Asano K, Miyao A, Hirochika H, Kitano H, Matsuoka M, Ashikari M. 2010. SSD1, which encodes a plant-specific novel protein, controls plant elongation by regulating cell division in rice. Proceedings of the Japan Academy Series (B) – Physical and Biological Sciences, 86, 265–273.
Bates D, Machler M, Bolker B M, Walker S C. 2015. Fitting linear mixed-effects models using lme4. Journal of Statistical Software, 67, 1–48.
Bradbury P J, Zhang Z, Kroon D E, Casstevens T M, Ramdoss Y, Buckler E S. 2016. TASSEL: Software for association mapping of complex traits in diverse samples. Bioinformatics, 23, 2633–2635.
Choi D, Kim J H, Kende H. 2004. Whole genome analysis of the OsGRF gene family encoding plant-specific putative transcription activators in rice (Oryza sativa L.). Plant and Cell Physiology, 45, 897–904.
Deng M, Li D Q, Luo J Y, Xiao Y J, Liu H J, Pan Q C, Zhang X H, Jin M L, Zhao M C, Yan J B. 2017. The genetic architecture of amino acids dissection by association and linkage analysis in maize. Plant Biotechnology Journal, 15, 1250–1263.
Dungan G, Erickson L, Gault H. 1950. Response of corn to extremely deep planting. Agronomy Journal, 42, 256–257.
Fahad S, Bajwa A A, Nazir U, Anjum S A, Farooq A, Zohaib A, Sadia S, Nasim W, Adkins S, Saud S, Ihsan M Z, Alharby H, Wu C, Wang D P, Huang J L. 2017. Crop production under drought and heat stress: Plant responses and management options. Frontiers in Plant Science, 8, 1147.
Fu J J, Cheng Y B, Linghu J J, Yang X H, Kang L, Zhang Z X, Zhang J, He C, Du X M, Peng Z Y, Wang B, Zhai L H, Dai C M, Xu J B, Wang W D, Li X R, Zheng J, Chen L, Luo L H, Liu J J, et al. 2013. RNA sequencing reveals the complex regulatory network in the maize kernel. Nature Communications, 4, 2832.
Han S, Miedaner T, Utz H F, Schipprack W, Schrag T A, Melchinger A E. 2018. Genomic prediction and GWAS of Gibberella ear rot resistance traits in dent and flint lines of a public maize breeding program. Euphytica, 214, 6.
Hao L Y, Liu X Y, Zhang X J, Sun B C, Liu C, Zhang D F, Tang H J, Li C H, Li Y X, Shi Y S. 2020. Genome-wide identification and comparative analysis of drought related genes in roots of two maize inbred lines with contrasting drought tolerance by RNA sequencing. Journal of Integrative Agriculture, 8, 449–464
Hoshikawa K. 1969. Underground organs of the seedlings and the systematics of Gramineae. Botanical Gazette, 130, 192–203.
Kameoka H, Kyozuka J. 2015. Downregulation of rice DWARF 14 LIKE suppress mesocotyl elongation via a strigolactone independent pathway in the dark. Journal of Genetics and Genomics, 42, 119–124.
Kim H B, Schaller H, Goh C H, Kwon M, Choe S, An C S, Durst F, Feldmann K A, Feyereisen R. 2005. Arabidopsis cyp51 mutant shows postembryonic seedling lethality associated with lack of membrane integrity. Plant Physiology, 138, 2033–2047.
Kovacs L, Damkjaer J, Kereiche S, Ilioaia C, Ruban A V, Boekema E J, Jansson S, Horton P. 2006. Lack of the light-harvesting complex CP24 affects the structure and function of the grana membranes of higher plant chloroplasts. Plant Cell, 18, 3106–3120.
Kuijt S J H, Greco R, Agalou A, Shao J X, ‘t Hoen C C J, Overnas E, Osnato M, Curiale S, Meynard D, van Gulik R, Maraschin S D, Atallah M, de Kam R J, Lamers G E M, Guiderdoni E, Rossini L, Meijer A H, Ouwerkerk P B F. 2014. Interaction between the GROWTH-REGULATING FACTOR and KNOTTED1-LIKE HOMEOBOX families of transcription factors. Plant Physiology, 164, 1952–1966.
