Abstract
Sorghum is one of the most important cereal crops; it is used to produce feed, sugar, and biofuel. To investigate genetic tradeoffs between grain and stem sugar production, we evaluated plant height, Brix (the percentage of soluble solids in stalk juice), 100-grain weight and flowering time over 3 years in a recombinant inbred line (RIL) population consisting of 189 individuals derived from a cross between the sweet sorghum cultivar ‘Rio’ and grain sorghum ‘BTx623’. We constructed a genetic linkage map (total length, 1418.71 cM; average distance between markers, 11.26 cM), which consisted of 118 simple sequence repeat (SSR) and 8 insertion-deletion (INDEL) markers. A total of 14 QTLs were detected on chromosomes 1, 3, 6, 7, and 9, which included 6 QTLs for plant height; 4 for Brix; and 2 QTLs for each 100-grain weight and flowering time. Eight QTLs were detected at least in 2 years. These results will be useful for future QTL fine mapping and gene mining for these traits, and useful for the improvement of sorghum through molecular marker-assisted selection.
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References
Bian YL, Yazaki SJ, Inoue M, Cai HW (2006) QTLs for sugar content of stalk in sweet sorghum(Sorghum bicolor L. Moench). Agric Sci China 5(10):736–744
Boyles RE, Pfeiffer BK, Cooper EA, Zielinski KJ, Myers MT, Rooney WL, Kresovich S (2017) Quantitative trait loci mapping of agronomic and yield traits in two grain sorghum biparental families. Crop Sci 57:1–14
Brown PJ, Klein PE, Bortiri E, Acharya CB, Rooney WL, Kresovich S (2006) Inheritance of inflorescence architecture in sorghum. Theor Appl Genet 113:931–942
Brown PJ, Rooney WL, Franks C, Kresovich S (2008) Efficient mapping of plant height quantitative trait loci in a sorghum association population with introgressed dwarfing genes. Genetics 180(1):629–637
Cuevas HE, Zhou C, Tang H, Khadke PP, Das S, Lin YR, Ge ZX, Clemente T, Upadhyaya HD, Hash CT, Paterson AH (2016) The evolution of photoperiod-insensitive flowering in sorghum, A genomic model for panicoid grasses. Mol Biol Evol 33(9):2417–2428
Doggett H (1988) Sorghum. Scientific and Technical, New York
Fan CC, Xing YZ, Mao HL et al (2006) GS3, a major QTL for grain length and weight and minor QTL for grain width and thickness in rice, encodes a putative transmembrane protein. Theor Appl Genet 112:1164–1171
Feltus FA, Hart GE, Schertz KF, Casa AM, Kresovich S, Abraham S, Klein PE, Brown PJ, Paterson AH (2006) Alignment of genetic maps and QTLs between inter- and intra-specific sorghum populations. Theor Appl Genet 112:1295–1305
Guan YA, Wang HL, Qin L, Zhang HW, Yang YB, Gao FJ, Li RY, Wang HG (2011) QTL mapping of bio-energy related traits in Sorghum. Euphytica 182:431–440
Han LJ, Chen J, Mace ES, Liu YS, Zhu MJ, Yuyama M, Jordan DR, Cai HW (2015) Fine mapping of qGW1, a major QTL for grain weight in sorghum. Theor Appl Genet 128:1813–1825
Hilley J, Truong S, Olson S, Morishige D, Mullet J (2016) Identification of Dw1, a regulator of sorghum sem internode length. PLoS ONE 11(3):e0151271. https://doi.org/10.1371/joumal.pone.0151271
Hilley J, Weers B, Truong S, McCormick R, Mattison A, Mckinley B, Morishige D, Mullet J (2017) Sorghum Dw2 encodes a protein kinase regulator of stem internode length. Scientific Reports 7: 4616. https://doi.org/10.1038/s41598-017-04609-5
Hirsch S, Oldroyd GED (2009) GRAS-domain transcription factors that regulate plant development. Plant Signal Behav 4(8):698–700
