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| Map Set Name: |
Peach-PF-BC1 |
[ Show Only This Set ] |
| Abbreviated Name: |
Peach-PF-BC1 |
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| Accession ID: |
61 |
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| Species: |
Prunus persica (Peach) |
[ View Species Info ] |
| Map Type: |
Genetic |
[ View Map Type Info ] |
| Map Units: |
cM |
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| Published On: |
01 October, 2005 |
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Description:
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A set of 146 single sequence repeats (SSRs) and 14 amplified fragment length polymorphism (AFLP) primer combinations were used to enrich a previously developed linkage map obtained from a (Prunus persicaxP. ferganensis)xP. persica BC(1) progeny. Forty-one SSR primer pairs gave polymorphic patterns detecting 42 loci. The restriction/selective primer AFLP combinations produced a total of 79 segregating fragments. The resulting map is composed of 216 loci covering 665 cM with an average distance of 3.1 cM. Novel regions were covered by the newly mapped loci for a total of 159 cM. Eight linkage groups were assembled instead of the earlier 10 as two small groups (G1a and G8b), previously independent, were joined to their respective major groups (G1b and G8a). Several gaps were also reduced resulting in an improved saturation of the map. Twelve gaps >or=10 cm are still present. A comparative analysis against the Prunus reference map (71 anchor loci) pointed out an almost complete synteny and colinearity. Six loci were not syntenic and only two were not colinear. Genetic distances were significantly longer in our map than in the reference one.
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| Map Set Name: |
Peach-GN-F2 |
[ Show Only This Set ] |
| Abbreviated Name: |
Peach-GN-F2 |
[ Download Map Set Data ] |
| Accession ID: |
38 |
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| Species: |
Prunus persica (Peach) |
[ View Species Info ] |
| Map Type: |
Genetic |
[ View Map Type Info ] |
| Map Units: |
cM |
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| Published On: |
01 January, 2007 |
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Description:
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Peach tree short life (PTSL) is a devastating disease syndrome of peach [Prunus persica (L.) Batsch] caused by multiple factors; the molecular biology of its tolerance/susceptibility is unknown. The difficulty of studying PTSL is that tree survival or death is not obvious until 3 to 5 years after planting when the symptoms of PTSL first appear. Tolerance to PTSL was unknown in Prunus until the rootstock Guardian? 'BY520-9' was introduced into commercial orchards in 1994. To study the genetics of the response to PTSL, a controlled F2 cross was made between Guardian? 'BY520-9' selection 3-17-7 (PTSL-tolerant) and Nemaguard (PTSL-susceptible). An F1 hybrid was then selfed to generate an F2 population expected to segregate for PTSL response. One hundred fifty-one AFLPs and 21 SSRs, including anchor loci from the Prunus reference genetic map, were used to construct a molecular genetic map based on 100 F2 seedlings. This map covers a genetic distance of 737 cM with an average marker spacing of 4.7 cM and will be used as a framework to construct a highly saturated molecular genetic map. Of the 140 mapped AFLP markers, 38 were associated with PTSL response, as identified previously by bulked segregant analysis. The distribution of the markers associated with PTSL response on the newly constructed genetic map was compared with the recently published Prunus resistance map. This comparison revealed that some resistance gene analogs and several PTSL-associated AFLP markers were located in the same regions in several Prunus linkage groups: G1, G2, G4, G5, and G6. This peach rootstock map can also be viewed and compared with other Prunus maps in comparative map viewer CMap in the Genome Database for Rosaceae (GDR) at http://www.rosaceae.org |
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| Map Set Name: |
Peach-DG-F1-2009 |
[ Show Only This Set ] |
| Abbreviated Name: |
Peach-DG-F1-2009 |
[ Download Map Set Data ] |
| Accession ID: |
62 |
[ View Map Set In Matrix ] |
| Species: |
Prunus persica (Peach) |
[ View Species Info ] |
| Map Type: |
Genetic |
[ View Map Type Info ] |
| Map Units: |
cM |
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| Published On: |
01 December, 2009 |
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Description:
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Background: Prunus fruit development, growth, ripening, and senescence includes major
biochemical and sensory changes in texture, color, and flavor. The genetic dissection of these
complex processes has important applications in crop improvement, to facilitate maximizing and
maintaining stone fruit quality from production and processing through to marketing and
consumption. Here we present an integrated fruit quality gene map of Prunus containing 133 genes
putatively involved in the determination of fruit texture, pigmentation, flavor, and chilling injury
resistance.
