Development of highly polymorphic simple sequence repeat markers using genome-wide microsatellite variant analysis in Foxtail millet [Setaria italica (L.) P. Beauv]
Foxtail millet (Setaria italica (L.) Beauv.) is an important gramineous grain-food and forage crop. It is grown worldwide for human and livestock consumption. Its small genome and diploid nature have led to foxtail millet fast becoming a novel model for investigating plant architecture, drought tole...
Gespeichert in:
| Veröffentlicht in: | BMC genomics 2014-01, Vol.15 (1), p.78-78, Article 78 |
|---|---|
| Hauptverfasser: | , , , , , , , , , , , , , , , , , , |
| Format: | Artikel |
| Sprache: | eng |
| Schlagworte: | |
| Online-Zugang: | Volltext |
| Tags: |
Tag hinzufügen
Keine Tags, Fügen Sie den ersten Tag hinzu!
|
| container_end_page | 78 |
|---|---|
| container_issue | 1 |
| container_start_page | 78 |
| container_title | BMC genomics |
| container_volume | 15 |
| creator | Zhang, Shuo Tang, Chanjuan Zhao, Qiang Li, Jing Yang, Lifang Qie, Lufeng Fan, Xingke Li, Lin Zhang, Ning Zhao, Meicheng Liu, Xiaotong Chai, Yang Zhang, Xue Wang, Hailong Li, Yingtao Li, Wen Zhi, Hui Jia, Guanqing Diao, Xianmin |
| description | Foxtail millet (Setaria italica (L.) Beauv.) is an important gramineous grain-food and forage crop. It is grown worldwide for human and livestock consumption. Its small genome and diploid nature have led to foxtail millet fast becoming a novel model for investigating plant architecture, drought tolerance and C4 photosynthesis of grain and bioenergy crops. Therefore, cost-effective, reliable and highly polymorphic molecular markers covering the entire genome are required for diversity, mapping and functional genomics studies in this model species.
A total of 5,020 highly repetitive microsatellite motifs were isolated from the released genome of the genotype 'Yugu1' by sequence scanning. Based on sequence comparison between S. italica and S. viridis, a set of 788 SSR primer pairs were designed. Of these primers, 733 produced reproducible amplicons and were polymorphic among 28 Setaria genotypes selected from diverse geographical locations. The number of alleles detected by these SSR markers ranged from 2 to 16, with an average polymorphism information content of 0.67. The result obtained by neighbor-joining cluster analysis of 28 Setaria genotypes, based on Nei's genetic distance of the SSR data, showed that these SSR markers are highly polymorphic and effective.
A large set of highly polymorphic SSR markers were successfully and efficiently developed based on genomic sequence comparison between different genotypes of the genus Setaria. The large number of new SSR markers and their placement on the physical map represent a valuable resource for studying diversity, constructing genetic maps, functional gene mapping, QTL exploration and molecular breeding in foxtail millet and its closely related species. |
| doi_str_mv | 10.1186/1471-2164-15-78 |
| format | Article |
