Characterisation of genetic diversity and DNA fingerprinting of Australian chickpea (Cicer arietinum L.) cultivars using MFLP markers
R. Lin A D , H. Yang B , T. N. Khan B , K. H. M. Siddique C and G. Yan C D EA Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100094, PR China.
B Department of Agriculture and Food Western Australia, 3 Baron-Hay Court, South Perth, WA 6151, Australia.
C Institute of Agriculture, The University of Western Australia, 35 Stirling Highway, Crawley, WA 6009, Australia.
D School of Plant Biology, Faculty of Natural and Agricultural Sciences, The University of Western Australia, 35 Stirling Highway, Crawley, WA 6009, Australia.
E Corresponding author. Email: gyan@plants.uwa.edu.au
Australian Journal of Agricultural Research 59(8) 707-713 https://doi.org/10.1071/AR07401
Submitted: 24 October 2007 Accepted: 21 April 2008 Published: 29 July 2008
Abstract
Chickpea (Cicer arietinum L.) is one of the major grain legume crops in the world. In this study, the genetic diversity of 24 Australian chickpea cultivars released between 1987 and 2005 was investigated with microsatellite-anchored fragment length polymorphism (MFLP) DNA markers. Among the cultivars examined, 30 cultivar-specific markers were identified and all were unequivocally identified using the DNA fingerprints developed in this study. Most of the cultivars were grouped into two major clusters; cv. Flipper was separated from the rest based on total character differences of DNA polymorphism. The MFLP approach proved suitable in the analysis of genetic diversity among the chickpea cultivars studied and the genetic relationship identified will be useful for chickpea breeding programs in selecting parent materials.
Additional keyword: cluster analysis.
Acknowledgments
This research was supported by the Centre for Legumes in Mediterranean Agriculture (CLIMA), The University of Western Australia, and the Department of Agriculture and Food Western Australia. The authors are grateful to the two anonymous reviewers for their detailed suggestions to improve the quality of this manuscript. Dr Chris Davies is thanked for the final proof-reading of this manuscript.
Ahmad F,
Gaur PM, Slinkard AE
(1992) Isozyme polymorphism and phylogenetic interpretations in the genus Cicer L. Theoretical and Applied Genetics 83, 620–627.
| Crossref | GoogleScholarGoogle Scholar |
Ahmad F, Slinkard AE
(1992) Genetic relationships in the genus Cicer L. as revealed by polyacrylamide gel electrophoresis of seed storage proteins. Theoretical and Applied Genetics 84, 688–692.
| Crossref | GoogleScholarGoogle Scholar |
Astarini IA,
Plummer JA,
Lancaster RA, Yan G
(2004) Fingerprinting of cauliflower cultivars using RAPD markers. Australian Journal of Agricultural Research 55, 117–124.
| Crossref | GoogleScholarGoogle Scholar |
Banerjee H,
Pai RA, Sharma RP
(1999) Restriction fragment length polymorphism and random amplified polymorphic DNA analysis of chickpea accessions. Biologia Plantarum 42, 197–208.
| Crossref | GoogleScholarGoogle Scholar |
Botstein D,
White RL,
Skolnick M, Davis RW
(1980) Construction of a genetic linage map in man using restriction fragment length polymorphisms. American Journal of Human Genetics 32, 314–331.
| PubMed |
Chowdhury MA,
Vandenberg V, Warkentin T
(2002) Cultivar identification and genetic relationship among selected breeding lines and cultivars in chickpea (Cicer arietinum L.). Euphytica 127, 317–325.
| Crossref | GoogleScholarGoogle Scholar |
Iruela M,
Rubio J,
Cubero JI,
Gil J, Millán T
(2002) Phylogenetic analysis in the genus Cicer and cultivated chickpea using RAPD and ISSR markers. Theoretical and Applied Genetics 104, 643–651.
| Crossref | GoogleScholarGoogle Scholar | PubMed |
Labdi M,
Robertson LD,
Singh KB, Charrier A
(1996) Genetic diversity and phylogenetic relationships among the annual Cicer species as revealed by isozyme polymorphism. Euphytica 88, 181–188.
| Crossref | GoogleScholarGoogle Scholar |
Litt M, Luty JA
(1989) A hypervariable microsatellite revealed by in vitro amplification of a dinucleotide repeat within the cardiac muscle actin gene. American Journal of Human Genetics 44, 397–401.
| PubMed |
Moreno MT, Cubero JY
(1978) Variation in Cicer arietinum. Euphytica 27, 465–485.
| Crossref | GoogleScholarGoogle Scholar |
Nguyen TT,
Taylor PWJ,
Redden RJ, Ford R
(2004) Genetic diversity estimates in Cicer using AFLP analysis. Plant Breeding 123, 173–179.
| Crossref | GoogleScholarGoogle Scholar |
Pharmawati M,
Yan G, Finnegan PM
(2005) Molecular variation and fingerprinting of Leucadendron cultivars (Proteaceae) by ISSR markers. Annals of Botany 95, 1163–1170.
