Skip to main content

Advertisement

SpringerLink
Log in

Genomic regions and underlying candidate genes associated with coleoptile length under deep sowing conditions in a wheat RIL population

  • Original Article
  • Published:
Journal of Plant Biochemistry and Biotechnology Aims and scope Submit manuscript

Abstract

Longer coleoptile is a desirable trait in wheat for sowing under drought stress environments with moisture availability in the deeper layers of the soil. In the present study, WL711/C306 wheat RIL population and the parents were phenotyped for coleoptile length under deep sowing conditions in the field and plant growth chamber. C306, a tall traditional cultivar had longer coleoptile compared to the semi dwarf parent WL711 carrying Rht-B1b gene. The RIL population showed considerable variation, normal distribution and transgressive segregation for coleoptile length under field and controlled environment conditions. The genetic linkage map of WL711/C306 RIL population was constructed comprising of 346 markers. The total map distance was 4,526.8 cM with an averaged interval of 12.9 cM between the adjacent markers. Major novel consistent QTLs for coleoptile length were identified on 4BS, co-located with the Rht-B1b gene and on 3BS. Also major QTL was identified on chromosome 3BL for coleoptile length explaining up to 12.4 % of phenotypic variation. On comparison with the rice (Oryza sativa L.) genomic DNA sequences syntenic to wheat chromosome 4BS and 3BS, two candidate genes were identified namely gibberellin C-20 oxidase 1 and α-Expansin. These genes play a role in cell wall expansion in the young expanding tissue in the coleoptile. QTLs qCL.4B.1 and qCL.3B.1 emerge to be important for coleoptile length in the WL711/C306 RIL population suggesting their potential value for use in marker assisted selection after validation for longer coleoptile length and improved establishment.

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

Similar content being viewed by others

Abbreviations

GA:

Gibberellin

CL:

coleoptile length

PHT:

plant height

QTL:

quantitative trait loci

References

  • Alexander LM, Kirigwi FM, Fritz AK, Fellers JP (2012) Mapping and quantitative trait loci analysis of drought tolerance in a spring wheat population using amplified fragment length polymorphism and diversity array technology markers. Crop Sci 52:254–261

    Article  Google Scholar 

  • Allan RE, Vogel OA, Peterson CJ (1961) Seedling emergence rate of fall sown wheat and its association with plant height and coleoptile length. Agron J 54:347–350

    Article  Google Scholar 

  • Bogard M, Jourdan M, Allard V, Martre P, Perretant MR, Ravel C, Heumez E, Orford S, Snape J, Griffiths S, Gaju O, Foulkes J, Le Gouis J (2011) Anthesis date mainly explained correlations between post-anthesis leaf senescence, grain yield, and grain protein concentration in a winter wheat population segregating for flowering time QTL. J Exp Bot 61:3621–3636. doi:10.1093/jxb/err061

    Article  Google Scholar 

  • Chowdry AR, Allan RE (1963) Inheritance of coleoptile length and seedling height and their relation to plant height of four winter wheat crosses. Crop Sci 3:53–58

    Article  Google Scholar 

  • Dalal M, Vijaya Lakshmi KVS, Khanna-Chopra R, Bharti S (1999) Ear culture as technique to overcome hybrid necrosis in wheat. Plant Cell Tissue Org Cult 59:151–154

    Article  Google Scholar 

  • Darvasi A, Weinreb A, Minke V, Weller JI, Soller M (1993) Detecting marker-QTL linkage and estimating QTL gene effect and map location using a saturated genetic map. Genetics 134:943–951

    CAS  PubMed Central  PubMed  Google Scholar 

  • Ellis M, Spielmeyer W, Gale K, Rebetzke G, Richards R (2002) Perfect markers for the Rht-B1b and Rht-D1b dwarfing genes in wheat. Theor Appl Genet 105:1038–1042

    Article  CAS  PubMed  Google Scholar 

  • Ellis M, Rebetzke G, Chandler P, Bonnett D (2004) The effect of different height reducing genes on the early growth of wheat. Funct Plant Biol 31:583–589

