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| Map Set Name: |
Prunus-TE-F2 |
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| Abbreviated Name: |
Prunus-TE-F2 |
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| Accession ID: |
43 |
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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: |
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) |
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| Map Type: |
Genetic |
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| 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 |
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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: |
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 |
[ Show Only This Set ] |
| Abbreviated Name: |
Prunus-GN-F2 |
[ Download Map Set Data ] |
| Accession ID: |
122 |
[ View Map Set In Matrix ] |
| Species: |
Prunus (Prunus) |
[ View Species Info ] |
| 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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