic mobility in rice paddy soils - (Abstract Only)
Maguffin, S.C., Abu-Ali, L., Rohila, J.S., McClung, A.M., Woll, A., Smieska, L., Reid, M.C. 2018. Periodic dry-downs affect interactions between manganese redox dynamics and arsenic mobility in rice paddy soils. American Geophysical Union Abstracts. Available: https://agu.confex.com/agu/fm18/meetingapp.cgi/Paper/421853.

Functional characterization of a new class of rice blast resistance gene Ptr - (Abstract Only)
Jia, Y., Zhao, H., Wang, X., Minkenberg, B., Wheatley, M., Fan, J., Jia, M.H., Famoso, A., Edwards, J., Wamishe, Y., Valent, B., Want, G., Yang, Y. 2019. Functional characterization of a new class of rice blast resistance gene Ptr. Plant and Animal Genome Conference.

Genotypic diversity of bran weight of whole grain rice and its relationship with grain physical traits Reprint Icon - (Peer Reviewed Journal)
Chen, M., McClung, A.M. 2019. Genotypic diversity of bran weight of whole grain rice and its relationship with grain physical traits. Cereal Chemistry. https://doi.org/10.1002/cche.10117.

Correlation between methane (CH4) emissions and root aerenchyma of rice varieties - (Peer Reviewed Journal)
Kim, W., Bui, L., Chun, J., McClung, A.M., Barnaby, J.Y. 2018. Correlation between methane (CH4) emissions and root aerenchyma of rice varieties. Plant Breeding and Biotechnology. 6:381-390.

The role of standing variation in the evolution of weediness traits in south Asian weedy rice (oryza spp.) Reprint Icon - (Peer Reviewed Journal)
Huang, Z., Kelly, S., Matsuo, R., Li, L., Li, Y., Olsen, K.M., Jia, Y., Caicedo, A.L. 2018. The role of standing variation in the evolution of weediness traits in south Asian weedy rice (oryza spp.). G3, Genes/Genomes/Genetics. https://doi.org/10.1534/g3.118.200605.

Genome-wide identifcation and characterization of long non-coding RNAs responsive to Dickeya zeae in rice Reprint Icon - (Peer Reviewed Journal)
Li, W., Jia, Y., Wang, F., Fei, Y., Fan, F., Wang, J., Zhu, J., Xu, Y., Zhong, W., Yang, J. 2018. Genome-wide identifcation and characterization of long non-coding RNAs responsive to Dickeya zeae in rice. RSC Advances. https://doi.org/10.1039/c8ra04993a.

Genes and physiological factors associated with natural variation in rice arsenic concentrations - (Abstract Only)
Pinson, S.R., Edwards, J., Heuschele, J.D., Tarpley, L., Green, C.E., Smith, A.P. 2018. Genes and physiological factors associated with natural variation in rice arsenic concentrations. Meeting Abstract. Available: http://ricecongress2018.irri.org/sites/default/files/Genes%20and%20Physiological%20Factors%20Associated%20With%20Natural%20Variation%20in%20Rice%20Arsenic%20Concentrations.pdf

Identification of genetic diversity in the USDA-minicore and among selected Vietnamese rice accessions for seedling stage salt tolerance - (Abstract Only)
Rohila, J.S., Edwards, J., Gioi, T.D., McClung, A.M. 2018. Identification of genetic diversity in the USDA-minicore and among selected Vietnamese rice accessions for seedling stage salt tolerance. Meeting Abstract. 5th International Rice Congress, October 14-17, 2018, Marina Bay Sands, Singapore.

Effects of intermittent draining of rice fields on biogeochemical redox processes and arsenic mobility - (Abstract Only)
Maguffin, S.G., Rohila, J.S., McClung, A.M., Reid, M.C. 2018. Effects of intermittent draining of rice fields on biogeochemical redox processes and arsenic mobility. Annual Goldschmidt Conference. Goldschmidt Abstracts, 2018.

Weedy red rice has novel resistance resources to biotic stress Reprint Icon - (Peer Reviewed Journal)
Jia, Y., Gealy, D.R. 2018. Weedy red rice has novel resistance resources to biotic stress. The Crop Journal. https://doi.org/10.1016/j.cj.2018.07.001.

Identifying panicle architecture traits for rice improvement: a treasure hunt from genome-wide association studies to QTL validation, marker development and germplasm release - (Abstract Only)
Eizenga, G.C., Jackson, A.K., Jia, M.H., Edwards, J., McClung, A.M. 2018. Identifying panicle architecture traits for rice improvement: a treasure hunt from genome-wide association studies to QTL validation, marker development and germplasm release. Available: http://ricecongress2018.irri.org/conference-program.

Surprises learned from plant immunity-challenges and opportunities for crop protection - (Abstract Only)
Jia, Y., Zhao, H., Wang, X. 2018. Surprises learned from plant immunity-challenges and opportunities for crop protection. American Phytopathological Society Annual Meeting, Boston, Massachusetts, July 29 - August 3, 2018.

Using high-throughput genotyping and phenotyping to dissect rice-soil microbiome interactions affecting GHG emissions and identify candidate genes affecting rice grain quality - (Abstract Only)
Barnaby, J.Y., McClung, A.M., Kim, W. 2018. Using high-throughput genotyping and phenotyping to dissect rice-soil microbiome interactions affecting GHG emissions and identify candidate genes affecting rice grain quality [abstract].RDA-USDA Collaborative Meeting.

Profiles of rhizosphere soil microbial composition affecting methane emissions - (Abstract Only)
Barnaby, J.Y., Kim, W., Rivers, A.R., McClung, A.M., Maul, J.E. 2018. Profiles of rhizosphere soil microbial composition affecting methane emissions. 5th International Rice Conference Abstract. Available: http://ricecongress2018.irri.org/sites/default/files/Profiles%20of%20Rhizosphere%20soil%20microbial%20composition%20affecting%20methane%20emmissions.pdf.

Preliminary trial of cover cropping and weed control for organic rice Reprint Icon - (Peer Reviewed Journal)
Mahato, G.R., McClung, A.M., Ntamatungiro, S., Surendra, S., Pokharel, M., Wiley, V., Huang, B. 2017. Preliminary trial of cover cropping and weed control for organic rice. American Journal of Plant Sciences, 8, 2758-2768. https://doi.org/10.4236/ajps.2017.811186.