Td-DAMD-PCR assays for fngerprinting of commercial carnations

Td-DAMD-PCR assays for fngerprinting of commercial carnations

Dianthus L. is one of the highly valued plant species in the family Caryophyllaceae. More than 30,000 cultivars of commercialcarnations have been recorded and there is a need for an efective and cheap method to reveal their genetic diversity and identify thecultivars. To the best of our knowledge this is the frst report of implementation of the touchdown direct amplifcation of minisatellite- region DNA polymerase chain reaction (Td-DAMD-PCR) technique in the genus Dianthus. A total of 12 core minisatellite primersempirically selected from 22 primers were used in fngerprinting and phylogenetic studies of some commercial carnation cultivars.Analysis revealed that commercial carnations have a wide genetic base and they were probably obtained using inter-crosses betweenand among diferent species of the genus Dianthus. A total of 17 DNA markers were variety specifc and most of the remaining markersobtained in the present study were useful in fngerprinting of the commercial varieties studied. Commercial varieties were diferentiatedin spray and standard carnation groups in a principal coordinate analysis and a Bayesian 50% majority-rule consensus tree. Td- DAMD-PCR markers reported in this study could be very useful in species identifcation, determination of genetic relationships, andphylogenetic studies of species of Dianthus.

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  • Balao F, Valente LM, Vargas P, Herrera J, Talavera S (2010). Radiative evolution of polyploid races of the Iberian carnation Dianthus broteri (Caryophyllaceae). New Phytol 187: 542–551.
  • Behroozian M, Jafari A, Farsi M (2013). RAPD analysis of genetic variation within and among natural populations of two species of Dianthus L. (Caryophyllaceae) in NE Iran. Iran J Bot 19: 194–201.
  • Crespi A, Fernandis CF, Castro A, Berrnardos S, Amich F (2007). Morpho-environmental characterization of the genus Dianthus (Caryophylaceae) in the Iberian Peninsula: D. pungens group. Ann Bot Fenn 44: 241–255.
  • De Benedetti L, Burchi G, Bruna S, Mercuri A, Schiva T (2003). Molecular markers and cut fower longevity in carnation. Acta Hort 683: 437–443.
  • Farsi M, Behroozian M, Vaezi J, Joharchi MR, Memariani F (2013). Te evolution of Dianthus polylepis complex (Caryophyllaceae) inferred from morphological and nuclear DNA sequence data: one or two species? Plant Syst Evol 299: 1419–1431.
  • Fu XP, Ning GG, Gao LP, Bao MZ (2008). Genetic diversity of Dianthus accessions as assessed using two molecular marker systems (SRAPs and ISSRs) and morphological traits. Sci Hort 117: 263–270.
  • Heath DD, Iwama GK, Devlin RH (1993). PCR primed with VNTR core sequence yields species specifc patterns and hypervariable probes. Nucleic Acid Res 21: 5782–5785.
  • Hosoya M (1999). Transition and trend in carnation cultivars. Agric Hort 74: 23–30 (in Japanese).
  • Ince AG, Karaca M (2009). Te MAGi RNA extraction method: highly efcient and simple procedure for fresh and dry plant tissues. J Sci Food Agric 89: 168–176.
  • Ince AG, Karaca M, Onus AN (2009). Development and utilization of diagnostic DAMD-PCR markers for Capsicum accessions. Genet Resour Crop Ev 56: 211–221.
  • Ince AG, Karaca M (2011a). Genetic variation in common bean landraces efciently revealed by Td-DAMD-PCR markers. Plant Omics 4: 220–227.
  • Ince AG, Karaca M (2011b). Early determination of sex in jojoba plant by CAPS assay. J Agri Sci 149: 327–336.
  • Ince AG, Yildiz F, Karaca M (2011). Te MAGi DNA extraction method for fresh tissues and dry seeds. J Med Plants Res 5: 5458–5464.
  • Ince AG, Karaca M (2012). Species-specifc touchdown DAMD-PCR markers for Salvia species. J Med Plants Res 6: 1590–1595.
