RiceXtra

List of Experimets

GEO ID variety plant age Xanthomonas strain time point Type of interaction infection method Control/mock Tissue No. of replicates No. of leaves/sample Publication
Xanthomonas                      
Affymetrix                      
GSE43050 IR24, IRBB21 35 day PXO71 24hr, 96hr IR24-Susceptible, IRBB21-Resistant Leaf clipping method N/A Leaf 3 2or 3 Narsai et al., 2013
GSE36272 Nipponbare  and IR24 14day Three wild type strains (PXO99A, T7174 [Japanese isolate MAFF311018), and PXO86] and strains PXO99AME7(ΔT3S), PXO99AME1 (ΔpthXo6 and ΔavrXa27), PXO99ME2 (ΔpthXo1), PXO99ME5 ( uncharacterized mutation in a TAL effector), and Xoc (BLS303) 24hr Suscetible and Resistant Pressure infiltration using needleless syringe water leaf 3 6 N/A
GSE36093 Japonica Y73   Xoo strain PXO341 24hr Resistant N/A mock N/A 3 Fifteen plants  wang et al., 2012
GSE33411 IR24, IRBB5, IRBB7 14day PXO86 3hr, 6hr, 12hr, 24hr IR24-Susceptible; IRBB5 & IRBB7-Resistant vaccume infiltration 0hr leaf 3 N/A N/A
GSE33204 Huahui 1 (HH1) and Minghui 63 (MH63) 75 day Xoo (Jxo1, Pxo99), Xoc (Rs105), Xcv (XV5) 48 hr Xoo (Jxo1, Pxo99) & Xoc (Rs105): Susceptible; Xcv (XV5, non-host) IR24-, IRBB21-Resistant leaf rubbing inoculation method untreated leaf 3 >20 Liu et al., 2012
GSE19844 Nipponbare 3 week Xoo African strain BAI3 and it's ΔTalc  mutant 24hr Bai3-Susceptible , Δtalc- resistant   water leaf 3 6 Yu et al., 2011
GSE19239 9804 and a transgenic containing Maize Rxo1 Booting stage Xoc-FJR5 48hr Suscetible and Resistant Pin pricking at the booting stage No treatment leaf 3 N/A Zhou et al., 2010
GSE16793 Nipponbare 14day Xoo-PXO99A and Xoc -BLS256 2hr, 4hr, 8hr, 24hr and 96 h Susceptible  Modified dip-inoculation method Mock Likely whole plant 3 4 pots Cernadas et al., 2014
GSE61833 TN1 40 day BXO1003 (LPS-, EPS-), BXO1002 (LPS+ EPS-) and BXO43 (wild type) 15hr Suscetible and Resistant Mid-vein injection water Mid vein 3 N/A Girija et al., 2017
                       
RNA Seq                      
GSE108504 Nipponbare  3 week MAI1 48hr Suscetible  Pressure infiltration using needleless syringe water leaf 3 N/A Tran et al., 2018
GSE62488 H471 and its parents (HHZ and P28) 65 days Philippine’s representative strain of Xoo, PXO349 24hr, 48hr HHZ & P28-Susceptible; H471- Resistant clip inoculation 0 day water dipped clip inoculated leaves leaf 2 N/A Zhang at al., 2015
GSE95668 IRBB61  4-5 week Xoo X11-5A carrying pKEB31 plasmids containing ORFs for avrXa7 and talΔCRR  3hr, 6hr , 24hr delCRR: Susceptible, avrXa7: resistant Pressure infiltration using needleless syringe water leaf 2 N/A Cohen et al., 2017
GSE67588 Nipponbare  2 week 10 Xoc strains 48hr N/A Pressure infiltration using needleless syringe 10mM MgCL2 leaf 3 8 Wilkins et al., 2015
GSE79011 IR24 and IRBB67 21 day PXO145 under two temperature regimes 3hr, 72hr, 120hr IR24- Susceptible; IRBB67- Resistant Pressure infiltration using needleless syringe Mock leaf 2 5 Dossa et al., 2020
Elicitors of immunity variety plant age Treatment time point Type of interaction infection method Control/mock Tissue No. of replicates No. of leaves/sample Publication
GSE8216 TN1 2 weeks Xanthomonas secreted Cellulase 12hr Induction of plant immunity Pressure infiltration using needleless syringe Buffer Leaf 3 >20 Jha et al., 2010
GSE61832 TN1 2 weeks Xanthomonas secreted Lipopolysaccharide (LPS) 12hr Induction of plant immunity Mid-vein injection Buffer Leaf 3 >10 Girija et al., 2017
GSE53940 TN1 2 weeks Xanthomonas secreted Lipase/esterase (LipA) 30min, 2hr Induction of plant immunity Pressure infiltration using needleless syringe Buffer Leaf 3 >20 Malukani et al., 2020
GSE49242 TN1 2 weeks Xanthomonas secreted Lipase/esterase (LipA) 12hr Induction of plant immunity Pressure infiltration using needleless syringe Buffer Leaf 3 >20 Ranjan et al., 2014