Characterization and transferability of microsatellites for Gentiana lawrencei var. farreri (Gentianaceae)
Premise of the Study Microsatellite markers were developed for a medicinal herb, Gentiana lawrencei var. farreri (Gentianaceae), for the future assessment of population genetic structure and potential hybridization events with related taxa. Methods and Results Using the 454 FLX+ sequencing platform,...
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| Veröffentlicht in: | Applications in plant sciences 2018-01, Vol.6 (1), p.e1015-n/a |
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| creator | Sun, Shan‐Shan Fu, Peng‐Cheng Cheng, Yan‐Wei Zhou, Xiao‐Jun Han, Jian‐Min |
| description | Premise of the Study
Microsatellite markers were developed for a medicinal herb, Gentiana lawrencei var. farreri (Gentianaceae), for the future assessment of population genetic structure and potential hybridization events with related taxa.
Methods and Results
Using the 454 FLX+ sequencing platform, we obtained 81,717 clean reads with an average length of 291 bp. A total of 3031 primer pairs were designed, and 96 were selected for validation. A set of 20 fluorescently labeled primer pairs was further selected and screened for polymorphisms in three G. lawrencei var. farreri populations and one G. veitchiorum population. Among the four populations, the average number of alleles per locus was 15.2. Finally, a set of 17 unlinked loci were determined to be in Hardy–Weinberg equilibrium after two linked loci were removed.
Conclusions
The identified simple sequence repeat markers will be useful for genetic diversity and evolution studies in G. lawrencei var. farreri and related taxa. |
| doi_str_mv | 10.1002/aps3.1015 |
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Microsatellite markers were developed for a medicinal herb, Gentiana lawrencei var. farreri (Gentianaceae), for the future assessment of population genetic structure and potential hybridization events with related taxa.
Methods and Results
Using the 454 FLX+ sequencing platform, we obtained 81,717 clean reads with an average length of 291 bp. A total of 3031 primer pairs were designed, and 96 were selected for validation. A set of 20 fluorescently labeled primer pairs was further selected and screened for polymorphisms in three G. lawrencei var. farreri populations and one G. veitchiorum population. Among the four populations, the average number of alleles per locus was 15.2. Finally, a set of 17 unlinked loci were determined to be in Hardy–Weinberg equilibrium after two linked loci were removed.
Conclusions
The identified simple sequence repeat markers will be useful for genetic diversity and evolution studies in G. lawrencei var. farreri and related taxa.</description><identifier>ISSN: 2168-0450</identifier><identifier>EISSN: 2168-0450</identifier><identifier>DOI: 10.1002/aps3.1015</identifier><identifier>PMID: 29732246</identifier><language>eng</language><publisher>United States: John Wiley & Sons, Inc</publisher><subject>Biotechnology ; Deoxyribonucleic acid ; DNA ; Evolution ; Genetic diversity ; Genetic markers ; Genetic structure ; Gentiana ; Gentiana lawrencei ; Gentianaceae ; Herbal medicine ; Hybridization ; Life sciences ; medicinal herb ; Medicinal plants ; microsatellite primers ; Microsatellites ; Phylogenetics ; Plant sciences ; Polymorphism ; Population genetics ; Primer Note ; Primer Notes ; Studies ; transferability</subject><ispartof>Applications in plant sciences, 2018-01, Vol.6 (1), p.e1015-n/a</ispartof><rights>2018 Sun et al. is published by Wiley Periodicals, Inc. on behalf of the Botanical Society of America.</rights><rights>2018. This work is published under http://creativecommons.org/licenses/by-nc/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c4435-6fc2f3e26309bde0cf1d9fb54f04a05c89069bf5b30bd90e51cfb727ad860263</citedby><cites>FETCH-LOGICAL-c4435-6fc2f3e26309bde0cf1d9fb54f04a05c89069bf5b30bd90e51cfb727ad860263</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC5828123/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC5828123/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,725,778,782,862,883,1414,11545,27907,27908,45557,45558,46035,46459,53774,53776</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/29732246$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Sun, Shan‐Shan</creatorcontrib><creatorcontrib>Fu, Peng‐Cheng</creatorcontrib><creatorcontrib>Cheng, Yan‐Wei</creatorcontrib><creatorcontrib>Zhou, Xiao‐Jun</creatorcontrib><creatorcontrib>Han, Jian‐Min</creatorcontrib><title>Characterization and transferability of microsatellites for Gentiana lawrencei var. farreri (Gentianaceae)</title><title>Applications in plant sciences</title><addtitle>Appl Plant Sci</addtitle><description>Premise of the Study
Microsatellite markers were developed for a medicinal herb, Gentiana lawrencei var. farreri (Gentianaceae), for the future assessment of population genetic structure and potential hybridization events with related taxa.
