Construction of a SNP and SSR linkage map in autotetraploid blueberry using genotyping by sequencing
The construction of the first genetic map in autotetraploid blueberry has been made possible by the development of new SNP markers developed using genotyping by sequencing in a mapping population created from a cross between two key highbush blueberry cultivars, Draper × Jewel (Vaccinium corymbosum)...
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| Veröffentlicht in: | Molecular breeding 2016-04, Vol.36 (4), p.1-24, Article 41 |
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| creator | McCallum, Susan Graham, Julie Jorgensen, Linzi Rowland, Lisa J. Bassil, Nahla V. Hancock, James F. Wheeler, Edmund J. Vining, Kelly Poland, Jesse A. Olmstead, James W. Buck, Emily Wiedow, Claudia Jackson, Eric Brown, Allan Hackett, Christine A. |
| description | The construction of the first genetic map in autotetraploid blueberry has been made possible by the development of new SNP markers developed using genotyping by sequencing in a mapping population created from a cross between two key highbush blueberry cultivars, Draper × Jewel (Vaccinium corymbosum). The novel SNP markers were supplemented with existing SSR markers to enable the alignment of parental maps. In total, 1794 single nucleotide polymorphic (SNP) markers and 233 simple sequence repeat (SSR) markers exhibited segregation patterns consistent with a random chromosomal segregation model for meiosis in an autotetraploid. Of these, 700 SNPs and 85 SSRs were utilized for construction of the ‘Draper’ genetic map, and 450 SNPs and 86 SSRs for the ‘Jewel’ map. The ‘Draper’ map comprises 12 linkage groups (LG), associated with the haploid chromosome number for blueberry, and totals 1621 cM while the ‘Jewel’ map comprises 20 linkage groups totalling 1610 cM. Tentative alignments of the two parental maps have been made on the basis of shared SSR alleles and linkages to double-simplex markers segregating in both parents. Tentative alignments of the two parental maps have been made on the basis of shared SSR alleles and linkages to double-simplex markers segregating in both parents. |
| doi_str_mv | 10.1007/s11032-016-0443-5 |
| format | Article |
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The novel SNP markers were supplemented with existing SSR markers to enable the alignment of parental maps. In total, 1794 single nucleotide polymorphic (SNP) markers and 233 simple sequence repeat (SSR) markers exhibited segregation patterns consistent with a random chromosomal segregation model for meiosis in an autotetraploid. Of these, 700 SNPs and 85 SSRs were utilized for construction of the ‘Draper’ genetic map, and 450 SNPs and 86 SSRs for the ‘Jewel’ map. The ‘Draper’ map comprises 12 linkage groups (LG), associated with the haploid chromosome number for blueberry, and totals 1621 cM while the ‘Jewel’ map comprises 20 linkage groups totalling 1610 cM. Tentative alignments of the two parental maps have been made on the basis of shared SSR alleles and linkages to double-simplex markers segregating in both parents. Tentative alignments of the two parental maps have been made on the basis of shared SSR alleles and linkages to double-simplex markers segregating in both parents.</description><identifier>ISSN: 1380-3743</identifier><identifier>EISSN: 1572-9788</identifier><identifier>DOI: 10.1007/s11032-016-0443-5</identifier><language>eng</language><publisher>Dordrecht: Springer Netherlands</publisher><subject>Alignment ; Alleles ; Autotetraploid ; Biomedical and Life Sciences ; Biotechnology ; Blueberries ; Chromosome number ; Chromosomes ; Cultivars ; Draper protein ; Fruits ; Gene mapping ; Gene sequencing ; Genotyping ; Life Sciences ; Linkages ; Mapping ; Markers ; Meiosis ; Molecular biology ; Nucleotides ; Plant biology ; Plant Genetics and Genomics ; Plant Pathology ; Plant Physiology ; Plant Sciences ; Single-nucleotide polymorphism ; Vaccinium corymbosum</subject><ispartof>Molecular breeding, 2016-04, Vol.36 (4), p.1-24, Article 41</ispartof><rights>Springer Science+Business Media Dordrecht 2016</rights><rights>Molecular Breeding is a copyright of Springer, (2016). All Rights Reserved.