Year 2021, Volume 11 , Issue 2, Pages 1504 - 1518 2021-06-01

The Evaluations and Comparisons of Nuclear and Chloroplast DNA Regions Based on Species Identification and Phylogenetic Relationships of Crocus L. Taxa
The Evaluations and Comparisons of Nuclear and Chloroplast DNA Regions Based on Species Identification and Phylogenetic Relationships of Crocus L. Taxa

Aykut YILMAZ [1]


The genus Crocus L. (Iridaceae) consists of about 200 species distributed from western Europe and north west Africa to western China. The genus is taxonomically very problematic and day after day it becomes more difficult to understand the relationships between Crocus species because of the identification of new species. Recently, the studies based on DNA sequences are frequently used for the solution of taxonomic problems, the determination of species diversity and especially the evaluation of phylogenetic relationships among the studied taxa. The use of the regions belonging to nuclear DNA and especially chloroplast genome and the combinations of these regions are frequently recommended in many studies. However, there is no information about suitable barcoding regions that can be used for all plant groups. This study focuses on determination of the most succesful barcoding regions, understanding the species discrimination abilities and finally evaluation of phylogenetic relationships among the Crocus taxa using one region from nuclear DNA (ITS1-5.8S rRNA gene-ITS2) and four regions from chloroplast DNA (1. trnK-matK IGS, 2. partial psbA gene-psbA/trnH IGS-partial trnH gene, 3. rpoC1 gene, 4. partial trnL gene-trnL/trnF IGS-partial trnF gene). Sequence informations for related DNA regions were obtained from NCBI. As a result, it can be stated that the region which is only covering ITS1-5.8S rRNA gene-ITS2 separated the all taxa in species level and it is more beneficial for the phylogenetically evaluation of Crocus taxa. Furthermore, dendrogram show taxonomic problems belonging to some species in the genus such as C. biflorus taxa.
The genus Crocus L. (Iridaceae) consists of about 200 species distributed from western Europe and north west Africa to western China. The genus is taxonomically very problematic and day after day it becomes more difficult to understand the relationships between Crocus species because of the identification of new species. Recently, the studies based on DNA sequences are frequently used for the solution of taxonomic problems, the determination of species diversity and especially the evaluation of phylogenetic relationships among the studied taxa. The use of the regions belonging to nuclear DNA and especially chloroplast genome and the combinations of these regions are frequently recommended in many studies. However, there is no information about suitable barcoding regions that can be used for all plant groups. This study focuses on determination of the most succesful barcoding regions, understanding the species discrimination abilities and finally evaluation of phylogenetic relationships among the Crocus taxa using one region from nuclear DNA (ITS1-5.8S rRNA gene-ITS2) and four regions from chloroplast DNA (1. trnK-matK IGS, 2. partial psbA gene-psbA/trnH IGS-partial trnH gene, 3. rpoC1 gene, 4. partial trnL gene-trnL/trnF IGS-partial trnF gene). Sequence informations for related DNA regions were obtained from NCBI. As a result, it can be stated that the region which is only covering ITS1-5.8S rRNA gene-ITS2 separated the all taxa in species level and it is more beneficial for the phylogenetically evaluation of Crocus taxa. Furthermore, dendrogram show taxonomic problems belonging to some species in the genus such as C. biflorus taxa.
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Primary Language en
Subjects Science
Published Date Haziran-2021
Journal Section Moleküler Biyoloji ve Genetik / Moleculer Biology and Genetic
Authors

Orcid: 0000-0002-0327-8388
Author: Aykut YILMAZ (Primary Author)
Institution: Uşak Üniversitesi
Country: Turkey


Dates

Application Date : September 7, 2020
Acceptance Date : December 3, 2020
Publication Date : June 1, 2021