Methods and Results
Using the 454 FLX+ sequencing platform, we obtained 81,717 clean reads with an average length of 291 bp. A total of 3031 primer pairs were designed, and 96 were selected for validation. A set of 20 fluorescently labeled primer pairs was further selected and screened for polymorphisms in three G. lawrencei var. farreri populations and one G. veitchiorum population. Among the four populations, the average number of alleles per locus was 15.2. Finally, a set of 17 unlinked loci were determined to be in Hardy–Weinberg equilibrium after two linked loci were removed.
Conclusions
The identified simple sequence repeat markers will be useful for genetic diversity and evolution studies in G. lawrencei var. farreri and related taxa.</description><subject>Biotechnology</subject><subject>Deoxyribonucleic acid</subject><subject>DNA</subject><subject>Evolution</subject><subject>Genetic diversity</subject><subject>Genetic markers</subject><subject>Genetic structure</subject><subject>Gentiana</subject><subject>Gentiana lawrencei</subject><subject>Gentianaceae</subject><subject>Herbal medicine</subject><subject>Hybridization</subject><subject>Life sciences</subject><subject>medicinal herb</subject><subject>Medicinal plants</subject><subject>microsatellite primers</subject><subject>Microsatellites</subject><subject>Phylogenetics</subject><subject>Plant sciences</subject><subject>Polymorphism</subject><subject>Population genetics</subject><subject>Primer Note</subject><subject>Primer Notes</subject><subject>Studies</subject><subject>transferability</subject><issn>2168-0450</issn><issn>2168-0450</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2018</creationdate><recordtype>article</recordtype><sourceid>24P</sourceid><sourceid>WIN</sourceid><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><recordid>eNp1kV9LXDEQxUNpqWJ96Bcogb7ow-okubl_XgqytFoQFPQ9zM2d1Cx3k21yV9l--mZdFVswLxkmvxzOzGHss4ATASBPcZVVqYR-x_alqNsZVBrev6r32GHOCyinLa2u-sj2ZNcoKat6ny3md5jQTpT8H5x8DBzDwKeEITtK2PvRTxseHV96m2LGicbSocxdTPycwuQxIB_xIVGw5Pk9phPuMKUiyI-eAUtIx5_YB4djpsOn-4Dd_vh-O7-YXV6d_5yfXc5sVSk9q52VTpGsFXT9QGCdGDrX68pBhaBt20Hd9U73CvqhA9LCur6RDQ5tDeXXAfu2k12t-yUNtlhIOJpV8ktMGxPRm39fgr8zv-K90a1shVRF4OhJIMXfa8qTWfpsy9wYKK6zkaB0A6ppZEG__ocu4jqFMp2RstYFgU4U6nhHbTeYE7kXMwLMNkOzzdBsMyzsl9fuX8jnxApwugMe_Eibt5XM2fWNepT8C2zEp60</recordid><startdate>201801</startdate><enddate>201801</enddate><creator>Sun, Shan‐Shan</creator><creator>Fu, Peng‐Cheng</creator><creator>Cheng, Yan‐Wei</creator><creator>Zhou, Xiao‐Jun</creator><creator>Han, Jian‐Min</creator><general>John Wiley & Sons, Inc</general><general>John Wiley and Sons Inc</general><scope>24P</scope><scope>WIN</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>8FE</scope><scope>8FH</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>GNUQQ</scope><scope>HCIFZ</scope><scope>LK8</scope><scope>M7P</scope><scope>PIMPY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>7X8</scope><scope>5PM</scope></search><sort><creationdate>201801</creationdate><title>Characterization and transferability of microsatellites for Gentiana lawrencei var. farreri (Gentianaceae)</title><author>Sun, Shan‐Shan ; Fu, Peng‐Cheng ; Cheng, Yan‐Wei ; Zhou, Xiao‐Jun ; Han, Jian‐Min</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c4435-6fc2f3e26309bde0cf1d9fb54f04a05c89069bf5b30bd90e51cfb727ad860263</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2018</creationdate><topic>Biotechnology</topic><topic>Deoxyribonucleic acid</topic><topic>DNA</topic><topic>Evolution</topic><topic>Genetic diversity</topic><topic>Genetic markers</topic><topic>Genetic structure</topic><topic>Gentiana</topic><topic>Gentiana lawrencei</topic><topic>Gentianaceae</topic><topic>Herbal