| fullrecord | <record><control><sourceid>proquest_pubme</sourceid><recordid>TN_cdi_pubmedcentral_primary_oai_pubmedcentral_nih_gov_3930901</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><sourcerecordid>3226268351</sourcerecordid><originalsourceid>FETCH-LOGICAL-b513t-9ebaf9c65e1ddfab1d64712340ed25ccf5b158fe8371ce4d6eeb60668d7c5e703</originalsourceid><addsrcrecordid>eNqNksGL1DAYxYMo7jp69iYBL-uhs0nTpO1F2F1dFQYU1JNISNOvM1nTpibp6Pw__qGmzjrsioKnhHw_Hi_vfQg9pmRJaSVOaVHSLKeiyCjPyuoOOj683L1xP0IPQrgihJZVzu-jo7woylwweox-vIAtWDf2METsOrwx643d4dHZXe_8uDEaB9OPFnCArxMMGrCHEVTEvfJfwAc8BTOs8RoG10P2zbSAe6O9CyqCtSYC3ipvVFJXg7K7YAI2A75036MyNqHWQsSf3kOcKWyiskYrfLJaPsPvlvgc1LT9_BDd65QN8Oj6XKCPly8_XLzOVm9fvbk4W2UNpyxmNTSqq7XgQNu2Uw1tRQogZwWBNudad7yhvOqgYiXVULQCoBFEiKotNYeSsAV6vtcdp6aHVqdMvLJy9CZ9diedMvL2ZDAbuXZbyWpGakKTwPleoDHuHwK3J9r1cm5Jzi1JymVZJZGTaxfepchDlL0JOoWpBnBTSBThrKgo5f-D0opVQszWnv6BXrnJp0p-UaTmtUgbsUCne2puMHjoDt4pkfPG_cXtk5uZHfjfK8Z-As711Xs</addsrcrecordid><sourcetype>Open Access Repository</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>1500959626</pqid></control><display><type>article</type><title>Development of highly polymorphic simple sequence repeat markers using genome-wide microsatellite variant analysis in Foxtail millet [Setaria italica (L.) P. Beauv]</title><source>MEDLINE</source><source>Springer Nature - Complete Springer Journals</source><source>DOAJ Directory of Open Access Journals</source><source>Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals</source><source>PubMed Central</source><source>PubMed Central Open Access</source><source>Springer Nature OA Free Journals</source><creator>Zhang, Shuo ; Tang, Chanjuan ; Zhao, Qiang ; Li, Jing ; Yang, Lifang ; Qie, Lufeng ; Fan, Xingke ; Li, Lin ; Zhang, Ning ; Zhao, Meicheng ; Liu, Xiaotong ; Chai, Yang ; Zhang, Xue ; Wang, Hailong ; Li, Yingtao ; Li, Wen ; Zhi, Hui ; Jia, Guanqing ; Diao, Xianmin</creator><creatorcontrib>Zhang, Shuo ; Tang, Chanjuan ; Zhao, Qiang ; Li, Jing ; Yang, Lifang ; Qie, Lufeng ; Fan, Xingke ; Li, Lin ; Zhang, Ning ; Zhao, Meicheng ; Liu, Xiaotong ; Chai, Yang ; Zhang, Xue ; Wang, Hailong ; Li, Yingtao ; Li, Wen ; Zhi, Hui ; Jia, Guanqing ; Diao, Xianmin</creatorcontrib><description>Foxtail millet (Setaria italica (L.) Beauv.) is an important gramineous grain-food and forage crop. It is grown worldwide for human and livestock consumption. Its small genome and diploid nature have led to foxtail millet fast becoming a novel model for investigating plant architecture, drought tolerance and C4 photosynthesis of grain and bioenergy crops. Therefore, cost-effective, reliable and highly polymorphic molecular markers covering the entire genome are required for diversity, mapping and functional genomics studies in this model species.
A total of 5,020 highly repetitive microsatellite motifs were isolated from the released genome of the genotype 'Yugu1' by sequence scanning. Based on sequence comparison between S. italica and S. viridis, a set of 788 SSR primer pairs were designed. Of these primers, 733 produced reproducible amplicons and were polymorphic among 28 Setaria genotypes selected from diverse geographical locations. The number of alleles detected by these SSR markers ranged from 2 to 16, with an average polymorphism information content of 0.67. The result obtained by neighbor-joining cluster analysis of 28 Setaria genotypes, based on Nei's genetic distance of the SSR data, showed that these SSR markers are highly polymorphic and effective.
