Abstract
Over recent years, quality has become an important commercial issue for durum wheat breeders. Modern breeding methods are most efficient for producing and supplying the best quality raw materials to the pasta industry. Here we assessed the effectiveness of molecular marker-assisted selection of quality traits in durum wheat. To this end, DNA and quality trait markers were jointly used to analyze quality-related traits in a durum wheat collection. A total of 132 durum wheat (Triticum turgidum ssp. durum) Mediterranean landraces, international lines, and Moroccan cultivars were analyzed for seven important qualityrelated traits including thousand-kernel weight (TKW), test weight (TW), gluten strength, yellow pigment (YP), and grain protein content (GPC). Additionally, 18 simple sequence repeat (SSR) markers previously reported to be associated with different quality traits were analyzed. Of these, 14 (78%) were polymorphic and four were monomorphic. There were between two and seven alleles per locus, with an average of four alleles per locus. The average phenotypic variation value (R2) ranged from 2.81 to 20.43%. Association analysis identified nine markers significantly associated with TKW, TW, and YP, followed by eight markers associated with GPC, six markers associated with yellow index b, four markers associated with brightness L, and three markers associated with SDS-sedimentation volume. This study highlights the efficiency of SSR technology, which holds promise for a wide range of applications in marker-assisted wheat breeding programs.
Article PDF
Similar content being viewed by others
Avoid common mistakes on your manuscript.
References
AACC. 1984. Approved Methods 7th edition, St Paul, Minnesota. USA
Abouzied HM, Eldemery SMM, Abdellatif KF. 2013. SSRbased genetic diversity assessement in tetraploid and hexaploid wheat populations. Br. Biotechnol J. 3: 390–404
Arora A, Kundu S, Dilbaghi N, Sharma I, Tiwari R. 2014. Population structure and genetic diversity among Indian wheat varieties using microsatellite (SSR) markers. Amer. J. Crop Sci. 8: 1281–1289
Benbouza H, Jacquemin JM, Baudoin JP, Mergeai G. 2006. Optimization of a reliable, fast, cheap and sensitive silver staining method to detect SSR markers in polyacrylamide gels. Biotechnol. Agron. Soc. Environ. 10: 77–81
Blanco A, Colasuonno P, Gadaleta A, Mangini G, Schiavulli A, Simeone R, Digesù AM, De Vita P, Mastrangelo AM, Cattivelli L. 2011. Quantitative trait loci for yellow pigment concentration and individual carotenoid compounds in durum wheat. J. Cereal Sci. 54: 255–264
Blanco A, Pasqualone A, Troccoli A, Di Fonzo N, Simeone R. 2002. Detection of grain protein content QTLs across environments in tetraploid wheats. Plant Mol. Biol. 48: 615–623
Blanco A, Simeone R, Gadaleta A. 2006. Detection of QTLs for grain protein content in durum wheat. Theor. Appl. Genet. 112: 1195–1204
Caballero L, Martin LM, Alvarez JB. 2008. Relationships between the HMW-and LMW-glutenin subunits and SDS-sedimentation volume in Spanish hulled wheat lines. Czech J. Genet. Plant Breed. 44: 114–117
Dashchi S, Abdollahi Mandoulakani B, Darvishzade R, Bernousi I. 2012. Molecular similarity relationships among Iranian bread wheat cultivars and breeding lines using ISSR markers. Not. Bot. Horti. Agrobo. 40: 254–260
De Vienne D, Causse M. 1998. La cartographie et la caractérisation des locus contrôlant la variation des caractères quantitatifs. In D De Vienne, ed, Les marqueurs moléculaires en génétique et biotechnologie végétales, INRA, Ed. 2, Paris pp 89–118
