Investigation of Persian black cumin (Bunium persicum Boiss. ) transcriptome in the granulation stage and identification of its genomic microsatellites (SSR)

Q: How can I download an article?

To download an article from SID, first log in to the site, search for the article title, and click on the 'Download Article' option.

Q: How can I download an ISI article?

To download an ISI article on SID, enter the keyword or article title in the search bar, view the relevant results, click on the desired article, and select the 'Download Article' option.

Q: How can I access the SID database?

To access the SID database, visit SID.ir, create an account, and log in to access scientific resources.

Q: Is downloading articles from SID free?

Some articles on SID are available for free, while others require payment. Details are specified on the article's page.

Samandari Bahraseman M.R.; Ismaili A.; Esmaeili Mahan S.; Ebrahimie E.; Loit E.

مرکز اطلاعات علمی Scientific Information Database (SID) - Trusted Source for Research and Academic Resources

Journal Paper

Paper Information

Journal: Iranian Journal of Rangelands and Forests Plant Breeding and Genetic Research Year:2022 | Volume:30 | Issue:1 Page(s): 1-15

Download Full-Text

Persian Verion

View:

Download:

Cites:

Information Journal Paper

Title

Investigation of Persian black cumin (Bunium persicum Boiss. ) transcriptome in the granulation stage and identification of its genomic microsatellites (SSR)

Author(s)

Keywords

Next Generation Sequencing

marker

denovo Assembly

Functional Annotation

Abstract

Persian black cumin is one of the most important endemic plants to Iran. Its seed is used in the daily diet of Iranians and also has medicinal properties and aromatic compounds. Unfortunately, there is little information about its genome and molecular markers. In this study, the transcriptome of Iranian black cumin was sequenced in the granulation stage and after extracting the microsatellites (SSR markers) related to this growth stage, their interpretation was done. After RNA extraction, the inflorescences and stems were sequenced. Sequencing depth and length were 6 GB and 150 bp pair-end, respectively. Sequencing data were analyzed using different softwares. De-novo assembly of Persian black cumin was performed by Trinity software. Microsatellite markers were extracted using MISA software. Finally, the functional interpretation of the microsatellite-containing sequences was performed by the WEGO database. The GC content of different samples was 47 to 50%. 8389 microsatellite markers were obtained from 45146 unigenes. At least 11% of unigenes contained microsatellites. A/T and AG/CT nucleotides had the highest percentage of microsatellite markers. Among the three nucleotide repeats, ATC/ATG and AAG/CTT had the highest frequency of microsatellites. The results of functional interpretation showed that unigenes containing microsatellite markers cover a wide range of biological activities of Persian black cumin and the genes involved in seed development and growth have a high level of expression. This study is the first report of microsatellite markers of Persian black cumin. The results of the present study can be useful in finding different markers for breeding programs and developing cultivars with different goals.

Multimedia

No record.

Cites

No record.

References

No record.

Cite

Related Journal Papers

No record.

Related Seminar Papers

No record.

Related Plans