SSR-based evaluation of genetic diversity in populations of Agriophyllum squarrosum L. and Agriophyllum minus Fisch. & Mey. collected in South-East Kazakhstan
The development of informative polymorphic DNA markers for poorly studied genera is an important step in population analyses of living organisms, including those that play very important ecological roles in harsh environments, such as desert and semi-desert area. Examples of those poorly studied des...
Saved in:
| Main Authors: | , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Siberian Branch of the Russian Academy of Sciences, Federal Research Center Institute of Cytology and Genetics, The Vavilov Society of Geneticists and Breeders
2020-12-01
|
| Series: | Вавиловский журнал генетики и селекции |
| Subjects: | |
| Online Access: | https://vavilov.elpub.ru/jour/article/view/2812 |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1832575115401887744 |
|---|---|
| author | Y. Genievskaya D. Karelova S. Abugalieva P. Zhao G. Chen Y. Turuspekov |
| author_facet | Y. Genievskaya D. Karelova S. Abugalieva P. Zhao G. Chen Y. Turuspekov |
| author_sort | Y. Genievskaya |
| collection | DOAJ |
| description | The development of informative polymorphic DNA markers for poorly studied genera is an important step in population analyses of living organisms, including those that play very important ecological roles in harsh environments, such as desert and semi-desert area. Examples of those poorly studied desert species are Agriophyllum squarrosum L. and Agriophyllum minus Fisch. & Mey. However, a recent RNA-sequencing project in A. squarrosum has proposed a large set of hypothetical SSR (simple sequence repeat) markers. In this work, 11 novel polymorphic SSRs were found due to the screening of 24 randomly selected SSRs for three populations of A. squarrosum and one population of A. minus. The analysis of 11 SSRs revealed 16 polymorphic loci in two Agriophyllum species, 8 polymorphic loci within three populations of A. squarrosum, and 6 polymorphic loci in the population of A. minus. Statistical analyses showed high interspecific, but relatively low intraspecific genetic diversity. The phylogenetic clusterization and population structure analysis have demonstrated a clear segregation of A. minus from A. squarrosum, as well as the separation of population 1 from populations 2 and 3 of A. squarrosum. Thus, we identified the set of novel and informative SSR markers suitable for the study of genetic diversity in Agriophyllum. |
| format | Article |
| id | doaj-art-b981bcee8b6a414b894b28263d4ab4d3 |
| institution | Kabale University |
| issn | 2500-3259 |
| language | English |
| publishDate | 2020-12-01 |
| publisher | Siberian Branch of the Russian Academy of Sciences, Federal Research Center Institute of Cytology and Genetics, The Vavilov Society of Geneticists and Breeders |
| record_format | Article |
| series | Вавиловский журнал генетики и селекции |
| spelling | doaj-art-b981bcee8b6a414b894b28263d4ab4d32025-02-01T09:58:09ZengSiberian Branch of the Russian Academy of Sciences, Federal Research Center Institute of Cytology and Genetics, The Vavilov Society of Geneticists and BreedersВавиловский журнал генетики и селекции2500-32592020-12-0124769770410.18699/VJ20.6641097SSR-based evaluation of genetic diversity in populations of Agriophyllum squarrosum L. and Agriophyllum minus Fisch. & Mey. collected in South-East KazakhstanY. Genievskaya0D. Karelova1S. Abugalieva2P. Zhao3G. Chen4Y. Turuspekov5Laboratory of molecular genetics, Institute of Plant Biology and BiotechnologyLaboratory of molecular genetics, Institute of Plant Biology and BiotechnologyLaboratory of molecular genetics, Institute of Plant Biology and Biotechnology; Department of biodiversity and bioresources, al-Farabi Kazakh National UniversityKey laboratory of stress physiology and ecology in cold and arid regions, Northwest Institute of Eco-Environment and ResourcesKey laboratory of stress physiology and ecology in cold and arid regions, Northwest Institute of Eco-Environment and ResourcesLaboratory of molecular genetics, Institute