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Signatures of evolution and systems organization from an Arabidopsis interactome network map
Published on Oct 23, 20122979 Views
Elucidating mechanisms of life requires analysis of whole systems and understanding the complex interplay of the individual components. Proteins control and mediate the majority of biological act
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Chapter list
Evolution, systems organization and pathogen attack of a plant interactome network00:00
Genetic control - 100:46
Genetic control - 201:17
Metabolic pathways01:40
Metabolic networks01:46
… description of pathways01:56
Understanding (and manipulating) phenotypes02:15
Experimental approaches to interaction mapping02:48
Protein interaction datasets for S. cerevisiae03:43
Computational analysis05:18
Measuring specificity of datasets07:47
Stringency affects retest and false detection rate08:11
Measuring specificity of datasets09:19
Interaction reference sets09:41
Retest by Y2H and PCA10:16
Topological comparison of datasets12:08
Binary network hubs tend to be pleiotropic14:06
Different types of hubs14:52
Network hubs15:51
Expression correlation16:50
Interactome vs. phosphorylome17:12
HT Y2H and AP-MS17:37
Plants and humans18:18
Limited network information for plants18:55
Arabidopsis ORFeome and search space – 10% completeness - 119:12
High quality yeast-2-hybrid (Y2H)19:34
Arabidopsis ORFeome and search space – 10% completeness - 220:42
Arabidopsis ORFeome and search space – 10% completeness - 320:48
High quality of AI-121:26
Agamous-like transcription factors21:52
Scratching the surface of the Arabidopsis Interactome22:51
Comparison of AI-1 to literature curated interactions (LCI)24:17
Construction and validation of Arabidopsis Interactome 1 (AI-1) Nodes25:38
Co-repressors targeted by hormone induced ubiquitination25:44
Complexity in hormone co-repressor protein interactions – JAZ TPL interactions - 125:48
Complexity in hormone co-repressor protein interactions – JAZ TPL interactions - 225:50
AI-1 reveals hormone transcriptional regulator interconnectivity26:25
Ab initio network analysis - 126:26
Ab initio network analysis - 226:42
Community detection by link analysis26:50
Typical randomized network28:29
Communities in AI-128:38
Connected communities in AI-129:13
Duplication divergence model30:01
AI-1 contains 1,882 pairs of paralogous proteins30:42
Interaction profile similarity of paralogues decreases over evolutionary time31:05
Interaction profile correlates with functional divergence31:49
Rapid then slow divergence33:00
Arabidopsis thaliana interactome network papers34:25
Plant pathogens35:24
Molecular basis of disease resistance in Arabidopsis - 136:10
Molecular basis of disease resistance in Arabidopsis - 236:28
Molecular basis of disease resistance in Arabidopsis - 336:45
Experimental immune network - 137:00
Experimental immune network - 237:03
Evolutionary distant pathogens converge on common targets - 137:06
Evolutionary distant pathogens converge on common targets - 237:31
Evolutionary distant pathogens attack network hubs38:30
Some hubs are targeted significantly39:42
Evolutionary distant pathogens attack network hubs39:45
Genetic validation of common effector targets - 140:00
Genetic validation of common effector targets - 240:12
17/18 common effector targets have an immune system phenotype40:29
Challenge ‘convergent-attack’ model40:48
Acknowledgements41:28