    Article  CAS  Google Scholar 

  • Feather JT, Qualset CO, Vogt HE (1968) Planting depth critical for short statured wheat varieties. Calif Agric 22:12–14

    Google Scholar 

  • Fick G, Qualset C (1976) Seedling emergence, coleoptile length and plant height relationships in crosses of dwarf and standard-height wheats. Euphytica 25:679–684

    Article  Google Scholar 

  • Kadam S, Singh K, Shukla S, Goel S, Vikram P, Pawar V, Gaikwad K, Khanna-Chopra R, Singh NK (2012) Genomic association for drought tolerance on the short arm of wheat chromosome 4B. Funct Integr genomics 12:447–464

    Article  CAS  PubMed  Google Scholar 

  • Khanna-Chopra R, Rao PSS, Maheswari M, Liu X, Shivshankar KS (1994) Effect of water deficit on accumulation of dry matter, carbon and nitrogen in the kernel of wheat genotypes differing in yield stability. Ann Bot 74:503–511

    Article  Google Scholar 

  • Kosambi DD (1944) The estimation of map distances from recombination values. Ann Eugenics 12:172–175

    Article  Google Scholar 

  • Lee Y, Kende H (2002) Expression of α-expansin and expansin-like genes in deepwater rice. Plant Physiol 130:1396–1405

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Lincoln P, Mitchell J, Scedrov A, Shankar N (1992) Decision problems for propositional linear logic. Ann Pure Appl Logic 56:239–311

    Article  Google Scholar 

  • McQueen-Mason SJ, Cosgrove DJ (1994) Disruption of hydrogen bonding between plant cell wall polymers by proteins that induce wall extension. Proc Natl Acad Sci 91:6574–6578

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Murray MG, Thompson WF (1980) Rapid isolation of high molecular weight plant DNA. Nucleic Acids Res 8:4321–4326

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Patil RV, Khanna-Chopra R (2006) Breeding for drought resistance in crops: physiological approaches. J Plant Biol 33:1–21

    Google Scholar 

  • Peng J, Richards DE, Hartley NM, Murphy GP, Devos KM, Flintham JE, Beales J, Fish LJ, Worland AJ, Pelica F, Duralalagaraja S, Christou P, Snape JW, Gale MD, Harberd NP (1999) Green revolution genes encodes mutants gibberellin response modulators. Nature 400:256–261

    Article  CAS  PubMed  Google Scholar 

  • Rebetzke G, Ellis M (2007) Molecular mapping of genes for coleoptile growth in bread wheat (Triticum aestivum L.). Theor Appl Genet 114:1173–1183. doi:10.1007/s00122-007-0509-1

    Article  CAS  PubMed  Google Scholar 

  • Rebetzke G, Richards R (1999) Breeding long coleoptile, reduced height wheats. Euphytica 106:159–168

    Article  Google Scholar 

  • Rebetzke GJ, Richards RA, Ficher VM, Mickelson BJ (1999) Breeding long coleoptile, reduced height wheats. Euphytica 106:159–168

    Article  Google Scholar 

  • Rebetzke GJ, Appels R, Morrison AD, Richards RA, McDonald G, Ellis MH, Spielmeyer W, Bonnet DG (2001) Quantitative trait loci on chromosome 4B for coleoptile length and early vigour in wheat (Triticum aestivum L.). Aust J Agri Res 52:1221–1234

    Article  CAS  Google Scholar 

  • Rebetzke GJ, Richards RA, Fettell NA, Long M, Condon AG, Botwright TL (2007) Genotypic increases in coleoptile length improves wheat establishment, early vigour and grain yield with deep sowing. Field Crops Res 100:10–23. doi:10.1016/j.fcr.2006.05.001

    Article  Google Scholar 

  • Rebetzke GJ, Bonnett DG, Ellis MH (2012) Combining gibberellic acid-sensitive and insensitive dwarfing genes in breeding of higher-yielding, sesqui-dwarf wheats. Field Crops Res 127:17–25