medicine</topic><topic>Hybridization</topic><topic>Life sciences</topic><topic>medicinal herb</topic><topic>Medicinal plants</topic><topic>microsatellite primers</topic><topic>Microsatellites</topic><topic>Phylogenetics</topic><topic>Plant sciences</topic><topic>Polymorphism</topic><topic>Population genetics</topic><topic>Primer Note</topic><topic>Primer Notes</topic><topic>Studies</topic><topic>transferability</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Sun, Shan‐Shan</creatorcontrib><creatorcontrib>Fu, Peng‐Cheng</creatorcontrib><creatorcontrib>Cheng, Yan‐Wei</creatorcontrib><creatorcontrib>Zhou, Xiao‐Jun</creatorcontrib><creatorcontrib>Han, Jian‐Min</creatorcontrib><collection>Wiley Online Library Open Access</collection><collection>Wiley Free Content</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest Central UK/Ireland</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Natural Science Collection</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>ProQuest Central Student</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Biological Science Collection</collection><collection>Biological Science Database</collection><collection>Publicly Available Content Database</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>ProQuest Central China</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Applications in plant sciences</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Sun, Shan‐Shan</au><au>Fu, Peng‐Cheng</au><au>Cheng, Yan‐Wei</au><au>Zhou, Xiao‐Jun</au><au>Han, Jian‐Min</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Characterization and transferability of microsatellites for Gentiana lawrencei var. farreri (Gentianaceae)</atitle><jtitle>Applications in plant sciences</jtitle><addtitle>Appl Plant Sci</addtitle><date>2018-01</date><risdate>2018</risdate><volume>6</volume><issue>1</issue><spage>e1015</spage><epage>n/a</epage><pages>e1015-n/a</pages><issn>2168-0450</issn><eissn>2168-0450</eissn><abstract>Premise of the Study
Microsatellite markers were developed for a medicinal herb, Gentiana lawrencei var. farreri (Gentianaceae), for the future assessment of population genetic structure and potential hybridization events with related taxa.
Methods and Results
Using the 454 FLX+ sequencing platform, we obtained 81,717 clean reads with an average length of 291 bp. A total of 3031 primer pairs were designed, and 96 were selected for validation. A set of 20 fluorescently labeled primer pairs was further selected and screened for polymorphisms in three G. lawrencei var. farreri populations and one G. veitchiorum population. Among the four populations, the average number of alleles per locus was 15.2. Finally, a set of 17 unlinked loci were determined to be in Hardy–Weinberg equilibrium after two linked loci were removed.
Conclusions
The identified simple sequence repeat markers will be useful for genetic diversity and evolution studies in G. lawrencei var. farreri and related taxa.</abstract><cop>United States</cop><pub>John Wiley & Sons, Inc</pub><pmid>29732246</pmid><doi>10.1002/aps3.1015</doi><tpages>6</tpages><oa>free_for_read</oa></addata></record> |
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| subjects | Biotechnology Deoxyribonucleic acid DNA Evolution Genetic diversity Genetic markers Genetic structure Gentiana Gentiana lawrencei Gentianaceae Herbal medicine Hybridization Life sciences medicinal herb Medicinal plants microsatellite primers Microsatellites Phylogenetics Plant sciences Polymorphism Population genetics Primer Note Primer Notes Studies transferability |
| title | Characterization and transferability of microsatellites for Gentiana lawrencei var. farreri (Gentianaceae) |
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