An AFLP-based Linkage Map of Japanese Red Pine (Pinus densiflora) Using Haploid DNA Samples of Megagametophytes from a Single Maternal Tree
We have constructed an AFLP-based linkage map of Japanese red pine (Pinus densiflora Siebold et Zucc.) using haploid DNA samples of 96 megagametophytes from a single maternal tree, selection clone Kyungbuk 4. Twenty-eight primer pairs generated a total of 5,780 AFLP fragments. Five hundreds and thir...
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| Veröffentlicht in: | Molecules and cells 2005-10, Vol.20 (2), p.201-209 |
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| creator | Kim, Y.Y. (Korea Forest Research Institute, Suwon, Republic of Korea), E-mail: yykim@foa.go.kr Kang, B.Y. (Dalhousie University, Halifax, Nova Scotia, Canada) Choi, H.S. (Korea Forest Research Institute, Suwon, Republic of Korea) |
| description | We have constructed an AFLP-based linkage map of Japanese red pine (Pinus densiflora Siebold et Zucc.) using haploid DNA samples of 96 megagametophytes from a single maternal tree, selection clone Kyungbuk 4. Twenty-eight primer pairs generated a total of 5,780 AFLP fragments. Five hundreds and thirteen fragments were verified as genetic markers with two alleles by their Mendelian segregation. At the linkage criteria LOD 4.0 and maximum recombination fraction 0.25(θ), a total of 152 markers constituted 25 framework maps for 19 major linkage groups. The maps spanned a total length of 2,341 cM with an average framework marker spacing of 18.4 cM. The estimated genome size was 2,662 cM. With an assumption of equal marker density, 82.2% of the estimated genome would be within 10 cM of one of the 230 linked markers, and 68.1% would be within 10 cM of one of the 152 framework markers. |
| doi_str_mv | 10.1016/S1016-8478(23)13218-3 |
| format | Article |
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(Korea Forest Research Institute, Suwon, Republic of Korea), E-mail: yykim@foa.go.kr ; Kang, B.Y. (Dalhousie University, Halifax, Nova Scotia, Canada) ; Choi, H.S. (Korea Forest Research Institute, Suwon, Republic of Korea)</creator><creatorcontrib>Kim, Y.Y. (Korea Forest Research Institute, Suwon, Republic of Korea), E-mail: yykim@foa.go.kr ; Kang, B.Y. (Dalhousie University, Halifax, Nova Scotia, Canada) ; Choi, H.S. (Korea Forest Research Institute, Suwon, Republic of Korea)</creatorcontrib><description>We have constructed an AFLP-based linkage map of Japanese red pine (Pinus densiflora Siebold et Zucc.) using haploid DNA samples of 96 megagametophytes from a single maternal tree, selection clone Kyungbuk 4. Twenty-eight primer pairs generated a total of 5,780 AFLP fragments. Five hundreds and thirteen fragments were verified as genetic markers with two alleles by their Mendelian segregation. At the linkage criteria LOD 4.0 and maximum recombination fraction 0.25(θ), a total of 152 markers constituted 25 framework maps for 19 major linkage groups. The maps spanned a total length of 2,341 cM with an average framework marker spacing of 18.4 cM. The estimated genome size was 2,662 cM. With an assumption of equal marker density, 82.2% of the estimated genome would be within 10 cM of one of the 230 linked markers, and 68.1% would be within 10 cM of one of the 152 framework markers.