Ancient DNA (aDNA) extraction and amplification from 3500-year-old charred economic crop seeds from Kaymakçı in Western Turkey: comparative sequence analysis using the 26S rDNA gene

Date

2019-08-01

Author

Çiftçi, Asiye
Luke, Christina
Roosevelt, Christopher H.
Marston, John M.
Kaya, Zeki

Metadata

Show full item record

This work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.

Item Usage Stats

129
views

0
downloads

Ancient DNA (aDNA) from 3500-4000years old seeds of Triticum aestivum L. or Triticum durum Dest., Vicia ervillia (L) Willd., Cicer arietinum L. and Vitis vinifera L. excavated from the archaeological site of Kaymakc was successfully extracted using various isolation methods. The genomic DNA of each species was amplified with respect to the26S ribosomal DNA (rDNA) gene further using the aDNA of the seeds. The reasons for successful DNA extraction and amplification are likely due to (1) preservation of certainancient seed specimens in good conditions and (2) use of improved DNA extraction and amplification methods. The results indicate that all seeds were identified correctly by the DNA sequence data from the 26S rDNA gene. Specifically, amorphologically unidentified wheat seed from Kaymakc was characterized by DNA sequence data as bread wheat (Triticum aestivum). Comparative sequence analysis revealed that specific base positions in the ancient 26S rDNA gene were either lost or substituted with different DNA bases in contemporary seeds, most likely due to continued domestication and breeding activities. Attaining high amounts and a good quality of amplified genomic DNA from ancient seeds will further allow the investigation of the extent of genetic change between ancient seeds and their contemporary species in genetic diversity studies.

Subject Keywords

Agronomy and Crop Science, Plant Science, Genetics, Ecology, Evolution, Behavior and Systematics

URI

https://hdl.handle.net/11511/46632

Journal

Genetic Resources and Crop Evolution

DOI

https://doi.org/10.1007/s10722-019-00783-9

Collections

Department of Biology, Article

Suggestions

OpenMETU
Core

Genetic relationships among perennial and annual Cicer species growing in Turkey as revealed by allozymes Sudupak, MA; Kence, Aykut (Springer Science and Business Media LLC, 2004-05-01) Allozyme polymorphisms were used to assess genetic variation and relationships among ten Cicer species ( annuals and perennials) growing in Turkey. Using seven enzyme systems, 12 putative scorable loci were detected and surveyed for polymorphism in an accession collection including wild and cultivated forms. Variation was generally low within accessions and species, but common between species. Cluster analysis based on the pairwise genetic distance coefficients (Nei 1978) among accessions and species using ...
Comparative molecular phylogenetics of Astragalus L. sections from Turkey with New World Astragalus species using nrDNA ITS sequences Dizkirici, Ayten; EKİCİ, MURAT; Kaya, Zeki (Springer Science and Business Media LLC, 2014-01-01) Comparative molecular phylogenetic study using nrDNA internal transcribed spacer region (ITS) sequences was carried out on species from three Astragalus L. (Fabaceae) sections from Turkey (Old World species) and the New World. A total of 56 taxa (179 accessions) including 30 species from Incani DC., 15 species from Hypoglottidei DC. and 11 species from Dissitiflori DC. section were used in the current study. The total length of the ITS region was 642 bp with 56 (8.7 %) parsimony-informative and 9 insertion\...
INHIBITION AND RECOVERY OF PHOTOSYSTEM-II FOLLOWING EXPOSURE OF WHEAT TO HEAT-SHOCK YUCEL, M; BURKE, JJ; NGUYEN, HT (Elsevier BV, 1992-04-01) Two wheat (Triticum aestivum L.) cultivars, Mustang and Sturdy, have been shown to exhibit genetic diversity in acquired thermal tolerance following exposure to 37-degrees-C. The present study used chlorophyll fluorescence to investigate (1) the sensitivity of photosystem II (PS II) to 37-degrees-C treatments, and (2) the recovery of PS II variable fluorescence at 22-degrees-C following heat treatment. The purpose was to determine if the observed diversity in cellular thermotolerance was related to differen...
A numerical taxonomic study of the genus Acantholimon Boiss Plumbaginaceae in Ankara Province Turkey MUVAFFAK, Aslı; Doğan, Musa; Bilgin, Cemal Can (Laser Pages Publishing Ltd., 2001-01-01) This study examines whether a satisfactory classification of Acantholimon Boiss. (Plumbaginaceae) species found in Ankara province (Turkey) can be obtained from phenctic clustering based on external vegetative and floral morphological characters of both herbarium and collected specimens, The study is on the following species: A. venustum Boiss., A, halophilium Bokhari., A. acerosum (Willd.) Boiss., A. kotschyi (Jaub. & Spach) Boiss., A. confertiflorum Bokhari., A. glumaceum (Jaub. & Spach) Boiss., A. casare...
A taxonomic revision of the Sempervivum davisii complex (Crassulaceae) KARAER, FERGAN; CELEP, FERHAT; Eggli, Urs (Wiley, 2011-01-01) A revision of four Sempervivum species (S. artvinense, S. brevipetalum, S. davisii and S. furseorum) based on field observation and examination of herbarium specimens (including the type specimens of all names) is presented. Examination of critical diagnostic characters showed that S. artvinense, S. brevipetalum and S. furseorum fall within the variability of S. davisii and should be subsumed as synonyms under this name. Sempervivum furseorum shows minor but consistent morphological and ecological differenc...

Citation Formats

A. Çiftçi, C. Luke, C. H. Roosevelt, J. M. Marston, and Z. Kaya, “Ancient DNA (aDNA) extraction and amplification from 3500-year-old charred economic crop seeds from Kaymakçı in Western Turkey: comparative sequence analysis using the 26S rDNA gene,” Genetic Resources and Crop Evolution, pp. 1279–1294, 2019, Accessed: 00, 2020. [Online]. Available: https://hdl.handle.net/11511/46632.