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Development of microsatellite markers for Tanacetum cinerariifolium (Trevis.) Sch. Bip., a plant with a large and highly repetitive genome [Elektronski vir]Varga, Filip ...Dalmatian pyrethrum (Tanacetum cinerariifolium (Trevis.) Sch. Bip.) is an outcrossing plant species (2n = 18) endemic to the eastern Adriatic coast and source of the natural insecticide pyrethrin. ... Due to the high repeatability and large genome (1C-value = 9.58 pg) our previous attempts to develop microsatellite markers using the traditional method were unsuccessful. Now we have used Illumina paired-end whole genome sequencing and developed a specific procedure to obtain useful microsatellite markers. A total of 796,130,142 high-quality reads (approx. 12.5× coverage) were assembled into 6,909,675 contigs using two approaches (de novo assembly and joining of overlapped pair-end reads). A total of 31,380 contigs contained one or more microsatellite sequences, of which di-(59.7%) and trinucleotide (25.9%) repeats were the most abundant. Contigs containing microsatellites were filtered according to various criteria to achieve better yield of functional markers. After two rounds of testing, 17 microsatellite markers were developed and characterized in one natural population. Twelve loci were selected for preliminary genetic diversity analysis of three natural populations. Neighbor-joining tree, based on the proportion of shared alleles distances, grouped individuals into clusters according to population affiliation. The availability of codominant SSR markers will allow analysis of genetic diversity and structure of natural Dalmatian pyrethrum populations as well as identification of breeding lines and cultivars.Source: Plants [Elektronski vir]. - ISSN 2223-7747 (Vol. 11, iss. 13, art. 1778, 2022, 11 str.)Type of material - e-article ; adult, seriousPublish date - 2022Language - englishCOBISS.SI-ID - 115302403
Author
Varga, Filip |
Liber, Zlatko |
Jakše, Jernej |
Turudić, Ante |
Šatović, Zlatko |
Radosavljević, Ivan, 1981- |
Jeran, Nina |
Grdiša, Martina
Topics
Tanacetum cinerariifolium |
Dalmatian pyrethrum |
Asteraceae |
genomic SSRs |
microsatellite markers |
SSR markers |
dalmatinski bolhač |
genetika |
mikrosatelitski markerji |
genetska raznolikost |
SSR markerji
Author | Varga, Filip ... |
Title | Development of microsatellite markers for Tanacetum cinerariifolium (Trevis.) Sch. Bip., a plant with a large and highly repetitive genome [Elektronski vir] |
Publication date | 2022-07-05 |
COBISS.SI-ID | 115302403 |
Publication version in repository | Publisher's version |
Publication licence | Creative Commons Attribution-NonCommercial 4.0 International |
Embargo | Immediate publication for public |
Project(s) from which the publication was funded
Title | Acronym | Project ID | Funder |
---|---|---|---|
Kmetijske rastline - genetika in sodobne tehnologije | P4-0077-2019 |
Javna agencija za znanstvenoraziskovalno in inovacijsko dejavnost Republike Slovenije |
|
Genetic background of Dalmatian pyrethrum (Tanacetum cinerariifolium/Trevir./Sch. Bip.) insecticidal potential | PyrDiv | IP-06-2016-9034 |
Croatian Science Foundation (CSF) |
Biodiversity and Molecular Plant Breeding | - | KK.01.1.1.01.0005 |
Centre of Excellence for Biodiversity and Molecular Plant Breeding, Zagreb, Croatia |
Files that belong to the publication
Link |
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https://www.mdpi.com/2223-7747/11/13/1778 |
https://d.cobiss.net/repository/si/files/115302403/102006/plants-11-01778.pdf |
https://repozitorij.uni-lj.si/IzpisGradiva.php?id=138300 |
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Database name | Field | Year |
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Links to authors' personal bibliographies | Links to information on researchers in the SICRIS system |
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Varga, Filip | |
Liber, Zlatko | |
Jakše, Jernej | 16379 |
Turudić, Ante | |
Šatović, Zlatko | |
Radosavljević, Ivan, 1981- | |
Jeran, Nina | |
Grdiša, Martina |
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