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Determining Phylogenetic Relationships of Some Endemic and Rare Astragalus Taxa in the Van Lake BasinDetermining Phylogenetic Relationships of Some Endemic and Rare Astragalus Taxa in the Van Lake Basin

Year 2023, Volume: 26 Issue: 4, 806 - 814, 31.08.2023

İlhan Kaya

https://doi.org/10.18016/ksutarimdoga.vi.1183518

Abstract

Astragalus, the most diverse genus in the world, contains about 3000 different taxa. This genus has 489 taxa and 63 sections in Turkey, giving it a 51% endemism rate. 82 Astragalus taxa were collected from the Van Lake Basin in 2019 for this research. These species' morphological diagnoses revealed that four of them were rare and 17 of them were endemic. In this research, the universal primers ITS4 and ITS5 were used to amplify the ITS1 and ITS2 sections, which included the 5.8S gene of rDNA. Different programs (SnapGene, CLC DNA Workbench) were used to analyze the genome information of species in the genus Astragalus. The DNA sequences of Astragalus species have been uploaded to the GenBank database of the National Center for Biotechnology Information (NCBI) (Maryland, USA), which is open to all researchers worldwide. The length of the ITS in the study, including the 5.8S sequence, varied from 669 to 687 bp. The results showed that the phylogenetic tree combined with the most stable secondary (20) structure obtained from the universal ITS4 and ITS5 primers is an effective tool for the identification of Astragalus taxa.

