Table 1.
List of genes whose silencing enhances (category A) or delays (category B) TYLCSV infection. The criterion for selection is indicated in each case. The accession numbers (ACC) of the homologous Arabidopsis gene used in the VIGS experiments are indicated. ND: not determined.
| Identity | ACC A. thaliana | GO Biological process | GO Cellular component | GO Molecular function | Selection criteria |
|---|---|---|---|---|---|
| Category A | |||||
| Bearskin 2 (BRN2) | AT4G10350 | Multicellular organismal development, positive regulation of gene expression, positive regulation of transcription, DNA-dependent, regulation of transcription, root cap development, secondary cell wall biogenesis | ND | Sequence-specific DNA binding transcription factor activity | Phloem over-expression |
| Importin alpha isoform 4 (IMPA-4) | AT1G09270 | Host response to induction by symbiont of tumor, nodule or growth in host, protein transport, symbiont intracellular protein transport in host | Cytosol, host cell, intracellular | Protein binding, protein transporter activity | Interaction with CP |
| Lactoylglutathione lyase (GLO1) | AT1G15380 | Carbohydrate metabolic process | ND | Lactoylglutathione lyase activity | Interaction with C3 |
| Replication protein A32 (RPA32/RPA2) | AT3G02920 | Unknown | ND | Nucleic acid binding | Interaction with Rep |
| Dehydration responsive 21 (RD21) | AT1G47128 | Metabolic process, response to water deprivation | Apoplast, chloroplast, plasmodesma, vacuole | Cysteine-type endopeptidase activity, protein binding | Interaction with V2 |
| RING-type E3 ubiquitin ligase (RHF2A) | AT5G22000 | Megagametogenesis, microgametogenesis, proteolysis involved in cellular protein catabolic process, regulation of cell cycle | Plasma membrane | Zinc ion binding | Transactived by TrAP/C2 |
| Ubiquitin activating enzyme (UBA1) | AT2G30110 | Metabolic process, protein ubiquitination, response to cadmium ion, response to other organism, ubiquitin-dependent protein catabolic process | Cytosol, plasma membrane, plasmodesma | Ubiquitin activating enzyme activity, ubiquitin-protein ligase activity | Interaction with TrAP/C2 |
| Category B | |||||
| 4-coumarate:CoA ligase (AT4CL1) | AT1G51680 | Metabolic process, phenylpropanoid metabolic process, response to UV, response to fungus, response to wounding | Unknown | 4-coumarate-CoA ligase activity | Phloem over-expression |
| Allene oxide cyclase (AOC1) | AT3G25760 | Jasmonic acid biosynthetic process, metabolic process, response to desiccation | Chloroplast, chloroplast envelope, chloroplast thylakoid membrane | Allene-oxide cyclase activity | Phloem over-expression |
| Barely any meristem 1 (BAM1) | AT5G65700 | Anther development, floral organ development, gametophyte development, protein phosphorylation, regulation of meristem growth, regulation of meristem structural organization, trans-membrane receptor protein tyrosine kinase signaling pathway | Plasma membrane | Kinase activity, protein binding, protein self-association, protein serine/threonine kinase activity, receptor serine/threonine kinase binding | Interaction with C4 |
| Coatomer delta subunit (deltaCOP) | AT5G05010 | Intracellular protein transport, transport, vesicle-mediated transport | Cytosol, membrane, plasmodesma | ND | Interaction with C3 |
| COP9 signalosome subunit 3 (CSN3) | AT5G14250 | G2 phase of mitotic cell cycle, cullin deneddylation, photomorphogenesis | Cytosol, signalosome | Protein binding | Cellular process |
| Geminivirus Rep A-binding (GRAB2) | AT5G61430 | Multicellular organismal development, regulation of transcription, DNA-dependent | Unknown | sequence-specific DNA binding transcription factor | Interaction with Rep |
| Heat shock protein cognate 70 (HSC70) | AT5G02500 | Defense response to bacterium, defence response to fungus, negative regulation of seed germination, protein folding, response to cadmium ion, response to cold, response to heat, response to virus, stomatal closure | Apoplast, cell wall, chloroplast, cytoplasm, cytosol, membrane, nucleus, plasma membrane, plasmodesma | ATP binding, protease binding, protein binding | Phloem over-expression |
| Nuclear acetyltransferase (NSI) | AT1G32070 | Pathogenesis, spread of virus in host | Chloroplast, nucleus | N-acetyltransferase activity | Interaction with NSP |
| Patatin-like protein 2 (PLP2) | AT2G26560 | Cell death, cellular response to hypoxia, defence response to virus, lipid metabolic process, oxylipin biosynthetic process, plant-type hypersensitive response, response to cadmium ion | Cytoplasm, membrane | Lipase activity, nutrient reservoir activity | Phloem over-expression |
| Shaggy-related kinase kappa (SK4-1/SKK) | AT1G09840 | Protein phosphorylation | Plasma membrane | ATP binding, protein serine/threonine kinase activity | Interaction with C4 |
| SKP1-like 2 (ASK2) | AT5G08590 | Phosphorylation, protein phosphorylation, response to osmotic stress, response to salt stress | Nucleus | Kinase activity, protein binding, protein kinase activity | Transactived by TrAP/C2 |