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Liu YP, Liang RF, Lv T, Ma ZL, Liu T, Liu F, Su X, Harris AJ. Development of SSR Markers for Psammochloa villosa (Trin.) Bor (Poaceae), a Dominant Species in the Inner Mongolian Plateau. CYTOL GENET+ 2021. [DOI: 10.3103/s0095452721060086] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Liu YP, Su X, Luo WC, Lv T, Chen KL, Harris AJ, Shah SA. Development of SSR markers from transcriptomes for Orinus (Poaceae), an endemic of the Qinghai-Tibetan Plateau. APPLICATIONS IN PLANT SCIENCES 2017; 5:apps1700029. [PMID: 28791207 PMCID: PMC5546167 DOI: 10.3732/apps.1700029] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Received: 03/28/2017] [Accepted: 05/09/2017] [Indexed: 06/07/2023]
Abstract
PREMISE OF THE STUDY Transcriptomes were used to develop microsatellite markers for the plant genus Orinus (Poaceae), which comprises three species of grasses (O. thoroldii, O. kokonoricus, and O. intermedius) that are widely distributed in the Qinghai-Tibetan Plateau. METHODS AND RESULTS Primer pairs were developed for 16 high-quality simple sequence repeats (SSRs) using transcriptomes. SSRs were amplified in 248 individuals representing the three species of Orinus; the number of alleles per locus ranged from one to seven, with an average of 2.6. The expected and observed heterozygosity per locus varied from 0.00 to 0.83 and from 0.00 to 1.00, respectively, with respective mean values of 0.32 and 0.34. CONCLUSIONS These newly developed SSR markers will be valuable for evaluating the population genetic structure of Orinus throughout its range.
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Affiliation(s)
- Yu-Ping Liu
- Key Laboratory of Medicinal Plant and Animal Resources in the Qinghai–Tibetan Plateau, School of Geography and Life Science, Qinghai Normal University, Xining 810008, People’s Republic of China
- Key Laboratory of Physical Geography and Environmental Process in Qinghai Province, School of Geography and Life Science, Qinghai Normal University, Xining 810008, People’s Republic of China
| | - Xu Su
- Key Laboratory of Medicinal Plant and Animal Resources in the Qinghai–Tibetan Plateau, School of Geography and Life Science, Qinghai Normal University, Xining 810008, People’s Republic of China
- Key Laboratory of Education, Ministry of Environments and Resources in the Qinghai–Tibetan Plateau, School of Geography and Life Science, Qinghai Normal University, Xining 810008, People’s Republic of China
| | - Wen-Chun Luo
- State Key Laboratory of Grassland Agro-Ecosystem, School of Life Science, Lanzhou University, Lanzhou 730000, People’s Republic of China
| | - Ting Lv
- Key Laboratory of Medicinal Plant and Animal Resources in the Qinghai–Tibetan Plateau, School of Geography and Life Science, Qinghai Normal University, Xining 810008, People’s Republic of China
- Key Laboratory of Physical Geography and Environmental Process in Qinghai Province, School of Geography and Life Science, Qinghai Normal University, Xining 810008, People’s Republic of China
| | - Ke-Long Chen
- Key Laboratory of Physical Geography and Environmental Process in Qinghai Province, School of Geography and Life Science, Qinghai Normal University, Xining 810008, People’s Republic of China
| | - AJ Harris
- Department of Botany, National Museum of Natural History, Smithsonian Institution, P.O. Box 37012, Washington, D.C. 20013-7012 USA
| | - Sayed Afzal Shah
- Department of Plant Science, Quaid-i-Azam University, Islamabad 44000 Pakistan
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Vieira MLC, Santini L, Diniz AL, Munhoz CDF. Microsatellite markers: what they mean and why they are so useful. Genet Mol Biol 2016; 39:312-28. [PMID: 27561112 PMCID: PMC5004837 DOI: 10.1590/1678-4685-gmb-2016-0027] [Citation(s) in RCA: 268] [Impact Index Per Article: 33.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/29/2016] [Accepted: 05/13/2016] [Indexed: 12/11/2022] Open
Abstract
Microsatellites or Single Sequence Repeats (SSRs) are extensively employed in plant genetics studies, using both low and high throughput genotyping approaches. Motivated by the importance of these sequences over the last decades this review aims to address some theoretical aspects of SSRs, including definition, characterization and biological function. The methodologies for the development of SSR loci, genotyping and their applications as molecular markers are also reviewed. Finally, two data surveys are presented. The first was conducted using the main database of Web of Science, prospecting for articles published over the period from 2010 to 2015, resulting in approximately 930 records. The second survey was focused on papers that aimed at SSR marker development, published in the American Journal of Botany's Primer Notes and Protocols in Plant Sciences (over 2013 up to 2015), resulting in a total of 87 publications. This scenario confirms the current relevance of SSRs and indicates their continuous utilization in plant science.
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Affiliation(s)
- Maria Lucia Carneiro Vieira
- Departamento de Genética, Escola Superior de Agricultura "Luiz de
Queiroz" (ESALQ), Universidade de São Paulo (USP), Piracicaba, SP, Brazil
| | - Luciane Santini
- Departamento de Genética, Escola Superior de Agricultura "Luiz de
Queiroz" (ESALQ), Universidade de São Paulo (USP), Piracicaba, SP, Brazil
| | - Augusto Lima Diniz
- Departamento de Genética, Escola Superior de Agricultura "Luiz de
Queiroz" (ESALQ), Universidade de São Paulo (USP), Piracicaba, SP, Brazil
| | - Carla de Freitas Munhoz
- Departamento de Genética, Escola Superior de Agricultura "Luiz de
Queiroz" (ESALQ), Universidade de São Paulo (USP), Piracicaba, SP, Brazil
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Liu B, Abbott RJ, Lu Z, Tian B, Liu J. Diploid hybrid origin ofOstryopsis intermedia(Betulaceae) in the Qinghai-Tibet Plateau triggered by Quaternary climate change. Mol Ecol 2014; 23:3013-27. [DOI: 10.1111/mec.12783] [Citation(s) in RCA: 47] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2014] [Revised: 04/18/2014] [Accepted: 04/25/2014] [Indexed: 01/16/2023]
Affiliation(s)
- Bingbing Liu
- MOE Key Laboratory of Bio-Resources and Eco-Environment; College of Life Science; Sichuan University; Chengdu 610065 China
- State Key Laboratory of Grassland Agro-Ecosystem; College of Life Science; Lanzhou University; Lanzhou 730000 China
| | - Richard J. Abbott
- School of Biology; University of St Andrews; Mitchell Building St Andrews Fife KY16 9TH UK
| | - Zhiqiang Lu
- State Key Laboratory of Grassland Agro-Ecosystem; College of Life Science; Lanzhou University; Lanzhou 730000 China
| | - Bin Tian
- State Key Laboratory of Grassland Agro-Ecosystem; College of Life Science; Lanzhou University; Lanzhou 730000 China
| | - Jianquan Liu
- MOE Key Laboratory of Bio-Resources and Eco-Environment; College of Life Science; Sichuan University; Chengdu 610065 China
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