Li H, Peng Z Y, Yang X H, Wang W D, Fu J J, Wang J H, Han Y J, Chai Y C, Guo T T, Yang N, Liu J, Warburton M L, Cheng Y B, Hao X M, Zhang P, Zhao J Y, Liu Y J, Wang G Y, Li J S, Yan J B. 2013. Genome-wide association study dissects the genetic architecture of oil biosynthesis in maize kernels. Nature Genetics, 45, 43–50.
Liu F, Xu W, Song Q, Tan L, Liu J, Zhu Z, Fu Y, Su Z, Sun C. 2013. Microarray-assisted fine-mapping of quantitative trait loci for cold tolerance in rice. Molecular Plant, 6, 757–767.
Liu H J, Zhang L, Wang J C, Li C S, Zeng X, Xie S P, Zhang Y Z, Liu S S, Hu S L, Wang J H, Lee M, Lubberstedt T, Zhao G W. 2017. Quantitative trait locus analysis for deep-sowing germination ability in the maize IBM Syn10 DH population. Frontiers in Plant Science, 8, 813.
Livak K J, Schmittgen T D. 2001. Analysis of relative gene expression data using real-time quantitative PCR and the 2–∆∆CT method. Methods, 25, 402–408.
Pérez P, de los Campos G. 2014. Genome-wide regression and prediction with the BGLR statistical package. Genetics, 198, 483–495.
Ren M M, Zhang H W, Wang J H, Wang G Y, Zheng J. 2020. Fine mapping of a major QTL qMES20–10 associated with deep-seeding tolerance in maize and analysis of differentially expressed genes. Acta Agronomica Sinica, 46, 1016–1024. (in Chinese)
Saika H, Okamoto M, Miyoshi K, Kushiro T, Shinoda S, Jikumaru Y, Fujimoto M, Arikawa T, Takahashi H, Ando M, Arimura S, Miyao A, Hirochika H, Kamiya Y, Tsutsumi N, Nambara E, Nakazono M. 2007. Ethylene promotes submergence-induced expression of OsABA8ox1, a gene that encodes ABA 8´-hydroxylase in rice. Plant and Cell Physiology, 48, 287–298.
Sawers R J, Linley P J, Farmer P R, Hanley N P, Costich D E, Terry M J, Brutnell T P. 2002. elongated mesocotyl1, a phytochrome-deficient mutant of maize. Plant Physiology, 130, 155–163.
Schillinger W F, Donaldson E, Allan R E, Jones S S. 1998. Winter wheat seedling emergence from deep sowing depths. Agronomy Journal, 90, 582–586.
Seymour D K, Chae E, Grimm D G, Pizarro C M, Habring-Muller A, Vasseur F, Rakitsch B, Borgwardt K M, Koenig D, Weigel D. 2016. Genetic architecture of nonadditive inheritance in Arabidopsis thaliana hybrids. Proceedings of the National Academy of Sciences of the United States of America, 113, E7317–E7326.
Shen X M, Zhao R, Liu L, Zhu C, Li M F, Du H W, Zhang Z X. 2019. Identification of a candidate gene underlying qKRN5b for kernel row number in Zea mays L. Theoretical and Applied Genetics, 132, 3439–3448.
Song X H, Tian L, Wang S X, Zhou J L, Zhang J, Chen Z, Wu L J, Ku L X, Chen Y H. 2019. Integrating transcriptomic and proteomic analyses of photoperiod-sensitive in near isogenic maize line under long-day conditions. Journal of Integrative Agriculture, 18, 1211–1221
Sun N, Wang J J, Gao Z X, Dong J, He H, Terzaghi W, Wei N, Deng X W, Chen H D. 2016. Arabidopsis SAURs are critical for differential light regulation of the development of various organs. Proceedings of the National Academy of Sciences of the United States of America, 113, 6071–6076.
Sun X H, Zhang Z G, Wu J X, Cui X A, Feng D, Wang K, Xu M, Zhou L, Han X, Gu X F, Lu T G. 2016. The Oryza sativa regulator HDR1 associates with the kinase OsK4 to control photoperiodic flowering. PLoS Genetics, 12, e1005927.
Thelander M, Olsson T, Ronne H. 2004. Snf1-related protein kinase 1 is needed for growth in a normal day–night light cycle. EMBO Journal, 23, 1900–1910.