Keywords

Astragalus Molecular phylogeny ITS Endemism

Project Number

FYL-2019-8085

References

  • Abd El-Ghani, M. M., El-Sayed, A. S., Moubarak, A., Rashad, R., Nosier, H., & Khattab, A. (2021). Biosystematic study on some Egyptian species of Astragalus L.(Fabaceae). Agriculture, 11(2), 125.
  • Atasagun, B., Aksoy, A., Güllü, I. B., & Albayrak, S. (2021). Reproductive Biology of Astragalus argaeus (Fabaceae), a critically endangered endemic species. Anais da Academia Brasileira de Ciências, 93. https://doi.org/10.1590/0001-3765202120201613.
  • Ateş, M. A. (2017). Molecular phylogenetic relationships of six Astragalus L. sections (Halicacabus, Megalocystis, Macrophyllium, Hymenostegis, Hymenocoleous, Poterion) Native to Turkey based on cpDNA and nDNA regions (Tez no 489408). [Ph.D. Middle East Technical University Graduate School of Natural and Applied Sciences, Department of Biology]. National Thesis Center of the Council of Higher Education.
  • Aytac, Z., & Ekici, M. (2012). Astragalus. In: Güner, A. et al. (eds), list of plants of Turkey (Veined plants). Nezahat Gökyiğit Botanical Garden and Flora Publication, İstanbul, TR: Ed. Güner A. 427-456 pp.
  • 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(1), 3-16. https://doi.org/10.1016/1055-7903(92)90030.
  • Baldwin, B. G., Sanderson, M. J., Porter, J. M., Wojciechowski, M. F., Campbell, C. S., & Donoghue, M. J. (1995). Its region of nuclear ribosomal DNA: A valuable source of evidence on angiosperm phylogeny. Annals of the Missouri Botanical Garden, 82 (2), 247-277. https://doi.org/10.2307/ 2399880.
  • Başbağ, M., Kavak, B., Fırat, M., Çaçan, E., & Sayar, M. S. (2018). Endemic Astragalus taxa found in flora of Turkey. International Congress on Agriculture and Animal Sciences (ICAGAS 2018). November 2018, Alanya, Turkey. Prooceding Book: 685-694p.
  • Chamberlain, D. F., & Mathews, M. A. (1970). Astragalus (Flora of Turkey and the East Aegean Islands ) (Vol.3). Edinburgh University Press, Edinburgh. Davis P. H. (ed.). 60-69 pp. Chastain, M. & Tinoco J, I. (1991). Structural elements in RNA. Progress in nucleic acid research and molecular biology, 41, 131-177. https://doi.org/ 10.1016/S0079-6603(08)60008-2
  • Duran, A., & Aytaç, Z. (2005). Astragalus nezaketae (Fabaceae), a new species from Turkey. In Annales Botanici Fennici , 42(5), 381-385.
  • Davis, P. H., Mill, R. R., & Tan, K. (eds.) (1988). Astragalus L. (Flora of Turkey and the East Aegean Islands) (Suppl. 1, Vol. 10). Edinburgh, UK: Edinburgh University Press, 114-124.
  • Kress, W. J., Wurdack, K. J., Zimmer, E. A., Weigt, L. A., & Janzen, D. H. (2005). Use of DNA barcodes to identify flowering plants. Proceedings of the National Academy of Sciences, 102(23), 8369-8374.
  • Kress, W. J. (2017). Plant DNA barcodes: Applications today and in the future. Journal of systematics and evolution, 55(4), 291-307.
  • Osaloo, S. K., Maassoumi, A. A. & Murakami, N. (2003). Molecular systematics of the genus Astragalus L. (Fabaceae): phylogenetic analyses of nuclear ribosomal DNA internal transcribed spacers and chloroplast gene ndhF sequences. Plant Systematics and Evolution, 242(1), 1-32. https://doi.org/10.1007/ s00606-003-0014-1.
  • Pahlevani, A. H., Maassoumi, A. A., & Osaloo, S. K. (2020). What is" Astragalus wiesneri"? Disentangling a new species from its relatives in the section" Anthylloidei". In Anales del Jardín Botánico de Madrid, 77(2), 6. https://doi.org/ 10.3989/ajbm.2573.
  • Petrov, A. S., Bernier, C. R., Gulen, B., Waterbury, C. C., Hershkovits, E., Hsiao, C., Harvey, S. C., Hud, N. V., Fox, G. E., Wartell, R. M., & Williams, L. D. (2014). Secondary structures of rRNAs from all three domains of life. PLoS One, 9(2), e88222. https: //doi. org/ 10. 1371/journal .pone.0088222.
  • Podlech, D. (1986). Taxonomic and phytogeographical problems in Astragalus of the Old World and South-West Asia. Proceedings of the Royal Society of Edinburgh, Section B: Biological Sciences, 89, 37-43. https://doi.org/10.1017/S0269727000008885.
  • Podlech, D. (1999). Papilionaceae III, Astragalus I. In: Rechinger, K. H. (ed.) Flora Iranica, (Vol. 174). Graz, Austria: Akademische Druck-u. Verlagsanstalt.
  • Podlech, D., & Zarre, S. (2013). [With the collaboration of Ekici, M., Maassoumi, A. A., & Sytin, A.] A taxonomic revision of the genus Astragalus L. (Leguminosae) in the Old World. (Vols. 1-3). Naturhistorisches Museum Wien, 2439 pp.
  • Roofigar, A. A., & Maassoumi, A. A. (2020). A new species of Astragalus section Dissitiflori (Fabaceae) from Iran; evidence from morphological and molecular data. Iranian Journal of Botany, 26(1), 6-15.
  • Sambrook, J., Fritsch, E. F., & Maniatis, T. (1989). Molecular Cloning: A laboratory manual. Cold spring harbor laboratory press, New York, 34 pp.
  • White, T. J., Bruns, T., Lee, S. J. W. T., & Taylor, J. (1990). Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. PCR protocols: a guide to methods and applications, 18(1), 315-322. http://dx.doi.org/ 10.1016/B978-0-12-372180-8.50042-1.
  • Yokoyama, J., Suzuki, M., Iwatsuki, K. & Hasebe, M. (2000). Molecular phylogeny of Coriaria, with special emphasis on the disjunct distribution. Molecular Phylogenetics and Evolution, 14 (1), 11-19. https://doi.org/10.1006/ mpev.1999.0672.
  • Zhang, D., & Jiang, B. (2020). Species identification in complex groups of medicinal plants based on DNA barcoding: a case study on Astragalus spp. (Fabaceae) from southwest China. Conservation Genetics Resources, 12, 469-478.

Van Gölü Havzası’nda Bazı Endemik ve Nadir Astragalus Taksonlarının Filogenetik İlişkilerinin Belirlenmesi