Bibtex @research article { jist791414, journal = {Journal of the Institute of Science and Technology}, issn = {2146-0574}, eissn = {2536-4618}, address = {}, publisher = {Igdir University}, year = {2021}, volume = {11}, pages = {1504 - 1518}, doi = {10.21597/jist.791414}, title = {The Evaluations and Comparisons of Nuclear and Chloroplast DNA Regions Based on Species Identification and Phylogenetic Relationships of Crocus L. Taxa}, key = {cite}, author = {Yılmaz, Aykut} }
APA Yılmaz, A . (2021). The Evaluations and Comparisons of Nuclear and Chloroplast DNA Regions Based on Species Identification and Phylogenetic Relationships of Crocus L. Taxa . Journal of the Institute of Science and Technology , 11 (2) , 1504-1518 . DOI: 10.21597/jist.791414
MLA Yılmaz, A . "The Evaluations and Comparisons of Nuclear and Chloroplast DNA Regions Based on Species Identification and Phylogenetic Relationships of Crocus L. Taxa" . Journal of the Institute of Science and Technology 11 (2021 ): 1504-1518 <https://dergipark.org.tr/en/pub/jist/issue/61423/791414>
Chicago Yılmaz, A . "The Evaluations and Comparisons of Nuclear and Chloroplast DNA Regions Based on Species Identification and Phylogenetic Relationships of Crocus L. Taxa". Journal of the Institute of Science and Technology 11 (2021 ): 1504-1518
RIS TY - JOUR T1 - The Evaluations and Comparisons of Nuclear and Chloroplast DNA Regions Based on Species Identification and Phylogenetic Relationships of Crocus L. Taxa AU - Aykut Yılmaz Y1 - 2021 PY - 2021 N1 - doi: 10.21597/jist.791414 DO - 10.21597/jist.791414 T2 - Journal of the Institute of Science and Technology JF - Journal JO - JOR SP - 1504 EP - 1518 VL - 11 IS - 2 SN - 2146-0574-2536-4618 M3 - doi: 10.21597/jist.791414 UR - https://doi.org/10.21597/jist.791414 Y2 - 2020 ER -
EndNote %0 Iğdır Üniversitesi Fen Bilimleri Enstitüsü Dergisi The Evaluations and Comparisons of Nuclear and Chloroplast DNA Regions Based on Species Identification and Phylogenetic Relationships of Crocus L. Taxa %A Aykut Yılmaz %T The Evaluations and Comparisons of Nuclear and Chloroplast DNA Regions Based on Species Identification and Phylogenetic Relationships of Crocus L. Taxa %D 2021 %J Journal of the Institute of Science and Technology %P 2146-0574-2536-4618 %V 11 %N 2 %R doi: 10.21597/jist.791414 %U 10.21597/jist.791414
ISNAD Yılmaz, Aykut . "The Evaluations and Comparisons of Nuclear and Chloroplast DNA Regions Based on Species Identification and Phylogenetic Relationships of Crocus L. Taxa". Journal of the Institute of Science and Technology 11 / 2 (June 2021): 1504-1518 . https://doi.org/10.21597/jist.791414
AMA Yılmaz A . The Evaluations and Comparisons of Nuclear and Chloroplast DNA Regions Based on Species Identification and Phylogenetic Relationships of Crocus L. Taxa. Iğdır Üniv. Fen Bil Enst. Der.. 2021; 11(2): 1504-1518.
Vancouver Yılmaz A . The Evaluations and Comparisons of Nuclear and Chloroplast DNA Regions Based on Species Identification and Phylogenetic Relationships of Crocus L. Taxa. Journal of the Institute of Science and Technology. 2021; 11(2): 1504-1518.
IEEE A. Yılmaz , "The Evaluations and Comparisons of Nuclear and Chloroplast DNA Regions Based on Species Identification and Phylogenetic Relationships of Crocus L. Taxa", Journal of the Institute of Science and Technology, vol. 11, no. 2, pp. 1504-1518, Jun. 2021, doi:10.21597/jist.791414