Results: A genetic linkage map of 211 markers was constructed for an intraspecific peach (Prunus
persica) progeny population, Pop-DG, derived from a canning peach cultivar 'Dr. Davis' and a fresh
market cultivar 'Georgia Belle'. The Pop-DG map covered 818 cM of the peach genome and
included three morphological markers, 11 ripening candidate genes, 13 cold-responsive genes, 21
novel EST-SSRs from the ChillPeach database, 58 previously reported SSRs, 40 RAFs, 23 SRAPs, 14
IMAs, and 28 accessory markers from candidate gene amplification. The Pop-DG map was co-linear
with the Prunus reference T x E map, with 39 SSR markers in common to align the maps. A further
158 markers were bin-mapped to the reference map: 59 ripening candidate genes, 50 coldresponsive
genes, and 50 novel EST-SSRs from ChillPeach, with deduced locations in Pop-DG via
comparative mapping. Several candidate genes and EST-SSRs co-located with previously reported
major trait loci and quantitative trait loci for chilling injury symptoms in Pop-DG.
Conclusion: The candidate gene approach combined with bin-mapping and availability of a
community-recognized reference genetic map provides an efficient means of locating genes of
interest in a target genome. We highlight the co-localization of fruit quality candidate genes with
previously reported fruit quality QTLs. The fruit quality gene map developed here is a valuable tool
for dissecting the genetic architecture of fruit quality traits in Prunus crops. |
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| Map Set Name: |
Peach Pamirskij 5 x Rubira F2 |
[ Show Only This Set ] |
| Abbreviated Name: |
Peach-PR-F2 |
[ Download Map Set Data ] |
| Accession ID: |
60 |
[ View Map Set In Matrix ] |
| Species: |
Prunus persica (Peach) |
[ View Species Info ] |
| Map Type: |
Genetic |
[ View Map Type Info ] |
| Map Units: |
cM |
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| Published On: |
11 May, 2011 |
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Description:
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The green peach aphid (GPA), Myzus persicae (Sulzer), is a widespread pest insect that significantly reduces yield in peach orchards [Prunus persica (L.) Batsch]. Chemical control of the GPA population in the orchards showed little efficiency because of the development of resistance to most classes of insecticides. Biological control partially gave convincing results. Breeding for resistant peach cultivars is therefore a serious option to take
into account for the development of sustainable pest management. Among the few available resistance cultivars, the rootstock peach "Rubira" shows a strong induced antixenosis-type GPA resistance. This was demonstrated segregating as a single dominant gene. In order to
investigate the genetic basis of resistance and develop molecular tools useful in breeding programs, a F2 population derived from "Rubira" also segregating for leaf color was grown and scored for GPA resistance under contrasted
environmental conditions. An SSR-based genetic linkage
map composed of 120 SSR loci spanned over a distance of 497.8 cM was then established. The GPA resistance mapped to a single locus at the bottom end of linkage group 1. We propose to name Rm2 the dominant allele of the underlying gene. Additionally, a reciprocal translocation was identified near the Gr gene controlling leaf color. The red-leaf parent "Rubira" was demonstrated responsible for the translocation. This study provides the basis for future molecular analysis for the use of Rm2 in peach breeding programs against GPA in peach orchards. |
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| Map Set Name: |
Peach-LN-F2 |
[ Show Only This Set ] |
| Abbreviated Name: |
Peach-LN-F2 |
[ Download Map Set Data ] |
| Accession ID: |
40 |
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| Species: |
Prunus persica (Peach) |
[ View Species Info ] |
| Map Type: |
Genetic |
[ View Map Type Info ] |
| Map Units: |
cM |
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| Published On: |
01 April, 1998 |
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Description:
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A genetic linkage map for peach (Prunus persica (L.) Batsch) rootstocks has been constructed using amplified fragment length polymorphism (AFLP) markers in 55 F2 individuals derived from the cross Lovell x Nemared. From 21 different primer combinations, a total of 169 AFLP markers were scored, of which, 153 were assigned to 15 linkage groups covering 1297 centimorgans (cM) of the peach nuclear genome. The average interval between these markers was 9.1 cM. Two genes (Mi and Mij) involved in resistance to root-knot nematodes (Meloidogyne incognita (Kofoid and White) Chitwood and Meloidogyne javanica (Treub) Chitwood) were mapped to a single linkage group (Group I). These two loci were separated by a 16.5-cM interval. One codominant AFLP marker (EAA/MCAT10) was tightly linked to the Mij locus (3.4 cM), and a dominant AFLP marker (EAT/MCAT2) was found to be closely associated with the Mi locus (6.0 cM). These markers are being studied for utilization in peach rootstock breeding with marker-assisted selection. |
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| Map Set Name: |
Peach-NJPKV77119-F2 |
[ Show Only This Set ] |
| Abbreviated Name: |
Peach-NJPKV77119-F2 |
[ Download Map Set Data ] |
| Accession ID: |
42 |
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| Species: |
Prunus persica (Peach) |
[ View Species Info ] |
| Map Type: |
Genetic |
[ View Map Type Info ] |
| Map Units: |
cM |
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| Published On: |
01 April, 1998 |
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Description:
