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Table 1 List of upregulated and downregulated genes in combined stresses. Literature survey showing annotation from different studies. Data was curated manually

From: Transcriptomic responses under combined bacterial blight and drought stress in rice reveal potential genes to improve multi-stress tolerance

Annotation Functional relevance studies Reference
Upregulated in BPT5204 all stresses
Os01g0106400 Similar to Isoflavone reductase homolog IRL (EC 1.3.1.) Oxidoreductase activity; Overexpression leads to tolerance to ROS in rice Kim et al., 2009
Os01g0162500 Leucine-rich repeat-containing N-terminal, protein Stress (Cold and drought) tolerance in rice; Required for Xa-21 transcript expression and Xa-21 mediated immunity in rice against Xoo Liao et al.; 2016; 2. Caddell et al., 2017
Os01g0844300 Peptidylprolyl isomerase Aids in protein folding Shaw, 2002
Os02g0178800 Glossy1(GL1) homolog Cuticular wax biosynthesis, Drought resistance in rice Islam et al., 2009
Os02g0323000 Felis catus multi-drug resistance related (Fragment) ATPase activity, ATPase-coupled transmembrane transporter activity and ATP binding UNIPROT
Os02g0820200 Serine/threonine protein kinase Involved in abiotic stress (salt and osmotic) tolerance in Arabidiopsis Zang et al., 2016
Os03g0140400 Cytochrome P450 protein CYP96B4 Involved in growth regulation and drought stress response in rice Tamiru et al., 2015
Os04g0266900 Transketolase C-terminal-like domain containing protein Acts as a regulatory molecule binding site Pfam, InterPro
Os06g0544100 Tyrosine protein kinase domain containing protein Abiotic stress (drought, heat, salt and sumergence) tolerance Elangovan et al., 2020
Os07g0194100 OSK2 Play important role in the early stages of endosperm development in rice seeds Takano et al., 1998
Os07g0674400 Pollen Ole e 1 allergen/extensin domain containing protein Pollen germination and pollen tube growth Jimenez-Lopez et al., 2012
Os09g0472900 Blight-associated protein p12 precursor p12 is responsinle for systemic acquired resistance in citrus plants against citrus blight Uniprot
Os12g0133300 Carbohydrate transporter/ sugar porter/ transporter Involved in long distance transport of sucrose from source to sink where sugars are used or stored Doidy et al., 2012
Os12g0454800 Receptor-like serine/threonine kinase Cytokinin signaling Afzal et al., 2008
Upregulated in TN1 all stresses
Os01g0858000 WD40 repeat domain containing protein Function as molecular hubs mediating supramolecular interactions, involved in plant cell wall biosynthesis; Histone modification, transcription regulation and signal transduction Guerriera et al., 2015;
Hu et al., 2018
Os02g0536300 Leucine-rich repeat 2 domain containing protein Initiate immune response in plants by sensing PAMP Ng and Xavier., 2011
Os02g0599151 Probable protein phosphatase 2C 17 Regulate various plant signal transduction pathways (MAPK signalling and ABA signalling) Rodriguez et al., 1998; Endo et al., 2018
Os03g0188100 transparent testa 12 protein encodes a multidrug secondary transporter-like protein required for flavonoid sequestration in vacuoles of the seed coat endothelium in Arabidopsis Debeaujon et al., 2001
Os03g0305800 Galactosyl transferase family protein Biosynthesis of plant cell wall, synthesis of diverse secondary metabolites and modification of plant hormones Cao et al., 2008
Os03g0332900 Protein kinase, core domain containing protein Central components in plant responses to environmental stresses such as drought, high salinity, cold, and pathogen attack Wang et al., 2020
Os03g0448500 Calcineurin B-like protein Decoding Ca2 + signatures elicited by a variety of abiotic stresses Cho et al., 2016
Os03g0575200 Potassium transporter 1 (OsHAK1) Positively regulates drought stress responses in rice Chen et al., 2017
Os03g0785900 Similar to Glutathione-S-transferase Involved in abiotic stress response and heavy metal (Arsenic) detoxification Kumar and Trivedi (2018)
Os03g0820500 Similar to WCOR719 Involved in dynamic reorganisation of cytoskeleton during low temperature acclimatisation Danyluk et al., 1996
