Skip to main content
SpringerLink
Log in

Association mapping of late maturity α-amylase (LMA) activity in a collection of synthetic hexaploid wheat

  • Published:
Molecular Breeding Aims and scope Submit manuscript

Abstract

Late maturity α-amylase (LMA) is a genetic defect of wheat which results in the production of α-amylase, shown as substandard falling numbers, in the absence of preharvest rain and under cool temperatures during ripening. The present study is an attempt to use a whole-genome scan with DArT markers to identify chromosomal regions influencing LMA in synthetic hexaploid wheat (SHW). A high heritability estimate of 86.6% was calculated for LMA phenotype measured as optical density in a collection of 91 SHWs. Linkage disequilibrium extended up to 10 cM, and with controls for false positives, significant markers were detected at the chromosome 7B region previously linked to LMA in bread wheat, but not at the chromosome 3B region. Of potentially great interest is a region on chromosome 6B, which was identified as having a significant association with LMA phenotypes in the SHW accessions. Previous investigations suggested existence of an LMA gene on the long arm of 6B, but this is the first time it has been mapped to lie within the centromeric region of chromosome 6B, a region that harbours the Amy-1 genes and whose expression governs activity of the high pI α-amylase isoenzymes.

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
Fig. 2
Fig. 3
Fig. 4
Fig. 5
Fig. 6
Fig. 7

Similar content being viewed by others

References

  • Andreescu C, Avendano S, Brown SR, Hassen A, Lamont SJ, Dekkers JCM (2007) Linkage disequilibrium in related breeding lines of chickens. Genetics 177:2161–2169

    Article  CAS  PubMed  Google Scholar 

  • Barrett JC, Fry B, Maller J, Daly MJ (2005) Haploview: analysis and visualization of LD and haplotype maps. Bioinformatics 21:263–265

    Article  CAS  PubMed  Google Scholar 

  • Bradbury PJ, Zhang Z, Kroon DE, Casstevens TM, Ramdoss Y, Buckler ES (2007) TASSEL: soft ware for association mapping of complex traits in diverse samples. Bioinformatics 23:2633–2635

    Article  CAS  PubMed  Google Scholar 

  • Breseghello F, Sorrells ME (2006) Association mapping of kernel size and milling quality in wheat (Triticum aestivum L.) cultivars. Genetics 172:1165–1177

    Article  PubMed  Google Scholar 

  • Cane K, Spackman M, Eagles HA (2004) Puroindoline genes and their effects on grain quality traits in southern Australian wheat cultivars. Aust J Agric Res 55:89–95

    Article  CAS  Google Scholar 

  • Chao S, Zhang W, Dubcovsky J, Sorrells M (2007) Evaluation of genetic diversity and genome-wide linkage disequilibrium among US wheat (Triticum aestivum L.) germplasm representing different market classes. Crop Sci 47:1018–1030

    Article  CAS  Google Scholar 

  • Chen J, Lan P, Tarr A, Yan YM, Francki M, Appels R, Ma W (2007) Matrix-assisted laser desorption/ionization time-of-flight based wheat gliadin protein peaks are useful molecular markers for wheat genetic study. Rapid Commun Mass Spectrom 21:2913–2917

    Article  CAS  PubMed  Google Scholar 

  • Crossa J, Burgueno J, Dreisigacker S, Vargas M, Herrera-Foessel SA, Lillemo M, Singh RP, Trethowan R, Warburton M, Franco J, Reynolds M, Crouch JH, Ortiz R (2007) Association analysis of historical bread wheat germplasm using additive genetic covariance of relatives and population structure. Genetics 177:1889–1913

    Article  CAS  PubMed  Google Scholar 

  • Dreisigacker S, Arief V, DeLacy I, Davenport G, Manes Y, Reynolds M, Ravi S, Dieters M, Crossa J (2008) Patterns of linkage disequilibrium in multiple populations. In: Appels R, Eastwood R, Lagudah E, Langridge P, Mackay M, McIntyre L, Sharp P (eds) Proceedings of 11th international wheat genet symposium. Sydney University Press, Brisbane, pp 1–5. http://hdl.handle.net/2123/3326

  • Ellis MH, Spielmeyer W, Gale KR, Rebetzke GJ, Richards RA (2002) ‘‘Perfect’’ markers for Rht-B1b and Rht-D1b dwarfing genes in wheat. Theor Appl Genet 105:1038–1042

