Genotypisierung durch Amplikon Sequenzierung als Anwendung für standardisierte Multilocus Genotyp Definition bei Waldbäumen am Beispiel Fichte und Eiche
Abstract
Genotype determination is very important in forestry as part of management, controlled seed production and the monitoring of the provenance principle. With the upcoming of the second and third generation sequencing techniques (NGS), sequence based approaches are available for routine screening. Especially useful is a method that bridges traditional and new possibilities, with high throughput and statistical power, but easy to use and to implement. The main problem to use sequence information for genotyping, is the bioinformatic processing. One problem is the difficulty to unambiguous determine alleles in heterozygote individuals . A number of pipelines and suggestions had been published, however, most are elaborate or not able to use the whole sequences of a marker but rather single SNPs or length information. The project aims to introduce genotype by amplicon sequencing for standardized genotyping in forestry (SSR-GBAS). Scripts we developed in earlier work will from the base for software solutions with wide applicability. A database for web based collection of alleles called by whole sequences developed and clearly reproduced genotypes on Oak and Pine on up to 200 markers each as proof of concept will be provided. The project will also improve laboratory methods by developing optimized multiplex approaches and the inclusion of candidate genes as well as neutral markers. All together the approach allows a flexible genotyping of forest genetic resources.
Publikationen
Project staff
Harald Meimberg
Univ.Prof. Dipl.-Biol. Dr.rer.nat. Harald Meimberg
meimberg@boku.ac.at
Tel: +43 1 47654-83412
Project Leader
01.10.2021 - 30.09.2024
BOKU partners
External partners
Federal Forest Office (BFW)
none
partner