QTL mapping of seedling root traits in Synthetic W7984 × Opata M85 bread wheat (Triticum aestivum L.) mapping population

Root system architecture, as a complex trait, has gained attention due to climate change and abiotic stress pressure on crops. The incorporation of root traits in breeding objectives may enable new advances in climate-resilient crops. Here, the genetics of the seedling root system architecture in the Synthetic W7984 × Opata M85 Doubled Haploid mapping population was investigated. Three traits at the seedling stage and mature stage root and shoot biomass traits were mapped for quantitative trait loci (QTL) identification. A total of five different loci on chromosomes 1B, 5A, and 7D with major effects were identified for total root length, primary root length, and seminal root growth angle. Four regions on chromosomes 2A, 5A, and 7D had colocating loci for seedling and mature stage root traits. Chromosome 5A, with a locus affecting most of the seedling root traits, is promising. The correlations between seedling and mature root traits, and newly identified QTL for seedling root traits, maybe promising to unravel the genetic structure of root traits and for the marker-assisted selection.

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Appels R, Eversole K, Stein N, Feuillet C, Keller B et al. (2018). Shifting the limits in wheat research and breeding using a fully annotated reference genome. Science 361 (6403).
Bai C, Liang Y, Hawkesford MJ (2013). Identification of QTLs associated with seedling root traits and their correlation with plant height in wheat. Journal of Experimental Botany 64 (6): 1745-53.
Bektas H, Hohn CE, Waines JG (2020). Dissection of quantitative trait loci for root characters and day length sensitivity in SynOpDH wheat (Triticum aestivum L.) bi-parental mapping population. Plant Genetic Resources 18 (3): 130-42.
Botwright Acuña TB, Rebetzke GJ, He X, Maynol E, Wade LJ (2014). Mapping quantitative trait loci associated with root penetration ability of wheat in contrasting environments. Molecular Breeding 34 (2): 631-42.
Canè MA, Maccaferri M, Nazemi G, Salvi S, Francia R et al. (2014). Association mapping for root architectural traits in durum wheat seedlings as related to agronomic performance. Molecular Breeding 34 (4): 1629-45.
Castaneda-Alvarez NP, Khoury CK, Achicanoy HA, Bernau V, Dempewolf H et al. (2016) Global conservation priorities for crop wild relatives. Nature Plants 2:16022.
Christopher J, Christopher M, Jennings R, Jones S, Fletcher S et al. (2013). QTL for root angle and number in a population developed from bread wheats (Triticum aestivum) with contrasting adaptation to water-limited environments. Theoretical and Applied Genetics 126 (6): 1563-74.
de Souza Campos PM, Borie F, Cornejo P, Meier S, López-Ráez JA et al. (2021). Wheat root trait plasticity, nutrient acquisition and growth responses are dependent on specific arbuscular mycorrhizal fungus and plant genotype interactions. Journal of Plant Physiology 256: 153297.
Dubcovsky J, Dvorak J (2007). Genome plasticity a key factor in the success of polyploid wheat under domestication. Science 316: 1862-1866.
Ehdaie B, Layne AP, Waines JG (2012). Root system plasticity to drought influences grain yield in bread wheat. Euphytica 186 (1): 219-32.
Ehdaie BA, Mohammadi SA, Nouraein M (2016). QTLs for root traits at mid-tillering and for root and shoot traits at maturity in a RIL population of spring bread wheat grown under wellwatered conditions. Euphytica 211 (1): 17-38.
Food and Agriculture Organization of the United Nations (FAOSTAT) (2019). FAOSTAT statistical database. Rome, Italy.
Figueroa-Bustos V, Palta JA, Chen Y, Siddique KH (2019). Early season drought largely reduces grain yield in wheat cultivars with smaller root systems. Plants 8 (9): 305.
Gatto M, De Haan S, Laborte A, Bonierbale M, Labarta R et al. (2021) Trends in varietal diversity of main staple crops in Asia and Africa and implications for sustainable food systems. Frontiers in Sustainable Food Systems 5.
Godfray HC, Beddington JR, Crute IR, Haddad L, Lawrence D et al. (2010). Food security: the challenge of feeding 9 billion people. Science 327 (5967): 812-818.
Gregory PJ, Bengough AG, Grinev D, Schmidt S, Thomas WB et al. (2009). Root phenomics of crops: opportunities and challenges. Functional Plant Biology 36 (11): 922-929.
Hamada A, Nitta M, Nasuda S, Kato K, Fujita M et al. (2012). Novel QTLs for growth angle of seminal roots in wheat (Triticum aestivum L.). Plant and Soil 354 (1): 395-405.
