Characterization of novel microsatellite markers of the Emei Shan Liocichla using restriction site-associated DNA sequencing
Abstract Background The Emei Shan Liocichla (Liocichla omeiensis) is an endemic bird species to southwestern China with a small geographic range. However, little was known about the genetic status of this threatened species. Methods We applied restriction-site-associated DNA sequencing (RAD-Seq) for...
| Main Authors: | , , , , |
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| Format: | Article |
| Language: | English |
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KeAi Communications Co., Ltd.
2017-05-01
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| Series: | Avian Research |
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| Online Access: | http://link.springer.com/article/10.1186/s40657-017-0071-8 |
| _version_ | 1828076817600217088 |
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| author | Ailin Yang De Chen Pengcheng Wang Yiqiang Fu Zhengwang Zhang |
| author_facet | Ailin Yang De Chen Pengcheng Wang Yiqiang Fu Zhengwang Zhang |
| author_sort | Ailin Yang |
| collection | DOAJ |
| description | Abstract Background The Emei Shan Liocichla (Liocichla omeiensis) is an endemic bird species to southwestern China with a small geographic range. However, little was known about the genetic status of this threatened species. Methods We applied restriction-site-associated DNA sequencing (RAD-Seq) for rapid mass identification of microsatellite markers of the Emei Shan Liocichla. Results A total of 11,564 microsatellite sequences were obtained, 600 random loci were designed for screening and 24 polymorphic microsatellite loci were selected for further validation. The average allele number, average observed heterozygosity and average expected heterozygosity were relatively low in our samples, which were 6.08, 0.6618 and 0.7048, respectively, indicating that the Emei Shan Liocichla might have lost some genetic diversity. Further analyses suggested that the populations distributed on two mountains (Daxiangling and Xiaoliangshan) showed a modest degree of genetic differentiation. Conclusions These novel microsatellite markers provided valuable preliminary knowledge regarding the genetic status of the Emei Shan Liocichla and can be useful in further studies, as well as in the management and conservation of this species. |
| first_indexed | 2024-04-11T02:19:27Z |
| format | Article |
| id | doaj.art-7aa5c699120d464c9bd5eb282738c5f8 |
| institution | Directory Open Access Journal |
| issn | 2053-7166 |
| language | English |
| last_indexed | 2024-04-11T02:19:27Z |
| publishDate | 2017-05-01 |
| publisher | KeAi Communications Co., Ltd. |
| record_format | Article |
| series | Avian Research |
| spelling | doaj.art-7aa5c699120d464c9bd5eb282738c5f82023-01-03T00:07:14ZengKeAi Communications Co., Ltd.Avian Research2053-71662017-05-01811810.1186/s40657-017-0071-8Characterization of novel microsatellite markers of the Emei Shan Liocichla using restriction site-associated DNA sequencingAilin Yang0De Chen1Pengcheng Wang2Yiqiang Fu3Zhengwang Zhang4Ministry of Education Key Laboratory for Biodiversity and Ecological Engineering, College of Life Sciences, Beijing Normal UniversityMinistry of Education Key Laboratory for Biodiversity and Ecological Engineering, College of Life Sciences, Beijing Normal UniversityMinistry of Education Key Laboratory for Biodiversity and Ecological Engineering, College of Life Sciences, Beijing Normal UniversityCollege of Life Sciences, Leshan Normal UniversityMinistry of Education Key Laboratory for Biodiversity and Ecological Engineering, College of Life Sciences, Beijing Normal UniversityAbstract Background The Emei Shan Liocichla (Liocichla omeiensis) is an endemic bird species to southwestern China with a small geographic range. However, little was known about the genetic status of this threatened species. Methods We applied restriction-site-associated DNA sequencing (RAD-Seq) for rapid mass identification of microsatellite markers of the Emei Shan Liocichla. Results A total of 11,564 microsatellite sequences were obtained, 600 random loci were designed for screening and 24 polymorphic microsatellite loci were selected for further validation. The average allele number, average observed heterozygosity and average expected heterozygosity were relatively low in our samples, which were 6.08, 0.6618 and 0.7048, respectively, indicating that the Emei Shan Liocichla might have lost some genetic diversity. Further analyses suggested that the populations distributed on two mountains (Daxiangling and Xiaoliangshan) showed a modest degree of genetic differentiation. Conclusions These novel microsatellite markers provided valuable preliminary knowledge regarding the genetic status of the Emei Shan Liocichla and can be useful in further studies, as well as in the management and conservation of this species.http://link.springer.com/article/10.1186/s40657-017-0071-8Liocichla omeiensisFragmentationNuclear markersGenetic diversityGene flow |
| spellingShingle | Ailin Yang De Chen Pengcheng Wang Yiqiang Fu Zhengwang Zhang Characterization of novel microsatellite markers of the Emei Shan Liocichla using restriction site-associated DNA sequencing Avian Research Liocichla omeiensis Fragmentation Nuclear markers Genetic diversity Gene flow |
| title | Characterization of novel microsatellite markers of the Emei Shan Liocichla using restriction site-associated DNA sequencing |
| title_full | Characterization of novel microsatellite markers of the Emei Shan Liocichla using restriction site-associated DNA sequencing |
| title_fullStr | Characterization of novel microsatellite markers of the Emei Shan Liocichla using restriction site-associated DNA sequencing |
| title_full_unstemmed | Characterization of novel microsatellite markers of the Emei Shan Liocichla using restriction site-associated DNA sequencing |
| title_short | Characterization of novel microsatellite markers of the Emei Shan Liocichla using restriction site-associated DNA sequencing |
| title_sort | characterization of novel microsatellite markers of the emei shan liocichla using restriction site associated dna sequencing |
| topic | Liocichla omeiensis Fragmentation Nuclear markers Genetic diversity Gene flow |
| url | http://link.springer.com/article/10.1186/s40657-017-0071-8 |
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