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| Map Set Name: |
Apple-FD-F1 |
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| Abbreviated Name: |
Apple-FD-F1 |
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| Accession ID: |
37 |
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| Species: |
Malus domestica (Apple) |
[ View Species Info ] |
| Map Type: |
Genetic |
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| Map Units: |
cM |
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| Published On: |
01 August, 2006 |
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Description:
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new set of 148 apple microsatellite markers has been developed and mapped on the apple reference linkage map Fiesta x Discovery. One-hundred and seventeen markers were developed from genomic libraries enriched with the repeats GA, GT, AAG, AAC and ATC; 31 were developed from EST sequences. Markers derived from sequences containing dinucleotide repeats were generally more polymorphic than sequences containing trinucleotide repeats. Additional eight SSRs from published apple, pear, and Sorbus torminalis SSRs, whose position on the apple genome was unknown, have also been mapped. The transferability of SSRs across Maloideae species resulted in being efficient with 41% of the markers successfully transferred. For all 156 SSRs, the primer sequences, repeat type, map position, and quality of the amplification products are reported. Also presented are allele sizes, ranges, and number of SSRs found in a set of nine cultivars. All this information and those of the previous CH-SSR series can be searched at the apple SSR database (http://www.hidras.unimi.it) to which updates and comments can be added. A large number of apple ESTs containing SSR repeats are available and should be used for the development of new apple SSRs. The apple SSR database is also meant to become an international platform for coordinating this effort. The increased coverage of the apple genome with SSRs allowed the selection of a set of 86 reliable, highly polymorphic, and overall the apple genome well-scattered SSRs. These SSRs cover about 85% of the genome with an average distance of one marker per 15 cM. |
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| Map Set Name: |
Apple-A194-F1 |
[ Show Only This Set ] |
| Abbreviated Name: |
Apple-A194-F1 |
[ Download Map Set Data ] |
| Accession ID: |
64 |
[ View Map Set In Matrix ] |
| Species: |
Malus domestica (Apple) |
[ View Species Info ] |
| Map Type: |
Genetic |
[ View Map Type Info ] |
| Map Units: |
cM |
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| Published On: |
03 July, 2007 |
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Description:
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Mapping a candidate gene (MdMYB10) for red flesh and foliage colour in apple
Background: Integrating plant genomics and classical breeding is a challenge for both plant
breeders and molecular biologists. Marker-assisted selection (MAS) is a tool that can be used to
accelerate the development of novel apple varieties such as cultivars that have fruit with
anthocyanin through to the core. In addition, determining the inheritance of novel alleles, such as
the one responsible for red flesh, adds to our understanding of allelic variation. Our goal was to
map candidate anthocyanin biosynthetic and regulatory genes in a population segregating for the
red flesh phenotypes.
Results: We have identified the Rni locus, a major genetic determinant of the red foliage and red
colour in the core of apple fruit. In a population segregating for the red flesh and foliage phenotype
we have determined the inheritance of the Rni locus and DNA polymorphisms of candidate
anthocyanin biosynthetic and regulatory genes. Simple Sequence Repeats (SSRs) and Single
Nucleotide Polymorphisms (SNPs) in the candidate genes were also located on an apple genetic
map. We have shown that the MdMYB10 gene co-segregates with the Rni locus and is on Linkage
Group (LG) 09 of the apple genome.
Conclusion: We have performed candidate gene mapping in a fruit tree crop and have provided
genetic evidence that red colouration in the fruit core as well as red foliage are both controlled by
a single locus named Rni. We have shown that the transcription factor MdMYB10 may be the gene
underlying Rni as there were no recombinants between the marker for this gene and the red
phenotype in a population of 516 individuals. Associating markers derived from candidate genes
with a desirable phenotypic trait has demonstrated the application of genomic tools in a breeding
programme of a horticultural crop species. |
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| Map Set Name: |
Red flesh apple 2007 |
[ Show Only This Set ] |
| Abbreviated Name: |
Red flesh apple 2007 |
[ Download Map Set Data ] |
| Accession ID: |
56 |
[ View Map Set In Matrix ] |
| Species: |
Malus domestica (Apple) |
[ View Species Info ] |
| Map Type: |
Genetic |
[ View Map Type Info ] |
| Map Units: |
cM |
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| Published On: |
03 July, 2007 |
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Description:
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Background
Integrating plant genomics and classical breeding is a challenge for both plant breeders and molecular biologists. Marker-assisted selection (MAS) is a tool that can be used to accelerate the development of novel apple varieties such as cultivars that have fruit with anthocyanin through to the core. In addition, determining the inheritance of novel alleles, such as the one responsible for red flesh, adds to our understanding of allelic variation. Our goal was to map candidate anthocyanin biosynthetic and regulatory genes in a population segregating for the red flesh phenotypes.