Hawkesford MJ, Araus JL, Park R, Calderini D, Miralles D (2013). Prospects of doubling global wheat yields. Food and Energy Security 2 (1): 34-48.
Hohn CE, Bektas H (2020). Genetic mapping of quantitative trait loci (QTLs) associated with seminal root angle and number in three populations of bread wheat (Triticum aestivum L.) with common parents. Plant Molecular Biology Reporter 1: 1-4.
Jaradat AA (2012). Wheat Landraces: A mini review. Emirates Journal of Food and Agriculture 20-9.
Kabir MR, Liu G, Guan P, Wang F, Khan AA et al. (2015). Mapping QTLs associated with root traits using two different populations in wheat (Triticum aestivum L.). Euphytica 206 (1): 175-90.
Khalid M, Gul A, Amir R, Mohsin A, Afzal F et al. (2018). QTL mapping for seedling morphology under drought stress in wheat cross Synthetic (W7984)/Opata. Plant Genetic Resources 16 (4): 359-66.
Kihara H (1944). Discovery of the DD-Analyser, one of the ancestors of Triticum vulgare. Agriculture and Horticulture 19: 13-14.
Kuijken RC, van Eeuwijk FA, Marcelis LF, Bouwmeester HJ (2015). Root phenotyping: From component trait in the lab to breeding. Journal of Experimental Botany 66 (18): 5389-5401.
Landjeva S, Neumann K, Lohwasser U, Börner A (2008). Molecular mapping of genomic regions associated with wheat seedling growth under osmotic stress. Biologia Plantarum 52: 259-266.
Li P, Chen J, Wu P, Zhang J, Chu C et al. (2011). Quantitative trait loci analysis for the effect of Rht-B1 dwarfing gene on coleoptile length and seedling root length and number of bread wheat. Crop Science 51 (6): 2561-2568.
Liu X, Li R, Chang X, Jing R (2013). Mapping QTLs for seedling root traits in a doubled haploid wheat population under different water regimes. Euphytica 189 (1): 51-66.
Lynch JP (2013). Steep, cheap and deep: An ideotype to optimize water and N acquisition by maize root systems. Annals of Botany 112 (2): 347-357.
Manschadi AM, Hammer GL, Christopher JT, Devoil P (2007). Genotypic variation in seedling root architectural traits and implications for drought adaptation in wheat (Triticum aestivum L.). Plant and Soil 303 (1-2): 115-129.
Manschadi AM, Christopher J, deVoil P, Hammer GL (2006). The role of root architectural traits in adaptation of wheat to waterlimited environments. Functional Plant Biology 33 (9): 823-37.
Meng L, Li H, Zhang L, Wang J (2015). QTL ICImapping: Integrated software for genetic linkage map construction and quantitative trait locus mapping in biparental populations. The Crop Journal 3 (3): 269-283.
Mohammadi M, Kav NN, Deyholos MK (2007). Transcriptional profiling of hexaploid wheat (Triticum aestivum L.) roots identifies novel, dehydration-responsive genes. Plant, Cell & Environment 30 (5): 630-645.
Mori M, Oyanagi A, Haque E, Kawaguchi K (2020). Terminal regions of chromosome arms 6AL and 6BL carry QTL affecting seminal root angle in wheat (Triticum aestivum L.). Plant Root 14: 23-31.
Mujeeb-Kazi A, Rosas V, Roldan S (1996). Conservation of the genetic variation of Triticum tauschii (Coss.) Schmalh. (Aegilops squarrosa Auct. non L.) in synthetic hexaploid wheats (T. turgidum L. S. Lat. × T. tauschii; 2n=6x=42, AABBDD) and its potential utilization for wheat improvement. Genetic Resources and Crop Evolution 43 (2): 129-134.
Nicotra AB, Atkin OK, Bonser SP, Davidson AM, Finnegan EJ et al. (2010). Plant phenotypic plasticity in a changing climate. Trends in Plant Science 15: 684–692.
Oyanagi A (1994). Gravitropic response growth angle and vertical distribution of roots of wheat (Triticum aestivum L.). Plant and Soil 165 (2): 323-326.
Paez-Garcia A, Motes CM, Scheible WR, Chen R, Blancaflor EB et al. (2015). Root traits and phenotyping strategies for plant improvement. Plants 4 (2): 334-355.
Petrarulo M, Marone D, Ferragonio P, Cattivelli L, Rubiales D et al. (2015). Genetic analysis of root morphological traits in wheat. Molecular Genetics and Genomics 290: 785-806.