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We have developed a highly saturated linkage map in peach using 3 separate crosses: one segregating for morphological characters, one segregating for fruit quality traits, and one that contains important rootstock characters. Linkage maps were created for each cross using RFLP, RAPD, and AFLP markers. In the fruit quality cross, with the analysis of 2 years of field data, we have identified 12 QTL that influence soluble solids, pH, cold tolerance, maturity, and fruit size. In the rootstock cross, we have identified tightly linked markers to 2 loci controlling resistance to Meloidogyne spp. root-knot nematodes. In both maps, identified markers are being converted to sequence tagged sites (STS) for use in marker assisted selection. Anchor loci present in 2 or 3 of the maps were used to join the equivalent linkage groups from each map resulting in a combined linkage map for peach. We are also constructing physical maps for several genomic regions controlling traits of interest, to convert genetic map distances to physical distances. Probes specific to individual "combined" linkage groups, are being used to determine their respective chromosomal assignments by in situ hybridization as well. |
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| Map Set Name: |
Peach-ScB-F2-1998 |
[ Show Only This Set ] |
| Abbreviated Name: |
Peach-ScB-F2-1998 |
[ Download Map Set Data ] |
| Accession ID: |
3 |
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| Species: |
Prunus persica (Peach) |
[ View Species Info ] |
| Map Type: |
Genetic |
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| Map Units: |
cM |
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| Published On: |
01 April, 1998 |
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Description:
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We have developed a highly saturated linkage map in peach using 3 separate crosses (Sc x B, NJ Pillar x KV 77119, and Lovell x Nemared) : one segregating for morphological characters, one segregating for fruit quality traits, and one that contains important rootstock characters. Linkage maps were created for each cross using RFLP, RAPD, and AFLP markers. In the fruit quality cross, with the analysis of 2 years of field data, we have identified 12 QTL that influence soluble solids, pH, cold tolerance, maturity, and fruit size. In the rootstock cross, we have identified tightly linked markers to 2 loci controlling resistance to Meloidogyne spp. root-knot nematodes. In both maps, identified markers are being converted to sequence tagged sites (STS) for use in marker assisted selection. Anchor loci present in 2 or 3 of the maps were used to join the equivalent linkage groups from each map resulting in a combined linkage map for peach. We are also constructing physical maps for several genomic regions controlling traits of interest, to convert genetic map distances to physical distances. Probes specific to individual "combined" linkage groups, are being used to determine their respective chromosomal assignments by in situ hybridization as well. |
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| Map Set Name: |
Pear-Bartlett |
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| Abbreviated Name: |
Pear-Bartlett |
[ Download Map Set Data ] |
| Accession ID: |
44 |
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| Species: |
Pyrus (Pear) |
[ View Species Info ] |
| Map Type: |
Genetic |
[ View Map Type Info ] |
| Map Units: |
cM |
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| Published On: |
01 December, 2004 |
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| Maps: |
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| Map Set Name: |
Pear-Housui |
[ Show Only This Set ] |
| Abbreviated Name: |
Pear-Housui |
[ Download Map Set Data ] |
| Accession ID: |
45 |
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| Species: |
Pyrus (Pear) |
[ View Species Info ] |
| Map Type: |
Genetic |
[ View Map Type Info ] |
| Map Units: |
cM |
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| Published On: |
01 December, 2004 |
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Description (abstract):
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Genetic linkage maps of the Japanese pear (Pyrus pyrifolia Nakai) cultivar 'Housui' and the European pear (Pyrus communis L.) cultivar 'Bartlett' were constructed based on Amplified Fragment Length Polymorphism markers (AFLPs), Simple Sequence Repeat markers (SSRs) (from pear, apple and Prunus), isozymes, and phenotypic traits by using their F1 progenies. The map of the female parent 'Bartlett' consisted of 256 loci including 178 AFLPs, 76 SSRs (32 pear, 39 apple, 5 Prunus SSRs), 1 isozyme and a self-incompatibility locus on 19 linkage groups over a total length of 1020 cM. The map of 'Housui' contained 180 loci including 110 AFLPs, 64 SSRs (29 pear, 29 apple, 6 Prunus SSRs), 2 phenotypic traits and 4 other markers on 20 linkage groups encompassing a genetic distance of 995 cM. These 2 pear maps were aligned using 37 co-dominant markers that showed segregating alleles in both parents. Out of 80 tested SSR markers developed from apple, more than four-fifth could produce discrete amplified fragments in pear. Thirty-eight apple SSR markers showed 39 segregating loci in the linkage map of 'Bartlett', while 27 markers produced 29 loci in 'Housui'. All pear linkage groups could be successfully aligned to the apple consensus map by at least 1 apple SSRs, suggesting that positions and linkages of SSR loci were well conserved between pear and apple. The self-incompatibility locus (S locus) was mapped to linkage group 17 in Japanese and European pears as well as apple. Our results are the first major effort in comparative mapping of pear and apple. |
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Description:
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Population name: BH
Cross combination: Bartlett (Pyrus communis) x Housui (Pyrus pyrifolia)
Population type: F1
Number of individuals: 63
Number of loci: 177
Number of linkage groups: 20
Mapping software: JoinMap ver. 2
LOD value for grouping: 6.0 |
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| Map Set Name: |
Pear-Kin1a-F1 |
[ Show Only This Set ] |
| Abbreviated Name: |
Kinchaku1a |
[ Download Map Set Data ] |
| Accession ID: |
46 |
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| Species: |
Pyrus (Pear) |
[ View Species Info ] |
| Map Type: |
Genetic |
[ View Map Type Info ] |
| Map Units: |
cM |
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| Published On: |
01 August, 2006 |
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Description (abstract:
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Pear scab (caused by Venturia nashicola) is one of the most harmful diseases of pears, especially Japanese and Chinese pear species. The molecular identification and early selection of resistant plants could greatly improve pear breeding. We have identified the position of the scab resistance gene, designated Vnk in an indigenous Japanese pear cultivar Kinchaku, within the pear genome by using simple sequence repeat (SSR) markers derived from pear and apple. The position of Vnk was identified in the central region of linkage group 1 of Kinchaku. Several amplified fragment length polymorphism (AFLP) markers linked to Vnk were obtained by bulked segregant analysis. Among them, the AFLP marker closest to Vnk was converted into a sequence tagged site (STS) marker. Four random amplified polymorphic DNA (RAPD) markers previously found to be loosely associated with Vnk (Iketani et al. 2001) were successfully converted into STS markers. Six markers (one SSR Hi02c07 and five STSs converted from AFLP and RAPD) showed tight linkages to Vnk, being mapped with distances ranging from 2.4 to 12.4 cM. The SSR CH-Vf2, which was isolated from a BAC clone of the contig containing the apple scab gene Vf, was mapped at the bottom of linkage group 1 in Kinchaku, suggesting that the Vnk and Vf loci are located in different genomic regions of the same homologous linkage group. |
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Description:
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Population name: Shuurei x 314-32
Cross combination: Shuurei x 314-32 (Kinchaku x Housui)
Population type: F1
Number of individuals: 112
Number of loci: 14
Number of linkage groups: 1
Mapping software: JoinMap ver. 3
LOD value for grouping: 5.0
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| Cross-references: |
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| Map Set Name: |
Pear-Kin1b-F1 |
[ Show Only This Set ] |
| Abbreviated Name: |
Kinchaku1b |
[ Download Map Set Data ] |
| Accession ID: |
47 |
[ View Map Set In Matrix ] |
| Species: |
Pyrus (Pear) |
[ View Species Info ] |
| Map Type: |
Genetic |
[ View Map Type Info ] |
| Map Units: |
cM |
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| Published On: |
01 August, 2006 |
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Description (abstract):
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Pear scab (caused by Venturia nashicola) is one of the most harmful diseases of pears, especially Japanese and Chinese pear species. The molecular identification and early selection of resistant plants could greatly improve pear breeding. We have identified the position of the scab resistance gene, designated Vnk in an indigenous Japanese pear cultivar Kinchaku, within the pear genome by using simple sequence repeat (SSR) markers derived from pear and apple. The position of Vnk was identified in the central region of linkage group 1 of Kinchaku. Several amplified fragment length polymorphism (AFLP) markers linked to Vnk were obtained by bulked segregant analysis. Among them, the AFLP marker closest to Vnk was converted into a sequence tagged site (STS) marker. Four random amplified polymorphic DNA (RAPD) markers previously found to be loosely associated with Vnk (Iketani et al. 2001) were successfully converted into STS markers. Six markers (one SSR Hi02c07 and five STSs converted from AFLP and RAPD) showed tight linkages to Vnk, being mapped with distances ranging from 2.4 to 12.4 cM. The SSR CH-Vf2, which was isolated from a BAC clone of the contig containing the apple scab gene Vf, was mapped at the bottom of linkage group 1 in Kinchaku, suggesting that the Vnk and Vf loci are located in different genomic regions of the same homologous linkage group. |
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Description:
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Population name: Shuurei x 314-32
Cross combination: Shuurei x 314-32 (Kinchaku x Housui)
Population type: F1
Number of individuals: 112
Number of loci: 14
Number of linkage groups: 1
Mapping software: JoinMap ver. 3
LOD value for grouping: 5.0
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| Map Set Name: |
Pear-AFxMRB-F1 |
[ Show Only This Set ] |
| Abbreviated Name: |
Pear-AFxMRB-F1 |
[ Download Map Set Data ] |
| Accession ID: |
63 |
[ View Map Set In Matrix ] |
| Species: |
Pyrus (Pear) |
[ View Species Info ] |
| Map Type: |
Genetic |
[ View Map Type Info ] |
| Map Units: |
cM |
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| Published On: |
10 August, 2010 |
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| Maps: |
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| Map Set Name: |
Prunus-TE-F2 |
[ Show Only This Set ] |
| Abbreviated Name: |
Prunus-TE-F2 |
[ Download Map Set Data ] |
| Accession ID: |
43 |
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| Species: |
Prunus (Prunus) |
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| Map Type: |
Genetic |
[ View Map Type Info ] |
| Map Units: |
cM |
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| Published On: |
05 April, 2004 |
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TxE 2004:
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This is a Prunus reference map in an almond (cv. Texas) x peach (cv. Earlygold) F2 progeny. The current map has 562 markers, covering 519 cM (average density, 0.92 cM per marker). TxE map was originally reported as a saturated linkage map of 246 markers (235 RFLPs and 11 isozymes)in the expected eight linkage group by Joobeur et al (1998). An updated map with an addition of 96 simple sequence repeats (SSRs) has been reported by Aranzana et al (2003) and the current map with 220 additional markers (89 SSRs, five sequence-tagged sites, and 126 RFLPs has been reported by Dirlewanger et al (2004). |
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Peach Transcriptome map:
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A putative peach unigene set consisting of 3842 ESTs was defined by the assembly and annotation of 9984 ESTsfrom a peach cDNA library of developing fruit mesocarp. Using core markers from the general Prunus genetic map, BAC clones are anchored on the genetic map, providing a framework for the construction of a transcript map. A transcript map was developed by hybridizing 1,236 ESTs from the putative peach unigene set. ESTs are anchored to genetic maps when they are hybridized to BACs that have previously been hybridized to genetic markers. ESTs are also anchored to genetic maps when the EST-hybridizing BACs belong to a BAC contig that contains genetically anchored BACs. |
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Prunus resistance map:
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A candidate gene approach was implemented for locating resistance loci in the genome of peach. Candidate genes representing NBS-LRR, kinase, transmembrane domain classes, as well as, pathogen response (PR) proteins and resistance-associated transcription factors were hybridized to a peach BAC library and mapped by using the peach physical map database and the Genome Database for Rosaceae (GDR). A resistance map for Prunus was generated and currently contains 42 map locations for putative resistance regions distributed among 7 of the 8 linkage groups. |
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| Map Set Name: |
Prunus-P2175xGN22-BC1 |
[ Show Only This Set ] |
| Abbreviated Name: |
Prunus-P2175xGN22-BC1 |
[ Download Map Set Data ] |
| Accession ID: |
123 |
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| Species: |
Prunus (Prunus) |
[ View Species Info ] |
| Map Type: |
Genetic |
[ View Map Type Info ] |
| Map Units: |
cM |
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| Published On: |
01 August, 2004 |
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Description:
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This is a genetic linkage map on an inter-specific cross between Myrobalan plum ( Prunus cerasifera Ehrh) clone P.2175 and the almond ( Prunus dulcis Mill.)-peach ( Prunus persica L. Batsch) hybrid clone GN22 ['Garfi' (G) almond x 'Nemared' (N) peach]. This three-way interspecific Prunus progeny was produced in order to associate high root-knot nematode (RKN) resistances from Myrobalan and peach with other favorable traits for Prunus rootstocks from plum, peach and almond.The Ma gene and 93 markers [two sequence characterized amplified regions (SCARs), 91 SSRs] were placed on the P.2175 Myrobalan map covering 524.8 cM. The R(MiaNem) gene, the Gr gene controlling the color of peach leaves, and 166 markers (one SCAR, 165 SSRs) were mapped to seven linkage groups instead of the expected eight in Prunus. |
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| Map Set Name: |
Prunus Bin Map |
[ Show Only This Set ] |
| Abbreviated Name: |
Prunus Bin Map |
[ Download Map Set Data ] |
| Accession ID: |
30 |
[ View Map Set In Matrix ] |
| Species: |
Prunus (Prunus) |
[ View Species Info ] |
| Map Type: |
Genetic |
[ View Map Type Info ] |
| Map Units: |
cM |
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| Published On: |
22 August, 2005 |
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Description:
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The concept of selective (or bin) mapping is used here for the first time taking as an example the Prunus reference map constructed with an almond x peach F2 population. Based on this map, a set of six plants was selected that jointly defined 65 possible different genotypes for the codominant markers mapped on it. Sixty-three of these joint
genotypes corresponded to a single chromosomal region (a bin) of the Prunus genome, and the two remaining to two bins each. The 67 bins defined by these six plants had 7.8 cM average length and maximum individual length of 24.7 cM. Using a unit of analysis composed of these six plants, their F1 hybrid parent and one of the parents of the hybrid, we mapped 264 microsatellite (or simple-sequence repeat: SSR) markers from 401
different microsatellite primer pairs. Bin mapping proved to be a fast and economic strategy that could be used for further map saturation, the addition of valuable markers, such as those based on microsatellites or ESTs, and to give a wider scope to, and more efficient use of, reference mapping populations. |
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bin and bin-mapped markers:
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The bins in this map can be defined as an interval between one recombination breakpoint or telomere and the next one (within the set of the selected individuals). As a result, the real limit between the bins is a recombination breakpoint and not a marker unless the recombination breakpoint has generated a marker. Thus the first and the last marker of the bins are the ones that are closest to the recombination breakpoint (or telomere) but not the limit itself. For this reason it can be that a marker within a certain bin can actually be located above or below the first or the last marker of this bin depending where the recombination breakpoint is located. For simpler display, all the bin-mapped markers are displayed as aliases of the bin name in CMap. |
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Contact:
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P. Arus (pere.arus@irta.es)
W. Howad (Werner.Howad@irta.es) |
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RosCOS mapping:
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BACKGROUND: Detailed comparative genome analyses within the economically important Rosaceae family have not been conducted. This is largely due to the lack of conserved gene-based molecular markers that are transferable among the important crop genera within the family [e.g. Malus (apple), Fragaria (strawberry), and Prunus (peach, cherry, apricot and almond)]. The lack of molecular markers and comparative whole genome sequence analysis for this family severely hampers crop improvement efforts as well as QTL confirmation and validation studies. RESULTS: We identified a set of 3,818 rosaceaous unigenes comprised of two or more ESTs that correspond to single copy Arabidopsis genes. From this Rosaceae Conserved Orthologous Set (RosCOS), 1039 were selected from which 857 were used for the development of intron-flanking primers and allele amplification. This led to successful amplification and subsequent mapping of 613 RosCOS onto the Prunus TxE reference map resulting in a genome-wide coverage of 0.67 to 1.06 gene-based markers per cM per linkage group. Furthermore, the RosCOS primers showed amplification success rates from 23 to 100% across the family indicating that a substantial part of the RosCOS primers can be directly employed in other less studied rosaceaous crops. Comparisons of the genetic map positions of the RosCOS with the physical locations of the orthologs in the Populus trichocarpa genome identified regions of colinearity between the genomes of Prunus-Rosaceae and Populus-Salicaceae. CONCLUSION: Conserved orthologous genes are extremely useful for the analysis of genome evolution among closely and distantly related species. The results presented in this study demonstrate the considerable potential of the mapped Prunus RosCOS for genome-wide marker employment and comparative whole genome studies within the Rosaceae family. Moreover, these markers will also function as useful anchor points for the genome sequencing efforts currently ongoing in this family as well as for comparative QTL analyses. |
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| Map Set Name: |
Prunus-GN-F2 |
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| Abbreviated Name: |
Prunus-GN-F2 |
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| Accession ID: |
122 |
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| Species: |
Prunus (Prunus) |
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| Map Type: |
Genetic |
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| Map Units: |
cM |
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| Published On: |
01 June, 2001 |
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Description:
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A map with 51 markers (46 RFLPs and five
isozymes) was constructed using an interspecific F2
population between 'Garfi' almond (Prunus amygdalus
Batsch.) and 'Nemared' peach [Prunus persica (L.)
Batsch.]. This map was developed by selecting markers
covering most of the distance of the eight linkage groups
from previously constructed Prunus maps. The markers
studied in this population mapped to seven linkage
groups instead of the eight expected in Prunus. Markers
belonging to groups 6 and 8 in previous maps formed a
single group in the 'Garfi'x'Nemared' F2 and several
marker pairs placed in different groups in other maps exhibited
tight linkages. The study of pollen fertility and
chromosome behavior during meiosis in the F1 generation
allowed us to confirm the hypothesis that a reciprocal
translocation exists between 'Garfi' and 'Nemared'.
Based on independent evidence of linkage between
markers and pollen fertility data in the F2 population, we
concluded that the breakpoint of the reciprocal translocation
was placed between markers AC50 and AG26A in
group 6 and between markers AG112A and FG230A in
group 8. |
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| Map Set Name: |
Red Raspberry Latham x Glen Moy 2006 |
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| Abbreviated Name: |
Red Raspberry LxGm 2006 |
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| Accession ID: |
39 |
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| Species: |
Rubus idaeus (Red Raspberry) |
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| Map Type: |
Genetic |
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| Map Units: |
cM |
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| Published On: |
01 January, 2006 |
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Description:
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Disease resistance is increasing in importance, as consumers require high-quality raspberry fruit at a time when chemical disease control is undesirable. Breeders have limited resources and rarely include a primary screen for each fungal disease. Marker-assisted breeding would facilitate the introduction of resistance into elite germplasm and breeding lines. An additional 20 simple sequence repeats have been added to the existing raspberry linkage map. Gene H, which determines cane pubescence (genotype HH or Hh), the recessive allele of which gives glabrous canes (genotype hh), has been mapped on to linkage group 2 and shown to be closely associated with resistance to cane botrytis and spur blight but not rust or cane spot. Other map regions on linkage groups 3, 5 and 6 associated with disease resistance are reported here. |
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| Map Set Name: |
Red Raspberry MJxMO 2007 |
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| Abbreviated Name: |
Red Raspberry MJxMO |
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| Accession ID: |
49 |
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| Species: |
Rubus idaeus (Red Raspberry) |
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| Map Type: |
Genetic |
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| Map Units: |
cM |
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| Published On: |
01 March, 2007 |
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Description:
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[Background]
Raspberry breeding programmes worldwide aim to produce improved cultivars to satisfy market demands and within these programmes there are many targets, including increased fruit quality, yield and season, and improved pest and disease resistance and plant habit. The large raspberry aphid, Amphorophora idaei, transmits four viruses and vector resistance is an objective in raspberry breeding. The development of molecular tools that discriminate between aphid resistance genes from different sources will allow the pyramiding of such genes and the development of raspberry varieties with superior pest resistance. We have raised a red raspberry (Rubus idaeus) F1 progeny from the cross 'Malling Jewel' x 'Malling Orion' (MJxMO), which segregates for resistance to biotype 1 of the aphid Amphorophora idaei and for a second phenotypic trait, dwarf habit. These traits are controlled by single genes, denoted (A1) and (dw) respectively.