</description><identifier>ISSN: 1016-8478</identifier><identifier>DOI: 10.1016/S1016-8478(23)13218-3</identifier><identifier>PMID: 16267394</identifier><language>eng</language><publisher>United States</publisher><subject>AFLP ; Base Sequence ; Chromosome Mapping ; DNA, Plant - genetics ; Genes, Plant ; Genetic Linkage ; Genetic Markers ; Genome Length ; Genome, Plant ; Haploidy ; Linkage Map ; Map Coverage ; Megagametophyte ; Pinus - genetics ; PINUS DENSIFLORA ; Polymorphism, Restriction Fragment Length</subject><ispartof>Molecules and cells, 2005-10, Vol.20 (2), p.201-209</ispartof><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c376t-b3d1f8a7811ccfb067607326ebea52e765706d81319457ecd74cc9478e85cd2c3</citedby><cites>FETCH-LOGICAL-c376t-b3d1f8a7811ccfb067607326ebea52e765706d81319457ecd74cc9478e85cd2c3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,776,780,27901,27902</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/16267394$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Kim, Y.Y. (Korea Forest Research Institute, Suwon, Republic of Korea), E-mail: yykim@foa.go.kr</creatorcontrib><creatorcontrib>Kang, B.Y. (Dalhousie University, Halifax, Nova Scotia, Canada)</creatorcontrib><creatorcontrib>Choi, H.S. (Korea Forest Research Institute, Suwon, Republic of Korea)</creatorcontrib><title>An AFLP-based Linkage Map of Japanese Red Pine (Pinus densiflora) Using Haploid DNA Samples of Megagametophytes from a Single Maternal Tree</title><title>Molecules and cells</title><addtitle>Mol Cells</addtitle><description>We have constructed an AFLP-based linkage map of Japanese red pine (Pinus densiflora Siebold et Zucc.) using haploid DNA samples of 96 megagametophytes from a single maternal tree, selection clone Kyungbuk 4. Twenty-eight primer pairs generated a total of 5,780 AFLP fragments. Five hundreds and thirteen fragments were verified as genetic markers with two alleles by their Mendelian segregation. At the linkage criteria LOD 4.0 and maximum recombination fraction 0.25(θ), a total of 152 markers constituted 25 framework maps for 19 major linkage groups. The maps spanned a total length of 2,341 cM with an average framework marker spacing of 18.4 cM. The estimated genome size was 2,662 cM. With an assumption of equal marker density, 82.2% of the estimated genome would be within 10 cM of one of the 230 linked markers, and 68.1% would be within 10 cM of one of the 152 framework markers.</description><subject>AFLP</subject><subject>Base Sequence</subject><subject>Chromosome Mapping</subject><subject>DNA, Plant - genetics</subject><subject>Genes, Plant</subject><subject>Genetic Linkage</subject><subject>Genetic Markers</subject><subject>Genome Length</subject><subject>Genome, Plant</subject><subject>Haploidy</subject><subject>Linkage Map</subject><subject>Map Coverage</subject><subject>Megagametophyte</subject><subject>Pinus - genetics</subject><subject>PINUS DENSIFLORA</subject><subject>Polymorphism, Restriction Fragment Length</subject><issn>1016-8478</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2005</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNpFkE1P3DAQhn0oKh_tT6DyqYJDqD8S23tcQSm0S4tYOFsTZ5KmJHGwswd-A38ah13Ry4w0877zah5Cjjk744yrb-u5ZibX5kTIUy4FN5n8QA7ex_vkMMZ_jHGthPlI9rkSSstFfkBelgNdXq5usxIiVnTVDo_QIL2Bkfqa_oQRBoxI79Luth2QnqS6ibTCIbZ15wOc0ofYDg29grHzbUUvfi_pGvqxwzhfuMEGGuhx8uPf5ynN6uB7CnSdPN2cM2EYoKP3AfET2auhi_h514_Iw-X3-_OrbPXnx_X5cpU5qdWUlbLitQFtOHeuLpnSimkpFJYIhUCtCs1UZbjki7zQ6CqdO7dIFNAUrhJOHpGv27tj8E8bjJPt2-iw69KvfhOtMrpYGGWSsNgKXfAxBqztGNoewrPlzM5w7Rt5OyO2Qto38lYm35ddwKbssfrv2mFPguOtoAZvoQlttL_uBGOKcZlzI18BUrSI6w</recordid><startdate>20051031</startdate><enddate>20051031</enddate><creator>Kim, Y.Y. (Korea Forest Research Institute, Suwon, Republic of Korea), E-mail: yykim@foa.go.kr</creator><creator>Kang, B.Y. (Dalhousie University, Halifax, Nova Scotia, Canada)</creator><creator>Choi, H.S. (Korea Forest Research Institute, Suwon, Republic of Korea)</creator><scope>FBQ</scope><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>7X8</scope></search><sort><creationdate>20051031</creationdate><title>An AFLP-based Linkage Map of Japanese Red Pine (Pinus densiflora) Using Haploid DNA Samples