| Crossref | GoogleScholarGoogle Scholar | PubMed |
Pradhan A,
Yan G, Plummer JA
(2004) Development of DNA fingerprinting keys for the identification of radish cultivars. Australian Journal of Experimental Agriculture 44, 95–102.
| Crossref | GoogleScholarGoogle Scholar |
Raeder U, Broda P
(1985) Rapid preparation of DNA from filamentous fungi. Letters in Applied Microbiology 1, 17–20.
| Crossref | GoogleScholarGoogle Scholar |
Serret DM,
Udupa SM, Weigand F
(1997) Assessment of genetic diversity of cultivated chickpea using microsatellite-derived RFLP markers: implications for origin. Plant Breeding 116, 573–578.
| Crossref | GoogleScholarGoogle Scholar |
Sethy N,
Shokeen B,
Edwards K, Bhatia S
(2006b) Development of microsatellite markers and analysis of intraspecific genetic variability in chickpea (Cicer arietinum L.). Theoretical and Applied Genetics 112, 1416–1428.
| Crossref | GoogleScholarGoogle Scholar | PubMed |
Sethy NK,
Choudhary S,
Shokeen B, Bhatia S
(2006a) Identification of microsatellite markers from Cicer reticulatum: molecular variation and phylogenetic analysis. Theoretical and Applied Genetics 112, 347–357.
| Crossref | GoogleScholarGoogle Scholar | PubMed |
Shan F,
Clarke H,
Yan G,
Plummer JA, Siddique KHM
(2004) Development of DNA fingerprinting keys for discrimination of Cicer echinospermum (P.H. Davis) accessions using AFLP markers. Australian Journal of Agricultural Research 55, 947–952.
| Crossref | GoogleScholarGoogle Scholar |
Singh KB
(1997) Chickpea (Cicer arietinum L.). Field Crops Research 53, 161–170.
| Crossref | GoogleScholarGoogle Scholar |
Sonnante G,
Marangi A,
Venora G, Pignone D
(1997) Using RAPD markers to investigate genetic variation in chickpea. Journal of Genetics & Breeding 51, 303–307.
Udupa SM,
Robertson LD,
Weigand F,
Baum M, Kahl G
(1999) Allelic variation at (TAA)n microsatellite loci in a world collection of chickpea (Cicer arietinum L.) germplasm. Molecular & General Genetics 261, 354–363.
| Crossref | GoogleScholarGoogle Scholar |
Udupa SM,
Sharma A,
Sharma RP, Pai RA
(1993) Narrow genetic variability in Cicer arietinum L. as revealed by RFLP analysis. Journal of Plant Biochemistry and Biotechnology 2, 83–86.
Vos P,
Hogers R,
Bleeker M,
Reijans M, Lee T , et al.
(1995) AFLP: a new technique for DNA fingerprinting. Nucleic Acids Research 23, 4407–4414.
| Crossref | GoogleScholarGoogle Scholar | PubMed |
Williams JGK,
Kubelik ARK,
Livak JL,
Rafalski JA, Tingey SW
(1990) DNA polymorphisms amplified by random primers are useful as genetic markers. Nucleic Acids Research 18, 6531–6535.
| Crossref | GoogleScholarGoogle Scholar | PubMed |
Wu K,
Jones R,
Danneberger L, Scolnik PA
(1994) Detection of microsatellite polymorphisms without cloning. Nucleic Acids Research 22, 3257–3258.
| Crossref | GoogleScholarGoogle Scholar | PubMed |
Yang H,
Boersma JG,
You M,
Buirchell BJ, Sweetingham MW
(2004) Development and implementation of a sequence-specific PCR marker linked to a gene conferring resistance to anthracnose disease in narrow-leafed lupin (Lupinus angustifolius L.). Molecular Breeding 14, 145–151.
| Crossref | GoogleScholarGoogle Scholar |
Yang H,
Shankar M,
Buirchell BJ,
Sweetingham MW,
Caminero C, Smith PMC
(2002) Development of molecular markers using MFLP linked to a gene conferring resistance to Diaporthe toxica in narrow-leafed lupin (Lupinus angustifolius L.). Theoretical and Applied Genetics 105, 265–270.
| Crossref | GoogleScholarGoogle Scholar | PubMed |
Yang H,
Sweetingham MW,
Cowling WA, Smith PMC
(2001) DNA fingerprinting based on microsatellite-anchored fragment length polymorphisms, and isolation of sequence-specific PCR markers in lupin (Lupinus angustifolius L.). Molecular Breeding 7, 203–209.
| Crossref | GoogleScholarGoogle Scholar |
Yuan H,
Yan G,
Siddique KHM, Yang H
(2005) RAMP based fingerprinting and assessment of relationships among Australian narrow-leafed lupin (Lupinus angustifolius L.) cultivars. Australian Journal of Agricultural Research 56, 1339–1346.
| Crossref | GoogleScholarGoogle Scholar |
Zietkiewicz E,
Rafalski A, Labuda D
(1994) Genome fingerprinting by simple sequence repeat (SSR)-anchored polymerase chain reaction. Genomics 20, 176–183.
| Crossref | GoogleScholarGoogle Scholar | PubMed |