[Results]
The progeny of 94 seedlings was scored for the segregation of 95 AFLP and 22 SSR markers and a linkage map was constructed that covers a total genetic distance of 505 cM over seven linkage groups. The average linkage group length was 72.2 cM and there was an average of 17 markers per linkage group, of which at least two were codominant SSRs, allowing comparisons with previously published maps of raspberry. The two phenotypic traits, A1 and dw, mapped to linkage groups 3 and 6 respectively.
[Conclusions]
The mapping of A1 will facilitate the discrimination of resistance genes from different sources and the pyramiding of aphid resistance genes in new raspberry cultivars; the mapping of dw will allow further investigations into the genetics of dwarfing habit in Rubus. |
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| Map Set Name: |
Rose 94/1 (93/1-117 x 93/1-119) |
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| Abbreviated Name: |
Rose 94/1 |
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| Accession ID: |
72 |
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| Species: |
Rosa sp. (Rose) |
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| Map Type: |
Genetic |
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| Map Units: |
cM |
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| Published On: |
02 February, 2005 |
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Description:
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A high-density genetic map with a number of anchor markers has been created to be used as a tool to dissect genetic variation in rose. Linkage maps for the diploid 94/1 population consisting of 88 individuals were constructed using a total of 520 molecular markers including AFLP, SSR, PK, RGA, RFLP, SCAR and morphological markers. Seven linkage groups, putatively corresponding to the seven haploid rose chromosomes, were identified for each parent, spanning 487 cM and 490 cM, respectively. The average length of 70 cM may cover more than 90% of the rose genome. An integrated map was constructed by incorporating the homologous parental linkage groups, resulting in seven linkage groups with a total length of 545 cM. The present linkage map is currently the most advanced map in rose with regard to marker density, genome coverage and with robust markers, giving good perspectives for QTL mapping and marker-assisted breeding in rose. The SSR markers, together with RFLP markers, provide good anchor points for future map alignment studies in rose and related species. Codominantly scored AFLP markers were helpful in the integration of the parental maps. |
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| Map Set Name: |
Rose-DE-F1 |
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| Abbreviated Name: |
Rose-DE-F1 |
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| Accession ID: |
41 |
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| Species: |
Rosa sp. (Rose) |
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| Map Type: |
Genetic |
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| Map Units: |
cM |
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| Published On: |
01 May, 2005 |
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Description:
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A segregating progeny set of 96 F1 diploid hybrids (2n=2x=14) between "Blush Noisette" (D10), one of the first seedlings from the original "Champneys' Pink Cluster", and Rosa wichurana (E15), was used to construct a genetic linkage map of the rose genome following a "pseudo-testcross" mapping strategy. A total of 133 markers (130 RAPD, one morphological and two microsatellites) were located on the 14 linkage groups (LGs) of the D10 and E15 maps, covering total map lengths of 388 and 260 cM, respectively. Due to the presence of common biparental markers the homology of four LGs between parental maps (D10-1/E15-1 to D10-4/E15-4) could be inferred. Four horticulturally interesting quantitative traits, flower size (FS), days to flowering (DF), leaf size (LS), and resistance to powdery mildew (PM) were analysed in the progeny in order to map quantitative trait loci (QTLs) controlling these traits. A total of 13 putative QTLs (LOD>3.0) were identified, four for FS, two for flowering time, five for LS, and two for resistance to PM. Possible homologies between QTLs detected in the D10 and E15 maps could be established between Fs1 and Fs3, Fs2 and Fs4, and Ls1 and Ls3. Screening for pairwise epistatic interactions between loci revealed additional, epistatic QTLs (EQTLs) for DF and LS that were not detected in the original QTL analysis. The genetic maps developed in this study will be useful to add new markers and locate genes for important traits in the genus providing a practical resource for marker-assisted selection programs in roses. |
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| Map Set Name: |
Rose-95/13-39x82/78-1-F1 |
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| Abbreviated Name: |
Rose 97/7 |
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| Accession ID: |
74 |
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| Species: |
Rosa sp. (Rose) |
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| 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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Podosphaera pannosa, the causal agent of rose powdery mildew, hampers the production of cut roses throughout the world. A major tool to control this disease is the use of resistant plant material. Single resistance genes, like Rpp1, may be overcome within a few years by high risk pathogens like powdery mildews. Durable resistance could be achieved using quantitative resistances. Here we describe mapping of QTLs for resistance to P. pannosa in six different environments (artificial and natural infections in the greenhouse over 3 years and natural infections in the field over 2 years). AFLPs, RGAs and other marker types were used to construct an integrated linkage map for the diploid population 97/7 containing 233 markers. In a selective genotyping procedure, marker segregation was analysed for 170 of the up to 270 phenotyped individuals. We identified seven linkage groups with an average length of 60 cM, corresponding to seven rose chromosomes in the haploid set. Using an LOD significance threshold of 3.9 we detected a total of 28 QTLs for the nine powdery mildew disease scores under analysis. Using the data from artificial inoculations with powdery mildew race 9, three resistance QTLs explaining about 84% of the variability were mapped. Twelve and 15 QTLs were detected for resistance to naturally occurring infections in the greenhouse and in the field, respectively, over several years. |
