Development, Characterization and Cross Species Amplification of Polymorphic Microsatellite Markers from Expressed Sequence Tags of Turmeric (Curcuma longa L.)
Expressed sequence tags (ESTs) from turmeric ( Curcuma longa L.) were used for the screening of type and frequency of Class I (hypervariable) simple sequence repeats (SSRs). A total of 231 microsatellite repeats were detected from 12,593 EST sequences of turmeric after redundancy elimination. The av...
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| Veröffentlicht in: | Molecular biotechnology 2010-02, Vol.44 (2), p.140-147 |
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| creator | Siju, S. Dhanya, K. Syamkumar, S. Sasikumar, B. Sheeja, T. E. Bhat, A. I. Parthasarathy, V. A. |
| description | Expressed sequence tags (ESTs) from turmeric (
Curcuma longa
L.) were used for the screening of type and frequency of Class I (hypervariable) simple sequence repeats (SSRs). A total of 231 microsatellite repeats were detected from 12,593 EST sequences of turmeric after redundancy elimination. The average density of Class I SSRs accounts to one SSR per 17.96 kb of EST. Mononucleotides were the most abundant class of microsatellite repeat in turmeric ESTs followed by trinucleotides. A robust set of 17 polymorphic EST–SSRs were developed and used for evaluating 20 turmeric accessions. The number of alleles detected ranged from 3 to 8 per loci. The developed markers were also evaluated in 13 related species of
C. longa
confirming high rate (100%) of cross species transferability. The polymorphic microsatellite markers generated from this study could be used for genetic diversity analysis and resolving the taxonomic confusion prevailing in the genus. |
| doi_str_mv | 10.1007/s12033-009-9222-4 |
| format | Article |
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Curcuma longa
L.) were used for the screening of type and frequency of Class I (hypervariable) simple sequence repeats (SSRs). A total of 231 microsatellite repeats were detected from 12,593 EST sequences of turmeric after redundancy elimination. The average density of Class I SSRs accounts to one SSR per 17.96 kb of EST. Mononucleotides were the most abundant class of microsatellite repeat in turmeric ESTs followed by trinucleotides. A robust set of 17 polymorphic EST–SSRs were developed and used for evaluating 20 turmeric accessions. The number of alleles detected ranged from 3 to 8 per loci. The developed markers were also evaluated in 13 related species of
C. longa
confirming high rate (100%) of cross species transferability. The polymorphic microsatellite markers generated from this study could be used for genetic diversity analysis and resolving the taxonomic confusion prevailing in the genus.</description><identifier>ISSN: 1073-6085</identifier><identifier>EISSN: 1559-0305</identifier><identifier>DOI: 10.1007/s12033-009-9222-4</identifier><identifier>PMID: 19924572</identifier><identifier>CODEN: MLBOEO</identifier><language>eng</language><publisher>New York: Humana Press Inc</publisher><subject>Biochemistry ; Biological and medical sciences ; Biological Techniques ; Biotechnology ; Cell Biology ; Chemistry ; Chemistry and Materials Science ; Curcuma - genetics ; Curcuma longa ; DNA, Plant - genetics ; Electrophoresis ; Expressed Sequence Tags ; Flowers & plants ; Fundamental and applied biological sciences. Psychology ; Genetic diversity ; Human Genetics ; Microsatellite Repeats - genetics ; Polymerase Chain Reaction ; Polymorphism ; Protein Science ; Satellite DNA</subject><ispartof>Molecular biotechnology, 2010-02, Vol.44 (2), p.140-147</ispartof><rights>Humana Press 2009</rights><rights>2015 INIST-CNRS</rights><rights>Springer Science+Business Media, LLC 2010</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c432t-469a1053000df5a554c779b53a3784c3d008174352bd8309a9cca4866a7349be3</citedby><cites>FETCH-LOGICAL-c432t-469a1053000df5a554c779b53a3784c3d008174352bd8309a9cca4866a7349be3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s12033-009-9222-4$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s12033-009-9222-4$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,780,784,27924,27925,41488,42557,51319</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=22773819$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/19924572$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Siju, S.</creatorcontrib><creatorcontrib>Dhanya, K.</creatorcontrib><creatorcontrib>Syamkumar, S.</creatorcontrib><creatorcontrib>Sasikumar, B.</creatorcontrib><creatorcontrib>Sheeja, T. E.</creatorcontrib><creatorcontrib>Bhat, A. I.</creatorcontrib><creatorcontrib>Parthasarathy, V. A.</creatorcontrib><title>Development, Characterization and Cross Species Amplification of Polymorphic Microsatellite Markers from Expressed Sequence Tags of Turmeric (Curcuma longa L.)</title><title>Molecular biotechnology</title><addtitle>Mol Biotechnol</addtitle><addtitle>Mol Biotechnol</addtitle><description>Expressed sequence tags (ESTs) from turmeric (
Curcuma longa
L.) were used for the screening of type and frequency of Class I (hypervariable) simple sequence repeats (SSRs). A total of 231 microsatellite repeats were detected from 12,593 EST sequences of turmeric after redundancy elimination. The average density of Class I SSRs accounts to one SSR per 17.96 kb of EST. Mononucleotides were the most abundant class of microsatellite repeat in turmeric ESTs followed by trinucleotides. A robust set of 17 polymorphic EST–SSRs were developed and used for evaluating 20 turmeric accessions. The number of alleles detected ranged from 3 to 8 per loci. The developed markers were also evaluated in 13 related species of