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c439t-f74e2aceaa3b8fd3cfe1e31e8af1c27ac720ff4c03e7dbef68918d57ad3fffd23</citedby><cites>FETCH-LOGICAL-c439t-f74e2aceaa3b8fd3cfe1e31e8af1c27ac720ff4c03e7dbef68918d57ad3fffd23</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/s11032-016-0443-5$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s11032-016-0443-5$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,777,781,27905,27906,41469,42538,51300</link.rule.ids></links><search><creatorcontrib>McCallum, Susan</creatorcontrib><creatorcontrib>Graham, Julie</creatorcontrib><creatorcontrib>Jorgensen, Linzi</creatorcontrib><creatorcontrib>Rowland, Lisa J.</creatorcontrib><creatorcontrib>Bassil, Nahla V.</creatorcontrib><creatorcontrib>Hancock, James F.</creatorcontrib><creatorcontrib>Wheeler, Edmund J.</creatorcontrib><creatorcontrib>Vining, Kelly</creatorcontrib><creatorcontrib>Poland, Jesse A.</creatorcontrib><creatorcontrib>Olmstead, James W.</creatorcontrib><creatorcontrib>Buck, Emily</creatorcontrib><creatorcontrib>Wiedow, Claudia</creatorcontrib><creatorcontrib>Jackson, Eric</creatorcontrib><creatorcontrib>Brown, Allan</creatorcontrib><creatorcontrib>Hackett, Christine A.</creatorcontrib><title>Construction of a SNP and SSR linkage map in autotetraploid blueberry using genotyping by sequencing</title><title>Molecular breeding</title><addtitle>Mol Breeding</addtitle><description>The construction of the first genetic map in autotetraploid blueberry has been made possible by the development of new SNP markers developed using genotyping by sequencing in a mapping population created from a cross between two key highbush blueberry cultivars, Draper × Jewel (Vaccinium corymbosum). The novel SNP markers were supplemented with existing SSR markers to enable the alignment of parental maps. In total, 1794 single nucleotide polymorphic (SNP) markers and 233 simple sequence repeat (SSR) markers exhibited segregation patterns consistent with a random chromosomal segregation model for meiosis in an autotetraploid. Of these, 700 SNPs and 85 SSRs were utilized for construction of the ‘Draper’ genetic map, and 450 SNPs and 86 SSRs for the ‘Jewel’ map. The ‘Draper’ map comprises 12 linkage groups (LG), associated with the haploid chromosome number for blueberry, and totals 1621 cM while the ‘Jewel’ map comprises 20 linkage groups totalling 1610 cM. Tentative alignments of the two parental maps have been made on the basis of shared SSR alleles and linkages to double-simplex markers segregating in both parents. Tentative alignments of the two parental maps have been made on the basis of shared SSR alleles and linkages to double-simplex markers segregating in both parents.</description><subject>Alignment</subject><subject>Alleles</subject><subject>Autotetraploid</subject><subject>Biomedical and Life Sciences</subject><subject>Biotechnology</subject><subject>Blueberries</subject><subject>Chromosome number</subject><subject>Chromosomes</subject><subject>Cultivars</subject><subject>Draper protein</subject><subject>Fruits</subject><subject>Gene mapping</subject><subject>Gene sequencing</subject><subject>Genotyping</subject><subject>Life Sciences</subject><subject>Linkages</subject><subject>Mapping</subject><subject>Markers</subject><subject>Meiosis</subject><subject>Molecular biology</subject><subject>Nucleotides</subject><subject>Plant biology</subject><subject>Plant Genetics and Genomics</subject><subject>Plant Pathology</subject><subject>Plant Physiology</subject><subject>Plant Sciences</subject><subject>Single-nucleotide polymorphism</subject><subject>Vaccinium