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      • Record: found
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      Characterization of 30 microsatellite markers in distylous Primula sinolisteri (Primulaceae) using HiSeq sequencing

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          Abstract

          Premise of the Study

          Microsatellite markers were developed for Primula sinolisteri, a perennial distylous herb belonging to section Obconicolisteri (Primulaceae), to facilitate future investigations of the population genetics and mating patterns of populations in this species.

          Methods and Results

          We developed 30 microsatellite markers for P. sinolisteri using HiSeq X‐Ten sequencing and measured polymorphism and genetic diversity in a sample of 36 individuals from three natural populations. The markers displayed relatively high polymorphism, with the number of observed alleles per locus ranging from one to 19 (mean = 4.42). The observed and expected heterozygosity ranged from 0–1.000 and 0.083–0.882, respectively. Twenty‐nine of the loci were also successfully amplified in homostylous P. sinolisteri var. aspera.

          Conclusions

          The microsatellite markers we have identified in P. sinolisteri provide powerful tools for investigating patterns of population genetic diversity and the evolutionary relationships between heterostyly and homostyly in this species.

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          Exploiting EST databases for the development and characterization of gene-derived SSR-markers in barley (Hordeum vulgare L.).

          T Thiel, W Michalek, R. K. Varshney … (2003)
          A software tool was developed for the identification of simple sequence repeats (SSRs) in a barley ( Hordeum vulgare L.) EST (expressed sequence tag) database comprising 24,595 sequences. In total, 1,856 SSR-containing sequences were identified. Trimeric SSR repeat motifs appeared to be the most abundant type. A subset of 311 primer pairs flanking SSR loci have been used for screening polymorphisms among six barley cultivars, being parents of three mapping populations. As a result, 76 EST-derived SSR-markers were integrated into a barley genetic consensus map. A correlation between polymorphism and the number of repeats was observed for SSRs built of dimeric up to tetrameric units. 3'-ESTs yielded a higher portion of polymorphic SSRs (64%) than 5'-ESTs did. The estimated PIC (polymorphic information content) value was 0.45 +/- 0.03. Approximately 80% of the SSR-markers amplified DNA fragments in Hordeum bulbosum, followed by rye, wheat (both about 60%) and rice (40%). A subset of 38 EST-derived SSR-markers comprising 114 alleles were used to investigate genetic diversity among 54 barley cultivars. In accordance with a previous, RFLP-based, study, spring and winter cultivars, as well as two- and six-rowed barleys, formed separate clades upon PCoA analysis. The results show that: (1) with the software tool developed, EST databases can be efficiently exploited for the development of cDNA-SSRs, (2) EST-derived SSRs are significantly less polymorphic than those derived from genomic regions, (3) a considerable portion of the developed SSRs can be transferred to related species, and (4) compared to RFLP-markers, cDNA-SSRs yield similar patterns of genetic diversity.
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            A rapid DNA isolation procedure for small amounts of fresh leaf tissue

            JJ Doyle, JL Doyle, JA DOYLE … (1987)
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              MICRO‐CHECKER: software for identifying and correcting genotyping errors in microsatellite data

              C. Van Oosterhout, WF Hutchinson, DP Wills … (2004)
              Article 0 comments Cited 70 times – based on 0 reviews     Review now
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                Author and article information

                Contributors
                Wei Zhou:
                ORCID: http://orcid.org/0000-0001-5527-3776
                zhouwei@mail.kib.ac.cn
                Journal
                Journal ID (nlm-ta): Appl Plant Sci
                Journal ID (iso-abbrev): Appl Plant Sci
                Journal ID (doi): 10.1002/(ISSN)2168-0450
                Journal ID (publisher-id): APS3
                Title: Applications in Plant Sciences
                Publisher: John Wiley and Sons Inc. (Hoboken )
                ISSN (Electronic): 2168-0450
                Publication date (Electronic): 03 January 2019
                Publication date Collection: January 2019
                Volume: 7
                Issue: 1 ( doiID: 10.1111/aps3.2019.7.issue-1 )
                Electronic Location Identifier: e01208
                Affiliations
                [ 1 ] Key Laboratory for Plant Diversity and Biogeography of East Asia Kunming Institute of Botany Chinese Academy of Sciences Kunming 650201 Yunnan People's Republic of China
                [ 2 ] University of the Chinese Academy of Sciences Beijing 100049 People's Republic of China
                [ 3 ] Department of Pharmacy Guiyang University of Traditional Chinese Medicine Guiyang 550002 Guizhou People's Republic of China
                [ 4 ] Plant Germplasm and Genomics Center Germplasm Bank of Wild Species Kunming Institute of Botany Chinese Academy of Sciences Kunming 650201 Yunnan People's Republic of China
                [ 5 ] Department of Ecology and Evolutionary Biology University of Toronto Toronto Ontario M5S 3B2 Canada
                Author notes
                [*] [* ]Author for correspondence: zhouwei@ 123456mail.kib.ac.cn
                Author information
                http://orcid.org/0000-0002-7762-3455
                http://orcid.org/0000-0001-5527-3776
                Article
                Publisher ID: APS31208
                DOI: 10.1002/aps3.1208
                PMC ID: 6342175
                SO-VID: ea0d90b0-81b0-43c4-8563-94e24efa7acc
                Copyright © © 2019 Wang et al. Applications in Plant Sciences is published by Wiley Periodicals, Inc. on behalf of the Botanical Society of America
                License:

                This is an open access article under the terms of the http://creativecommons.org/licenses/by-nc-nd/4.0/ License, which permits use and distribution in any medium, provided the original work is properly cited, the use is non‐commercial and no modifications or adaptations are made.

                History
                Date received : 18 August 2018
                Date accepted : 23 October 2018
                Page count
                Figures: 0, Tables: 2, Pages: 6, Words: 4194
                Funding
                Funded by: National Natural Science Foundation of China
                Award ID: 31570384
                Award ID: 31770417
                Funded by: Joint Fund of National Natural Science Foundation of China–Yunnan Province
                Award ID: U1502261
                Categories
                Subject: Primer Note
                Subject: Primer Notes
                Custom metadata
                source-schema-version-number 2.0
                component-id aps31208
                cover-date January 2019
                details-of-publishers-convertor Converter:WILEY_ML3GV2_TO_NLMPMC version:5.5.6 mode:remove_FC converted:22.01.2019

                Keywords: distyly,hiseq,homostyly,microsatellites,primula sinolisteri,primulaceae
                Data availability:
                Keywords: distyly, hiseq, homostyly, microsatellites, primula sinolisteri, primulaceae

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