Results
We have identified the Rni locus, a major genetic determinant of the red foliage and red colour in the core of apple fruit. In a population segregating for the red flesh and foliage phenotype we have determined the inheritance of the Rni locus and DNA polymorphisms of candidate anthocyanin biosynthetic and regulatory genes. Simple Sequence Repeats (SSRs) and Single Nucleotide Polymorphisms (SNPs) in the candidate genes were also located on an apple genetic map. We have shown that the MdMYB10 gene co-segregates with the Rni locus and is on Linkage Group (LG) 09 of the apple genome.
Conclusion
We have performed candidate gene mapping in a fruit tree crop and have provided genetic evidence that red colouration in the fruit core as well as red foliage are both controlled by a single locus named Rni. We have shown that the transcription factor MdMYB10 may be the gene underlying Rni as there were no recombinants between the marker for this gene and the red phenotype in a population of 516 individuals. Associating markers derived from candidate genes with a desirable phenotypic trait has demonstrated the application of genomic tools in a breeding programme of a horticultural crop species. |
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| Map Set Name: |
Apple-M9R5-F1 |
[ Show Only This Set ] |
| Abbreviated Name: |
Apple-M9R5-F1 |
[ Download Map Set Data ] |
| Accession ID: |
55 |
[ View Map Set In Matrix ] |
| Species: |
Malus domestica (Apple) |
[ View Species Info ] |
| Map Type: |
Genetic |
[ View Map Type Info ] |
| Map Units: |
cM |
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| Published On: |
01 January, 2009 |
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Description:
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Marker-assisted selection (MAS) offers quick and reliable prediction of the phenotypes of seedlings in large populations and thus opens new approaches for selection to breeders of apple (Malus x domestica Borkh.). The development of framework maps enables the discovery of genetic markers linked to desired traits. Although genetic maps have been reported for apple scion cultivars, none has previously been constructed for apple rootstocks. We report the construction of framework genetic maps in a cross between 'M.9' ('Malling 9') and 'R.5' ('Robusta 5') apple rootstocks. The maps comprise 224 simple sequence repeat (SSR) markers, 18 sequence-characterised amplified regions, 14 single nucleotide polymorphisms and 42 random amplified polymorphic DNAs. A new set of 47 polymorphic SSRs was developed from apple EST sequences and used for construction of this rootstock map. All 17 linkage groups have been identified and aligned to existing apple genetic maps. The maps span 1,175.7 cM ('M.9') and 1,086.7 cM ('R.5'). To improve the efficiency of mapping markers to this framework map, we developed a bin mapping set. Applications of these new genetic maps include the elucidation of the genetic basis of the dwarfing effect of the apple rootstock 'M.9' and the analysis of disease and insect resistance traits such as fire blight (Erwinia amylovora), apple scab (Venturia inaequalis) and woolly apple aphid (Eriosoma lanigerum). Markers for traits mapped in this population will be of direct use to apple breeders for MAS and for identification of causative genes by map-based cloning. |
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| Map Set Name: |
Apple Integrated Map |
[ Show Only This Set ] |
| Abbreviated Name: |
apple integrated map |
[ Download Map Set Data ] |
| Accession ID: |
16 |
[ View Map Set In Matrix ] |
| Species: |
Malus domestica (Apple) |
[ View Species Info ] |
| Map Type: |
Genetic |
[ View Map Type Info ] |
| Map Units: |
cM |
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| Published On: |
01 July, 2009 |
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Description (from the supplementary notes):
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The genetic maps that were used to develop the integrated map for metacontig anchoring were
derived from six F1 populations totaling 720 individuals: 270 plants from the cross between 'Golden Delicious' and 'Scarlet', grown at FEM-IASMA (San Michele, TN, Italy), 88 plants from 'Golden Delicious' x 'Braeburn', IASMA; 91 plants from 'Golden Delicious' x 'McIntosh-Wijick', IASMA; 89 plants from 'Discovery' x apple hybrid TN 10-8, INRA (Angers France); 91 plants from 'Gala' x 'Dulmener Rosenapfel', INRA (Angers, France); 91 plants from 'Royal Gala' x 'Braeburn', Plant & Food Research, (Hawke's Bay, New Zealand).
