Relationships among some endemic Hieracium L. s.str. Asteraceae taxa based on internal transcribed spacer ITS

Year 2013, Volume: 6 Issue: 2, 134 - 141, 01.05.2013

Mutlu Gültepe Kamil Coşkunçelebı Ali Osman Beldüz Uğur Uzuner

Abstract

In the current study, thirteen individuals from ten endemic Hieracium Asteraceae taxa were analyzed by using sequences of the internal transcribed spacers ITS of nuclear ribosomal DNA in order to see whether the ITS could provide additional useful information for the relationships of the genus or not. Therefore, total genomic DNA was isolated from healthy leaves of each individual collected from different localities of North-east NE Anatolia Turkey . Amplification of the entire ITS region was performed by using universal primers with the aid of the polymerase chain reaction PCR . Neighbor Joining NJ and Maximum Parsimony MP trees were constructed based on the ITS sequences to elucidate the phylogenetic relationships among the investigated taxa. The aligned sequences comprised 710 characters. Divergence values among the individuals ranged from 0.0 to 2.1%. The ITS data provided sufficient variation to resolve interspecific relationships, but the topologies of the NJ and MP trees did not support conventional subgeneric classification of the species

Keywords

Asteraceae, Hieracium, ITS, nrDNA, Turkey

Türkiye’ de yayılış gösteren bazı endemik Hieracium Asteraceae taksonlarının ITS dizilerine dayalı akrabalıkları

Abstract

Bu çalışmada, 10 endemik Hieracium L. taksonuna ait 13 farklı birey, nüklear ribozomal DNA ITS bölgesinin cinsin akarabalık ilişkilerini ortaya koyabilecek yeni bilgiler sağlayıp sağlayamayacağını belirlemek amacıyla karşılaştırılmıştır. Bunun için öncelikle Kuzey Doğu Anadolu Bölgesi’nin değişik yerlerinden toplanan bireylerin sağlıklı yapraklarından genomik DNA’ları elde edilmiştir. Evrensel oligonükleotidler kullanılarak bireylere ait ITS bölgeleri polimeraz zincir reaksiyonu ile çoğaltılmıştır. Taksonlar arasındaki filogenetik ilişkiyi ortaya çıkarmak için Neighbour-Joining NJ ve Maksimum Parsimoni MP ağaçları çizilmiştir. Baz dizinlerinin hizalanması sonucu 710 karakterden oluşan bir veri seti elde edilmiş ve örnekler arasındaki divergens değerlerinin % 0.0-2.1 arasında değiştiği bulunmuştur. ITS bölgesi taksonlar arasındaki ilişkiyi açıklama da yeterli bilgi sağlamasına rağmen analiz sonucu elde edilen NJ ve MP ağaçlarının topolojileri, cinsin seri seviyesinde geleneksel taksonomik verileriyle uyum göstermemiştir

