E-MTAB-1650 - Comparative genomic hybridization by array of Triticum aestivum to investigate gene mapping in the physical map of the Triticum aestivum chromosome arm 1BL

Status
Released on 1 June 2013, last updated on 3 June 2014
Organism
Triticum aestivum
Samples (1)
Array (1)
Protocols (9)
Description
To improve our understanding of the organization and evolution of the wheat gene space, we established the first map of genes of the wheat chromosome 1BL by hybridizing the newly developed INRA GDEC Triticum aestivum NimbleGen 12x40k unigenes microarray (A-MEXP-2314) with BAC pools from the 1BL physical map as well as with genomic DNA of the sorted chromosome 1BL. By hybridizing the BAC pools with the wheat NimbleGen 40K unigenes chip we managed to map almost 1615 unigenes on the wheat chromosome 1BL BACs. By hybridizing the genomic DNA of the 1BL sorted chromosome and by comparison with 454 sequences from the sorted chromosome 1BL, we confirmed the assignation of 1223 unigenes in individual BACs from the chromosome 1BL. This data allowed us to study the organization of the wheat gene space along chromosome 1BL. The sequences of the unigenes helped to perform synteny and evolutionary analyses of these unigenes.
Experiment types
comparative genomic hybridization by array, all pairs, genotyping design , normalization testing design
Contact
Citation
A high density physical map of chromosome 1BL supports evolutionary studies, map-based cloning and sequencing in wheat. Philippe R., Paux E., Bertin I., Sourdille P., Choulet F., Laugier C., Simková H., Safa J., Bellec A., Vautrin S., Frenkel Z., Cattonaro F., Magni F., Scalabrin S., Martis M., Mayer K., Korol A., Bergès H., Doležel J., International Wheat Genome Sequencing Consortium, Feuillet C.
MIAME
PlatformsProtocolsFactorsProcessedRaw
Files
Investigation descriptionE-MTAB-1650.idf.txt
Sample and data relationshipE-MTAB-1650.sdrf.txt
Raw data (2)E-MTAB-1650.raw.1.zip, E-MTAB-1650.raw.2.zip
Processed data (1)E-MTAB-1650.processed.1.zip
Array designA-MEXP-2314.adf.txt
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