Microsatellite Primers in <i>Agave utahensis</i> (Asparagaceae), a Keystone Species in the Mojave Desert and Colorado Plateau
Premise of the study: Utah agave (<i>Agave utahensis</i>) and its putative subspecies, <i>A. utahensis</i> subsp. <i>kaibabensis</i> and <i>A. utahensis</i> subsp. <i>utahensis</i>, are keystone species of the Mojave Desert and Colorado Pla...
| Main Authors: | , , , |
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| Format: | Article |
| Language: | English |
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Wiley
2014-09-01
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| Series: | Applications in Plant Sciences |
| Subjects: | |
| Online Access: | http://www.bioone.org/doi/full/10.3732/apps.1400047 |
| _version_ | 1818879848538439680 |
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| author | Charlee Byers Peter J. Maughan Jared Clouse J. Ryan Stewart |
| author_facet | Charlee Byers Peter J. Maughan Jared Clouse J. Ryan Stewart |
| author_sort | Charlee Byers |
| collection | DOAJ |
| description | Premise of the study: Utah agave (<i>Agave utahensis</i>) and its putative subspecies, <i>A. utahensis</i> subsp. <i>kaibabensis</i> and <i>A. utahensis</i> subsp. <i>utahensis</i>, are keystone species of the Mojave Desert and Colorado Plateau in the southwestern United States. Here we developed microsatellite markers to study population structure and genetic diversity of the two subspecies of <i>A. utahensis</i>.
Methods and Results: We analyzed 22,386 454-pyrosequencing large contigs (>400 bp), derived from a genome reduction experiment consisting of <i>A. utahensis</i> accessions, for putative microsatellites. The use of unique multiplex barcodes for each of the <i>Agave</i> accessions allowed for the identification of putatively polymorphic microsatellites based solely on sequence alignment analysis. We report the characteristics of 11 polymorphic microsatellite loci based on a panel of 104 individuals from the two subspecies. The number of alleles per locus varied from three to eight, with an average of 5.5 alleles per locus. Observed and expected heterozygosity values ranged from 0.038 to 0.777 and 0.038 to 0.707, respectively.
Conclusions: The microsatellites identified here will be invaluable for future studies of population structure, polyploidy, and genetic diversity across the species. |
| first_indexed | 2024-12-19T14:36:36Z |
| format | Article |
| id | doaj.art-bea826b8993b480093c4db914662677e |
| institution | Directory Open Access Journal |
| issn | 2168-0450 |
| language | English |
| last_indexed | 2024-12-19T14:36:36Z |
| publishDate | 2014-09-01 |
| publisher | Wiley |
| record_format | Article |
| series | Applications in Plant Sciences |
| spelling | doaj.art-bea826b8993b480093c4db914662677e2022-12-21T20:17:15ZengWileyApplications in Plant Sciences2168-04502014-09-0129140004710.3732/apps.1400047Microsatellite Primers in <i>Agave utahensis</i> (Asparagaceae), a Keystone Species in the Mojave Desert and Colorado PlateauCharlee Byers0Peter J. Maughan1Jared Clouse2J. Ryan Stewart3Department of Plant and Wildlife Sciences, Brigham Young University, 4105 Life Sciences Building, Provo, Utah 84602 USADepartment of Plant and Wildlife Sciences, Brigham Young University, 4105 Life Sciences Building, Provo, Utah 84602 USADepartment of Plant and Wildlife Sciences, Brigham Young University, 4105 Life Sciences Building, Provo, Utah 84602 USADepartment of Plant and Wildlife Sciences, Brigham Young University, 4105 Life Sciences Building, Provo, Utah 84602 USAPremise of the study: Utah agave (<i>Agave utahensis</i>) and its putative subspecies, <i>A. utahensis</i> subsp. <i>kaibabensis</i> and <i>A. utahensis</i> subsp. <i>utahensis</i>, are keystone species of the Mojave Desert and Colorado Plateau in the southwestern United States. Here we developed microsatellite markers to study population structure and genetic diversity of the two subspecies of <i>A. utahensis</i>. Methods and Results: We analyzed 22,386 454-pyrosequencing large contigs (>400 bp), derived from a genome reduction experiment consisting of <i>A. utahensis</i> accessions, for putative microsatellites. The use of unique multiplex barcodes for each of the <i>Agave</i> accessions allowed for the identification of putatively polymorphic microsatellites based solely on sequence alignment analysis. We report the characteristics of 11 polymorphic microsatellite loci based on a panel of 104 individuals from the two subspecies. The number of alleles per locus varied from three to eight, with an average of 5.5 alleles per locus. Observed and expected heterozygosity values ranged from 0.038 to 0.777 and 0.038 to 0.707, respectively. Conclusions: The microsatellites identified here will be invaluable for future studies of population structure, polyploidy, and genetic diversity across the species.http://www.bioone.org/doi/full/10.3732/apps.1400047Agave utahensis subsp. kaibabensisAgave utahensis subsp. utahensisAsparagaceaemicrosatellitesimple sequence repeat (SSR) |
| spellingShingle | Charlee Byers Peter J. Maughan Jared Clouse J. Ryan Stewart Microsatellite Primers in <i>Agave utahensis</i> (Asparagaceae), a Keystone Species in the Mojave Desert and Colorado Plateau Applications in Plant Sciences Agave utahensis subsp. kaibabensis Agave utahensis subsp. utahensis Asparagaceae microsatellite simple sequence repeat (SSR) |
| title | Microsatellite Primers in <i>Agave utahensis</i> (Asparagaceae), a Keystone Species in the Mojave Desert and Colorado Plateau |
| title_full | Microsatellite Primers in <i>Agave utahensis</i> (Asparagaceae), a Keystone Species in the Mojave Desert and Colorado Plateau |
| title_fullStr | Microsatellite Primers in <i>Agave utahensis</i> (Asparagaceae), a Keystone Species in the Mojave Desert and Colorado Plateau |
| title_full_unstemmed | Microsatellite Primers in <i>Agave utahensis</i> (Asparagaceae), a Keystone Species in the Mojave Desert and Colorado Plateau |
| title_short | Microsatellite Primers in <i>Agave utahensis</i> (Asparagaceae), a Keystone Species in the Mojave Desert and Colorado Plateau |
| title_sort | microsatellite primers in i agave utahensis i asparagaceae a keystone species in the mojave desert and colorado plateau |
| topic | Agave utahensis subsp. kaibabensis Agave utahensis subsp. utahensis Asparagaceae microsatellite simple sequence repeat (SSR) |
| url | http://www.bioone.org/doi/full/10.3732/apps.1400047 |
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