Plant Physiology 155: 1851-1870 (2011)

Regulation of seed germination in the close Arabidopsis relative Lepidium sativum: A global tissue specific transcript analysis

Karl Morris, Ada Linkies, Kerstin Müller, Krystyna Oracz, Xiaofeng Wang, James R. Lynn, Gerhard Leubner-Metzger, William E. Finch-Savage

School of Life Sciences, Warwick University, Wellesbourne, Warwick CV35 9EF, UK (Ka.M., J.R.L., W.E.F.-S.)
University of Freiburg, Faculty of Biology, Institute for Biology II, Botany / Plant Physiology, Schänzlestr. 1, D-79104 Freiburg, Germany (A.L., Ke.M., K.O., G.L.-M.)
College of Life Sciences, South China Agricultural University, Guangzhou 510642, China (X.W.)
Department of Biological Sciences, Simon Fraser University, 8888 University Drive, Burnaby BC V5A 1S6, Canada (Ke.M.)

Received November 23, 2010; accepted February 7, 2011; published February 14, 2011
DOI 10.1104/pp.110.169706

CAP RAD
Tags 8h 18h 30h 96h 8h 18h 30h 96h
Dormancy related 0 5 3 2 7 3 1 6
Germination related 1 0 0 1 2 1 1 0
ABA 2 3 4 1 4 3 0 5
Auxin 2 5 5 0 8 5 3 2
Brassinosteroid 1 0 1 1 2 1 0 1
Cytokinin 2 1 0 0 2 0 1 0
Ethylene 0 0 0 0 5 1 0 0
Gibberellin 1 1 2 0 1 0 0 2
Jasmonic acid 0 3 0 2 2 0 0 2
Seed storage proteins/Late Embryogenesis Abundant 0 1 1 4 2 1 1 1
Inhibition of protein degradation 0 1 1 1 0 0 0 0
Protein degradation 5 8 8 11 14 3 3 5
Heat Shock 1 4 3 6 5 1 1 5
Cell-wallmodification 1 8 4 7 7 7 3 10
Cell cycle related 1 4 7 1 5 1 5 2
Cytoskeleton 3 2 4 4 6 3 0 5
Translation associated 2 5 2 3 5 4 3 2
DNA repair 1 0 3 1 6 2 3 3
Respiration 0 0 0 1 0 0 0 1
Electron Transport 0 0 0 0 0 0 0 1
Pentose phosphate pathway 0 0 0 0 0 0 0 0
Glycolysis and gluconeogenesis 1 1 4 1 0 0 0 5
Krebs cycle 1 0 0 0 2 0 0 0
Beta oxidation 0 0 0 0 0 0 0 0
Stress 6 16 7 8 11 8 5 13
Photosynthesis/chloroplast related 12 27 23 25 45 19 9 31
Unannotated 0 2 0 2 0 0 0 1
Unclassified 111 201 203 239 372 166 106 219
Total genes in lists 154 298 285 321 513 229 145 322
Total genes classified above 43 97 82 82 141 63 39 103
Percentage classified 27.9 32.6 28.8 25.6 27.5 27.5 26.9 32.0

Supplemental Table S5. The numbers of genes, with expression on +ABA-arrays that is unique to each tissue/time combination, classified in functional categories of the GO-based seed-specific TAGGIT workflow (Carrera et al., 2007).

Article in PDF format (2.0 MB)
Supplemental Data File (3.1 MB)
Abstract
Figure 1         Figure 2         Figure 3         Figure 4         Figure 5         Figure 6
Figure 7         Figure 8         Table 1         Table 2         Suppl. Fig. S1     Suppl. Fig. S2
Supplemental Tables:       S1       S4       S5             Suppl. Excel Table Files S2, S3, S6 
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