Molecular taxonomy and phylogeny of Silene species (Caryophyllaceae) using DNA-based markers

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Research Paper 01/04/2014
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Molecular taxonomy and phylogeny of Silene species (Caryophyllaceae) using DNA-based markers

Farrokh Ghahremaninejad, Abdolhamid Angaji, Maryam Etemad, Fatemeh Vahidynia, Farideh Attar
J. Biodiv. & Environ. Sci. 4(4), 125-132, April 2014.
Copyright Statement: Copyright 2014; The Author(s).
License: CC BY-NC 4.0

Abstract

DNA markers have provided valuable tools in various analyses ranging from phylogenetic analysis to the positional cloning of genes. Silene is a genus of flowering plant in the family Caryophyllaceae. This study compared the phylogenetic relationship within and between 16 Silene sections, including 24 species (Silenoideae: Caryophyllaceae) using some molecular markers such as Random Amplification of Polymorphic DNA (RAPD), Microsatellite Primed PCR (MP-PCR), Anchored Microsatellite Primed PCR (AMP-PCR) andSequence-Related Amplified Polymorphism (SRAP), Phylogenetic analysis was carried out by parsimony, and neighbour joining model. Finally, our molecular analysis did not confirm morphological viewpoints completely.

Angaji SA. 2011. Genomics at a Glance: Molecular Markers and Genome Mapping. Lambert Academic Publishing.

Barh D. 2013. OMICS Applications in Crop Science. CRC Press.

Bari EA. 1973.Cytological studies in the genus Silene L. New Phytologist 72, 833-838.

Budak H, Shearman RC, Parmaksizv I, Dweikatv I. 2004a.Comparative analysis of seeded and vegetative biotype buffalograsses based on phylogenetic relationship using ISSRs, SSRs, RAPDs, and SRAPs. Theoretical and Applied Genetics 109, 280–288.

Budak H, Shearman RC, Parmaksiz I,Gaussoin RE, Riordan TP, Dweikat I. 2004b. Molecular characterization of Buffalograssgermplasm using sequence-related amplified polymorphism markers. Theoretical and Applied Genetics 108, 328– 334.

Chowdhuri PK. 1957. Studies in the genus Silene.Notes from theRoyal Botanic Garden .Edinburgh 22, 221–278.

Csaikl UM, Bastian H,Brettscheneider R, Gauch S, Meir A, Schauerte M, Scholz F, Sperisen C, Vornam B, Ziegenhagen B. 1998. Comparative analysis of different DNA extraction protocols: a fast, universal maxi-preparation of high quality plant DNA for genetic evaluation and phylogenetic studies. Plant Molecular Biology Reporter 16, 69-86.

Dávila JA, Loarce Y, Ferrer E. 1999.Molecular characterization and genetic mapping of random amplified microsatellite polymorphism in barley. Theoretical and Applied Genetics 98 (2), 265-273.

Doyle JJ, Doyle JL. 1987. A rapid DNA isolation procedure for small quantities of fresh leaf tissue. Phytochemical Bulletin 19, 11-15.

Doyle JJ , Doyle JL. 1990. Isolation of plant DNA from fresh tissue.Focus 12, 13-15.

Drabkova L, Kirschner J, Vlcek C. 2002. Comparison of seven DNA extraction and amplification protocols in historical herbarium specimens of Juncaceae. Plant Molecular Biology Reporter 20, 161-175.

Edalatiyan MN, Ghahermaninejad F, Attar F, Joharchi MR. 2010.A taxonomic study on the genus Silene (Caryophyllaceae) in Iran.Rostaniha 11(2), 133-149.

Espósito MA, Martin EA, Cravero VP, Cointry E. 2007. Characterization of pea accessions by SRAP’s markers. ScientiaHorticulturae 113, 329-335.

Ferriol M, Picó B, Nuez F. 2003. Genetic diversity of a germplasm collection of Cucurbitapepo using SRAP and AFLP markers. Theoretical and Applied Genetics 107, 271–282.

