Development of EST‐SSR markers in Saxifraga sinomontana (Saxifragaceae) and cross‐amplification in three related species
Premise Saxifraga sinomontana (Saxifragaceae) is a widespread alpine species in the Qinghai–Tibetan Plateau and its flanking mountains. We developed a set of expressed sequence tag–simple sequence repeat (EST‐SSR) markers to investigate the genetic diversity and evolutionary history of the species....
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
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Wiley
2019-06-01
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| Series: | Applications in Plant Sciences |
| Subjects: | |
| Online Access: | https://doi.org/10.1002/aps3.11269 |
| _version_ | 1831763181600505856 |
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| author | Yan Li Liu‐Kun Jia Fa‐Qi Zhang Zhi‐Hua Wang Shi‐Long Chen Qing‐Bo Gao |
| author_facet | Yan Li Liu‐Kun Jia Fa‐Qi Zhang Zhi‐Hua Wang Shi‐Long Chen Qing‐Bo Gao |
| author_sort | Yan Li |
| collection | DOAJ |
| description | Premise Saxifraga sinomontana (Saxifragaceae) is a widespread alpine species in the Qinghai–Tibetan Plateau and its flanking mountains. We developed a set of expressed sequence tag–simple sequence repeat (EST‐SSR) markers to investigate the genetic diversity and evolutionary history of the species. Methods and Results We initially designed 50 EST‐SSR markers based on transcriptome data of S. sinomontana. Nineteen of 50 loci (38%) were successfully amplified, 13 of which were polymorphic. These were tested on 71 individuals from four populations. Three to 18 alleles per locus were detected, and the levels of observed and expected heterozygosity ranged from 0.2817 to 0.9155 and 0.2585 to 0.8495, respectively. In addition, cross‐amplification was successful for all 13 loci in three congeneric species, S. tangutica, S. heleonastes, and S. congestiflora. Conclusions These EST‐SSR markers will be useful for studying the genetic diversity of S. sinomontana and disentangling the phylogenetic relationships of related species. |
| first_indexed | 2024-12-22T05:21:39Z |
| format | Article |
| id | doaj.art-3151d063a2b64a53b9d757b9fe0e13f6 |
| institution | Directory Open Access Journal |
| issn | 2168-0450 |
| language | English |
| last_indexed | 2024-12-22T05:21:39Z |
| publishDate | 2019-06-01 |
| publisher | Wiley |
| record_format | Article |
| series | Applications in Plant Sciences |
| spelling | doaj.art-3151d063a2b64a53b9d757b9fe0e13f62022-12-21T18:37:43ZengWileyApplications in Plant Sciences2168-04502019-06-0176n/an/a10.1002/aps3.11269Development of EST‐SSR markers in Saxifraga sinomontana (Saxifragaceae) and cross‐amplification in three related speciesYan Li0Liu‐Kun Jia1Fa‐Qi Zhang2Zhi‐Hua Wang3Shi‐Long Chen4Qing‐Bo Gao5Key Laboratory of Adaptation and Evolution of Plateau Biota Northwest Institute of Plateau Biology Chinese Academy of Sciences Xining 810008 People's Republic of ChinaKey Laboratory of Adaptation and Evolution of Plateau Biota Northwest Institute of Plateau Biology Chinese Academy of Sciences Xining 810008 People's Republic of ChinaKey Laboratory of Adaptation and Evolution of Plateau Biota Northwest Institute of Plateau Biology Chinese Academy of Sciences Xining 810008 People's Republic of ChinaKey Laboratory of Adaptation and Evolution of Plateau Biota Northwest Institute of Plateau Biology Chinese Academy of Sciences Xining 810008 People's Republic of ChinaKey Laboratory of Adaptation and Evolution of Plateau Biota Northwest Institute of Plateau Biology Chinese Academy of Sciences Xining 810008 People's Republic of ChinaKey Laboratory of Adaptation and Evolution of Plateau Biota Northwest Institute of Plateau Biology Chinese Academy of Sciences Xining 810008 People's Republic of ChinaPremise Saxifraga sinomontana (Saxifragaceae) is a widespread alpine species in the Qinghai–Tibetan Plateau and its flanking mountains. We developed a set of expressed sequence tag–simple sequence repeat (EST‐SSR) markers to investigate the genetic diversity and evolutionary history of the species. Methods and Results We initially designed 50 EST‐SSR markers based on transcriptome data of S. sinomontana. Nineteen of 50 loci (38%) were successfully amplified, 13 of which were polymorphic. These were tested on 71 individuals from four populations. Three to 18 alleles per locus were detected, and the levels of observed and expected heterozygosity ranged from 0.2817 to 0.9155 and 0.2585 to 0.8495, respectively. In addition, cross‐amplification was successful for all 13 loci in three congeneric species, S. tangutica, S. heleonastes, and S. congestiflora. Conclusions These EST‐SSR markers will be useful for studying the genetic diversity of S. sinomontana and disentangling the phylogenetic relationships of related species.https://doi.org/10.1002/aps3.11269EST‐SSR markersSaxifraga congestifloraSaxifraga heleonastesSaxifraga sinomontanaSaxifraga tanguticatranscriptome |
| spellingShingle | Yan Li Liu‐Kun Jia Fa‐Qi Zhang Zhi‐Hua Wang Shi‐Long Chen Qing‐Bo Gao Development of EST‐SSR markers in Saxifraga sinomontana (Saxifragaceae) and cross‐amplification in three related species Applications in Plant Sciences EST‐SSR markers Saxifraga congestiflora Saxifraga heleonastes Saxifraga sinomontana Saxifraga tangutica transcriptome |
| title | Development of EST‐SSR markers in Saxifraga sinomontana (Saxifragaceae) and cross‐amplification in three related species |
| title_full | Development of EST‐SSR markers in Saxifraga sinomontana (Saxifragaceae) and cross‐amplification in three related species |
| title_fullStr | Development of EST‐SSR markers in Saxifraga sinomontana (Saxifragaceae) and cross‐amplification in three related species |
| title_full_unstemmed | Development of EST‐SSR markers in Saxifraga sinomontana (Saxifragaceae) and cross‐amplification in three related species |
| title_short | Development of EST‐SSR markers in Saxifraga sinomontana (Saxifragaceae) and cross‐amplification in three related species |
| title_sort | development of est ssr markers in saxifraga sinomontana saxifragaceae and cross amplification in three related species |
| topic | EST‐SSR markers Saxifraga congestiflora Saxifraga heleonastes Saxifraga sinomontana Saxifraga tangutica transcriptome |
| url | https://doi.org/10.1002/aps3.11269 |
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