Dexter JE, Matsuo RR. 1977. Influence of protein content on some durum wheat quality parameters. Can. J. Plant Sci. 57: 717–727
Distelfeld A, Uauy C, Fahima T, Dubcovsky J. 2006. Physical map of the wheat high-grain protein content gene Gpc-B1 and development of a high-throughput molecular marker. New Phytol. 169: 753–763
Duveiller E, Singh RP, Nicol JM. 2007. The challenges of maintaining wheat productivity: pests, diseases and potential epidemics. Euphytica 157: 417–430
Elouafi I. 2003. Quantitative Trait Loci (QTL) determination of grain quality traits in durum wheat (Triticum turgidum L. var. durum). Ph. D. thesis, Cordoba University, Cordoba
Elouafi I, Nachit NM, Martin LM. 2001. Identification of a microsatellite on chromosome 7B showing a strong linkage with yellow pigment in durum wheat (Triticum turgidum L. var. durum). Hereditas 135: 255–261
Eujayl I, Sorrells ME, Baum M, Wolters P, Powell W. 2002. Isolation of EST-derived microsatellite markers for genotyping the A and B genomes of wheat. Theor. Appl. Genet. 104: 399–407
Flint-Garcia SA, Thuillet AC, Yu J, Pressoir G, Romero SM, Mitchell SE, Doebley J, Kresovich S, Goodman MM, Buckler ES. 2005. Maize association population: a highresolution platform for quantitative trait locus dissection. Plant J. 44: 1054–1064
Goutam U, Kukreja S, Tiwari R, Chaudhury A, Gupta RK, Dholakia BB, Yadav R. 2013. Biotechnological approaches for grain quality improvement in wheat: Present status and future possibilities. Aust. J. Crop Sc. 7: 469–483
Gupta PK, Balyan HS, Edwards KJ, Isaac P, Korzun V, et al. 2002. Genetic mapping of 66 new microsatellite (SSR) loci in bread wheat. Theor. Appl. Genet. 105: 413–422
Gustafson JP, Maccaferri M, Stefanelli S, Rotondo F, Tuberosa R, Sanguineti MC. 2007. Relationships among durum wheat accessions. I. Comparative analysis of SSR, AFLP and phenotypic data. Genome 50: 373–384
Guyomarc’h H, Sourdille P, Charmet G, Edwards K, Bernard M. 2002. Characterization of polymorphic microsatellite markers from Aegilops tauschii and transferability to the D-genome of bread wheat. Theor. Appl. Genet. 104: 1164–1172
Haussmann BIG, Parzies HK, Presterl T, Sui Z and Miedaner T. 2004. Plant genetic resources in crop improvement. Plant Genetic Res. 2: 3–21
Howitt CA, Cavanagh CR, Bowerman AF, Cazzonelli C, Rampling L, Mimica JL, Pogson BJ. 2009. Alternative splicing, activation of cryptic exons and amino acid substitutions in carotenoid biosynthetic genes are associated with lutein accumulation in wheat endosperm. Funct. Integr. Genomics 9: 363–376
Howitt CA, Gale KR, Juhasz A. 2007. Diagnostic markers for quality. In Wringley C, Bekes F, Bushuk W, Gliadin and Glutenin: The unique balance of wheat quality, BUSHUK eds, AACC International, USA
Jing HC, Kornyukhin D, Kanyuka K, Orford S, Zlatska A, Mitrofanova OP, Koebner R, Hammond-Kosack K. 2007. Identification of variation in adaptively important traits and genome-wide analysis of trait-marker associations in Triticum monococcum. J. Exp. Bot. 58: 3749–3764
Kerfal S, Giraldo P, Rodriguez-Quijano M, Vazquez JF, Adams K, Lukow OM, Roder MS, Somers DJ, Carrillo JM. 2010. Mapping quantitative trait loci (QTLs) associated with dough quality in a soft x hard bread wheat progeny. J. Cereal Sci. 52: 46–52