Year 2023, Volume: 26 Issue: 4, 806 - 814, 31.08.2023

İlhan Kaya

https://doi.org/10.18016/ksutarimdoga.vi.1183518

Abstract

Dünyanın en çeşitli cinsi olan Astragalus, yaklaşık 3000 farklı takson içermektedir. Bu cins Türkiye'de 489 takson ve 63 bölüme sahiptir ve bu da ona %51 endemizm oranı vermektedir. Bu araştırma için 2019 yılında Van Gölü Havzası'ndan 82 Astragalus taksonu toplanmıştır. Bu türlerin morfolojik tanıları, dördünün nadir, 17'sinin endemik olduğunu ortaya koymuştur. Bu araştırmada, rDNA'nın 5.8S genini içeren ITS1 ve ITS2 bölümlerini çoğaltmak için evrensel primerler olan ITS4 ve ITS5 kullanılmıştır. Astragalus cinsindeki türlerin genom bilgilerini analiz etmek için farklı programlar (SnapGene, CLC DNA Workbench) kullanılmıştır. Astragalus türlerinin DNA dizileri, Ulusal Biyoteknoloji Bilgi Merkezi'nin (NCBI) (Maryland, USA) dünya çapında tüm araştırmacılara açık olan GenBank veri tabanına yüklenmiştir. 5.8S dizisi de dahil olmak üzere çalışmadaki ITS uzunluğu 669 ila 687 bp arasında değişmiştir. Sonuçlar, evrensel ITS4 ve ITS5 primerlerinden elde edilen en kararlı ikincil (20) yapı ile birleştirilen filogenetik ağacın, Astragalus taksonlarının tanımlanması için etkili bir araç olduğunu göstermiştir.

Keywords

Astragalus Moleküler filogeni ITS Endemizm

Supporting Institution

Van Yüzüncü Yıl Üniversitesi Bilimsel Araştırmalar Proje Başkanlığı

Project Number

FYL-2019-8085

Thanks

Van Yüzüncü Yıl Üniversitesi Bilimsel Araştırmalar Proje Başkanlığına teşşekür ederiz