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| Map Set Name: |
Rose OB x WOB26 |
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| Abbreviated Name: |
Rose OB x WOB26 |
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| Accession ID: |
73 |
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| Species: |
Rosa sp. (Rose) |
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| Map Type: |
Genetic |
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| Map Units: |
cM |
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| Published On: |
01 August, 2007 |
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| Map Set Name: |
Rose Integrated Consensus Map (ICM) |
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| Abbreviated Name: |
Rose ICM |
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| Accession ID: |
71 |
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| Species: |
Rosa sp. (Rose) |
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| Map Type: |
Genetic |
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| Map Units: |
cM |
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| Published On: |
10 October, 2010 |
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Description:
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We have constructed the first integrated consensus
map (ICM) for rose, based on the information of
four diploid populations and more than 1,000 initial markers.
The single population maps are linked via 59 bridge
markers, on average 8.4 per linkage group (LG). The integrated
map comprises 597 markers, 206 of which are
sequence-based, distributed over a length of 530 cM on
seven LGs. By using a larger effective population size and
therefore higher marker density, the marker order in the
ICM is more reliable than in the single population maps.
This is supported by a more even marker distribution and a
decrease in gap sizes in the consensus map as compared to
the single population maps. This unified map establishes a
standard nomenclature for rose LGs, and presents the
location of important ornamental traits, such as self-incompatibility,
black spot resistance (Rdr1), scent production
and recurrent blooming. In total, the consensus map
includes locations for 10 phenotypic single loci, QTLs for 7
different traits and 51 ESTs or gene-based molecular
markers. This consensus map combines for the first time the
information for traits with high relevance for rose variety
development. It will serve as a tool for selective breeding
and marker assisted selection. It will benefit future efforts of
the rose community to sequence the whole rose genome
and will be useful for synteny studies in the Rosaceae
family and especially in the section Rosoideae.
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| Map Set Name: |
Rose Golden Gate x Fragrant Cloud |
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| Abbreviated Name: |
Rose-GGFC |
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| Accession ID: |
59 |
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| Species: |
Rosa sp. (Rose) |
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| Map Type: |
Genetic |
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| Map Units: |
cM |
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| Published On: |
27 March, 2011 |
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| Map Set Name: |
PcerasusEB |
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| Abbreviated Name: |
PcerasusEB |
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| Accession ID: |
24 |
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| Species: |
Prunus cerasus (Sour Cherry) |
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| Map Type: |
Genetic |
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| Map Units: |
cM |
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| Published On: |
01 January, 1995 |
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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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name = RS.loc popt = CP nloc = 144 nind = 86
Restriction fragment length polymorphism (RFLP) linkage maps of two tetraploid sour cherry (Prunus cerasus L., 2n=4x=32) cultivars, Rheinische Schattenmorelle (RS) and Erdi Botermo (EB), were constructed from 86 progeny from the cross RS x EB. The RS linkage map consists of 146 single dose restriction fragment (SDRF, Wu et al. 1992) markers assigned to 19 linkage groups covering 461.6 cM. The EB linkage map has 123 SDRF markers assigned to 16 linkage groups covering
279.2 cM. Fifty three markers mapped in both parents were used as bridges between both maps and 13 sets of homologous linkage groups were
identified. Homoeologous relationships among the sour cherry
linkage groups could not be determined because only 15 probes identified duplicate loci. Fifty nine of the markers on the linkage maps were detected with probes used in other Prunus genetic linkage maps. Four of the sour cherry linkage groups may be homologous with four of the eight genetic linkage groups identified in peach and almond. Twenty one fragments expected to segregate in a 1:1 ratio segregated in a 2:1 ratio. Three of these fragments were used in the final map
fragments exhibited segregation consistent with the expectations of
intergenomic pairing and/or recombination.
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