corymbosum</subject><issn>1380-3743</issn><issn>1572-9788</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2016</creationdate><recordtype>article</recordtype><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><recordid>eNp9kMFq3DAQhkVoIem2D5BTBbnk4lTS2JZ8DEvSFkITss1ZyPLIOPVKrmQf9m3yLH2yaHEh0EMvMyP4vhnxE3LO2RVnTH5JnDMQBeN1wcoSiuqEnPFKiqKRSr3LMyhWgCzhlHxI6Zllp6nrM4Lb4NMcFzsPwdPgqKG7Hw_U-I7udo90HPwv0yPdm4kOnpplDjPO0UxjGDrajgu2GOPhz8uSBt_THn2YD9NxbA804e8Fvc2vj-S9M2PCT3_7hjzd3vzcfivu7r9-317fFbaEZi6cLFEYi8ZAq1wH1iFH4KiM41ZIY6VgzpWWAcquRVerhquukqYD51wnYEMu171TDPl2mvV-SBbH0XgMS9Jc1QoYL3PdkIt_0OewRJ9_p4WomooDgzJTfKVsDClFdHqKw97Eg-ZMH4PXa_A6B6-PwesqO2J1UmZ9j_Ft8_-kz6vkTNCmj0PSTzuRAcY4VKxq4BWMEZGu</recordid><startdate>20160401</startdate><enddate>20160401</enddate><creator>McCallum, Susan</creator><creator>Graham, Julie</creator><creator>Jorgensen, Linzi</creator><creator>Rowland, Lisa J.</creator><creator>Bassil, Nahla V.</creator><creator>Hancock, James F.</creator><creator>Wheeler, Edmund J.</creator><creator>Vining, Kelly</creator><creator>Poland, Jesse A.</creator><creator>Olmstead, James W.</creator><creator>Buck, Emily</creator><creator>Wiedow, Claudia</creator><creator>Jackson, Eric</creator><creator>Brown, Allan</creator><creator>Hackett, Christine A.</creator><general>Springer Netherlands</general><general>Springer Nature B.V</general><scope>FBQ</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7X2</scope><scope>8FE</scope><scope>8FH</scope><scope>8FK</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>ATCPS</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>M0K</scope><scope>M7P</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>8FD</scope><scope>FR3</scope><scope>P64</scope><scope>RC3</scope></search><sort><creationdate>20160401</creationdate><title>Construction of a SNP and SSR linkage map in autotetraploid blueberry using genotyping by sequencing</title><author>McCallum, Susan ; 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The novel SNP markers were supplemented with existing SSR markers to enable the alignment of parental maps. In total, 1794 single nucleotide polymorphic (SNP) markers and 233 simple sequence repeat (SSR) markers exhibited segregation patterns consistent with a random chromosomal segregation model for meiosis in an autotetraploid. Of these, 700 SNPs and 85 SSRs were utilized for construction of the ‘Draper’ genetic map, and 450 SNPs and 86 SSRs for the ‘Jewel’ map. The ‘Draper’ map comprises 12 linkage groups (LG), associated with the haploid chromosome number for blueberry, and totals 1621 cM while the ‘Jewel’ map comprises 20 linkage groups totalling 1610 cM. Tentative alignments of the two parental maps have been made on the basis of shared SSR alleles and linkages to double-simplex markers segregating in both parents. Tentative alignments of the two parental maps have been made on the basis of shared SSR alleles and linkages to double-simplex markers segregating in both parents.</abstract><cop>Dordrecht</cop><pub>Springer Netherlands</pub><doi>10.1007/s11032-016-0443-5</doi><tpages>24</tpages></addata></record> |
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| ispartof | Molecular breeding, 2016-04, Vol.36 (4), p.1-24, Article 41 |
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| source | SpringerLink Journals - AutoHoldings |
| subjects | Alignment Alleles Autotetraploid Biomedical and Life Sciences Biotechnology Blueberries Chromosome number Chromosomes Cultivars Draper protein Fruits Gene mapping Gene sequencing Genotyping Life Sciences Linkages Mapping Markers Meiosis Molecular biology Nucleotides Plant biology Plant Genetics and Genomics Plant Pathology Plant Physiology Plant Sciences Single-nucleotide polymorphism Vaccinium corymbosum |
| title | Construction of a SNP and SSR linkage map in autotetraploid blueberry using genotyping by sequencing |
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