Keywords

Asteraceae, Hieracium, ITS, nrDNA, Türkiye

References

• Anderberg, A.A, Rydin, C., Källersjö, M. 2002. Phylogenetic relationships in the order Ericales s.l.: Analyses of molecular data from five genes from the plastid and mitochondrial genomes. American Journal of Botany, 89: 677-687.
• Ayaz, F.A and Coskuncelebi, K. 2002. Total phenolics variation in leaves of some Hieracium L. and Pilosella Hill. species. Acta Biologica Cracoviensia Series Botanica, 44: 175-179.
• Baldwin, B.G. 1992. Phylogenetic utility of the internal transcribed spacers of nuclear ribosomal DNA in plants: An example from the Compositae. Molecular Phylogenetics and Evolution, 1: 3-16.
• Baldwin, B.G. 1993. Molecular Phylogenetics of Calycadenia (Compositae) based on ITS sequences of nuclear ribosomal DNA: Chromosomal and morphological evolution reexamined. American Journal of Botany, 80. 222-238.
• Baldwin, B.G., Campbell, C.S., Porter, J.M., Wojciechowski, M.F., Donoghue, M.J. 1995. Utility of nuclear ribosomal DNA internal transcribed spacer sequences in phylogenetic analysis of angiosperms. Annals of the Missouri Botanical Garden, 82: 247-277.
• Baldwin, B.G., Markos, S. 1998. Phylogenetic utility of the external transcribed spacer (ETS) of 18S–26S rDNA: Congruence of ETS and ITS trees of Calycadenia (Compositae). Molecular Phylogenetics and Evolution, 10: 449-463.
• Beaman, J.H. 1990. Revision of Hieracium (Asteraceae) in Mexico and Central America. In: Anderson C (ed.). Systematic botany monographs, pp. 1-76. Michigan: Michigan University Press.
• Chrtek, J.Jr. 1997. Taxonomy of the Hieracium alpinum group in the Sudeten Mts and the West and Ukrainian East Carpathians. Folia Geobotanica and Phytotaxonomica, 32: 67-91.
• Chrtek, J.Jr., Mráz, P., Sennikov, A.N. 2006. Hieracium × grofae—a rediscovered diploid hybrid from the Ukrainian Carpathians. Biologia (Bratislava), 61:365–373.
• Clevinger, J.A., Panero, J.L. 2000. Phylogenetic analysis of Silphium and subtribe Engelmanniinae (Asteraceae: Heliantheae) based on ITS and ETS sequence data. American Journal of Botany, 87: 565-572.
• Conti, E., Suring, E., Boyd, D., Jorgensen, J., Kelso, G.S. 2000. Phylogenetic relationships and character evolution in Primula L.: The usefulness of ITS data. Plant Biosystems, 134: 385-392.
• Coskuncelebi, K., Beyazoglu, O. 2003a. Additional records of Hieracium L. and Pilosella Hill (Compositae : Lactueae) for the flora of Turkey. Turkish Journal of Botany, 27: 499-504.
• Coskuncelebi, K.. & Beyazoglu, O. 2003b. Assessment of Phenetic Clustering in Hieracium L. s.str. (Asteraceae) Species Distributed in Black Sea Region of Turkey. Bulletin of The Polish Academy of Sciences 51: 17-24.
• Coskuncelebi, K., Hayirlioğlu-Ayaz, S. 2006. Notes on chromosome numbers and karyotypes of five species in Hieracium L. s.str (Asteraceae) from Turkey. Caryologia, 59: 19-24.
• Coskuncelebi, K., Vladimirov, V. 2008. IAPT/IOPB chromosome data 5: chromosome numbers of Turkish Hieracia & Pilosella (Asteraceae). Taxon, 57: 211.
• Doyle, J.J., Doyle, J.L. 1987. A rapid DNA isolation procedure for small quantities of fresh leaf tissue. Phytochemical Bulletin, 19: 11-15.
• Fehrer, J., Krak, K., Chrtek, J. 2009. Intra-individual polymorphism in diploid and apomictic polyploid hawkweeds (Hieracium, Lactuceae, Asteraceae): disentangling phylogenetic signal, reticulation, and noise. BMC Evolutionary Biology, 9: 239.
• Felsenstein, J. 1985. Confidence limits on phylogenies: An approach using the bootstrap. Evolution, 39: 783-791.
• Garcia-Jacas, N., Susanna, A., Moza arian, R., Ilarslan, R. 2000. The natural delimitation of Centaurea (Asteraceae: Cardueae): ITS sequence analysis of the Centaurea jacea group. Plant Systematics and Evolution 223: 185-199.
• Garcia-Jacas, N., Uysal, T., Romaschenko, K., Suărez-Santiago, V.N., Ertuğrul, K., Suanna, A. 2006. CentaureaRevisited: A molecular survey of the Jacea group. Annals of Botany, 98: 741-753.
• Gielly, L., Yuan, Y.M., Küpfer, P., Taberlet, P. 1996. Phylogenetic use of noncoding regions in the genus Gentiana L.: Chloroplast trnL (UAA) intron versus nuclear ribosomal internal transcribed spacer sequences. Molecular Phylogenetics and Evolution, 5: 460-466.
• Gottschlich, G., Coskuncelebi, K., Beyazoglu, O. 2000. Four new species of Hieracium L. (Compositae) from NE Turkey. Willdenowia, 30: 279-291.
• Gravendeel, B., Chase, M.W. De Vogel, E.F. 2001. Molecular phylogeny of Coelogyne (Epidendroideae; Orchidaceae) based on plastid RFLPs, matK, and nuclear ribosomal ITS sequences: Evidence for polyphyly. American Journal of Botany, 88: 1915- 1927.
• Hall, T.A. 1999. BioEdit: A user-friendly biological sequence alignment editor and analysis program for windows 95/98/NT. Nucleic Acids Symposium Series, 41: 95-98.
• Häffner, E., Hellwig, F.H. 1999. Phylogeny of the tribe Cardueae (Compositae) with emphasis on the subtribe Carduinae: an analysis based on ITS sequence data. Willdenowia 29: 27-39.