References

  • Abd El-Ghani, M. M., El-Sayed, A. S., Moubarak, A., Rashad, R., Nosier, H., & Khattab, A. (2021). Biosystematic study on some Egyptian species of Astragalus L.(Fabaceae). Agriculture, 11(2), 125.
  • Atasagun, B., Aksoy, A., Güllü, I. B., & Albayrak, S. (2021). Reproductive Biology of Astragalus argaeus (Fabaceae), a critically endangered endemic species. Anais da Academia Brasileira de Ciências, 93. https://doi.org/10.1590/0001-3765202120201613.
  • Ateş, M. A. (2017). Molecular phylogenetic relationships of six Astragalus L. sections (Halicacabus, Megalocystis, Macrophyllium, Hymenostegis, Hymenocoleous, Poterion) Native to Turkey based on cpDNA and nDNA regions (Tez no 489408). [Ph.D. Middle East Technical University Graduate School of Natural and Applied Sciences, Department of Biology]. National Thesis Center of the Council of Higher Education.
  • Aytac, Z., & Ekici, M. (2012). Astragalus. In: Güner, A. et al. (eds), list of plants of Turkey (Veined plants). Nezahat Gökyiğit Botanical Garden and Flora Publication, İstanbul, TR: Ed. Güner A. 427-456 pp.
  • 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(1), 3-16. https://doi.org/10.1016/1055-7903(92)90030.
  • Baldwin, B. G., Sanderson, M. J., Porter, J. M., Wojciechowski, M. F., Campbell, C. S., & Donoghue, M. J. (1995). Its region of nuclear ribosomal DNA: A valuable source of evidence on angiosperm phylogeny. Annals of the Missouri Botanical Garden, 82 (2), 247-277. https://doi.org/10.2307/ 2399880.
  • Başbağ, M., Kavak, B., Fırat, M., Çaçan, E., & Sayar, M. S. (2018). Endemic Astragalus taxa found in flora of Turkey. International Congress on Agriculture and Animal Sciences (ICAGAS 2018). November 2018, Alanya, Turkey. Prooceding Book: 685-694p.
  • Chamberlain, D. F., & Mathews, M. A. (1970). Astragalus (Flora of Turkey and the East Aegean Islands ) (Vol.3). Edinburgh University Press, Edinburgh. Davis P. H. (ed.). 60-69 pp. Chastain, M. & Tinoco J, I. (1991). Structural elements in RNA. Progress in nucleic acid research and molecular biology, 41, 131-177. https://doi.org/ 10.1016/S0079-6603(08)60008-2
  • Duran, A., & Aytaç, Z. (2005). Astragalus nezaketae (Fabaceae), a new species from Turkey. In Annales Botanici Fennici , 42(5), 381-385.
  • Davis, P. H., Mill, R. R., & Tan, K. (eds.) (1988). Astragalus L. (Flora of Turkey and the East Aegean Islands) (Suppl. 1, Vol. 10). Edinburgh, UK: Edinburgh University Press, 114-124.
  • Kress, W. J., Wurdack, K. J., Zimmer, E. A., Weigt, L. A., & Janzen, D. H. (2005). Use of DNA barcodes to identify flowering plants. Proceedings of the National Academy of Sciences, 102(23), 8369-8374.
  • Kress, W. J. (2017). Plant DNA barcodes: Applications today and in the future. Journal of systematics and evolution, 55(4), 291-307.
  • Osaloo, S. K., Maassoumi, A. A. & Murakami, N. (2003). Molecular systematics of the genus Astragalus L. (Fabaceae): phylogenetic analyses of nuclear ribosomal DNA internal transcribed spacers and chloroplast gene ndhF sequences. Plant Systematics and Evolution, 242(1), 1-32. https://doi.org/10.1007/ s00606-003-0014-1.
  • Pahlevani, A. H., Maassoumi, A. A., & Osaloo, S. K. (2020). What is" Astragalus wiesneri"? Disentangling a new species from its relatives in the section" Anthylloidei". In Anales del Jardín Botánico de Madrid, 77(2), 6. https://doi.org/ 10.3989/ajbm.2573.
  • Petrov, A. S., Bernier, C. R., Gulen, B., Waterbury, C. C., Hershkovits, E., Hsiao, C., Harvey, S. C., Hud, N. V., Fox, G. E., Wartell, R. M., & Williams, L. D. (2014). Secondary structures of rRNAs from all three domains of life. PLoS One, 9(2), e88222. https: //doi. org/ 10. 1371/journal .pone.0088222.
  • Podlech, D. (1986). Taxonomic and phytogeographical problems in Astragalus of the Old World and South-West Asia. Proceedings of the Royal Society of Edinburgh, Section B: Biological Sciences, 89, 37-43. https://doi.org/10.1017/S0269727000008885.
  • Podlech, D. (1999). Papilionaceae III, Astragalus I. In: Rechinger, K. H. (ed.) Flora Iranica, (Vol. 174). Graz, Austria: Akademische Druck-u. Verlagsanstalt.
  • Podlech, D., & Zarre, S. (2013). [With the collaboration of Ekici, M., Maassoumi, A. A., & Sytin, A.] A taxonomic revision of the genus Astragalus L. (Leguminosae) in the Old World. (Vols. 1-3). Naturhistorisches Museum Wien, 2439 pp.
  • Roofigar, A. A., & Maassoumi, A. A. (2020). A new species of Astragalus section Dissitiflori (Fabaceae) from Iran; evidence from morphological and molecular data. Iranian Journal of Botany, 26(1), 6-15.
  • Sambrook, J., Fritsch, E. F., & Maniatis, T. (1989). Molecular Cloning: A laboratory manual. Cold spring harbor laboratory press, New York, 34 pp.
  • White, T. J., Bruns, T., Lee, S. J. W. T., & Taylor, J. (1990). Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. PCR protocols: a guide to methods and applications, 18(1), 315-322. http://dx.doi.org/ 10.1016/B978-0-12-372180-8.50042-1.
  • Yokoyama, J., Suzuki, M., Iwatsuki, K. & Hasebe, M. (2000). Molecular phylogeny of Coriaria, with special emphasis on the disjunct distribution. Molecular Phylogenetics and Evolution, 14 (1), 11-19. https://doi.org/10.1006/ mpev.1999.0672.
  • Zhang, D., & Jiang, B. (2020). Species identification in complex groups of medicinal plants based on DNA barcoding: a case study on Astragalus spp. (Fabaceae) from southwest China. Conservation Genetics Resources, 12, 469-478.
There are 23 citations in total.

Details

Primary Language Turkish
Subjects Agricultural, Veterinary and Food Sciences
Journal Section RESEARCH ARTICLE
Authors

İlhan Kaya 0000-0002-1271-4479

Project Number FYL-2019-8085
Early Pub Date May 15, 2023
Publication Date August 31, 2023
Submission Date October 3, 2022
Acceptance Date January 23, 2023
Published in Issue Year 2023 Volume: 26 Issue: 4

Cite

APA Kaya, İ. (2023). Van Gölü Havzası’nda Bazı Endemik ve Nadir Astragalus Taksonlarının Filogenetik İlişkilerinin Belirlenmesi. Kahramanmaraş Sütçü İmam Üniversitesi Tarım Ve Doğa Dergisi, 26(4), 806-814. https://doi.org/10.18016/ksutarimdoga.vi.1183518
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