Skip to main content
SpringerLink
Log in

Mapping quantitative trait loci for plant adaptation and morphology traits in wheat using single nucleotide polymorphisms

  • Published:
Euphytica Aims and scope Submit manuscript

Abstract

Wheat (Triticum aestivum L.) morphological and adaptation-related traits that are controlled by quantitative trait loci (QTLs) help define potential growing areas of a wheat cultivar. To dissect QTLs for heading date, lodging, shattering (SH), cold tolerance, plant height, spike length, spike compactness, awn length (AL) and chaff color (CC), a high-density genetic map with single nucleotide polymorphism and simple sequence repeat markers were developed using recombinant inbred lines (RILs) derived from ‘Ning7840’ × ‘Clark’. The RILs were evaluated in eight Oklahoma environments from 2001 to 2004. A total of 31 QTLs with additive effects on different traits were mapped on most wheat chromosomes except for 1D, 3A, 3D, 4D, 6D, and 7B. Six chromosome regions showed either tightly linked QTLs or QTLs with pleiotropic effects for two to three traits. Five QTL pairs showed additive × additive effects (AA). Ten additive QTLs were involved in additive × environment (AE) effects, and one epistatic QTL was involved in AAE effects. Among nine traits evaluated only three (SH, AL, and CC) were controlled by single genes in this biparental population. Seven traits were conditioned by multiple QTLs. A total of 127 markers were tightly linked to the QTLs. The findings shed light on the inheritance of wheat morphological and adaptation-related traits and provide DNA markers for manipulating these important traits to improve wheat production.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Fig. 1

Similar content being viewed by others

References

  • Båga M, Chodaparambil SV, Limin AE, Pecar M, Fowler DB, Chibbar RN (2007) Identification of quantitative trait loci and associated candidate genes for low-temperature tolerance in cold-hardy winter wheat. Funct Integr Genomics 7:53–68

    Article  PubMed  Google Scholar 

  • Bai GH, Kolb FL, Shaner G, Domier LL (1999) Amplified fragment length polymorphism markers linked to a major quantitative trait locus controlling scab resistance in wheat. Phytopathology 89:343–348

    Article  CAS  PubMed  Google Scholar 

  • Berry PM, Berry ST (2015) Understanding the genetic control of lodging associated plant characters in winter wheat (Triticum aestivum L.). Euphytica 205:671–689

    Article  Google Scholar 

  • Campbell BT, Baenziger PS, Gill KS, Eskridge KM, Budak H, Erayman M, Dweikat I, Yen Y (2003) Identification of QTL and environmental interactions associated with agronomic traits on chromosome 3A of wheat. Crop Sci 43:1493–1505

    Article  CAS  Google Scholar 

  • Cavanagh C, Chao S, Wang S, Huang BE, Stephen S, Kiani S, Forrest K, Saintenac C, Brown-Guedira B, Akhunova A, See D, Bai G, Pumphrey M, Tomar L, Wong D, Kong S, Reynolds M, da Silva ML, Bockelman H, Talbert L, Anderson JA, Dreisigacker S, Baenziger S, Carter A, Korzun V, Morrell PL, Dubcovsky J, Morell M, Sorrells M, Hayden M, Akhunov E (2013) Genome-wide comparative diversity uncovers multiple targets of selection for improvement in hexaploid wheat landraces and cultivars. Proc Natl Acad Sci USA 110:8507–8602

    Article  Google Scholar 

  • Cui F, Li J, Ding AM, Zhao CH, Wang L, Wang XQ, Li SS, Bao YG, Li XF, Feng DS, Kong LR, Wang HG (2011) Conditional QTL mapping for plant height with respect to the length of the spike and internode in two mapping populations of wheat. Theor Appl Genet 122:1517–1536

    Article  PubMed  Google Scholar 

  • Cui F, Ding AM, Li J, Zhao CH, Wang L, Wang XQ, Qi XL, Li XF, Li GY, Gao JR, Wang HG (2012) QTL detection of seven spike-related traits and their genetic correlations in wheat using two related RIL populations. Euphytica 186:177–192

    Article  Google Scholar 

  • Deschamps S, Campbell M (2010) Utilization of next-generation sequencing platforms in plant genomics and genetic variant discovery. Mol Breed 25:553–570

    Article  CAS  Google Scholar 

  • Heidari B, Sayed-Tabatabaei BE, Saeidi G, Kearsey M, Suenaga K (2011) Mapping QTL for grain yield, yield components, and spike features in a doubled haploid population of bread wheat. Genome 54:517–527