Klein RR, Mullet JE, Jordan DR, Miller FR, Rooney WL, Menz MA, Franks CD, Klein PE (2008) The effect of tropical sorghum conversion and inbred development on genome diversity as revealed by high resolution genotyping. Crop Sci 48(2):S12–S26
Li ML, Yuyama N, Luo L, Hirata M, Cai HW (2009) In silico mapping of 1758 new SSR markers developed from public genomic sequences for sorghum. Mol Breed 24:41–47
Li YB, Fan CC, Xing YZ, Jiang YH, Luo LJ, Sun L, Shao D, Xu CJ, Li XH, Xiao JH, He YQ, Zhang QF (2011) Natural variation in GS5 plays an important role in regulating grain size and yield in rice. Nat Genet 43(12):1266–1269
Li X, Li XR, Fridman E, Tesso TT, Yu JM (2015) Dissecting repulsion linkage in the dwarfing gene Dw3 region for sorghum plant height provides insights into heterosis. Proc Natl Acad Sci USA 112(38):11823–11828
Lu QS (1999) Sorghum. China Agricultural Press, Beijing, pp 214–216
Lu F, Zou JQ, Duan YH, Lv XL (2015) Mapping QTLs conferring stalk sugar content traits in sweet sorghum. Mol Plant Breed 13(5):1098–1104
Mace ES, Jordan DR (2010) Location of major effect genes in sorghum (Sorghum bicolor (L.) Moench). Theor Appl Genet 121:1339–1356
Mace ES, Jordan DR (2011) Integrating sorghum whole genome sequence information with a compendium of sorghum QTL studies reveals uneven distribution of QTL and of gene-rich regions with significant implications for crop improvement. Theor Appl Genet 123:169–191
Mace ES, Hunt CH, Jordan DR (2013a) Supermodels: sorghum and maize provide mutual insight into the genetics of flowering time. Theor Appl Genet 126(5):1377–1395
Mace ES, Tai S, Gilding EK, Li YH, Prentis PJ, Bian L, Campbell BC, Hu W, Lnnes DJ, Han XL, Cruickshank A, Dai C, Frere C, Zhang HK, Hunt CH, Wang XY, Shatte T, Wang M, Su Z, Li J, Lin XZ, Godwin LD, Jordan DR, Wang J (2013b) Whole-genome sequencing reveals untapped genetic potential in Africa’s indigenous cereal crop sorghum. Nat Comms 4:2320
Menz MA, Klein RR, Mullet JE, Obert JA, Unruh NC, Klein PE (2002) A high-density genetic map of Sorghum bicolor(L.) Moench based on 2926 AFLP, RFLP and SSR markers. Plant Mol Biol 48:483–499
Morris GP, Ramu P, Deshpande SP, Hash CT, Shah T, Upadhyaya HD, Oscar Riera-Lizarazu, Brown PJ, Acharya CB, Mitchell SE, Harriman J, Glaubitz JC, Buckler ES, Kresovich S (2013) Population genomic and genome-wide association studies of agroclimatic traits in sorghum. Proc Natl Acad Sci USA 110(2):453–458
Multani DS, Briggs SP, Chamberlin MA, Blakeslee JJ, Murphy AS, Johal GS (2003) Loss of an MDR transporter in compact stalks of maize br2 and sorghum dw3 mutants. Science 302(5642):81–84
Murphy RL, Klein RR, Morishige DT, Brady JA, Rooney WL, Miller FR, Dugas DV, Klein PE, Mullet JE (2011) Coincident light and clock regulation of pseudo response regulator protein 37 (PRR37) controls photoperiodic flowering in sorghum. Proc Natl Acad Sci USA 108(39):16469–16474
Murray MG, Thompson WF (1980) Rapid isolation of high molecular weight plant DNA. Nucl Acid Res 8(19):4321–4325
Murray SC, Sharma A, Roone WL, Kleinb PE, Mulletb JE, Mitchella SE, Kresovich S (2008) Genetic improvement of sorghum as a biofuel feedstock: I. QTL for stem sugar and grain nonstructural carbohydrates. Crop Sci 48(6):2165–2179
Murray SC, Rooney WL, Hamblin MT, Mitchell SE, Kresovich S (2009) Sweet sorghum genetic diversity and association mapping for brix and height. Plant Genome 2(1):48–62
Paterson AH, Lin YR, Li Z, Schertz KF, Doebley JF, Pinson SRM, Liu SC, Stansel JW, Irvine JE (1995) Convergent domestication of cereal crops by independent mutations at corresponding genetic loci. Science 269:1714–1717