  • İnce AG, Karaca M (2014) E-microsatellite markers for some Salvia species naturally occurring in the Mediterranean region. Turk J Biol doi: 10.3906/biy-1404-29.
  • Ince AG, Karaca M, Elmasulu SY (2014). New microsatellite and CAPS-microsatellite markers for clarifying taxonomic and phylogenetic relationships within Origanum L. Mol Breeding 34: 643–654.
  • Izzatullayeva V, Akparov Z, Babayeva S, Ojaghi J, Abbasov M (2014). Efciency of using RAPD and ISSR markers in evaluation of genetic diversity in sugar beet. Turk J Biol 38: 429–438.
  • Jarda L, Butiuc-Keul A, Höhn M, Pedryc A, Cristea V (2014). Ex situ conservation of Dianthus giganteus d’Urv. subsp. banaticus (Heuf.) Tutin by in vitro culture and assessment of somaclonal variability by molecular markers. Turk J Biol 38: 21–30.
  • Jefreys AJ, Wilson V, Tein SL (1985). Individual specifc ‘fngerprints’ of human DNA. Nature 332: 278–281.
  • Karaca M, Saha S, Zipf A, Jenkins JN, Lang DJ (2002) Genetic diversity among forage bermudagrass (Cynodon spp.): evidence from chloroplast and nuclear DNA fngerprinting. Crop Sci 42: 2118–2127.
  • Karaca M, Saha S, Callahan FE, Jenkins JN, Read JJ, Percy RG (2004). Molecular and cytological characterization of a cytoplasmic- specifc mutant in pima cotton (Gossypium barbadense L.). Euphytica 139: 187–197.
  • Karaca M, Ince AG, Elmasulu SY, Onus AN, Turgut K (2005). Coisolation of genomic and organelle DNAs from 15 genera and 31 species of plants. Anal Biochem 343: 353–355.
  • Karaca M, Ince AG (2008). Minisatellites as DNA markers to classify bermudagrasses (Cynodon spp.): confrmation of minisatellite in amplifed products. J Genet 87: 83–86.
  • Karaca M, Ince AG, Ay ST, Turgut K, Onus AN (2008). PCR-RFLP and DAMD-PCR genotyping for Salvia species. J Sci Food Agric 88: 2508–2516.
  • Karaca M, Ince AG, Aydin A, Ay ST (2013). Cross-genera transferable e-microsatellite markers for 12 genera of Lamiaceae family. J Sci Food Agric 93: 1869–1879.
  • Kimura T, Yagi M, Nishitani C, Onozaki T, Ban Y, Yamamoto T (2009). Development of SSR markers in carnation (Dianthus caryophyllus). J Japan Soc Hort Sci 78: 115–123.
  • Maitra S, Roychowdhury N (2013). Performance of diferent standard carnation (Dianthus caryophyllus L.) cultivars in the plains of West Bengal, India. Int J Bio Resour Stress Manage 4: 395–399.
  • Manly BFJ (1994) Multivariate statistical methods: a primer. London, UK: Chapman & Hall.
  • Rana MK, Bhat KV (2004). A comparison of AFLP and RAPD markers for genetic diversity and cultivar identifcation in cotton. J Plant Biochem Biot 13: 19–24.
  • Ronquist F, Huelsenbeck JP (2003). MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19: 1572–1574.
  • Scovel G, Ben-Meir H, Ovadis M, Itzhaki H, Vainstein A (1998). RAPD and RFLP markers tightly linked to the locus controlling carnation (Dianthus caryophyllus) fower type. Teor Appl Genet 96: 117–122.
  • Tah J, Mamgain A (2013).Variation in diferent agronomical characters of some carnation (Dianthus caryophyllus) cultivars. Res J Biol 1: 10–23.
  • Vainstein A, Hillel J, Lavi U, Tzuri G (1991). Assessment of genetic relatedness in carnation by DNA fngerprints analysis. Euphytica 56: 225–229.
  • Wojcik M, Dresler S, Jawor E, Kowalczyk K, Tukiendorf A (2013). Morphological, physiological, and genetic variation between metallicolous and nonmetallicolous populations of Dianthus carthusianorum . Chemosphere 90: 1249–1257.
  • Yagi M, Kimura T, Yamamoto T, Isobe S, Tabata S, Onozaki T (2012). QTL analysis for resistance to bacterial wilt (Burkholderia caryophylli) in carnation (Dianthus caryophyllus) using an SSR- based genetic linkage map. Mol Breeding 30: 495–509.
  • Yagi M (2013). Application of DNA markers for breeding carnations resistant to bacterial wilt. Jpn Agr Res Q 47: 29–35.
Turkish Journal of Biology-Cover
  • ISSN: 1300-0152
  • Yayın Aralığı: Yılda 6 Sayı
  • Yayıncı: TÜBİTAK
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