Fu X, Ning G, Gao L, Bao M. 2008. Genetic diversity of Dianthus accessions as assessed using two molecular marker systems (SRAPs and ISSRs) and morphological traits.ScientiaHorticulturae 117(3), 263-270.

Greuter W, Burdet HM, Long G. 1984. MedChecklist 1.

Greuter W. 1995. Silene(Caryophyllaceae) in Greece: A subgeneric and sectional classification. Taxon 44, 543–58.

Haymes KM, Ibrahim IA, MischkeS, Scott DL, Saunders JA. 2004. Rapid isolation of DNA from chocolate and date palm tree crops. Journal of Agricultural and Food Chemistry 52, 5456-5462.

Kumar P, Gupta VK, MisraAK, Modi DR, Pandey BK. 2009. Potential of Molecular Markers in Plant Biotechnology. Plant Omics Journal 2(4), 141-162.

Li G, Quiros CF. 2001. Sequence-related amplified polymorphism (SRAP), a new marker system based on a simple PCR reaction: its application to mapping and gene tagging in Brassica. Theoretical and Applied Genetics 103, 455–46.

Li H, Luo J, Hemphill JK, Wang JT, Gould JH. 2001. A rapid and high yielding DNA miniprep for cotton (Gossypium spp.).Plant Molecular Biology Reporter 19, 1-5.

McNeill J. 1978. Silenealba and S.dioicain North America and the generic delimitation of Lychnis, Melandrium and Silene (Caryophyllaceae). Canadian Journal of Botany56, 297–308.

Melzheimer V.  1988.  Caryophyllaceae:Silene  L. Flora Iranica. 163, 341–508.

Mogg RJ, Bond JM. 2003. A cheap, reliable and rapid method of extracting high-quality DNA from plants. Molecular Ecology Notes 3, 666-668.

Oxelman B, Lidén M. 1995. Generic boundaries in the tribe Sileneae (Caryophyllaceae) as inferred from nuclear rDNA sequences.Taxon 44, 525–542.

Pirttilä AM, Hirsikorpi M, Kämäräinen T, Jaakola L, Hohtola A. 2001. DNA isolation methods for medicinal and aromatic plants. Plant Molecular Biology Reporter 19, 273a-273f.

Pratik S. 2007. Genomics and Genetic Engineering. New India Publishing.

Saghai-Maroof MA, Solimn KM, Jorgensen RA, Allard RW. 1984. Ribosomal location and population Dynamics. Proceedings of the National Academy of Sciences 81, 8014-8018.

Scott KD, Playford J. 1996.DNA extraction technique for PCR in rain forest plant species. Biotechniques 20, 974-979.

Sharma KK, Lavanya M, Anjaiah V. 2000. A method for isolation and purification of peanut genomic DNA suitable for analytical applications. Plant Molecular Biology Reporter 18, 393a-393h.

Sharma PC, Hüttel B, Winter P, Kahl G, Gardner RC, Weising K. 1995.The potential of microsatellites for hybridization- and polymerase chain reaction-based DNA fingerprinting of chickpea (Cicer arietinum L.) and related species.Electrophoresis 16(9), 1755-61.

Shepherd M, Cross M, Stokoe RL, Scott LJ, Jones ME. 2000. High-throughput DNA extraction from forest trees. Plant Molecular Biology Reporter 20, 425a- 425j.

Singh AK, Rai VP, Chand R, Singh P , Singh MN. 2013. Genetic diversity studies and identification of SSR markers associated with Fusarium wilt (Fusarium udum L) resistance in cultivated pigeonpea (Cajanuscajan). Indian Academy of Sciences 92( 2), 273-280.

Šourková M. 1971. Leconax Rafin.eine bis heute unbeachtete Silenoideen-Gattung. Österr bot. Z. 119, 577–581.

Swank GR. 1932.The Ethnobotany of the Acoma and Laguna Indians.. M.S.Thesis,University of New Mexico, 69.

Vestal PA. 1952. The Ethnobtany of the Ramah Navaho. Papers of the Peabody Museum of American Archaeology and Ethnology 40(4), 1–94.

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