2016 Publications

Kim H, Jung J, Singh N, Greenberg A, Doyle JJ, Tyagi W, Chung JW, Kimball J, Hamilton RS, McCouch SR (2016) Population Dynamics Among six Major Groups of the Oryza rufipogon Species Complex, Wild Relative of Cultivated Asian Rice. Rice (N Y) 9(1):56. DOI: 10.1186/s12284-016-0119-0

Spindel JE, McCouch SR (2016) When more is better: how data sharing would accelerate genomic selection of crop plants. New Phytol 212(4):814-826. DOI: 10.1111/nph.14174

Wang DR, Wolfrum EJ, Virk P, Ismail A, Greenberg AJ, McCouch SR (2016) Robust phenotyping strategies for evaluation of stem non-structural carbohydrates (NSC) in rice. J Exp Bot. 67(21):6125-6138. DOI: 10.1093/jxb/erw375

Maron L, Piñeros M, Kochian L, McCouch S (2016) Redefining ‘stress resistance genes’, and why it matters. Journal of Experimental Botany 67(19):5588-5591. DOI:10.1093/jxb/erw323

Bimber BN, Raboin MJ, Letaw J, Nevonen KA, Spindel JE, McCouch SR, Cervera-Juanes R, Spindel E, Carbone L, Ferguson B, Vinson A (2016) Whole-genome characterization in pedigreed non-human primates using genotyping-by-sequencing (GBS) and imputation. BMC Genomics 17:676. DOI: 10.1186/s12864-016-2966-x

Bessho-Uehara K, Wang DR, Furuta T, Minami A, Nagai K, Gamuyao R, Asano K, Angeles-Shim RB, Shimizu Y, Ayano M, Komeda N, Doi K, Miura K, Toda Y, Kinoshita T, Okuda S, Higashiyama T, Nomoto M, Tada Y, Shinohara H, Matsubayashi Y, Greenberg A, Wu J, Yasui H, Yoshimura A, Mori H, McCouch SR, Ashikari M (2016) Loss of function at RAE2, a previously unidentified EPFL, is required for awnlessness in cultivated Asian rice. Proc Natl Acad Sci U S A 113(32):8969-74. DOI: 10.1073/pnas.1604849113

Eizenga G, Edwards JD, Yeater KM, McCouch S, McClung AM (2016) Transgressive variation for yield components measured throughout the growth cycle of Jefferson Rice (Oryza sativa) x O. Rufipogon introgression lines. Crop Science 56(5): 2336-2347. DOi: 10.2135/cropsci2015.10.0603

Biscarini F, Cozzi P, Casella L, Riccardi P, Vattari A, Orasen G, Perrini R, Tacconi G, Tondelli A, Biselli C, Cattivelli L, Spindel J, McCouch S, Abbruscato P, Valé G, Piffanelli P, Greco R (2016) Genome-Wide Association Study for Traits Related to Plant and Grain Morphology, and Root Architecture in Temperate Rice Accessions. PLoS One 11(5):e0155425. DOI: 10.1371/journal.pone.0155425

McCouch SR, Wright MH, Tung CW, Maron LG, McNally KL, Fitzgerald M, Singh N, DeClerck G, Perez FA, Korniliev P, Greenberg AJ, Naredo ME, Mercado SM, Harrington SE, Shi Y, Branchini DA, Kuser-Falcão PR, Leung H, Ebana K, Yano M, Eizenga G, McClung A, Mezey J (2016) Corrigendum: Open access resources for genome-wide association mapping in rice. Nat Commun. 7:11346. DOI: 10.1038/ncomms11346

Wang DR, Bunce JA, Tomecek MB, Gealy D, McClung A, McCouch SR, Ziska LH (2016) Evidence for divergence of response in Indica, Japonica, and wild rice to high CO2 x temperature interaction. Glob Chang Biol. 22(7):2620-32. DOI: 10.1111/gcb.13279.

Spindel JE, Begum H, Akdemir D, Collard B, Redoña E, Jannink JL, McCouch S (2016) Genome-wide prediction models that incorporate de novo GWAS are a powerful new tool for tropical rice improvement. Heredity (Edinb). 116(4):395-408. DOI: 10.1038/hdy.2015.113.

Ogawa S, Valencia M, Lorieux M, Arbelaez J, McCouch S, Ishitani M, Selvaraj M (2016) Identification of QTLs associated with agronomic performance under nitrogen-deficient conditions using chromosome segment substitution lines of a wild rice relative, Oryza rufipogon. Acta Physiologiae. 38:4. DOI: 10.1007/s11738-016-2119-5

Piñeros M, Larson BG, Shaff JE, Schneider DJ, Falcão AX, Yuan L, Clark RT, Craft EJ, Davis TW, Pradier P-L, Assaranurak I, McCouch SR, Sturrock C, Bennett M, Kochian LV (2016) Evolving technologies for growing, imaging, and analyzing 3D root system architecture of crop plants. Journal of Integrative Plant Biology 58(3): 230-41. DOI: 10.2222/jipb.12456

McCouch SR, Wright MH, Tung CW, Maron LG, McNally KL, Fitzgerald M, Singh N, DeClerck G, Agosto-Perez F, Korniliev P, Greenberg AJ, Naredo ME, Mercado SM, Harrington SE, Shi Y, Branchini DA, Kuser-Falcão PR, Leung H, Ebana K, Yano M, Eizenga G, McClung A, Mezey J (2016) Open access resources for genome-wide association mapping in rice. Nat Commun. 7:10532. DOI: 10.1038/ncomms10532.

Crowell S, Korniliev P, Falcão A, Ismail A, Gregorio G, Mezey J, McCouch S (2016) Genome-wide association and high-resolution phenotyping link Oryza sativa panicle traits to numerous trait-specific QTL clusters. Nat Commun. 7:10527. DOI: 10.1038/ncomms10527