A large set of highly polymorphic SSR markers were successfully and efficiently developed based on genomic sequence comparison between different genotypes of the genus Setaria. The large number of new SSR markers and their placement on the physical map represent a valuable resource for studying diversity, constructing genetic maps, functional gene mapping, QTL exploration and molecular breeding in foxtail millet and its closely related species.</description><identifier>ISSN: 1471-2164</identifier><identifier>EISSN: 1471-2164</identifier><identifier>DOI: 10.1186/1471-2164-15-78</identifier><identifier>PMID: 24472631</identifier><language>eng</language><publisher>England: BioMed Central</publisher><subject>Alleles ; Chromosome Mapping ; Chromosomes ; Chromosomes, Plant ; Crops ; Genes ; Genetic Markers ; Genome, Plant ; Genomics ; Genotype ; Microsatellite Repeats ; Polymorphism, Genetic ; Quantitative Trait Loci ; Rice ; Setaria ; Setaria Plant - genetics</subject><ispartof>BMC genomics, 2014-01, Vol.15 (1), p.78-78, Article 78</ispartof><rights>2014 Zhang et al.; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.</rights><rights>Copyright © 2014 Zhang et al.; licensee BioMed Central Ltd. 2014 Zhang et al.; licensee BioMed Central Ltd.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-b513t-9ebaf9c65e1ddfab1d64712340ed25ccf5b158fe8371ce4d6eeb60668d7c5e703</citedby><cites>FETCH-LOGICAL-b513t-9ebaf9c65e1ddfab1d64712340ed25ccf5b158fe8371ce4d6eeb60668d7c5e703</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/PMC3930901/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC3930901/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,723,776,780,860,881,27901,27902,53766,53768</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/24472631$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Zhang, Shuo</creatorcontrib><creatorcontrib>Tang, Chanjuan</creatorcontrib><creatorcontrib>Zhao, Qiang</creatorcontrib><creatorcontrib>Li, Jing</creatorcontrib><creatorcontrib>Yang, Lifang</creatorcontrib><creatorcontrib>Qie, Lufeng</creatorcontrib><creatorcontrib>Fan, Xingke</creatorcontrib><creatorcontrib>Li, Lin</creatorcontrib><creatorcontrib>Zhang, Ning</creatorcontrib><creatorcontrib>Zhao, Meicheng</creatorcontrib><creatorcontrib>Liu, Xiaotong</creatorcontrib><creatorcontrib>Chai, Yang</creatorcontrib><creatorcontrib>Zhang, Xue</creatorcontrib><creatorcontrib>Wang, Hailong</creatorcontrib><creatorcontrib>Li, Yingtao</creatorcontrib><creatorcontrib>Li, Wen</creatorcontrib><creatorcontrib>Zhi, Hui</creatorcontrib><creatorcontrib>Jia, Guanqing</creatorcontrib><creatorcontrib>Diao, Xianmin</creatorcontrib><title>Development of highly polymorphic simple sequence repeat markers using genome-wide microsatellite variant analysis in Foxtail millet [Setaria italica (L.) P. Beauv]</title><title>BMC genomics</title><addtitle>BMC Genomics</addtitle><description>Foxtail millet (Setaria italica (L.) Beauv.) is an important gramineous grain-food and forage crop. It is grown worldwide for human and livestock consumption. Its small genome and diploid nature have led to foxtail millet fast becoming a novel model for investigating plant architecture, drought tolerance and C4 photosynthesis of grain and bioenergy crops. Therefore, cost-effective, reliable and highly polymorphic molecular markers covering the entire genome are required for diversity, mapping and functional genomics studies in this model species.
A total of 5,020 highly repetitive microsatellite motifs were isolated from the released genome of the genotype 'Yugu1' by sequence scanning. Based on sequence comparison between S. italica and S. viridis, a set of 788 SSR primer pairs were designed. Of these primers, 733 produced reproducible amplicons and were polymorphic among 28 Setaria genotypes selected from diverse geographical locations. The number of alleles detected by these SSR markers ranged from 2 to 16, with an average polymorphism information content of 0.67. The result obtained by neighbor-joining cluster analysis of 28 Setaria genotypes, based on Nei's genetic distance of the SSR data, showed that these SSR markers are highly polymorphic and effective.