of Plant Biology and Biotechnology; Department of biodiversity and bioresources, al-Farabi Kazakh National UniversityThe development of informative polymorphic DNA markers for poorly studied genera is an important step in population analyses of living organisms, including those that play very important ecological roles in harsh environments, such as desert and semi-desert area. Examples of those poorly studied desert species are Agriophyllum squarrosum L. and Agriophyllum minus Fisch. & Mey. However, a recent RNA-sequencing project in A. squarrosum has proposed a large set of hypothetical SSR (simple sequence repeat) markers. In this work, 11 novel polymorphic SSRs were found due to the screening of 24 randomly selected SSRs for three populations of A. squarrosum and one population of A. minus. The analysis of 11 SSRs revealed 16 polymorphic loci in two Agriophyllum species, 8 polymorphic loci within three populations of A. squarrosum, and 6 polymorphic loci in the population of A. minus. Statistical analyses showed high interspecific, but relatively low intraspecific genetic diversity. The phylogenetic clusterization and population structure analysis have demonstrated a clear segregation of A. minus from A. squarrosum, as well as the separation of population 1 from populations 2 and 3 of A. squarrosum. Thus, we identified the set of novel and informative SSR markers suitable for the study of genetic diversity in Agriophyllum.https://vavilov.elpub.ru/jour/article/view/2812and riceagriophyllum squarrosumagriophyllum minusssr markersgenetic diversitypopulation structure |
| spellingShingle | Y. Genievskaya D. Karelova S. Abugalieva P. Zhao G. Chen Y. Turuspekov SSR-based evaluation of genetic diversity in populations of Agriophyllum squarrosum L. and Agriophyllum minus Fisch. & Mey. collected in South-East Kazakhstan Вавиловский журнал генетики и селекции and rice agriophyllum squarrosum agriophyllum minus ssr markers genetic diversity population structure |
| title | SSR-based evaluation of genetic diversity in populations of Agriophyllum squarrosum L. and Agriophyllum minus Fisch. & Mey. collected in South-East Kazakhstan |
| title_full | SSR-based evaluation of genetic diversity in populations of Agriophyllum squarrosum L. and Agriophyllum minus Fisch. & Mey. collected in South-East Kazakhstan |
| title_fullStr | SSR-based evaluation of genetic diversity in populations of Agriophyllum squarrosum L. and Agriophyllum minus Fisch. & Mey. collected in South-East Kazakhstan |
| title_full_unstemmed | SSR-based evaluation of genetic diversity in populations of Agriophyllum squarrosum L. and Agriophyllum minus Fisch. & Mey. collected in South-East Kazakhstan |
| title_short | SSR-based evaluation of genetic diversity in populations of Agriophyllum squarrosum L. and Agriophyllum minus Fisch. & Mey. collected in South-East Kazakhstan |
| title_sort | ssr based evaluation of genetic diversity in populations of agriophyllum squarrosum l and agriophyllum minus fisch mey collected in south east kazakhstan |
| topic | and rice agriophyllum squarrosum agriophyllum minus ssr markers genetic diversity population structure |
| url | https://vavilov.elpub.ru/jour/article/view/2812 |
| work_keys_str_mv | AT ygenievskaya ssrbasedevaluationofgeneticdiversityinpopulationsofagriophyllumsquarrosumlandagriophyllumminusfischmeycollectedinsoutheastkazakhstan AT dkarelova ssrbasedevaluationofgeneticdiversityinpopulationsofagriophyllumsquarrosumlandagriophyllumminusfischmeycollectedinsoutheastkazakhstan AT sabugalieva ssrbasedevaluationofgeneticdiversityinpopulationsofagriophyllumsquarrosumlandagriophyllumminusfischmeycollectedinsoutheastkazakhstan AT pzhao ssrbasedevaluationofgeneticdiversityinpopulationsofagriophyllumsquarrosumlandagriophyllumminusfischmeycollectedinsoutheastkazakhstan AT gchen ssrbasedevaluationofgeneticdiversityinpopulationsofagriophyllumsquarrosumlandagriophyllumminusfischmeycollectedinsoutheastkazakhstan AT yturuspekov ssrbasedevaluationofgeneticdiversityinpopulationsofagriophyllumsquarrosumlandagriophyllumminusfischmeycollectedinsoutheastkazakhstan |