Transcript profiling in Vitis riparia during chilling requirement fulfillment reveals coordination of gene expression patterns with optimized bud break

Endodormant grapevine buds require a period of chilling before they break and begin to grow. Custom Vitis bud cDNA microarrays (9,216 features) were used to examine gene expression patterns in overwintering Vitis riparia buds during 2,000 h of 4°C chilling. Three-node cuttings collected concurrently...

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Bibliographic Details
Published in:Functional & integrative genomics 2009-02, Vol.9 (1), p.81-96
Main Authors: Mathiason, Kathy, He, Dong, Grimplet, Jérôme, Venkateswari, J, Galbraith, David W, Or, Etti, Fennell, Anne
Format: Article
Language:English
Subjects:
Animal Genetics and Genomics
Biochemistry
Bioinformatics
Biological and medical sciences
Biomedical and Life Sciences
Cell Biology
Cluster Analysis
Cold
Cold Temperature
cooling
Down-Regulation - genetics
Expressed Sequence Tags
Flowers & plants
Flowers - genetics
Flowers - physiology
Fundamental and applied biological sciences. Psychology
Gene expression
Gene Expression Profiling
Gene Expression Regulation, Plant
General aspects
Genes, Plant
Genomics
Grapevine bud
Life Sciences
Mathematics in biology. Statistical analysis. Models. Metrology. Data processing in biology (general aspects)
Microarray
Microbial Genetics and Genomics
Oligonucleotide Array Sequence Analysis
Original Paper
Plant Genetics and Genomics
Reproducibility of Results
Reverse Transcriptase Polymerase Chain Reaction
RNA, Messenger - genetics
RNA, Messenger - metabolism
Seasons
Temperature effects
Up-Regulation - genetics
Vitaceae
Vitis
Vitis - genetics
Vitis riparia
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Summary:Endodormant grapevine buds require a period of chilling before they break and begin to grow. Custom Vitis bud cDNA microarrays (9,216 features) were used to examine gene expression patterns in overwintering Vitis riparia buds during 2,000 h of 4°C chilling. Three-node cuttings collected concurrently with buds were monitored to determine dormancy status. Chilling requirement was fulfilled after 1,500 h of chilling; however, 2,000 h of chilling significantly increased the rate of bud break. Microarray analysis identified 1,469 significantly differentially expressed (p value < 0.05) array features when 1,000, 1,500, and 2,000 h of chilling were compared to 500 h of chilling. Functional classification revealed that the majority of genes were involved in metabolism, cell defense/stress response, and genetic information processing. The number of significantly differentially expressed genes increased with chilling hour accumulation. The expression of a group of 130 genes constantly decreased during the chilling period. Up-regulated genes were not detected until the later stages of chilling accumulation. Hierarchical clustering of non-redundant expressed sequence tags revealed inhibition of genes involved in carbohydrate and energy metabolism and activation of genes involved in signaling and cell growth. Clusters with expression patterns associated with increased chilling and bud break were identified, indicating several candidate genes that may serve as indicators of bud chilling requirement fulfillment.
ISSN:1438-793X
1438-7948
DOI:10.1007/s10142-008-0090-y