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Status |
Public on Oct 09, 2014 |
Title |
Expression data from Arabidopsis rosette leaves |
Organism |
Arabidopsis thaliana |
Experiment type |
Expression profiling by array
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Summary |
The focus of this study was to identify changes in host gene expression induced by the transcription-dependent function of the viral AC2 protein, and induced by the interaction of AC2/C2 with SnRK1.2 (AtAKIN11). We used microarrays to identify changes in host gene expression induced by the transcription-dependent function of the geminivirus-encoded AC2 protein, and induced by the interaction of AC2 with a host serine-threonine kinase, SnRK1. Distinct classes of genes were up- and down regulated during this process. For experiment 1, Arabidopsis rosette leaves were infused with Agrobacterium capable of expressing full-length Cabbage leaf curl virus (CaLCuV) AC2 protein, a truncated version of AC2 lacking the C-terminal 29 amino acids (AC2del), or an empty vector control (530). In experiment 2, Arabidopsis rosette leaves were infused with Agrobacterium capable of expressing full-length Spinach curly top virus C2 protein, a truncated version of C2 lacking the C-terminal 29 amino acids (C2del), antisense (as) SnRK1.2 (AsAKIN11), or an empty vector control (530).
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Overall design |
Infused Arabidopsis rosette leaves were selected at 1, 2 or 3 days post-infusion for RNA extraction and hybridization on Affymetrix microarrays. We sought to obtain homogeneous populations of plants at each time point in order to increase the temporal resolution of expression profiles. To that end, we isolated total RNA from four individual plants, for three independent sets of plants infused with the different constructs. This resulted in three independent samples per treatment per time point.
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Contributor(s) |
Sunter G, Ruan J |
Citation(s) |
25403083 |
Submission date |
Oct 08, 2014 |
Last update date |
Jun 12, 2017 |
Contact name |
Garry Sunter |
E-mail(s) |
garry.sunter@utsa.edu
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Organization name |
The University of Texas at San Antonio
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Department |
Biology
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Street address |
One UTSA Circle
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City |
San Antonio |
State/province |
TX |
ZIP/Postal code |
78249 |
Country |
USA |
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Platforms (1) |
GPL198 |
[ATH1-121501] Affymetrix Arabidopsis ATH1 Genome Array |
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Samples (45)
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GSM1521085 |
AC2 and AC2del control at T1, biological rep1 |
GSM1521086 |
AC2 and AC2del control at T1, biological rep2 |
GSM1521087 |
AC2 and AC2del control at T1, biological rep3 |
GSM1521088 |
Truncated AC2 at T1, biological rep1 |
GSM1521089 |
Truncated AC2 at T1, biological rep2 |
GSM1521090 |
Truncated AC2 at T1, biological rep3 |
GSM1521091 |
Full AC2 at T1, biological rep1 |
GSM1521092 |
Full AC2 at T1, biological rep2 |
GSM1521093 |
Full AC2 at T1, biological rep3 |
GSM1521094 |
AC2 and AC2del control at T2, biological rep1 |
GSM1521095 |
AC2 and AC2del control at T2, biological rep2 |
GSM1521096 |
AC2 and AC2del control at T2, biological rep3 |
GSM1521097 |
Truncated AC2 at T2, biological rep1 |
GSM1521098 |
Truncated AC2 at T2, biological rep2 |
GSM1521099 |
Truncated AC2 at T2, biological rep3 |
GSM1521100 |
Full AC2 at T2, biological rep1 |
GSM1521101 |
Full AC2 at T2, biological rep2 |
GSM1521102 |
Full AC2 at T2, biological rep3 |
GSM1521103 |
C2, C2del and (As)AKiin11 control at T1, biological rep1 |
GSM1521104 |
C2, C2del and (As)AKiin11 control at T1, biological rep2 |
GSM1521105 |
C2, C2del and (As)AKiin11 control at T1, biological rep3 |
GSM1521106 |
AsAKiin11 at T1, biological rep1 |
GSM1521107 |
AsAKiin11 at T1, biological rep2 |
GSM1521108 |
AsAKiin11 at T1, biological rep3 |
GSM1521109 |
Full C2 at T1, biological rep1 |
GSM1521110 |
Full C2 at T1, biological rep2 |
GSM1521111 |
Full C2 at T1, biological rep3 |
GSM1521112 |
C2, C2del and (As)AKiin11 control at T2, biological rep1 |
GSM1521113 |
C2, C2del and (As)AKiin11 control at T2, biological rep2 |
GSM1521114 |
C2, C2del and (As)AKiin11 control at T2, biological rep3 |
GSM1521115 |
AsAKiin11 at T2, biological rep1 |
GSM1521116 |
AsAKiin11 at T2, biological rep2 |
GSM1521117 |
AsAKiin11 at T2, biological rep3 |
GSM1521118 |
Full C2 at T2, biological rep1 |
GSM1521119 |
Full C2 at T2, biological rep2 |
GSM1521120 |
Full C2 at T2, biological rep3 |
GSM1521121 |
C2, C2del and (As)AKiin11 control at T3, biological rep1 |
GSM1521122 |
C2, C2del and (As)AKiin11 control at T3, biological rep2 |
GSM1521123 |
C2, C2del and (As)AKiin11 control at T3, biological rep3 |
GSM1521124 |
AsAKiin11 at T3, biological rep1 |
GSM1521125 |
AsAKiin11 at T3, biological rep2 |
GSM1521126 |
AsAKiin11 at T3, biological rep3 |
GSM1521127 |
Full C2 at T3, biological rep1 |
GSM1521128 |
Full C2 at T3, biological rep2 |
GSM1521129 |
Full C2 at T3, biological rep3 |
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Relations |
BioProject |
PRJNA263380 |
Supplementary file |
Size |
Download |
File type/resource |
GSE62180_RAW.tar |
128.8 Mb |
(http)(custom) |
TAR (of CEL) |
Processed data included within Sample table |
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