    Article  CAS  PubMed  Google Scholar 

  • Ersoz ES, Yu J, Buckler ES (2009) Applications of linkage disequilibrium and association mapping in maize. In: Kriz AL, Larkins BA (eds) Molecular genetic approaches to maize improvement, biotechnology in agriculture and forestry, vol 63. Springer, Berlin

    Chapter  Google Scholar 

  • Evanno G, Regnaut S, Goudet J (2005) Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study. Mol Ecol 14:2611–2620

    Article  CAS  PubMed  Google Scholar 

  • Farrell AD, Kettlewell PS (2008) The effect of temperature shock and grain morphology on alpha-amylase in developing wheat grain. Ann Bot 102:287–293

    Article  CAS  PubMed  Google Scholar 

  • Francki MG, Walker E, Crawford AC, Broughton S, Ohm HW, Barclay I, Wilson RE, McLean R (2009) Comparison of genetic and cytogenetic maps of hexaploid wheat (Triticum aestivum L.) using SSR and DArT markers. Mol Genet Genomics 281:181–191

    Article  CAS  PubMed  Google Scholar 

  • Gale MD (1975) High α-amylase—breeding and genetical aspects of the problem. Cereal Res Commun 4:231–243

    Google Scholar 

  • Gale MD, Flintham JE, Arthur ED (1983) Alpha-amylase production in the late stages of grain development: an early sprouting damage risk? In: Kruger EJ, LaBerge ED (eds) Third international symposium on preharvest sprouting in cereals. Westview Press, Boulder, pp 29–35

  • Gale MD, Scott PA, Law CN, Ainsworth CC, Hollins TW, Worland AJ (1984) An α-amylase gene from Aegilops ventricosa transferred to bread wheat together with a factor for eyespot resistance. Heredity 52:431–435

    Article  CAS  Google Scholar 

  • Hardy OJ, Vekemans X (2002) SPAGeDi: a versatile computer program to analyse spatial genetic structure at the individual or population levels. Mol Ecol Notes 2:618–620

    Article  Google Scholar 

  • Imtiaz M, Ogbonnaya FC, Oman J, van Ginkel M (2008) Characterization of quantitative trait loci controlling genetic variation for preharvest sprouting in synthetic backcross-derived wheat lines. Genetics 178:1725–1736

    Article  CAS  PubMed  Google Scholar 

  • Kunert A, Naz AA, Dedeck O, Pillen K, Leon J (2007) AB-QTL analysis in winter wheat: I. Synthetic hexaploid wheat (T. turgidum ssp. dicoccoides · T. tauschii) as a source of favourable alleles for milling and baking quality traits. Theor Appl Genet 115:683–695

    Article  CAS  PubMed  Google Scholar 

  • Liu RH, Meng JL (2003) MapDraw: a Microsoft Excel macro for drawing genetic linkage maps based on given genetic linkage data. Heraditas (Beijing) 25:317–321

    Google Scholar 

  • Maccaferri M, Sanguineti MC, Noli E, Tuberosa R (2005) Population structure and long-range linkage disequilibrium in a durum wheat elite collection. Mol Breed 15:271–289

    Article  CAS  Google Scholar 

  • Maccaferri M, Sanguineti MC, Natoli E, Araus-Ortega JL, Bensalem M et al (2006) A panel of elite accessions of durum wheat (Triticum durum Desf.) suitable for association mapping studies. Plant Genet Resour 4:79–85

    Article  CAS  Google Scholar 

  • Mares DJ, Gale MD (1990) Control of α-amylase synthesis in wheat grains. In: Ringlund K, Mosleth E, Mares EJ (eds) Proceedings of the 5th international symposium on pre-harvest sprouting in cereals. Westview Press, Boulder, Co., pp 183–194

  • Mares DJ, Mrva K (2008a) Genetic variation for quality traits in synthetic wheat germplasm. Aust J Agric Res 59:406–412

    Article  CAS  Google Scholar 

  • Mares DJ, Mrva K (2008b) Late-maturity a-amylase: low falling number in wheat in the absence of preharvest sprouting. J Cereal Sci 47:6–17

    Article  CAS  Google Scholar 

  • Masojc P, Milczarski P (2009) Relationship between QTLs for pre-harvest sprouting and alpha-amylase activity in rye grain. Mol Breed 23:75–84