    Article  PubMed  Google Scholar 

  • Jannink J, Lorenz AJ (2010) Genomic selection in plant breeding: from theory to practice. Brief Funct Genomics 9:166–177

    Article  CAS  PubMed  Google Scholar 

  • Keller M, Karutz C, Schmid JE, Stamp P, Winzeler M, Keller B, Messmer MM (1999) Quantitative trait loci for lodging resistance in a segregating wheat × spelt population. Theor Appl Genet 98:1171–1182

    Article  CAS  Google Scholar 

  • Kosuge K, Watanabe N, Kuboyama T, Melnik VM, Yanchenko VI, Rosova MA, Goncharov NP (2008) Cytological and microsatellite mapping of mutant genes for spherical grain and compact spikes in durum wheat. Euphytica 159:289–296

    Article  CAS  Google Scholar 

  • Li CL, Bai GH, Brett F, Chao S, Wang ZH (2015) Single nucleotide polymorphism markers linked to QTL for wheat yield traits. Euphytica. doi:10.1007/s10681-015-1475-3

    Google Scholar 

  • Liu S, Rudd JC, Bai G, Haley SD, Ibrahim AMH, Xue Q, Hays DB, Graybosch RA, Devkota RN, Amand PS (2014) Molecular markers linked to important genes in hard winter wheat. Crop Sci 54:1304–1321

    Article  CAS  Google Scholar 

  • Ma W, Appels R, Bekes F, Larroque O, Morell MK, Gale KR (2005) Genetic characterization of dough rheological properties in a wheat doubled haploid population: additive genetic effects and epistatic interactions. Theor Appl Genet 111:410–422

    Article  CAS  PubMed  Google Scholar 

  • Mao SL, Wei YM, Cao WG, Lan XJ, Yu M, Chen ZM, Chen GY, Zheng YL (2010) Confirmation of the relationship between plant height and Fusarium head blight resistance in wheat (Triticum aestivum L.) by QTL meta-analysis. Euphytica 174:343–356

    Article  Google Scholar 

  • Marza F, Bai GH, Carver BF, Zhou WC (2006) Quantitative trait loci for yield and related traits in the wheat population ‘Ning7840’ × ‘Clark’. Theor Appl Genet 112:688–698

    Article  CAS  PubMed  Google Scholar 

  • Ohm HW, Shaner G, Foster JE, Patterson FL, Buechley G (1988) Registration of ‘Clark’ wheat. Crop Sci 28:1031–1032

    Article  Google Scholar 

  • Patil RM, Tamhankar SA, Oak MD, Rant AL, Honrao BK, Rao VS, Misra SC (2013) Mapping of QTL for agronomic traits and kernel characters in durum wheat (Triticum durum Desf.). Euphytica 190:117–129

    Article  Google Scholar 

  • Peleg Z, Saranga Y, Fahima T, Aharoni A, Elbaum R (2010) Genetic control over silica deposition in wheat awns. Physiol Plant 140:10–20

    Article  CAS  PubMed  Google Scholar 

  • Porter KB (1959) The inheritance of shattering in wheat. Agron J 51:173–177

    Article  Google Scholar 

  • Rebetzke GJ, Ellis MH, Bonnett DG, Richards RA (2007) Molecular mapping of genes for coleoptile growth in bread wheat (Triticum aestivum L.). Theor Appl Genet 114:1173–1183

    Article  CAS  PubMed  Google Scholar 

  • Reif JC, Maurer HP, Korzun V, Ebmeyer E, Miedaner T, Wurschum T (2011) Mapping QTL with main and epistatic effects underlying grain yield and heading time in soft winter wheat. Theor Appl Genet 123:283–292

    Article  PubMed  Google Scholar 

  • Somers DJ, Isaac P, Edwards K (2004) A high-density microsatellite consensus map for bread wheat (Triticum aestivum L.). Theor Appl Genet 109:1105–1114

    Article  CAS  PubMed  Google Scholar 

  • Sourdille P, Cadalen T, Gay G, Gill B, Bernard M (2002) Molecular and physical mapping of genes affecting awning in wheat. Plant Breed 121:320–324

    Article  CAS  Google Scholar 

  • Torada A, Koike M, Mochida K, Ogihara Y (2006) SSR-based linkage map with new markers using an intraspecific population of common wheat. Theor Appl Genet 112:1042–1051

