Application of CAPS markers for diversity assessment in grass pea (Lathyrus sativus L.)
PDF

Keywords

CAPS markers
genetic diversity
Lathyrus sativus

How to Cite

Shiferaw, E., Porceddu, E., Pé, E., & Ponnaiah, M. (2017). Application of CAPS markers for diversity assessment in grass pea (Lathyrus sativus L.). Biodiversity: Research and Conservation, 48, 11–18. https://doi.org/10.1515/biorc-2017-0012

Number of views: 12


Number of downloads: 9

Abstract

Genetic diversity among 20 Lathyrus sativus L. accessions from Ethiopia was investigated by using Cleaved Amplified Polymorphic Sequence (CAPS) markers. Genetic diversity statistics showed presence of a moderate level of genetic variation in the analysed accessions (P = 69.77%, Hs = 0.278). Analysis of genetic differentiation showed existence of a low level of differentiation between accessions, which accounted for only 7% of the total variation and most of the variation was due to differences among individuals within accessions (93%). Both cluster and principal coordinate analyses revealed minimal grouping of accessions based on geographical origin implying that local varieties of grass pea with different genetic backgrounds were distributed among various administrative regions in Ethiopia. The CAPS markers employed in our study demonstrated the utility of such markers for genetic diversity assessment in grass pea.

https://doi.org/10.1515/biorc-2017-0012
PDF

References

Akashi Y., Shiomi S., Kubo Y., Masuda M. & Kato K. 2001. Microsatellite and CAPS markers for ethylene-related genes, (1-Aminocyclopropane-1-caroxylic Acid ACC) synthase and ACC oxidase genes, and their variation in Melon (Cucumis melo L.). Breeding Sciences 51: 107-112.

Barth S., Melchinger A. E. & Bberstedt T. L. 2002. Genetic diversity in Arabidopsis thaliana (L.) Heynh. investigated by cleaved amplified polymorphic sequence (CAPS) and Inter-Simple Sequence Repeat (ISSR) markers. Mol Ecol 11: 495-505.

Belaid Y., Chtourou-Ghorbel N., Marrakchi M. & Trifi-Farah N. 2006. Genetic diversity within and between populations of Lathyrus genus (Fabaceae) revealed by ISSR markers. Genet Resour Crop Ev 53: 1413-1418.

Campbell C.G. 1997. Grass pea. Lathyrus sativus L. Promoting the conservation and use of underutilized and neglected crops. 18. Institute of Plant Genetics and Crop Plant Research, Gatersleben/International Plant Genetic Resources Institute, Rome, Italy.

Chandel K. P. S. & Joshi B. S. 1983. Multivariate analysis in green-seeded pea. Indian J Agr Sci 53: 198-200.

Chowdhury M. A. & Slinkard A. E. 2000. Genetic diversity in grass pea (Lathyrus sativus L.). Genet Resour Crop Ev 47: 163-169.

Chtourou-Ghorbel N., Lauga B., Combes D. & Marrakchi M. 2001. Comparative genetic diversity studies in the genus Lathyrus using RFLP and RAPD markers. Lathyrus Lathyrism Newsletter 2: 62-68.

Croft A. M., Pang E. C. K. & Taylor P. W. J. 1999. Molecular analysis of Lathyrus sativus L. (grass pea) and related Lathyrus species. Euphytica 107: 167-176.

CSA 2016. Agricultural sample survey 2015/2016. Report on area and production of crops volume I. Central Statistics Authority (CSA), Addis Ababa, Ethiopia.

Gutierrez N., Avila C. M., Duc G., Marget P., Suso M. J., Moreno M. T. & Torres A. M. 2006. CAPs markers to assist selection for low vicine and convicine contents in faba bean (Vicia faba L.). Theor Appl Genet 114: 59-66.

Holsinger K. E. & Lewis P. O. 2006. HICKORY: A package for analysis of Population Genetic data v1.0.4. Department of Ecology and Evolutionary Biology, University of Connecticut, Storrs, USA.

Hu C., Tsai Y. & Lin 2014. Development of STS and CAPS markers for variety identification and genetic diversity analysis of tea germplasm in Taiwan. Bot Stud 55:12.