A large set of highly polymorphic SSR markers were successfully and efficiently developed based on genomic sequence comparison between different genotypes of the genus Setaria. The large number of new SSR markers and their placement on the physical map represent a valuable resource for studying diversity, constructing genetic maps, functional gene mapping, QTL exploration and molecular breeding in foxtail millet and its closely related species.</description><subject>Alleles</subject><subject>Chromosome Mapping</subject><subject>Chromosomes</subject><subject>Chromosomes, Plant</subject><subject>Crops</subject><subject>Genes</subject><subject>Genetic Markers</subject><subject>Genome, Plant</subject><subject>Genomics</subject><subject>Genotype</subject><subject>Microsatellite Repeats</subject><subject>Polymorphism, Genetic</subject><subject>Quantitative Trait Loci</subject><subject>Rice</subject><subject>Setaria</subject><subject>Setaria Plant - genetics</subject><issn>1471-2164</issn><issn>1471-2164</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2014</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>BENPR</sourceid><recordid>eNqNksGL1DAYxYMo7jp69iYBL-uhs0nTpO1F2F1dFQYU1JNISNOvM1nTpibp6Pw__qGmzjrsioKnhHw_Hi_vfQg9pmRJaSVOaVHSLKeiyCjPyuoOOj683L1xP0IPQrgihJZVzu-jo7woylwweox-vIAtWDf2METsOrwx643d4dHZXe_8uDEaB9OPFnCArxMMGrCHEVTEvfJfwAc8BTOs8RoG10P2zbSAe6O9CyqCtSYC3ipvVFJXg7K7YAI2A75036MyNqHWQsSf3kOcKWyiskYrfLJaPsPvlvgc1LT9_BDd65QN8Oj6XKCPly8_XLzOVm9fvbk4W2UNpyxmNTSqq7XgQNu2Uw1tRQogZwWBNudad7yhvOqgYiXVULQCoBFEiKotNYeSsAV6vtcdp6aHVqdMvLJy9CZ9diedMvL2ZDAbuXZbyWpGakKTwPleoDHuHwK3J9r1cm5Jzi1JymVZJZGTaxfepchDlL0JOoWpBnBTSBThrKgo5f-D0opVQszWnv6BXrnJp0p-UaTmtUgbsUCne2puMHjoDt4pkfPG_cXtk5uZHfjfK8Z-As711Xs</recordid><startdate>20140128</startdate><enddate>20140128</enddate><creator>Zhang, Shuo</creator><creator>Tang, Chanjuan</creator><creator>Zhao, Qiang</creator><creator>Li, Jing</creator><creator>Yang, Lifang</creator><creator>Qie, Lufeng</creator><creator>Fan, Xingke</creator><creator>Li, Lin</creator><creator>Zhang, Ning</creator><creator>Zhao, Meicheng</creator><creator>Liu, Xiaotong</creator><creator>Chai, Yang</creator><creator>Zhang, Xue</creator><creator>Wang, Hailong</creator><creator>Li, Yingtao</creator><creator>Li, Wen</creator><creator>Zhi, Hui</creator><creator>Jia, Guanqing</creator><creator>Diao, Xianmin</creator><general>BioMed Central</general><general>BioMed Central Ltd</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7QP</scope><scope>7QR</scope><scope>7SS</scope><scope>7TK</scope><scope>7U7</scope><scope>7X7</scope><scope>7XB</scope><scope>88E</scope><scope>8AO</scope><scope>8FD</scope><scope>8FE</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABUWG</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>LK8</scope><scope>M0S</scope><scope>M1P</scope><scope>M7P</scope><scope>P64</scope><scope>PIMPY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>RC3</scope><scope>7X8</scope><scope>5PM</scope></search><sort><creationdate>20140128</creationdate><title>Development of highly polymorphic simple sequence repeat markers using genome-wide microsatellite variant analysis in Foxtail millet [Setaria italica (L.) P. Beauv]</title><author>Zhang, Shuo ; Tang, Chanjuan ; Zhao, Qiang ; Li, Jing ; Yang, Lifang ; Qie, Lufeng ; Fan, Xingke ; Li, Lin ; Zhang, Ning ; Zhao, Meicheng ; Liu, Xiaotong ; Chai, Yang ; Zhang, Xue ; Wang, Hailong ; Li, Yingtao ; Li, Wen ; Zhi, Hui ; Jia, Guanqing ; Diao, Xianmin</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-b513t-9ebaf9c65e1ddfab1d64712340ed25ccf5b158fe8371ce4d6eeb60668d7c5e703</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2014</creationdate><topic>Alleles</topic><topic>Chromosome Mapping</topic><topic>Chromosomes</topic><topic>Chromosomes, Plant</topic><topic>Crops</topic><topic>Genes</topic><topic>Genetic