    Article  CAS  PubMed  Google Scholar 

  • Verma V, Worland AJ, Sayers EJ, Fish L, Caligari PDS, Snape JW (2005) Identification and characterization of quantitative trait loci related to lodging resistance and associated traits in bread wheat. Plant Breed 124:234–241

    Article  CAS  Google Scholar 

  • Wang RX, Hai L, Zhang XY, You GX, Yan CS, Xiao SH (2009) QTL mapping for grain filling rate and yield-related traits in RILs of the Chinese winter wheat population Heshangmai × Yu8679. Theor Appl Genet 118:313–325

    Article  CAS  PubMed  Google Scholar 

  • Wang J, Liao XZ, Li YL, Zhou RH, Yang XJ, Gao LF, Jia JZ (2010) Fine mapping a domestication-related QTL for spike-related traits in a synthetic wheat. Genome 53:798–804

    Article  CAS  PubMed  Google Scholar 

  • Wang JK, Li HH, Zhang LY, Meng L (2012) QTL IciMapping version 3.2. http://www.isbreeding.net

  • Yoshida T, Nishida H, Zhu J, Nitcher R, Distelfeld A, Akashi Y, Kato K, Dubcovsky J (2010) Vrn-D4 is a vernalization gene located on the centromeric region of chromosome 5D in hexaploid wheat. Theor Appl Genet 120:543–552

    Article  CAS  PubMed  Google Scholar 

  • Yu LX, Barbier H, Rouse MN, Singh S, Singh R, Bhavani S, Huerta-Espino J, Sorrells ME (2014) A consensus map for Ug99 stem rust resistance loci in wheat. Theor Appl Genet 127:1561–1581

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Zhang KP, Tian JC, Zhao L, Wang SS (2008) Mapping QTL with epistatic effects and QTL × environment interactions for plant height using a doubled haploid population in cultivated wheat. J Genet Genomics 35:119–127

    Article  CAS  PubMed  Google Scholar 

  • Zhang GR, Mergoum M, Kianian S, Meyer DW, Simsek S, Singh PK (2009) Genetic relationship and QTL association between kernel shattering and agronomic traits in wheat. Crop Sci 49:451–458

    Article  CAS  Google Scholar 

  • Zhang DD, Bai GH, Zhu CS, Yu JM, Carver BF (2010) Genetic diversity, population structure, and linkage disequilibrium in U.S. elite winter wheat. Plant Genome 3:117–127

    Article  CAS  Google Scholar 

  • Zheng BS, Gouis JL, Leflon M, Rong WY, Laperche A, Brancourt-Hulmel M (2010) Using probe genotypes to dissect QTL × environment interactions for grain yield components in winter wheat. Theor Appl Genet 121:1501–1517

    Article  PubMed  Google Scholar 

Download references

Acknowledgments

This is contribution number 15-390-J from the Kansas Agricultural Experiment Station. This project is partly funded by the National Research Initiative Competitive Grants CAP project 2011-68002-30029 from the USDA National Institute of Food and Agriculture; the Science and Technology Innovation Team Plan (2014KCT-25) from Shaanxi province, China. Mention of trade names or commercial products in this publication is solely for the purpose of providing specific information and does not imply recommendation or endorsement by the US Department of Agriculture. USDA is an equal opportunity provider and employer.

Author information

Authors and Affiliations

  1. State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, 712100, Shaanxi, China

    C. Li & Z. Wang

  2. USDA-ARS, Hard Winter Wheat Genetics Research Unit, Manhattan, KS, 66506, USA

    G. Bai

  3. Agronomy Department, Kansas State University, Manhattan, KS, 66506, USA

    C. Li & G. Bai

  4. Department of Plant and Soil Sciences, Oklahoma State University, Stillwater, OK, 74078, USA

    B. F. Carver

  5. USDA-ARS, Cereal Crops Research Unit, Fargo, ND, 58102, USA

    S. Chao

Authors
  1. C. Li
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. G. Bai
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. B. F. Carver
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. S. Chao
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. Z. Wang
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to G. Bai.

Ethics declarations

Conflicts of interest

The authors declare that they have no conflict of interest.

Rights and permissions

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Li, C., Bai, G., Carver, B.F. et al. Mapping quantitative trait loci for plant adaptation and morphology traits in wheat using single nucleotide polymorphisms. Euphytica 208, 299–312 (2016). https://doi.org/10.1007/s10681-015-1594-x

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s10681-015-1594-x

Keywords

Search

Navigation