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Browse MaizePLEX Experiment Data

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Profiling expression changes caused by a segmental aneuploid in maize meristem tissues
Irina Makarevitch, Hamline University, Department of Biology, Saint Paul, Minnesota (imakarevitch01@hamline.edu)
Experiment design (6 hybridizations)
genotype
•DpDf(siblings) •wildtype(siblings)

This experiment has been imported by PLEXdb from NCBI GEO (GSE19212) Series_summary: Segmental aneuploidy refers to the relative excess or defi...[complete overview]

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Experiment Name: Profiling expression changes caused by a segmental aneuploid in maize meristem tissues
Accession No: ZM31
Microarray: maize18k
Visibility: public
Experiment Type:
Experiment Factor(s):
genotype
•DpDf(siblings)   •wildtype(siblings)
Quality Control: biological replicates
Treatment summary:
 genotype  # replicates
 DpDf(siblings)  3
 wildtype(siblings)  3
Total hybridizations: 6
Description: This experiment has been imported by PLEXdb from NCBI GEO (GSE19212)

Series_summary:
Segmental aneuploidy refers to the relative excess or deficiency of specific chromosome regions. This condition results in gene dosage imbalance and often causes severe phenotypic alterations in plants and animals. The mechanisms by which gene dosage imbalance effects gene expression and phenotype are not completely clear. The effects of aneuploidy on the transcriptome may depend on the types of cells analyzed and on the developmental stage. We performed global gene expression profiling to determine the effects of segmental aneuploidy on gene expression levels in two different maize tissues and a detailed analysis of expression of 30 genes affected by aneuploidy in multiple maize tissues.
Multiple genes demonstrated qualitative changes in gene expression due to aneuploidy, when the gene became ectopically expressed or erroneously transcriptionally silenced in aneuploids relative to wild type plants.
Our data strongly suggested that quantitative changes in gene expression at developmental transition points caused by variation in gene copy number progressed through tissue development and resulted in stable qualitative changes in gene expression patterns. Thus, aneuploidy in maize results in alterations of gene expression patterns that differ between tissues and developmental stages of maize seedlings.

Series_overall_design:
RNA was extracted from meristem tissues of 14 day-old maize seedlings segregating for segmental trisome of a short arm of chromosome 5. There are three biological replicates of pooled wild-type siblings and three 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.
Publication: 'Aneuploidy causes tissue-specific qualitative changes in global gene expression patterns in maize.', Makarevitch I, Harris C.
Plant Physiol 2010 Feb;152(2):927-38.
pubmed: 20018594
Created: 2011-03-03 11:36:22
Last Update: 2011-03-03 11:51:36
Released: 2011-03-07
GEO Accession GSE19212
Submitter: PLEXdb Curator
Name: Irina Makarevitch
Institution: Hamline University, Department of Biology, Saint Paul, Minnesota
Head of Laboratory: Irina Makarevitch
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