Markers</topic><topic>Genome, Plant</topic><topic>Genomics</topic><topic>Genotype</topic><topic>Microsatellite Repeats</topic><topic>Polymorphism, Genetic</topic><topic>Quantitative Trait Loci</topic><topic>Rice</topic><topic>Setaria</topic><topic>Setaria Plant - genetics</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Zhang, Shuo</creatorcontrib><creatorcontrib>Tang, Chanjuan</creatorcontrib><creatorcontrib>Zhao, Qiang</creatorcontrib><creatorcontrib>Li, Jing</creatorcontrib><creatorcontrib>Yang, Lifang</creatorcontrib><creatorcontrib>Qie, Lufeng</creatorcontrib><creatorcontrib>Fan, Xingke</creatorcontrib><creatorcontrib>Li, Lin</creatorcontrib><creatorcontrib>Zhang, Ning</creatorcontrib><creatorcontrib>Zhao, Meicheng</creatorcontrib><creatorcontrib>Liu, Xiaotong</creatorcontrib><creatorcontrib>Chai, Yang</creatorcontrib><creatorcontrib>Zhang, Xue</creatorcontrib><creatorcontrib>Wang, Hailong</creatorcontrib><creatorcontrib>Li, Yingtao</creatorcontrib><creatorcontrib>Li, Wen</creatorcontrib><creatorcontrib>Zhi, Hui</creatorcontrib><creatorcontrib>Jia, Guanqing</creatorcontrib><creatorcontrib>Diao, Xianmin</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Calcium & Calcified Tissue Abstracts</collection><collection>Chemoreception Abstracts</collection><collection>Entomology Abstracts (Full archive)</collection><collection>Neurosciences Abstracts</collection><collection>Toxicology Abstracts</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Medical Database (Alumni Edition)</collection><collection>ProQuest Pharma Collection</collection><collection>Technology Research Database</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest One Sustainability</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>Environmental Sciences and Pollution Management</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>Engineering Research Database</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Central Student</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>ProQuest Biological Science Collection</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>Medical Database</collection><collection>Biological Science Database</collection><collection>Biotechnology and BioEngineering Abstracts</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>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>BMC genomics</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Zhang, Shuo</au><au>Tang, Chanjuan</au><au>Zhao, Qiang</au><au>Li, Jing</au><au>Yang, Lifang</au><au>Qie, Lufeng</au><au>Fan, Xingke</au><au>Li, Lin</au><au>Zhang, Ning</au><au>Zhao, Meicheng</au><au>Liu, Xiaotong</au><au>Chai, Yang</au><au>Zhang, Xue</au><au>Wang, Hailong</au><au>Li, Yingtao</au><au>Li, Wen</au><au>Zhi, Hui</au><au>Jia, Guanqing</au><au>Diao, Xianmin</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Development of highly polymorphic simple sequence repeat markers using genome-wide microsatellite variant analysis in Foxtail millet [Setaria italica (L.) P. Beauv]</atitle><jtitle>BMC genomics</jtitle><addtitle>BMC Genomics</addtitle><date>2014-01-28</date><risdate>2014</risdate><volume>15</volume><issue>1</issue><spage>78</spage><epage>78</epage><pages>78-78</pages><artnum>78</artnum><issn>1471-2164</issn><eissn>1471-2164</eissn><abstract>Foxtail millet (Setaria italica (L.) Beauv.) is an important gramineous grain-food and forage crop. It is grown worldwide for human and livestock consumption. Its small genome and diploid nature have led to foxtail millet fast becoming a novel model for investigating plant architecture, drought tolerance and C4 photosynthesis of grain and bioenergy crops. Therefore, cost-effective, reliable and highly polymorphic molecular markers covering the entire genome are required for diversity, mapping and functional genomics studies in this model species.