C. longa
confirming high rate (100%) of cross species transferability. The polymorphic microsatellite markers generated from this study could be used for genetic diversity analysis and resolving the taxonomic confusion prevailing in the genus.</description><subject>Biochemistry</subject><subject>Biological and medical sciences</subject><subject>Biological Techniques</subject><subject>Biotechnology</subject><subject>Cell Biology</subject><subject>Chemistry</subject><subject>Chemistry and Materials Science</subject><subject>Curcuma - genetics</subject><subject>Curcuma longa</subject><subject>DNA, Plant - genetics</subject><subject>Electrophoresis</subject><subject>Expressed Sequence Tags</subject><subject>Flowers & plants</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>Genetic diversity</subject><subject>Human Genetics</subject><subject>Microsatellite Repeats - genetics</subject><subject>Polymerase Chain Reaction</subject><subject>Polymorphism</subject><subject>Protein Science</subject><subject>Satellite DNA</subject><issn>1073-6085</issn><issn>1559-0305</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2010</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><recordid>eNqFkV1r1UAQhoMoth79Ad7IIogKps5-ZbOXJa0fcIpCj9dhzmZzujXJpruJtP4Z_6p7yMGCIF7twjzzzjvzZtlzCicUQL2PlAHnOYDONWMsFw-yYyqlzoGDfJj-oHheQCmPsicxXgMwKgV_nB1RrZmQih1nv87sD9v5sbfD9I5UVxjQTDa4nzg5PxAcGlIFHyO5HK1xNpLTfuxc68xS9y356ru73ofxyhly4UyCcbJd5yZLLjB8tyGSNvienN-OwcZoG3Jpb2Y7GEs2uIt7ic0c-jTTkDfVHMzcI-n8sEOyPnn7NHvUYhfts8O7yr59ON9Un_L1l4-fq9N1bgRnUy4KjRQkB4CmlSilMErpreTIVSkMbwBKqgSXbNuUHDRqY1CURYGKC721fJW9XnTH4JO7ONW9iybtgYP1c6yVKJgSQtD_k5yXFISCRL78i7z2cxjSGjXjhSqBpvRWGV2g_eVisG09BtdjuKsp1PuU6yXlOqVc71OuRep5cRCet71t7jsOsSbg1QHAaLBrAw7GxT8cY0olkzpxbOFiKg07G-4d_nv6byjtvzk</recordid><startdate>20100201</startdate><enddate>20100201</enddate><creator>Siju, S.</creator><creator>Dhanya, K.</creator><creator>Syamkumar, S.</creator><creator>Sasikumar, B.</creator><creator>Sheeja, T. 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Psychology</topic><topic>Genetic diversity</topic><topic>Human Genetics</topic><topic>Microsatellite Repeats - genetics</topic><topic>Polymerase Chain Reaction</topic><topic>Polymorphism</topic><topic>Protein Science</topic><topic>Satellite DNA</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Siju, S.</creatorcontrib><creatorcontrib>Dhanya, K.</creatorcontrib><creatorcontrib>Syamkumar, S.</creatorcontrib><creatorcontrib>Sasikumar, B.</creatorcontrib><creatorcontrib>Sheeja, T. E.</creatorcontrib><creatorcontrib>Bhat, A. I.</creatorcontrib><creatorcontrib>Parthasarathy, V. 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E.</au><au>Bhat, A. I.</au><au>Parthasarathy, V. A.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Development, Characterization and Cross Species Amplification of Polymorphic Microsatellite Markers from Expressed Sequence Tags of Turmeric (Curcuma longa L.)</atitle><jtitle>Molecular biotechnology</jtitle><stitle>Mol Biotechnol</stitle><addtitle>Mol Biotechnol</addtitle><date>2010-02-01</date><risdate>2010</risdate><volume>44</volume><issue>2</issue><spage>140</spage><epage>147</epage><pages>140-147</pages><issn>1073-6085</issn><eissn>1559-0305</eissn><coden>MLBOEO</coden><abstract>Expressed sequence tags (ESTs) from turmeric (
Curcuma longa
L.) were used for the screening of type and frequency of Class I (hypervariable) simple sequence repeats (SSRs). A total of 231 microsatellite repeats were detected from 12,593 EST sequences of turmeric after redundancy elimination. The average density of Class I SSRs accounts to one SSR per 17.96 kb of EST. Mononucleotides were the most abundant class of microsatellite repeat in turmeric ESTs followed by trinucleotides. A robust set of 17 polymorphic EST–SSRs were developed and used for evaluating 20 turmeric accessions. The number of alleles detected ranged from 3 to 8 per loci. The developed markers were also evaluated in 13 related species of
C. longa
confirming high rate (100%) of cross species transferability. The polymorphic microsatellite markers generated from this study could be used for genetic diversity analysis and resolving the taxonomic confusion prevailing in the genus.</abstract><cop>New York</cop><pub>Humana Press Inc</pub><pmid>19924572</pmid><doi>10.1007/s12033-009-9222-4</doi><tpages>8</tpages></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 1073-6085 |
| ispartof | Molecular biotechnology, 2010-02, Vol.44 (2), p.140-147 |
| issn | 1073-6085 1559-0305 |
| language | eng |
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| subjects | Biochemistry Biological and medical sciences Biological Techniques Biotechnology Cell Biology Chemistry Chemistry and Materials Science Curcuma - genetics Curcuma longa DNA, Plant - genetics Electrophoresis Expressed Sequence Tags Flowers & plants Fundamental and applied biological sciences. Psychology Genetic diversity Human Genetics Microsatellite Repeats - genetics Polymerase Chain Reaction Polymorphism Protein Science Satellite DNA |
| title | Development, Characterization and Cross Species Amplification of Polymorphic Microsatellite Markers from Expressed Sequence Tags of Turmeric (Curcuma longa L.) |
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