Construction of a SNP and SSR linkage map in autotetraploid blueberry using genotyping by sequencing

Susan McCallum; Julie Graham; Linzi Jorgensen; Lisa J. Rowland; Nahla V. Bassil; James F. Hancock; Edmund J. Wheeler; Kelly Vining; Jesse A. Poland; James W. Olmstead; Emily Buck; Claudia Wiedow; Eric Jackson; Allan Brown; Christine A. Hackett

doi:10.1007/s11032-016-0443-5

Construction of a SNP and SSR linkage map in autotetraploid blueberry using genotyping by sequencing

Susan McCallum, Julie Graham, Linzi Jorgensen, Lisa J. Rowland, Nahla V. Bassil, James F. Hancock, Edmund J. Wheeler, Kelly Vining, Jesse A. Poland, James W. Olmstead, Emily Buck, Claudia Wiedow, Eric Jackson, Allan Brown, Christine A. Hackett

Research output: Contribution to journal › Article › peer-review

40 Scopus citations

Abstract

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.

Original language	English (US)
Journal	Molecular Breeding
Volume	36
Issue number	4
DOIs	https://doi.org/10.1007/s11032-016-0443-5
State	Published - Apr 1 2016
Externally published	Yes

ASJC Scopus subject areas

Plant Science
Genetics
Molecular Biology
Agronomy and Crop Science
Biotechnology

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

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10.1007/s11032-016-0443-5

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McCallum, S., Graham, J., Jorgensen, L., Rowland, L. J., Bassil, N. V., Hancock, J. F., Wheeler, E. J., Vining, K., Poland, J. A., Olmstead, J. W., Buck, E., Wiedow, C., Jackson, E., Brown, A., & Hackett, C. A. (2016). Construction of a SNP and SSR linkage map in autotetraploid blueberry using genotyping by sequencing. Molecular Breeding, 36(4). https://doi.org/10.1007/s11032-016-0443-5

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title = "Construction of a SNP and SSR linkage map in autotetraploid blueberry using genotyping by sequencing",

abstract = "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 {\textquoteleft}Draper{\textquoteright} genetic map, and 450 SNPs and 86 SSRs for the {\textquoteleft}Jewel{\textquoteright} map. The {\textquoteleft}Draper{\textquoteright} map comprises 12 linkage groups (LG), associated with the haploid chromosome number for blueberry, and totals 1621 cM while the {\textquoteleft}Jewel{\textquoteright} 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.",

author = "Susan McCallum and Julie Graham and Linzi Jorgensen and Rowland, {Lisa J.} and Bassil, {Nahla V.} and Hancock, {James F.} and Wheeler, {Edmund J.} and Kelly Vining and Poland, {Jesse A.} and Olmstead, {James W.} and Emily Buck and Claudia Wiedow and Eric Jackson and Allan Brown and Hackett, {Christine A.}",

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doi = "10.1007/s11032-016-0443-5",

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AU - McCallum, Susan

AU - Graham, Julie

AU - Jorgensen, Linzi

AU - Rowland, Lisa J.

AU - Bassil, Nahla V.

AU - Hancock, James F.

AU - Wheeler, Edmund J.

AU - Vining, Kelly

AU - Poland, Jesse A.

AU - Olmstead, James W.

AU - Buck, Emily

AU - Wiedow, Claudia

AU - Jackson, Eric

AU - Brown, Allan

AU - Hackett, Christine A.

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N2 - 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.

AB - 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.

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JO - Molecular Breeding

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Construction of a SNP and SSR linkage map in autotetraploid blueberry using genotyping by sequencing

Abstract

ASJC Scopus subject areas

UN SDGs

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