Konieczny A. & Ausubel F. M. 1993. A procedure for mapping Arabidopsis mutations using co-dominant ecotype-specific PCR-based markers. Plant J 4: 403-410.

Konovalov R., Toshchakova E. & Gostimsky S. 2005. A CAPS marker set for mapping in linkage group III of pea Pisum sativum L.). Cell Mol Biol Lett 10(1): 163-71.

Lioi L. & Galasso I. 2013. Development of genomic simple sequence repeat markers from an enriched genomic library of grass pea (Lathyrus sativus L.). Plant breeding. Doi:10.1111/pbr.12093

Miller M. P. 1997. Tools for population genetic analysis (TFPGA): A windows program for the analysis of allozyme and molecular population genetic data. Freely available from: http://bioweb.usu.edu/mpmbio/index.htm

Nei M. 1972. Genetic distance between populations. Am Nat 106: 283-292.

Peakall R. & Smouse P. E. 2012. GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research – an update. Bioinformatics 28: 2537-2539. Freely available from: http://bioinformatics.oxfordjournals.org/content/28/19/2537.

Shiferaw E., Pè E., Porceddu M. E. & Ponnaiah M. 2012. Exploring the genetic diversity of Ethiopian grass pea (Lathyrus sativus L.) using EST-SSR markers. Mol. Breeding 30: 789-797.

Skiba B., Ford R. & Pang E. C. K. 2003. Amplification and detection of polymorphic Sequence-Tagged Sites in Lathyrus sativus. Plant Mol Biol Rep 21: 391-404.

Smartt J., Kaul A., Araya W. A., Rahman M. M. & Kearney J. 1994. Grass pea (Lathyrus sativus L.) as a potentially safe food legume crop. In: F. J. Muehlbauer & W. J. Kaiser (eds.). Expanding the production and use of cool season food legumes, pp. 144-155. Kluwer Academic Publishers, Dordrecht, The Netherlands.

Sun X., Yang T., Guan J., Ma Y., Jiang J., Cao R., Burlyaeva M., Vishnyakova M., Semenova E., Bulyntsev S. & Zong X. 2012. Development of 161 novel EST-SSR markers from Lathyrus sativus (Fabaceae). Am J Bot 99: 379-390.

Tadesse W. & Bekele E. 2003. Phenotypic diversity of Ethiopian grass pea (Lathyrus sativus L.) in relation to geographical regions and altitudinal range. Genet Res Crop Ev 50: 497-505.

Tavoletti S. & Iommarini L. 2007. Molecular marker analysis of genetic variation characterizing a grass pea (Lathyrus sativus) collection from central Italy. Plant Breeding 1266: 607-611.

Tsumura Y. & Tomaru N. 1999. Genetic diversity of Cryptomeria japonica using co-dominant DNA markers based on sequenced tagged site. Theor Appl Genet 98: 396-404.

Tsumura Y., Matsumoto A., Tani N., Ujino-Ihara T., Kado T., Iwata H. & Uchida K. 2007. Genetic diversity and the genetic structure of natural populations of Chamaecyparis obtusa: implications for management and conservation. Heredity 99: 161-172.

Varshney R.K., Chabane K., Hendre P. S., Aggarwal R. K. & Graner A. 2007. Comparative assessment of EST-SSR, EST-SNP and AFLP markers for evaluation of genetic diversity and conservation of genetic resources using wild, cultivated and elite barleys. Plant Sci 173: 638-649.

Vaz Patto M. C., Skiba B., Pang E. C. K., Ochatt S. J., Lambein F. & Rubiales D. 2006. Lathyrus improvement for resistance against biotic and abiotic stresses: From classical breeding to marker assisted selection. Euphytica 147: 133-147.

Wang F., Yang T., Burlyaeva M., Li L., Jiang J., Fang L., Redden R. & Zong X. 2015. Genetic diversity of grass pea and its relative species revealed by SSR markers. PLoS ONE 10(3): e0118542. Doi:10.1371/journal.pone.0118542.

Yang T., Jiang J., Burlyaeva M., Hu J., Coyne C. J., Kumar S., Redden R., Sun X., Wang F., Chang J., Hao X., Guan J. & Zong X. 2014. Large-scale microsatellite development in grass pea (Lathyrus sativus L.), an orphan legume of the arid areas. BMC Plant Biol 14: 65.