• Kim, K.J., Turner, B.L., Jansen, R.K. 1992. Phylogenetic and evolutionary implications of interspecific chloroplast DNA variation in Krigia (Asteracea-Lactuceae). Systematic Botany, 17: 449-469.
• Koltunow, A.M. 2000. The genetic and molecular analysis of apomixis in the model plant Hieracium. Acta Biologica Cracoviensia series Botanica, 42: 61-72.
• Kumar, S., Tamura, K., Nei, M. 2004. MEGA3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Briefings in Bioinformatics, 5: 150-163.
• Meriç, Ç and Güler, N. 2013. Nuclear DNA content of an endemic species for Turkey: Silene sangaria . Biological Diversity and Conservation, 6: 88-92.
• Mes, T.H.M., Kuperus, P., Kirschner, J., Štěpánek, J., Štorchová, H., Oosterveld, P., Den Nijs, J.C. 2002. Detection of genetically divergent clone mates in apomictic dandelions. Molecular Ecology, 11: 253-265.
• Mráz, P., Chrtek. J., Kirschner, J. 2001. Genetic variation in the Hieracium rohacsense group (Hieracium sect. Alpina). Phyton, 41: 269-276.
• Mráz, P., Kovalčíkovă, K., Marhold, K. 2002. Pollen shapes and size in Hieracium and related genera. In: Gutterman W (ed) Contribution abstracts (lectures and posters) from 6th Hieracium workshop, Hirschegg, Kleinwalsertal ( Österreich). Institut für Botanik der Universität Wien, Wien, p 27.
• Mráz P (2003) Mentor effects in the genus Hieracium s. str.(Compositae, Lactuceae). Folia Geobot 38:345–350
• Mráz, P., Chrtek, J., Fehrer, J. Plačkovă, I. 2005. Rare recent natural hybridization in the genus Hieracium s. str.—evidence from morphology, allozymes and chloroplast DNA. Plant Systematics and Evolution, 255:177–192.
• Mráz, P., Chrtek, J. Śingliarovă, B. 2009. Geographical parthenogenesis, genome size variation and pollen production in the arcticalpine species Hieracium alpinum. Botanica Helvetica, 119:41–51.
• Mráz, P., Chrtek, J., Fehrer, J. 2011. Interspecific hybridization in the genus Hieracium s. str.: evidence for bidirectional gene flow and spontaneous allopolyploidization. Plant Systematics and Evolution, 293:237–245.
• Nogler, G.A. 1984. Gametophytic Apomixis In: Johri B. M. (ed.), Embryology of Angiosperms, 475-518. Springer-Verlag, Berlin.
• Noyes, R.D. 2006. Intraspesific nuclear ribosomal DNA divergence and reticulation in sexual diploid Erigeron strigosus (Asteraceae). American Journal of Botany, 93: 470-479.
• Rich, T.C.G., McDonnell, E.J., Lledó, M.D. 2008. Conservation of Britain’s biodiversity: the case of Hieracium cyathis (Asteraceae) and its relation to other apomictic taxa. Botanical Journal of the Linnean Society, 156: 669-680.
• Ronikier, M., Szeląg, Z. 2008. Differentiation among disjunct population of agamospermous species of Hieracium section Cernua (Asteraceae) in Central European subalpine habitats. Botanical Journal of the Linnean Society,58: 93-105.
• Saitou, N., Nei, M. 1987. The Neighbor-Joining method: A new method for reconstructing phylogenetic trees. Molecular Phylogenetics and Evolution, 4: 406-425.
• Schuhwerk, F., Lippert, W. 1998. Chromosomenzahlen von Hieracium (Compositae, Lactuceae) Teil 2. Sendtnera, 5: 269-286.
• Sell, P.D., West, C. 1974. Hieracium L. (Compositae). In: Davis PH (ed.) Flora of Turkey and the East Aegean Islands, Vol. 5, pp. 696-746. Edinburgh: Edinburgh University Press.
• Shi, Y., Gornall, R.J., Draper, J. Stace, C.A. 1996. Intraspecific molecular variation in Hieracium sect. Alpina (Asteraceae), an apomictic group. Folia Geobotanica and Phytotaxonomica, 31: 305-313.
• Slade, K., Rich, T.C.G. 2007. Pollen studies in British Hieracium sect. Alpina (Asteraceae). Watsonia, 26:443–450
• Štorchová, H., Chrtek, J. Jr., Bartish, I.V., Tetera, M., Kirschner, J., Štěpánek, J. 2002. Genetic variation in agamospermous taxa of Hieracium sect. Alpina (Compositae) in the Tatry Mts (Slovakia). Plant Systematics and Evolution, 235: 1-17.
• Susanna, A., Garcia-Jacas, N., Soltis, D.E., Soltis, P.S. 1995. Phylogenetic relationships in tribe Cardueae (Asteracea) based on ITS sequences. American Journal of Botany, 82: 1056-1068.
• Susanna, A., Garnatje, T., Garcia-Jacas, N. 1999. Molecular phylogeny of Cheirolophus (Asteraceae: Cardueae-Centaureinae) based on ITS sequences of nuclear ribosomal DNA. Plant Systematics and Evolution 214: 147-160.
• Tyler, T. 2000. Detecting migration routes and barriers by examining the distribution of species in an apomictic complex. Journal of Biogeography, 27: 979-988.
• Vilatersana, R., Susanna, A., Garcia-Jacas, N., Garnatje, T. 2000. Generic delimitation and phylogeny of the Carduncellus- Carthamus complex (Asteraceae) based on ITS sequences. Botanical Journal of the Linnean Society, 221: 89-105.
• Vladimirov, V. 2003. A new diploid Hieracium (Asteraceae Lactuceae) from Bulgaria. Botanical Journal of the Linnean Society, 143: 213-218.
• White, T.J., Bruns, T., Lee, S. Taylor, J. 1990. Amplification and Direct Sequencing of Fungal Ribosomal RNA Genes for Phylogenetics. In: Innis M.A., Gelfand D., Sninsky, J., White, T.J. (eds.) PCR Protocols: A Guide to Methods and Application, 315-322. San Diego: Academic Press.