Paterson AH, Bowers JE, Bruggmann R, Dubchak I, GrimwoodJ Gundlach H, Haberer G, Hellsten U, Mitros T, Poliakov A, Schmutz J, Spannagl M, Tang H, Wang X, Wicker T, Bharti AK, Chapman J, Feltus FA, Gowik U, Grigoriev IV, Lyons E, Maher CA, Martis M, NarechaniaA Otillar RP, Penning BW, Salamov AA, Wang Y, Zhang L, Carpita NC, Freeling M, Gingle AR, Hash CT, Keller B, Klein P, Kresovich S, McCann MC, Ming R, Peterson DG, Mehboob-ur-Rahman WareD, WesthoffP Mayer KFX, Messing J, Rokhsar DS (2009) The Sorghum bicolor genome and the diversification of grasses. Nature 457:551–556
Pereira MG, Ahnert D, Lee M, Klier K (1995) Genetic mapping of quantitative trait loci for panicle characteristics and seed weight in sorghum. Braz J Genet 18:249–257
Quinby JR (1967) The maturity genes of sorghum. In: Norman AG (ed) Advances in Agronomy, vol 21. Academic Press, NewYork, pp 267–305
Quinby JR, Karper PE (1954) Inheritance of height in sorghum. In abstracts of the annual meetings of the American society of agronomy, Dallas, Texas 98-99
Rajkumar FB, Kavil SP, Girma Y, Arun SS, Dadakhalandar D, Gurusiddesh BH, Patil AM (2013) Molecular mapping of genomic regions harbouring QTLs for root and yield traits in sorghum (Sorghum bicolor L. Moench). Physiol Mol Biol Plants 19:409–419
Rami JF, Dufour P, Trouche G, Fliedel G, Mestres C, Davrieux F, Blanchard P, Hamon P (1998) Quantitative trait loci for grain quality, productivity, morphological and agronomical traits in sorghum (Sorghum bicolor L. Moench). Theor Appl Genet 97:605–616
Rao SS, Patil JV, Umakanth AV, Mishra JS, Ratnavathi CV, Shyam Prasad G, Dayakar Rao B (2013) Comparative performance of sweet sorghum hybrids and open pollinated varieties for millable stalk yield, biomass, sugar quality traits, grain yield and bioethanol production in tropical Indian condition. Sugar Tech 15(3):250–257
Reddy RN, Madhusudhana R, Mohan SM, Chakravarthi DVN, Seetharama N (2012) Characterization, development and mapping of unigene derived microsatellite markers in sorghum (Sorghum bicolor (L) Moench). Mol Breed 29:543–564
Ritter KB, Jordan DR, Chapman SC, Godwin LD, Mace ES, Mclntyre CL (2008) Identification of QTL for sugar-related traits in a sweet×grain sorghum (Sorghum bicolor L. Moench) recombinant inbred population. Mol Breed 22(3):367–384
Rooney WL, Aydin S (1999) Genetic control of a photoperiod sensitive response in Sorghum bicolor (L.) Moench. Crop Sci 39(2):397–400
Shehzad T, Okuno K (2015) QTL mapping for yield and yield-contributing traits in sorghum (Sorghum bicolor (L.) Moench) with genome-based SSR markers. Euphytica 203:17–31
Shiringani AL, Frisch M, Friedt W (2010) Genetic mapping of QTLs for sugar-related traits in a RIL population of Sorghum bicolor L. Moench. Theor Appl Genet 121(2):323–336
Song XJ, Huang W, Shi M, Zhu MZ, Lin HX (2007) A QTL for rice grain width and weight encodes a previously unknown RING-type E3 ubiquitin ligase. Nat Genet 39(5):623–630
Spielmeyer W, Ellis MH, Chandler PM (2002) Semidwarf (sd-1), “green revolution” rice, contains a defective gibberellin 20-oxidase gene. Proc Natl Acad Sci USA 99(13):9043–9048
Srinivas G, Satish K, Madhusudhana R, Reddy RN, Mohan SM, Seetharama N (2009) Identification of quantitative trait loci for agronomically important traits and their association with genic-microsatellite markers in sorghum. Theor Appl Genet 118:1439–1454
Sun ZQ, Li HH, Zhang LY, Wang JK (2013) Properties of the test statistic under null hypothesis and the calculation of LOD threshold in quantitative trait loci (QTL) mapping. Acta Agronomica Sinica 39(1):1–11
