Characterization of microsatellite loci for an Australian epiphytic orchid, Dendrobium calamiforme , using Illumina sequencing
Abstract
Our premise describes how microsatellite loci were developed for the epiphytic pencil orchid Dendrobium calamiforme for population genetic and phylogeographic investigation of this Australian taxon. Nineteen microsatellite loci were identified from an Illumina paired-end shotgun library of D. calamiforme. Polymorphism and genetic diversity were assessed in 24 individuals from five populations separated by a maximum distance of ~80 km. All loci were polymorphic with two to 14 alleles per locus, expected heterozygosity ranging from 0.486 to 0.902, and probability of identity values ranging from 0.018 to 0.380. In conclusion, these novel markers will serve as valuable tools for investigation of levels of genetic diversity as well as patterns of gene flow, genetic structure, and phylogeographic history.
- Authors:
- Publication Date:
- Research Org.:
- Univ. of Georgia, Athens, GA (United States)
- Sponsoring Org.:
- USDOE
- OSTI Identifier:
- 1787080
- Alternate Identifier(s):
- OSTI ID: 1345831; OSTI ID: 1787081
- Grant/Contract Number:
- DE‐FC09‐07SR22506; FC09-07SR22506
- Resource Type:
- Published Article
- Journal Name:
- Applications in Plant Science
- Additional Journal Information:
- Journal Name: Applications in Plant Science Journal Volume: 3 Journal Issue: 6; Journal ID: ISSN 2168-0450
- Publisher:
- Wiley Blackwell (John Wiley & Sons)
- Country of Publication:
- United States
- Language:
- English
- Subject:
- 59 BASIC BIOLOGICAL SCIENCES; Dendrobium calamiforme; Dockrillia calamiformis; Orchidaceae; genetic diversity; phylogeography; simple sequence repeat (SSR) markers
Citation Formats
Trapnell, Dorset W., Beasley, Rochelle R., Lance, Stacey L., Field, Ashley R., and Jones, Kenneth L. Characterization of microsatellite loci for an Australian epiphytic orchid, Dendrobium calamiforme , using Illumina sequencing. United States: N. p., 2015.
Web. doi:10.3732/apps.1500016.
Trapnell, Dorset W., Beasley, Rochelle R., Lance, Stacey L., Field, Ashley R., & Jones, Kenneth L. Characterization of microsatellite loci for an Australian epiphytic orchid, Dendrobium calamiforme , using Illumina sequencing. United States. https://doi.org/10.3732/apps.1500016
Trapnell, Dorset W., Beasley, Rochelle R., Lance, Stacey L., Field, Ashley R., and Jones, Kenneth L. Fri .
"Characterization of microsatellite loci for an Australian epiphytic orchid, Dendrobium calamiforme , using Illumina sequencing". United States. https://doi.org/10.3732/apps.1500016.
@article{osti_1787080,
title = {Characterization of microsatellite loci for an Australian epiphytic orchid, Dendrobium calamiforme , using Illumina sequencing},
author = {Trapnell, Dorset W. and Beasley, Rochelle R. and Lance, Stacey L. and Field, Ashley R. and Jones, Kenneth L.},
abstractNote = {Our premise describes how microsatellite loci were developed for the epiphytic pencil orchid Dendrobium calamiforme for population genetic and phylogeographic investigation of this Australian taxon. Nineteen microsatellite loci were identified from an Illumina paired-end shotgun library of D. calamiforme. Polymorphism and genetic diversity were assessed in 24 individuals from five populations separated by a maximum distance of ~80 km. All loci were polymorphic with two to 14 alleles per locus, expected heterozygosity ranging from 0.486 to 0.902, and probability of identity values ranging from 0.018 to 0.380. In conclusion, these novel markers will serve as valuable tools for investigation of levels of genetic diversity as well as patterns of gene flow, genetic structure, and phylogeographic history.},
doi = {10.3732/apps.1500016},
journal = {Applications in Plant Science},
number = 6,
volume = 3,
place = {United States},
year = {Fri Jun 05 00:00:00 EDT 2015},
month = {Fri Jun 05 00:00:00 EDT 2015}
}
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https://doi.org/10.3732/apps.1500016
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