Kuchel H, Langridge P, Mosionek L, Williams K, Jefferies SP. 2006. The genetic control of milling yield, dough rheology and baking quality of wheat. Theor. Appl. Genet. 112: 1487–1495
Lawlor DW. 2002. Carbon and nitrogen assimilation in relation to yield: mechanisms are the key to understanding production systems. J. Exp. Bot. 53: 773–787
Maccaferri M, Sanguineti MC, Donini P, Tuberosa R. 2003. Microsatellite analysis reveals a progressive widening of the genetic basis in the elite durum wheat germplasm. Theor. Appl. Genet. 107: 783–797
Maccaferri M, Sanguineti MC, Natoli E, Araus-Ortega JL, Ben Salem M, et al. 2006. A panel of elite accessions of durum wheat (Triticum durum Desf.) suitable for association mapping studies. Plant Genet. Res. 4: 79–85
Maccaferri M, Sanguineti MC, Mantovani P. Demontis A, Massi A, Ammar K. Kolmer JA, Czembor JH, Ezrati S, Tuberosa R. 2010. Association mapping of leaf rust response in durum wheat. Mol. Breed. 26: 189–228
Maccaferri M, Sanguineti MC, Garcia Del Moral L, Demontis A, El-Ahmed A, et al. 2011. Association mapping in durum wheat grown across a broad range of water regimes and yield potential. J. Exp. Bot. 62: 409–438
Mahjoub AA, Mguis K, Rouaissi M, Abdellaoui R, Brahim NB. 2012. RAPD analysis of genetic diversity in natural populations of Aegilops geniculata Roth and Triticum durum Desf from Tunisia. Agric. Biol. J. N. Am. 3: 466–475
Mares DJ, Campbell AW. 2001. Mapping components of flour and noodle colour in Australian wheat. Aust. J. Agr. Res. 52: 1297–1309
Martre P, Porter JR, Jamieson PD, Triboï E. 2003. Modeling grain nitrogen accumulation and protein composition to understand the sink/source regulations of nitrogen remobilization for wheat. Plant Physiol. 133: 1959–1967
Morgante M, Hanafey M, Powell W. 2002. Microsatellites are preferentially associated with non repetitive DNA in plant genomes. Nat Genet 30: 194–200
Morgante M, Olivieri AM, 1993. PCR-amplified microsatellites as markers in plant genetics. Plant J. 3: 175–82.
Olmos S, Distelfeld A, Chicaiza O, Schlatter AR, Fahima T, Echenique V, Dubcovsky J. 2003. Precise mapping of a locus affecting grain protein content in durum wheat. Theor. Appl. Genet. 107: 1243–1251
Parker GD, Chalmers KJ, Rathjen AJ, Langridge P. 1998. Mapping loci associated with flour color in wheat. Theor. Appl. Genet. 97: 238–245
Patil RM, Oak MD, Tamhankar SA, Sourdille P, Rao VS. 2008a. Mapping and validation of a major QTL for yellow pigment content on 7AL in durum wheat (Triticum turgidum L. ssp. durum). Mol. Breeding 21: 485–496
Patil RM, Oak MD, Tamhankar SA, Rao VS. 2008b). Mapping QTLs for quality characters in durum wheat (Triticum turgidum L. ssp. durum). Sydney University Press, pp 1–3
Peña RJ, Trethowan R, Pfeiffer WH, Van Ginkel M. 2002. Quality (end-use) improvement in wheat: Compositional, genetic, and environmental factors. J. Crop Prod. 5: 1–37
Ramya P., Chaubal A., Kulkarni K., Gupta L., Kadoo N., Dhaliwal H. S., Chhuneja P., Lagu M., Gupta V. 2010). QTL mapping of 1000-kernel weight, kernel length, and kernel width in bread wheat (Triticum aestivum L.) J Appl Genet 51: 421–429
Reimer SO. 2008. Association mapping of endosperm colour in durum wheat (Triticum turgidum L. var. durum). Ph. D. Thesis. University of Saskatchewan Saskatoon, Saskatchewan
Rharrabti Y, Villegas D, García del Moral LF, Aparicio N, Elhani S, Royo C. 2001. Environmental and genetic determination of protein content and grain yield in durum wheat under Mediterranean conditions. Plant Breeding 120: 381–388.