of Megagametophytes from a Single Maternal Tree</title><author>Kim, Y.Y. (Korea Forest Research Institute, Suwon, Republic of Korea), E-mail: yykim@foa.go.kr ; Kang, B.Y. (Dalhousie University, Halifax, Nova Scotia, Canada) ; Choi, H.S. (Korea Forest Research Institute, Suwon, Republic of Korea)</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c376t-b3d1f8a7811ccfb067607326ebea52e765706d81319457ecd74cc9478e85cd2c3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2005</creationdate><topic>AFLP</topic><topic>Base Sequence</topic><topic>Chromosome Mapping</topic><topic>DNA, Plant - genetics</topic><topic>Genes, Plant</topic><topic>Genetic Linkage</topic><topic>Genetic Markers</topic><topic>Genome Length</topic><topic>Genome, Plant</topic><topic>Haploidy</topic><topic>Linkage Map</topic><topic>Map Coverage</topic><topic>Megagametophyte</topic><topic>Pinus - genetics</topic><topic>PINUS DENSIFLORA</topic><topic>Polymorphism, Restriction Fragment Length</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Kim, Y.Y. (Korea Forest Research Institute, Suwon, Republic of Korea), E-mail: yykim@foa.go.kr</creatorcontrib><creatorcontrib>Kang, B.Y. (Dalhousie University, Halifax, Nova Scotia, Canada)</creatorcontrib><creatorcontrib>Choi, H.S. (Korea Forest Research Institute, Suwon, Republic of Korea)</creatorcontrib><collection>AGRIS</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><jtitle>Molecules and cells</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Kim, Y.Y. (Korea Forest Research Institute, Suwon, Republic of Korea), E-mail: yykim@foa.go.kr</au><au>Kang, B.Y. (Dalhousie University, Halifax, Nova Scotia, Canada)</au><au>Choi, H.S. (Korea Forest Research Institute, Suwon, Republic of Korea)</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>An AFLP-based Linkage Map of Japanese Red Pine (Pinus densiflora) Using Haploid DNA Samples of Megagametophytes from a Single Maternal Tree</atitle><jtitle>Molecules and cells</jtitle><addtitle>Mol Cells</addtitle><date>2005-10-31</date><risdate>2005</risdate><volume>20</volume><issue>2</issue><spage>201</spage><epage>209</epage><pages>201-209</pages><issn>1016-8478</issn><abstract>We have constructed an AFLP-based linkage map of Japanese red pine (Pinus densiflora Siebold et Zucc.) using haploid DNA samples of 96 megagametophytes from a single maternal tree, selection clone Kyungbuk 4. Twenty-eight primer pairs generated a total of 5,780 AFLP fragments. Five hundreds and thirteen fragments were verified as genetic markers with two alleles by their Mendelian segregation. At the linkage criteria LOD 4.0 and maximum recombination fraction 0.25(θ), a total of 152 markers constituted 25 framework maps for 19 major linkage groups. The maps spanned a total length of 2,341 cM with an average framework marker spacing of 18.4 cM. The estimated genome size was 2,662 cM. With an assumption of equal marker density, 82.2% of the estimated genome would be within 10 cM of one of the 230 linked markers, and 68.1% would be within 10 cM of one of the 152 framework markers.</abstract><cop>United States</cop><pmid>16267394</pmid><doi>10.1016/S1016-8478(23)13218-3</doi><tpages>9</tpages><oa>free_for_read</oa></addata></record> |
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| subjects | AFLP Base Sequence Chromosome Mapping DNA, Plant - genetics Genes, Plant Genetic Linkage Genetic Markers Genome Length Genome, Plant Haploidy Linkage Map Map Coverage Megagametophyte Pinus - genetics PINUS DENSIFLORA Polymorphism, Restriction Fragment Length |
| title | An AFLP-based Linkage Map of Japanese Red Pine (Pinus densiflora) Using Haploid DNA Samples of Megagametophytes from a Single Maternal Tree |
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