Pingali PL (2012). Green Revolution: impacts, limits, and the path ahead. Proceedings of the National Academy of Sciences of the United States of America 109 (31): 12302-8.
Poland JA, Brown PJ, Sorrells ME, Jannink JL (2012). Development of high-density genetic maps for barley and wheat using a novel two-enzyme genotyping-by-sequencing approach. PLoS ONE 7: e32253.
Ray DK, Mueller ND, West PC, Foley JA (2013) Yield trends are insufficient to double global crop production by 2050. PLoS One 8 (6): e66428.
Rebetzke GJ, Verbyla AP, Verbyla KL, Morell MK, Cavanagh CR (2014). Use of a large multiparent wheat mapping population in genomic dissection of coleoptile and seedling growth. Plant Biotechnology Journal 12: 219-230.
Salamini F, Özkan H, Brandolini A, Schäfer-Pregl R, Martin W (2002). Genetics and geography of wild cereal domestication in the Near East. Nature Reviews Genetics 3: 429-441.
Salvi S, Tuberosa R (2005). To clone or not to clone plant QTLs: Present and future challenges. Trends in Plant Science 10 (6): 297-304.
Salvi S, Porfiri O, Ceccarelli S (2013). Nazareno Strampelli, the ‘Prophet’of the green revolution. The Journal of Agricultural Science 151 (1): 1-5.
Sanguineti MC, Li S, Maccaferri M, Corneti S, Rotondo F, Chiari T et al. (2007). Genetic dissection of seminal root architecture in elite durum wheat germplasm. Annals of Applied Biology 151: 291-305.
Schneider CA, Rasband WS, Eliceiri KW (2012). NIH image to ImageJ: 25 years of image analysis. Nature Methods 9 (7): 671-675.
Sharma S, Bhat PR, Ehdaie B, Close TJ, Lukaszewski AJ et al. (2009). Integrated genetic map and genetic analysis of a region associated with root traits on the short arm of rye chromosome 1 in bread wheat. Theoretical and Applied Genetics 119: 783-793.
Sorrells ME, Gustafson JP, Somers D, Chao S, Benscher D et al. (2011). Reconstruction of the Synthetic W7984 × Opata M85 wheat reference population. Genome 54 (11): 875-882.
Steel RGD, Torrie JH, Dickey DA (1997). Principles and procedures of statistics: A biometrical approach. New York: McGraw-Hill.
Tuberosa R, Sanguineti MC, Landi P, Giuliani MM, Salvi S et al. (2002). Identification of QTLs for root characteristics in maize grown in hydroponics and analysis of their overlap with QTLs for grain yield in the field at two water regimes. Plant Molecular Biology 48: 697-712.
Uga Y, Sugimoto K, Ogawa S, Rane J, Ishitani M et al. (2013). Control of root system architecture by Deeper Rooting 1 increases rice yield under drought conditions. Nature Genetics 45: 1097- 1102.
Van de Wouw M, Kik C, Van Hintum T, Van Treuren R, Visser B (2010). Genetic erosion in crops: Concept, research results and challenges. Plant Genetic Resources 8(1): 1-15
Van Ooijen JW (2006). JoinMap® 4, Software for the calculation of genetic linkage maps in experimental populations. Kyazma BV, Wageningen 33, no. 10.1371
Waines JG, Ehdaie B (2007). Domestication and crop physiology: Roots of green-revolution wheat. Annals of Botany 100: 991- 998.
Wang S, Basten C, Zeng Z (2012). Windows QTL cartographer 2.5. Raleigh, Nc: Department of Statistics, North Carolina State University.
Zhang H, Cui F, Wang H (2013). Detection of Quantitative Trait Loci (QTLs) for seedling traits and drought tolerance in wheat using three related recombinant inbred line (RIL) populations. Euphytica 196: 313-330.
Zhang H, Cui FA, Wang LI, Li JU, Ding A et al. (2013). Conditional and unconditional QTL mapping of drought-tolerance-related traits of wheat seedling using two related RIL populations. Journal of Genetics 92: 213-231.
Zhu J, Kaeppler SM, Lynch JP (2005). Mapping of QTLs for lateral root branching and length in maize (Zea mays L.) under differential phosphorus supply. Theoretical and Applied Genetics 111: 688-695.
Zhu J, Mickelson SM, Kaeppler SM, Lynch JP (2006). Detection of Quantitative Trait Loci for seminal root traits in maize (Zea mays L.) seedlings grown under differential phosphorus levels. Theoretical and Applied Genetics 113: 1-10.