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Series GSE10243 Query DataSets for GSE10243
Status Public on Jan 24, 2008
Title Profiling expression changes caused by a segmental aneuploid in maize
Organism Zea mays
Experiment type Expression profiling by array
Summary ABSTRACT: BACKGROUND: While changes in chromosome number that result in aneuploidy are associated with phenotypic consequences such as Down syndrome and cancer, the molecular causes of specific phenotypes and genome-wide expression changes that occur in aneuploids are still being elucidated. RESULTS: We employed a segmental aneuploid condition in maize to study phenotypic and gene expression changes associated with aneuploidy. Maize plants that are trisomic for 90% of the short arm of chromosome 5 and monosomic for a small distal portion of the short arm of chromosome 6 exhibited a phenotypic syndrome that includes reduced stature, tassel morphology changes and the presence of knots on the leaves. The knotted-like homeobox gene knox10, which is located on the short arm of chromosome 5, was shown to be ectopically expressed in developing leaves of the aneuploid plants. Expression profiling revealed that ~40% of the expressed genes in the trisomic region exhibited the expected 1.5 fold increased transcript levels while the remaining 60% of genes did not show altered expression even with increased gene dosage. CONCLUSIONS: We found that the majority of genes with altered expression levels were located within the chromosomal regions affected by the segmental aneuploidy and exhibits dosage-dependent expression changes. A small number of genes exhibit higher levels of expression change not predicted by the dosage, or display altered expression even though they are not located in the aneuploid regions.
Keywords: Genotype comparison of wild-type and segmental aneuploid
Overall design There are four biological replicates of pooled wild-type siblings and four biological replicates of pooled DpDf plants. The DpDf plants are segmental aneuploids that contain three copies of the short arm of chromosome 5. These plants are all in the B73 inbred genetic background.
Contributor(s) Makarevitch I, Phillips RL, Springer NM
Citation(s) 18186930, 20018594
Submission date Jan 23, 2008
Last update date Mar 19, 2012
Contact name Nathan M Springer
Phone 6126246241
Fax 6126251738
Organization name University of Minnesota
Department Plant Biology
Street address 1445 Gortner Ave
City Saint Paul
State/province MN
ZIP/Postal code 55108
Country USA
Platforms (1)
GPL4032 [Maize] Affymetrix Maize Genome Array
Samples (8)
GSM258531 Wild-type siblings in family segregating for T5-6b DpDf plants; Biological replicate 1
GSM258532 DpDf siblings in family segregating for T5-6b DpDf plants; Biological replicate 1
GSM258533 Wild-type siblings in family segregating for T5-6b DpDf plants; Biological replicate 2
BioProject PRJNA108425

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE10243_RAW.tar 71.6 Mb (http)(custom) TAR (of CEL, CHP)
Processed data included within Sample table
Processed data provided as supplementary file

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