Röder MS, Korzun V, Wendehake K, Plaschke J, Tixier MH, Leroy P, Ganal MW. 1998. A microsatellite map of wheat. Genetics 149: 2007–2023
Roy JK, Bandopadhyay R, Rustgi S, Balyan HS, Gupta PK. 2006. Association analysis of agro-morphologically important traits using SSR, SAMPL and AFLP markers in bread wheat. Curr. Sci. India 90: 683–389
Santra M, Rao VS, Tamhankar SA. 2003. Modification of AACC procedure for measuring Carotene in early generation durum wheat. Cereal Chem. J. 80: 130–131
Sharp PJ, Johnston S, Brown G, Mcintosh RA, Pallotta M, et al. 2001. Validation of molecular markers for wheat breeding. Crop Pasture Sci. 52: 1357–1366
Singh R, Hucl P, Båga M, Chibbar RN. 2012. Validation of molecular markers for pre-harvest sprouting resistance in bread wheat. Cereal Res. Commun. 40: 194–203
Singh A., Reimer S., Pozniak C.J., Clarke F.R., Clarke J.M., Knox R.E., Singh A.K. 2009. Allelic variation at Psy1-A1 and association with yellow pigment in durum wheat grain. Theor. Appl. Genet. 118: 1539–1548.
Sourdille P, Cadalen T, Guyomarc’h H, Snape JW, Perretant MR, Charmet G, Boeuf C, Bernard S, Bernard M. 2003. An update of the Courtot Chinese Spring intervarietal molecular marker linkage map for the QTL detection of agronomic traits in wheat. Theor. Appl. Genet. 106: 530–538
Sun X, Du Z, Ren J, Amombo E, Hu T, Fu J. 2015. Association of SSR markers with functional traits from heat stress in diverse tall fescue accessions. BMC Plant Biology 15: 116
Taghouti M, Gaboun F, Nsarellah N, Rhrib R, El-Haila M, Kamar M, Abbad-Andaloussi F, Udupa SM. 2010. Genotype x Environment interaction for quality traits in durum wheat cultivars adapted to different environments. Afr. J. Biotechnol. 9: 3054–3062
Tang JC, Camberato JJ, Yu XQ, Luo N, Bian SM, Jiang YW. 2013. Growth response carbohydrate and ion accumulation of diverse perennial ryegrass accessions to increasing salinity. Sci. Hortic. 154: 73–81
Terracciano I, Maccaferri M, Bassi F, Mantovani P, Sanguineti MC. 2013. Development of COS-SNP and HRM markers for high throughput and reliable haplotypebased detection of Lr14a in durum wheat (Triticum durum Desf.). Theor. Appl. Genet. 126: 1077–1101
Wang L, Cui F, Wang J, Jun L, Ding A, Zhao C, Li X, Feng D, Gao J, Wang H. 2012. Conditional QTL mapping of protein content in wheat with respect to grain yield and its components. J. Genet. 91: 303–312
Winter P, Kahl G. 1995. Molecular marker technologies for plant improvement. World J. Microb. Biot. 11: 438–448
Yu X, Bai G, Luo N, Chen Z, Liu S, Liu J, Warnke SE, Liu J, Warnke SE, Jiang Y. 2011. Association of simple sequence repeat (SSR) markers with submergence tolerance in diverse populations of perennial ryegrass. Plant Sci. 180: 391–398
Zhang W, Chao S, Manthey F, Chicaiza O, Brevis JC, Echenique V, Dubcovsky J. 2008. QTL analysis of pasta quality using a composite microsatellite and SNP map of durum wheat. Theor. Appl. Genet. 117: 1361–1377
Zhang W, Dubcovsky J. 2008. Association between allelic variation at the Phytoene synthase gene and yellow pigment content in the wheat grain. Theor. Appl. Genet. 116: 635–645
Author information
Authors and Affiliations
Corresponding author
Rights and permissions
About this article
Cite this article
Amallah, L., Taghouti, M., Rhrib, K. et al. Validation of simple sequence repeats associated with quality traits in durum wheat. J. Crop Sci. Biotechnol. 19, 137–150 (2016). https://doi.org/10.1007/s12892-016-0096-2
Received:
Revised:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.1007/s12892-016-0096-2