A total of 5,020 highly repetitive microsatellite motifs were isolated from the released genome of the genotype 'Yugu1' by sequence scanning. Based on sequence comparison between S. italica and S. viridis, a set of 788 SSR primer pairs were designed. Of these primers, 733 produced reproducible amplicons and were polymorphic among 28 Setaria genotypes selected from diverse geographical locations. The number of alleles detected by these SSR markers ranged from 2 to 16, with an average polymorphism information content of 0.67. The result obtained by neighbor-joining cluster analysis of 28 Setaria genotypes, based on Nei's genetic distance of the SSR data, showed that these SSR markers are highly polymorphic and effective.
A large set of highly polymorphic SSR markers were successfully and efficiently developed based on genomic sequence comparison between different genotypes of the genus Setaria. The large number of new SSR markers and their placement on the physical map represent a valuable resource for studying diversity, constructing genetic maps, functional gene mapping, QTL exploration and molecular breeding in foxtail millet and its closely related species.</abstract><cop>England</cop><pub>BioMed Central</pub><pmid>24472631</pmid><doi>10.1186/1471-2164-15-78</doi><tpages>1</tpages><oa>free_for_read</oa></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 1471-2164 |
| ispartof | BMC genomics, 2014-01, Vol.15 (1), p.78-78, Article 78 |
| issn | 1471-2164 1471-2164 |
| language | eng |
| recordid | cdi_pubmedcentral_primary_oai_pubmedcentral_nih_gov_3930901 |
| source | MEDLINE; Springer Nature - Complete Springer Journals; DOAJ Directory of Open Access Journals; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals; PubMed Central; PubMed Central Open Access; Springer Nature OA Free Journals |
| subjects | Alleles Chromosome Mapping Chromosomes Chromosomes, Plant Crops Genes Genetic Markers Genome, Plant Genomics Genotype Microsatellite Repeats Polymorphism, Genetic Quantitative Trait Loci Rice Setaria Setaria Plant - genetics |
| title | Development of highly polymorphic simple sequence repeat markers using genome-wide microsatellite variant analysis in Foxtail millet [Setaria italica (L.) P. Beauv] |
| url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2025-02-10T19%3A34%3A20IST&url_ver=Z39.88-2004&url_ctx_fmt=infofi/fmt:kev:mtx:ctx&rfr_id=info:sid/primo.exlibrisgroup.com:primo3-Article-proquest_pubme&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.genre=article&rft.atitle=Development%20of%20highly%20polymorphic%20simple%20sequence%20repeat%20markers%20using%20genome-wide%20microsatellite%20variant%20analysis%20in%20Foxtail%20millet%20%5BSetaria%20italica%20(L.)%20P.%20Beauv%5D&rft.jtitle=BMC%20genomics&rft.au=Zhang,%20Shuo&rft.date=2014-01-28&rft.volume=15&rft.issue=1&rft.spage=78&rft.epage=78&rft.pages=78-78&rft.artnum=78&rft.issn=1471-2164&rft.eissn=1471-2164&rft_id=info:doi/10.1186/1471-2164-15-78&rft_dat=%3Cproquest_pubme%3E3226268351%3C/proquest_pubme%3E%3Curl%3E%3C/url%3E&disable_directlink=true&sfx.directlink=off&sfx.report_link=0&rft_id=info:oai/&rft_pqid=1500959626&rft_id=info:pmid/24472631&rfr_iscdi=true |