    Article  Google Scholar 

  • Richards RA, Rebetzke GJ, Watt M, Condon AG, Spielmeyer W, Dolferus R (2010) Breeding for improved water productivity in temperature cereals: phenotyping, quantitative trait loci, markers and the selection environments. Funct Plant Biol 37:85–97

    Article  Google Scholar 

  • Rustgi S, Shafqat MN, Kumar N, Baenziger PS, Ali ML, Dweikat I, Cambell BT, Gill KS (2013) Genetic dissection of yield and its component traits using high density composite map of wheat chromosome 3A: bridging gaps between QTLs and underlying genes. Plos One 8:e70526. doi:10.1371/journal.pone.0070526

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  • Sinha SK, Aggrawal PK, Chaturvedi GS, Koundal KR, Khanna-Chopra R (1981) A comparison of physiological and yield characters in old and new wheat varieties. J Agric Sci (Camb) 97:233–236

    Article  Google Scholar 

  • Spielmeyer W, Hyles J, Joaquim P, Azanza F, Bonnett D et al (2007) A QTL on chromosome 6A in bread wheat (Triticum aestivum) is associated with longer coleoptiles, greater seedling vigour and final plant height. Theor Appl Genet 115:59–66. doi:10.1007/s00122-007-0540-2

    Article  CAS  PubMed  Google Scholar 

  • Toyomasu T, Kawaide H, Sekimoto H, von Numers C, Phillips AL, Hedden P, Kamiya Y (1997) Cloning and characterization of a cDNA encoding gibberellin 20-oxidase from rice (Oryza sativa) seedlings. Physiol Plant 99:111–118

    Article  CAS  Google Scholar 

  • Trethowan R, Singh R, Huerta-Espino J, Crossa J, Van Ginkel M (2001) Coleoptile length variation of near-isogenic Rht lines of modern CIMMYT bread and durum wheats. Field Crop Res 70:167–176

    Article  Google Scholar 

  • Wang J, Chapman SC, Bonnet DG, Rebetzke GJ (2009) Simultaneous selection of major and minor genes: use of QTL to increase selection efficiency of coleoptile length of wheat (Triticum aestivum L.). Theor Appl Genet 119:65–74

    Article  CAS  PubMed  Google Scholar 

  • Yamaguchi S (2008) Gibberellin metabolism and its regulation. Annu Rev Plant Biol 59:225–251

    Article  CAS  PubMed  Google Scholar 

  • Yu JB, Bai GH (2010) Mapping quantitative trait loci for long coleoptile in Chinese wheat landrace Wanshuibai. Crop Sci 50:43–50

    Article  Google Scholar 

Download references

Acknowledgement

We are thankful to the Indian Council of Agricultural Research for financial support under the Network project on transgenic in crops.

Author information

Authors and Affiliations

  1. Stress Physiology Laboratory, Water Technology Centre, Indian Agricultural Research Institute, New Delhi, 110012, India

    Kalpana Singh, Sanyukta Shukla, Vimal Kumar Semwal & Renu Khanna-Chopra

  2. National Research Centre on Plant Biotechnology, New Delhi, 110012, India

    Suhas Kadam & Nagendra Kumar Singh

Authors
  1. Kalpana Singh
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Sanyukta Shukla
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Suhas Kadam
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Vimal Kumar Semwal
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. Nagendra Kumar Singh
    View author publications

    You can also search for this author in PubMed Google Scholar

  6. Renu Khanna-Chopra
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Renu Khanna-Chopra.

Additional information

Kalpana Singh and Sanyukta Shukla contributed equally to this work.

Rights and permissions

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Singh, K., Shukla, S., Kadam, S. et al. Genomic regions and underlying candidate genes associated with coleoptile length under deep sowing conditions in a wheat RIL population. J. Plant Biochem. Biotechnol. 24, 324–330 (2015). https://doi.org/10.1007/s13562-014-0277-3

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s13562-014-0277-3

Keywords

Search

Navigation