Troyer A F. 1997. The location of genes governing long first internode of corn. Genetics, 145, 1149–1154.
Turner F, Chen C, Bollich C. 1982. Coleoptile and mesocotyl lengths in semidwarf rice seedlings. Crop Science, 22, 43–46.
Vanderhoef L N, Quail P H, Briggs W R. 1979. Red light-inhibited mesocotyl elongation in maize seedlings: II. Kinetic and spectral studies. Plant Physiology, 63, 1062–1067.
VanRaden P M. 2008. Efficient methods to compute genomic predictions. Journal of Dairy Science, 91, 4414–4423.
Wang X L, Wang H W, Liu S X, Ferjani A, Li J S, Yan J B, Yang X H, Qin F. 2016. Genetic variation in ZmVPP1 contributes to drought tolerance in maize seedlings. Nature Genetics, 48, 1233–1241.
Yan J B, Warburton M, Crouch J. 2011. Association mapping for enhancing maize (Zea mays L.) genetic improvement. Crop Science, 51, 433–449.
Yang N, Liu J, Gao Q, Gui S T, Chen L, Yang L F, Huang J, Deng T Q, Luo J Y, He L J, Wang Y B, Xu P W, Peng Y, Shi Z X, Lan L, Ma Z Y, Yang X, Zhang Q Q, Bai M Z, Li S, et al. 2019. Genome assembly of a tropical maize inbred line provides insights into structural variation and crop improvement. Nature Genetics, 51, 1052–1059.
Yang N, Lu Y L, Yang X H, Huang J, Zhou Y, Ali F, Wen W W, Liu J, Li J S, Yan J B. 2014. Genome wide association studies using a new nonparametric model reveal the genetic architecture of 17 agronomic traits in an enlarged maize association panel. PLoS Genetics, 10, e1004573.
Yang Q, Zhang D F, Xu M L. 2012. A sequential quantitative trait locus fine-mapping strategy using recombinant-derived progeny. Journal of Integrative Plant Biology, 54, 228–237.
Yang X, Gao S, Xu S, Zhang Z, Prasanna B M, Li L, Li J, Yan J. 2011. Characterization of a global germplasm collection and its potential utilization for analysis of complex quantitative traits in maize. Molecular Breeding, 28, 511–526.
Zhang H, Wang X, Pan Q, Li P, Liu Y, Lu X, Zhong W, Li M, Han L, Li J. 2019. QTG-seq accelerates QTL fine mapping through QTL partitioning and whole-genome sequencing of bulked segregant samples. Molecular Plant, 12, 426–437.
Zhang H W, Ma P, Zhao Z N, Zhao G W, Tian B H, Wang J H, Wang G Y. 2012. Mapping QTL controlling maize deep-seeding tolerance-related traits and confirmation of a major QTL for mesocotyl length. Theoretical and Applied Genetics, 124, 223–232.
Zhang Q, Li J J, Zhang W J, Yan S N, Wang R, Zhao J F, Li Y J, Qi Z G, Sun Z X, Zhu Z G. 2012. The putative auxin efflux carrier OsPIN3t is involved in the drought stress response and drought tolerance. Plant Journal, 72, 805–816.
Zhao G W, Wang J H. 2008. Effect of gibberellin and uniconazole on mesocotyl elongation of dark-grown maize under different seeding depths. Plant Production Science, 11, 423–429.
Zhao G W, Wang J H. 2010. Effect of auxin on mesocotyl elongation of dark-grown maize under different seeding depths. Russian Journal of Plant Physiology, 57, 79–86.
Zhao K, Tung C W, Eizenga G C, Wright M H, Ali M L, Price A H, Norton G J, Islam M R, Reynolds A, Mezey J, McClung A M, Bustamante C D, McCouch S R. 2011. Genome-wide association mapping reveals a rich genetic architecture of complex traits in Oryza sativa. Nature Communication, 2, 467.
Zhao Y, Zhao W P, Jiang C H, Wang X N, Xiong H Y, Todorovska E G, Yin Z G, Chen Y F, Wang X, Xie J Y, Pan Y H, Rashid M A R, Zhang H L, Li J J, Li Z C. 2018. Genetic architecture and candidate genes for deep-sowing tolerance in rice revealed by non-syn GWAS. Frontiers in Plant Science, 9, 332.
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