Characterization of rbcL and trnL Plastid DNA Sequences of Vuralia turcica (Fabaceae; Papilionoideae)

Vuralia turcica is endemic to Turkey and currently endangered. Little molecular information is available for this plant. Previous characterization and classification of V. turcica have been based on the DNA sequences of the ITS region. Molecular markers are essential for studying of genotyping and biogeography, but any of each marker is not enough to characterize a plant species in its use alone. In this study, the chloroplast rbcL and trnL regions were amplified in V. turcica using the primers that have been published in the previous studies. Successfully amplified DNA fragments were extracted and commercially sequenced. The partial rbcL and trnL sequences were submitted to the NCBI database (accession number KX164510, KX164511, respectively). Amplified both DNA of two regions of rbcL and trnL were used to construct a phylogenetic tree.

PDF

___

Altschul SF, Gish W, Miller W, Myers EW, Lipman D. 1990. Basic local alignment search tool, J. Mol. Biol., 215: 403– 410.

Bafeel SO, Ariff IA, Bakir MA, Khan HA, Al Farhan AH, Al Homaidan AA, Ahmad A, Thomas J. 2011. Comparative evaluation of PCR success with universal primers of maturase K (matK) and ribulose-1, 5-bisphosphate carboxylase oxygenase large subunit (rbcL) for barcoding of some arid plants, Plant Omics J., 4: 195-198.

Bafeel SO, Ariff IA, Bakir MA, Al Homaidan AA, Al Farhan AH, Khan HA. 2012. DNA barcoding of arid wild plants using rbcL gene sequences, Genet. Mol. Res., 11: 1934-1941.

BLAST. 2019. Basic Local Alignment Search Tool; http://blast.ncbi.nlm.nih.gov/Blast.cgi [Accessed: 22.5.2019]

BMLABOSIS. 2019. BM Yazılım Danış. ve Lab. Sis. Ltd. Sti., https://www.bmlabosis.com/Anasayfa [Accessed: 22.5.2019]

CBOL Plant Working Group 2009. A DNA barcode for land plants, Proc. Natl. Acad. Sci. USA, 106: 12794-12797.

Cenkci S, Yıldız M, Terzi H. 2012. Afyonkarahisar Endemiği Thermopsis turcica: Dünü, Bugünü ve Ekonomiye Kazandırılması, AKU J. Sci. 12(2): 23-26.

Çiftçi ÖC. 2018. Investigation of gene transfer potential with classical hybridization in Vuralia turcica and identification of rhizobacterial species contributing its development (Doctoral dissertation).

Dahnke WC, Olson RA (1990).Soil test Correlation, Calibration, and Recommendation. In: Westerman RL. Soil Testing and Plant Analysis, 3rd ed., SSSA, Madison: Soil Science Society of America, pp. 45-71. Dilaver Z. 2013. Conservation of natural plants and their use in landscape architecture. Advances in landscape architecture. London. In Tech.

Dölarslan M, Gül E. 2015. Yapraklı - Büyükyayla (Çankırı)’nın Vasküler Bitkiler Florası, Ormancılık Dergisi, 11 (2): 74-91.

Edwards KJ. 1998. Miniprep Procedures for the isolation of plant. In: Karp A, Isaac PG. (Ed.), Mol. Tools Screen. Biodivers. Springer. Dordrecht.

EMBL-EBI, 2019. European Bioinformatics Institute, http://www.ebi.ac.uk/Tools/psa/emboss_needle/nucleo tide.html, [Accessed: 22.5.2019]

Felsenstein J. 1985. Confidence limits on phylogenies: an approach using the bootstrap, Evolution 39: 783–791.

Guo YL, Ge S. 2005. Molecular phylogeny Oryzeae (Poaceae) based on DNA sequences from chloroplast, mitochondrial and nuclear genomes, Am. J. Bot., 92(9): 1548–1558.

Hollingsworth PM, Forrest LL, Spouge JL, Hajibabaei M, Ratnasingham S, van der Bank M, Chase MW, Cowan RS, Erickson DL, Fazekas AJ et al. 2009. A DNA barcode for land plants, Proc. Natl. Acad. Sci. U.S.A.,106: 12794–12797.

Hollingsworth PM, Graham SW, Little DP. 2011. Choosing and using a plant DNA barcode, PLoS One, 6(5): e19254.

Kimura M. 1980. A simple method for estimating evolutionary rate of base substitutions through comparative studies of nucleotide sequences, J. Mol. Evol., 16:111-120.

Kumar S, Stecher G, Tamura K. 2016. MEGA7: Molecular evolutionary genetics analysis version 7.0 for bigger datasets, Mol. Biol. Evol., 33:1870-1874.

Lahaye van der Bank M, Bogarin D, Warner J, Pupulin F, Gigot G, Maurin O, Duthoit S, Barraclough TG, Savolainen V. 2008. DNA barcoding the floras of biodiversity hotspots, Proc. Natl. Acad. Sci. U.S.A.,105(8): 2923-2928.

MEGA7. 2019. Molecular Evolutionary Genetics Analysis, https://www.megasoftware.net/ [Accessed: 22.5.2019]

Meier R, Guanyang Z, Farhan A. 2008. The use of mean instead of smallest interspecific distances exaggerates the size of the ‘barcoding gap’ and leads to misidentification, Syst. Biol. 57: 809-813.

NCBI. 2019. National Center for Biotechnology Information, https://www.ncbi.nlm.nih.gov/Sequin [Accessed: 22.5.2019]

Parani M, Lakshmi M, Ziegenhagen B. 2000. Molecular phylogeny of mangrove. PCR-RFLP of trnS-psbC and rbcL gene regions in 24 mangrove and mangrove associate species. Theor. Appl. Genet., 100: 454-460.

Sanger F, Nicklen S, Coulson A.R. 1977. DNA sequencing with chain-terminating inhibitors. Proc. Natl. Acad. Sci. USA 74 (12): 5463–5467.

Tamura K. 1992. Estimation of the number of nucleotide substitutions when there are strong transition-transversion and G + C-content biases, Mol. Biol. Evol., 9:678-687.

Tan K, Vural M, Kucukoduk M. 1983. An unusual new Thermopsis from Turkey, Notes Roy. Bot. Gard. Edinburgh, 40(3): 515-518.

Uysal T, Ertuǧrul K, Bozkurt M. 2014. A new genus segregated from Thermopsis (Fabaceae: Papilionoideae): Vuralia, Plant Syst. Evol., 300, 1627–1637.

Yildiz M, Pehlivan E, Terzi H. 2017. Proteomic analysis of flowers at two developmental stages in Thermopsis turcica (Fabaceae), Turk J. Bot., 41(3): 234-243.