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| Map Set Name: |
MRomeBeauty |
[ Show Only This Set ] |
| Abbreviated Name: |
MRomeBeauty |
[ Download Map Set Data ] |
| Accession ID: |
19 |
[ View Map Set In Matrix ] |
| Species: |
Malus domestica (Apple) |
[ View Species Info ] |
| Map Type: |
Genetic |
[ View Map Type Info ] |
| Map Units: |
cM |
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| Published On: |
01 January, 1994 |
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Data Source:
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RoseDB (defunct)
Abstract: http://www.intl-pag.org/pag/7/abstracts/pag7770.html
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Description:
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Author: Norm Weeden
The markers were divided into three groups: (1) those segregating as a result of heterozygosity in White Angel;(2) those segregating as a result of heterozygosity in Rome Beauty; and (3)those segregating as a result of heterozygosity in both parents. For analysis of amplified DNA fragments, we considered a parent heterozygous for a particular segregating fragment if DNA from that parent generated the fragment when used as template DNA. The expected segregation ratio for a locus heterozygous in only one parent was 1:1, whereas loci heterozygous in both parents were expected to display either a 3:1 ratio for dominant characters such as RAPDs or a 1:2:1 ratio for codominant allozymes and RFLPs. Goodness-of-fit between observed and expected segregation ratios was tested using chi-square analysis as performed by LINKAGE-1. This data set are those loci heterozygous only in Rome Beauty. MAPMAKER 2.0 was used to confirm locus order for each linkage group and to determine multipoint recombination frequencies among loci. A log-likelihood score of 3.0 and a recombination distance of no more than 20 cM were the minimal criteria for establishing linkage between markers. The 'ripple' function on MAPMAKER was employed to assess the robustness of the order of markers on a linkage group. data type f2 backcross (AxH, S=A, F=H U=Missing) symbols 1=A 2=H 0=U |
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| Map Set Name: |
MRomeBeauty_2 |
[ Show Only This Set ] |
| Abbreviated Name: |
MRomeBeauty_2 |
[ Download Map Set Data ] |
| Accession ID: |
20 |
[ View Map Set In Matrix ] |
| Species: |
Malus domestica (Apple) |
[ View Species Info ] |
| Map Type: |
Genetic |
[ View Map Type Info ] |
| Map Units: |
cM |
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| Published On: |
01 January, 1994 |
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Data Source:
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RoseDB (defunct)
Abstract: http://www.intl-pag.org/pag/7/abstracts/pag7770.html
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Description:
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Author: Norm Weeden
The markers were divided into three groups: (1) those segregating as a result of heterozygosity in White Angel;(2) those segregating as a result of heterozygosity in Rome Beauty; and (3)those segregating as a result of heterozygosity in both parents. For analysis of amplified DNA fragments, we considered a parent heterozygous for a particular segregating fragment if DNA from that parent generated the fragment when used as template DNA. The expected segregation ratio for a locus heterozygous in only one parent was 1:1, whereas loci heterozygous in both parents were expected to display either a 3:1 ratio for dominant characters such as RAPDs or a 1:2:1 ratio for codominant allozymes and RFLPs. Goodness-of-fit between observed and expected segregation ratios was tested using chi-square analysis as performed by LINKAGE-1. This data set are those loci heterozygous only in Rome Beauty. MAPMAKER 2.0 was used to confirm locus order for each linkage group and to determine multipoint recombination frequencies among loci. A log-likelihood score of 3.0 and a recombination distance of no more than 20 cM were the minimal criteria for establishing linkage between markers. The 'ripple' function on MAPMAKER was employed to assess the robustness of the order of markers on a linkage group. data type f2 backcross (AxH, S=A, F=H U=Missing) symbols 1=A 2=H 0=U
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| Cross-references: |
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| Map Set Name: |
MWhiteAngel |
[ Show Only This Set ] |
| Abbreviated Name: |
MWhiteAngel |
[ Download Map Set Data ] |
| Accession ID: |
21 |
[ View Map Set In Matrix ] |
| Species: |
Malus domestica (Apple) |
[ View Species Info ] |
| Map Type: |
Genetic |
[ View Map Type Info ] |
| Map Units: |
cM |
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| Published On: |
01 January, 1994 |
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Data Source:
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RoseDB (defunct)
Abstract: http://www.intl-pag.org/pag/7/abstracts/pag7770.html |
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Description:
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Author: Norm Weeden
The markers were divided into three groups: (1) those segregating as a result of heterozygosity in White Angel;(2) those segregating as a result of heterozygosity in Rome Beauty; and (3)those segregating as a result of heterozygosity in both parents. For analysis of amplified DNA fragments, we considered a parent heterozygous for a particular segregating fragment if DNA from that parent generated the fragment when used as template DNA. The expected segregation ratio for a locus heterozygous in only one parent was 1:1, whereas loci heterozygous in both parents were expected to display either a 3:1 ratio for dominant characters such as RAPDs or a 1:2:1 ratio for codominant allozymes and RFLPs. Goodness-of-fit between observed and expected segregation ratios was tested using chi-square analysis as performed by LINKAGE-1. This data set are those loci heterozygous only in Rome Beauty. MAPMAKER 2.0 was used to confirm locus order for each linkage group and to determine multipoint recombination frequencies among loci. A log-likelihood score of 3.0 and a recombination distance of no more than 20 cM were the minimal criteria for establishing linkage between markers. The 'ripple' function on MAPMAKER was employed to assess the robustness of the order of markers on a linkage group. data type f2 backcross (AxH, S=A, F=H U=Missing) symbols 1=A 2=H 0=U
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| Cross-references: |
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| Map Set Name: |
MWhiteAngel_2 |
[ Show Only This Set ] |
| Abbreviated Name: |
MWhiteAngel_2 |
[ Download Map Set Data ] |
| Accession ID: |
22 |
[ View Map Set In Matrix ] |
| Species: |
Malus domestica (Apple) |
[ View Species Info ] |
| Map Type: |
Genetic |
[ View Map Type Info ] |
| Map Units: |
cM |
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| Published On: |
01 January, 1994 |
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Data Source:
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RoseDB (defunct)
Abstract: http://www.intl-pag.org/pag/7/abstracts/pag7770.html
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Description:
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Author: Norm Weeden
The markers were divided into three groups: (1) those segregating as a result of heterozygosity in White Angel;(2) those segregating as a result of heterozygosity in Rome Beauty; and (3)those segregating as a result of heterozygosity in both parents. For analysis of amplified DNA fragments, we considered a parent heterozygous for a particular segregating fragment if DNA from that parent generated the fragment when used as template DNA. The expected segregation ratio for a locus heterozygous in only one parent was 1:1, whereas loci heterozygous in both parents were expected to display either a 3:1 ratio for dominant characters such as RAPDs or a 1:2:1 ratio for codominant allozymes and RFLPs. Goodness-of-fit between observed and expected segregation ratios was tested using chi-square analysis as performed by LINKAGE-1. This data set are those loci heterozygous only in Rome Beauty. MAPMAKER 2.0 was used to confirm locus order for each linkage group and to determine multipoint recombination frequencies among loci. A log-likelihood score of 3.0 and a recombination distance of no more than 20 cM were the minimal criteria for establishing linkage between markers. The 'ripple' function on MAPMAKER was employed to assess the robustness of the order of markers on a linkage group. data type f2 backcross (AxH, S=A, F=H U=Missing) symbols 1=A 2=H 0=U
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| Map Set Name: |
MNY75441-58 |
[ Show Only This Set ] |
| Abbreviated Name: |
MNY75441-58 |
[ Download Map Set Data ] |
| Accession ID: |
17 |
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| Species: |
Malus domestica (Apple) |
[ View Species Info ] |
| Map Type: |
Genetic |
[ View Map Type Info ] |
| Map Units: |
cM |
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| Published On: |
01 May, 1997 |
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Data Source:
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RoseDB (defunct)
Abstract: http://www.intl-pag.org/pag/7/abstracts/pag7770.html |
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Description:
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Genetic linkage maps were created for three apple (Malus x domestica Borkh.) cultivars using data from two progenies ('Wijcik McIntosh' x NY 75441-67 and 'Wijcik McIntosh' x NY 75441-58). The maps consist primarily of randomly amplified polymorphic DNA (RAPD) markers, but also contain six isozyme loci and four morphological markers (Rf, fruit skin color; Vf, scab resistance; Co, columnar growth habit; Ma, malic acid). Maps were constructed using a double pseudotestcross mapping format and JoinMap mapping software. An integrated 'Wijcik McIntosh' map was produced by combining marker data from both progenies into a single linkage map. Homologous linkage groups from paternal maps were paired with their counterparts in the 'Wijcik McIntosh' map using locus bridges composed of markers heterozygous in both parents of a progeny. The 'Wijcik McIntosh' map consists of 238 markers arranged in 19 linkage groups spanning 1206 cM. The NY 75441-67 map contains 110 markers in 16 linkage groups and the NY 75441-58 map consists of 183 markers in 18 linkage groups. The average distance between markers in the maps was ~5.0 cM |
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| Map Set Name: |
MNY75441-67 |
[ Show Only This Set ] |
| Abbreviated Name: |
MNY75441-67 |
[ Download Map Set Data ] |
| Accession ID: |
18 |
[ View Map Set In Matrix ] |
| Species: |
Malus domestica (Apple) |
[ View Species Info ] |
| Map Type: |
Genetic |
[ View Map Type Info ] |
| Map Units: |
cM |
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| Published On: |
01 May, 1997 |
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Data Source:
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RoseDB (defunct)
Abstract: http://www.intl-pag.org/pag/7/abstracts/pag7770.html |
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Description:
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Genetic linkage maps were created for three apple (Malus x domestica Borkh.) cultivars using data from two progenies ('Wijcik McIntosh' x NY 75441-67 and 'Wijcik McIntosh' x NY 75441-58). The maps consist primarily of randomly amplified polymorphic DNA (RAPD) markers, but also contain six isozyme loci and four morphological markers (Rf, fruit skin color; Vf, scab resistance; Co, columnar growth habit; Ma, malic acid). Maps were constructed using a double pseudotestcross mapping format and JoinMap mapping software. An integrated 'Wijcik McIntosh' map was produced by combining marker data from both progenies into a single linkage map. Homologous linkage groups from paternal maps were paired with their counterparts in the 'Wijcik McIntosh' map using locus bridges composed of markers heterozygous in both parents of a progeny. The 'Wijcik McIntosh' map consists of 238 markers arranged in 19 linkage groups spanning 1206 cM. The NY 75441-67 map contains 110 markers in 16 linkage groups and the NY 75441-58 map consists of 183 markers in 18 linkage groups. The average distance between markers in the maps was ~5.0 cM |
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| Maps: |
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| Cross-references: |
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| Map Set Name: |
MWijcik_McIntosh |
[ Show Only This Set ] |
| Abbreviated Name: |
MWijcik_McIntosh |
[ Download Map Set Data ] |
| Accession ID: |
23 |
[ View Map Set In Matrix ] |
| Species: |
Malus domestica (Apple) |
[ View Species Info ] |
| Map Type: |
Genetic |
[ View Map Type Info ] |
| Map Units: |
cM |
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| Published On: |
01 May, 1997 |
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Data Source:
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RoseDB (defunct)
Abstract: http://www.intl-pag.org/pag/7/abstracts/pag7770.html |
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Description:
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Genetic linkage maps were created for three apple (Malus x domestica Borkh.) cultivars using data from two progenies ('Wijcik McIntosh' x NY 75441-67 and 'Wijcik McIntosh' x NY 75441-58). The maps consist primarily of randomly amplified polymorphic DNA (RAPD) markers, but also contain six isozyme loci and four morphological markers (Rf, fruit skin color; Vf, scab resistance; Co, columnar growth habit; Ma, malic acid). Maps were constructed using a double pseudotestcross mapping format and JoinMap mapping software. An integrated 'Wijcik McIntosh' map was produced by combining marker data from both progenies into a single linkage map. Homologous linkage groups from paternal maps were paired with their counterparts in the 'Wijcik McIntosh' map using locus bridges composed of markers heterozygous in both parents of a progeny. The 'Wijcik McIntosh' map consists of 238 markers arranged in 19 linkage groups spanning 1206 cM. The NY 75441-67 map contains 110 markers in 16 linkage groups and the NY 75441-58 map consists of 183 markers in 18 linkage groups. The average distance between markers in the maps was ~5.0 cM |
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