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Chloroplast microsatellite markers for Artocarpus (Moraceae) developed from transcriptome sequences
Elliot M Gardner1, Kristen M Laricchia1, Matthew Murphy2
1Department of Plant Science, Chicago Botanic Garden, 1000 Lake Cook Road, Glencoe, Illinois 60022 USA ; Plant Biology and Conservation, Northwestern University, 2205 Tech Drive, Hogan 2-144, Evanston, Illinois 60208 USA.
Applications in Plant Sciences
|October 1, 2015
Summary
New chloroplast simple sequence repeat (SSR) markers were developed for Artocarpus species. These SSRs will aid in identifying maternal and clone lines for vegetatively propagated crops like breadfruit.
Area of Science:
- Plant genetics
- Molecular biology
- Bioinformatics
Background:
- Microsatellite markers are valuable genetic tools.
- Characterizing chloroplast microsatellites in Artocarpus species is crucial for genetic studies.
Purpose of the Study:
- To identify and characterize chloroplast microsatellite loci in Artocarpus species.
- To evaluate the utility of these markers for genetic analysis in breadfruit and related species.
Main Methods:
- Transcriptome sequencing was used to identify simple sequence repeats (SSRs).
- Capillary electrophoresis was employed to assess polymorphism in Artocarpus odoratissimus and A. altilis.
- In silico analysis was performed on transcriptomes of several Artocarpus species.
Main Results:
- Fifteen SSR loci were identified across four Artocarpus transcriptome assemblies.
- All identified SSR loci were polymorphic in at least one species, with high polymorphism observed in A. camansi.
- Average alleles per locus ranged from 2.2 to 2.5, with three loci showing fragment-length homoplasy.
Conclusions:
- Developed chloroplast SSR markers provide a valuable resource for Artocarpus genetic research.
- These markers will enhance the identification of maternal and clone lines in vegetatively propagated Artocarpus crops.
- The markers complement existing nuclear markers for comprehensive genetic analysis.