    Article  CAS  Google Scholar 

  • Mrva K, Mares DJ (1996) Expression of late maturity α-amylase in wheat containing gibberellic acid insensitivity genes. Euphytica 88:68–76

    Google Scholar 

  • Mrva K, Mares DJ (1999) Regulation of high pI α-amylase synthesis in wheat aleurone by a gene (s) located on chromosome 6B. Euphytica 109:17–23

    Article  CAS  Google Scholar 

  • Mrva K, Mares DJ (2001) Quantitative trait locus analysis of late maturity a-amylase in wheat using the doubled haploid population Cranbrook × Halberd. Aust J Agric Res 52:1267–1273

    Article  CAS  Google Scholar 

  • Mrva K, Mares DJ (2002) Screening methods and identification of QTLs associated with late maturity α-amylase in wheat. Euphytica 126:55–59

    Article  CAS  Google Scholar 

  • Mrva K, Mares DJ, Cheong J (2008) Genetic mechanisms involved in late maturity α-amylase in wheat. In: Appels R, Eastwood R, Lagudah E, Langridge P, Mackay M, McIntyre L, and Sharp P (eds) The 11th international wheat genetics symposium proceedings. Sydney University Press, Sydney. http://hdl.handle.net/2123/3235

  • Mrva K, Cheong J, Yu B, Law HY, Mares D (2009) Late maturity a-amylase in synthetic hexaploid wheat. Euphytica 168:403–411

    Article  CAS  Google Scholar 

  • 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 = 6× = 42, AABBDD) and its potential utilization for wheat improvement. Genet Res Crop Evol 43:129–134

    Article  Google Scholar 

  • Myles S, Peiffer J, Brown PJ, Ersoz ES, Zhang Z, Costich DE, Buckler ES (2009) Association mapping: critical considerations shift from genotyping to experimental design. Plant Cell 21:2194–2202

    Article  CAS  PubMed  Google Scholar 

  • Ogbonnaya FC, Seah S, López-Brana I, Jahier J, Delibes A, Lagudah ES (2001) Molecular-genetic characterisation of a new nematode resistance gene in wheat. Theor Appl Genet 102:623–629

    Article  CAS  Google Scholar 

  • Pritchard JK, Stephens M, Donnelly P (2000) Inference of population structure using multilocus genotype data. Genetics 155:945–959

    CAS  PubMed  Google Scholar 

  • Saxena R, Voight BF et al (2007) Genome-wide association analysis identifies loci for type 2 diabetes and triglyceride levels. Science 316:1331–1336

    Article  CAS  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 

  • Van Berloo R (2008) Computer note: GGT 2.0: versatile software for visualization and analysis of genetic data. J Hered 99:232–236

    Article  PubMed  Google Scholar 

  • Waugh R, Jannink JL, Muller K, Ramsay L (2009) The emergence of whole genome association scans in barley. Curr Opin Plant Biol 12:1–5

    Article  Google Scholar 

Download references

Acknowledgments

This work was supported by grants from the Grains Research and Development Corporation (GRDC) and NSW Department of Primary Industries. The authors acknowledge contributions made by Francis Ogbonnaya to the CIMMYT-Australian Germplasm Evaluation (CAGE) suite of projects.

Author information

Authors and Affiliations

  1. EH Graham Centre for Agricultural Innovation, Pine Gully Road, Wagga Wagga, NSW, 2650, Australia

    L. C. Emebiri & J. R. Oliver

  2. School of Agriculture, Food & Wine, University of Adelaide, Waite Campus, Glen Osmond, SA, 5064, Australia

    K. Mrva & D. Mares

Authors
  1. L. C. Emebiri
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. J. R. Oliver
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. K. Mrva
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. D. Mares
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to L. C. Emebiri.

Electronic supplementary material

Below is the link to the electronic supplementary material.

Supplementary material 1 (DOC 407 kb)

Supplementary material 2 (XLS 30 kb)

Rights and permissions

Reprints and permissions

About this article

Cite this article

Emebiri, L.C., Oliver, J.R., Mrva, K. et al. Association mapping of late maturity α-amylase (LMA) activity in a collection of synthetic hexaploid wheat. Mol Breeding 26, 39–49 (2010). https://doi.org/10.1007/s11032-009-9375-7

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s11032-009-9375-7

Keywords

Search

Navigation