Tao YF, Mace ES, Tai S, Cruickshank A, Campbell BC, Zhao XR, Oosterom EJV, Godwin ID, Botella JR, Jordan DR (2017) Whole-genome analysis of candidate genes associated with seed size and weight in sorghum bicolor reveals signatures of artificial selection and insights into parallel domestication in cereal crops. Front Plant Sci 8:1237
Upadhyaya HD, Wang YH, Gowda CLL, Sharma S (2013) Association mapping of maturity and plant height using SNP markers with the sorghum mini core collection. Theor Appl Genet 126(8):2003–2015
Weng JF, Gu SH, Wan XY, Gao H, Guo T, Su N, Lei CL, Zhang X, Cheng ZJ, Guo XP, Wang JL, Jiang L, Zhai HQ, Wan JM (2008) Isolation and initial characterization of GW5, a major QTL associated with rice grain width and weight. Cell Res 18(12):1199–1209
Yamaguchi M, Fujimoto H, Hirano K, Araki-Nakamura S, Ohmae-Shinohara K, Fujii A, Tsunashima M, Song XJ, Ito Y, Nagae R, Wu JZ, Mizuno H, Yonemaru JI, Matsumoto T, Kitano H, Matsuoka M, Kasuga S, Sazuka T (2016) Sorghum Dw1,an agronomically important gene for lodging resistance, encodes a novel protein involved in cell proliferation. Scientific Reports 6:28366. https://doi.org/10.1038/srep28366
Yin CB, Li HH, Li SS, Xu LD, Zhao ZQ, Wang JK (2015) Genetic dissection on rice grain shape by the two-dimensional image analysis in one japonica × indica population consisting of recombinant inbred lines. Theor Appl Genet. https://doi.org/10.1007/s00122-015-2560-7
Yonemaru J, Ando T, Mizubayashi T, Kasuga S, Matsumoto T, Yano M (2009) Development of genome wide simple sequence repeat markers using whole genome shotgun sequences of sorghum (Sorghum bicolor (L.) Moench). DNA Res 16:187–193
Zhang XJ, Wang JF, Huang J, Lan HX, Wang CL, Yin CF, Wu YY, Tang HJ, Qian Q, Li JY, Zhang HS (2012) Rare allele of OsPPKL1 associated with grain length causes extra-large grain and a significant yield increase in rice. Proc Natl Acad Sci USA 109(52):21534–21539
Zhang D, Li J, Compton RO, Robertson J, Goff VH, Epps E, Kong W, Kim C, Paterson AH (2015) Comparative genetics of seed size traits in divergent cereal lineages represented by sorghum (Panicoidae) and rice (Oryzoidae). G3: https://doi.org/10.1534/g3.115.017590
Zhou YF, Huang RD, Xu WJ, Yang DL, Shen W, Liu F (2005) Birx and the correlations between individual internodes and the whole stem of sweet sorghum. J Shenyang Agric Univ 36(2):139–142
Zou G, Zhai GW, Feng Q, Yan S, Wang A, Zhao Q, Shao JF, Zhang ZP, Zou JQ, Han B, Tao YZ (2012) Identification of QTLs for eight agronomically important traits using an ultra-high-density map based on SNPs generated from high-throughput sequencing in sorghum under contrasting photoperiods. J Exp Bot 63(15):5451–5462
Acknowledgements
This work was financially supported by the National Natural Science Foundation of China (31601627, 31301842), National sorghum research system (CARS-06-01-06), Liaoning important technology developing program, China (2011208001), Natural Science Foundation of Liaoning Province (2014027018, 2015020788), Cultivation Plan for Youth Agricultural Science and Technology Innovative Talents of Liaoning Province (2014043).
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Bai, C., Wang, C., Wang, P. et al. QTL mapping of agronomically important traits in sorghum (Sorghum bicolor L.). Euphytica 213, 285 (2017). https://doi.org/10.1007/s10681-017-2075-1
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DOI: https://doi.org/10.1007/s10681-017-2075-1