Os04g0127500 Serine/threonine protein kinase-related domain containing protein Involved in abiotic stress (salt and osmotic) tolerance in Arabidiopsis Zang et al., 2016
Os04g0416100 Transcription factor E2F1 (E2F-1) Expressed throughout the cell cycle, Elevates CDK levels and activity, even under hormone-free conditions TAIR (The Arabidopsis Information Resource)
Os04g0584300 Similar to Catalytic/ protein phosphatase type 2C Regulate various plant signal transduction pathways (MAPK signalling and ABA signalling) Rodriguez et al., 1998; Endo et al., 2018
Os05g0576800 Blast and wounding induced mitogen-activated protein kinase Activate MAPK pathway Cheong et al., 2003
Os06g0191900 Serine threonine kinase Act as receptors for external factors like environmental conditions and mediate cellular responses Afzal et al., 2008
Os06g0229000 FtsH protease (VAR2) (Zinc dependent protease) Involved with abiotic (light) stress response in Arabidopsis Lopes et al., 2018
Os06g0275000 Zinc finger protein, Heading date Involved in abiotic stress tolerance Jin et al., 2018
Os06g0681200 Cupredoxin domain containing protein Involved in abiotic stress responses Jangam et al., 2016
Os06g0702100 Methyl-CpG DNA binding domain containing protein Involved in DNA methylation and abiotic stress responses Parida et al., 2018
Os07g0175600 Plant lipid transfer protein and hydrophobic protein, Act as defense proteins in plant innate immunity, bind and transfer lipids and constitute one of the most clinically important classes of plant allergens Finkina et al., 2016
Os07g0521500 NB-ARC domain containing protein Regulate the activity of R protein Ooijen et al., 2008
Os07g0614300 Von Willebrand factor type A domain containing protein, Component of C-terminus of Lagging Growth and Development 1 (LGD1) and is responsible for the nuclear targeting and RNA binding activity Thangasamy et al., 2012
Os10g0471000 Protein of unknown function DUF810 Involved in tolerance to drought and salt stress Li et al., 2018
Os10g0521000 TRE1 protein (Fragment) Required for glycogen metabolism Zhang et al., 2021
Os10g0529700 glutathione transferase35 Involved in abiotic stress response and heavy metal (Arsenic) detoxification Kumar and Trivedi, 2018
Os11g0201400 Histone deacetylase Negatively regulates plant innate immunity by modulating histone H4 acetylation of defense-related genes in rice Ding et al., 2012
Os11g0693800 ATP-citrate synthase Negatively regulates plant innate immunity in rice Ruan et al., 2018
Os12g0512100 Sugar/inositol transporter domain containing protein Involved in transport of sugar from source to sink Kong et al., 2019
Downregulated in BPT in all stresses
Os02g0226200 HAD-superfamily subfamily IB hydrolase, hypothetical 1 protein Involved in intracellular or extracellular organic phosphorous recycling under inorganic phosphorous stress conditions in plants Du et al., 2021
Os02g0249300 Zinc finger, RING/FYVE/PHD-type domain containing protein Involved in abiotic stress (salt and osmotic) tolerance in Arabidiopsis Zang et al., 2016
Os03g0181750 ABC transporter, transmembrane domain domain containing protein Required for normal plant development, detoxification and pathogen defense via the transport of xenobiotics and secondary metabolites across the plants Hwang et al., 2016
Os04g0364800 Barwin-related endoglucanase domain containing protein Aids in polysaccharide binding and Bawin is a putative plant defense protein; 2. All PR-4 proteins have Barwin domain Todd et al., 2002; Franco et al., 2019
Os04g0385600 Tetratricopeptide-like helical domain containing protein involved in plant stress (osmotic stress) and hormone signalling (abscisic acid) Schapire et al., 2006; Sharma and Pandey, 2016
Os04g0618700 Protein kinase, core domain containing protein Central components in plant responses to environmental stresses such as drought, high salinity, cold, and pathogen attack Wang et al., 2020
Os04g0686000 Zinc finger, RING/FYVE/PHD-type domain containing protein Involved in abiotic stress (salt and osmotic) tolerance in Arabidiopsis Zang et al., 2016
Os05g0170600 CLE family OsCLE503 protein Regulate cell proliferation and differentiation in plant shoots, roots, vasculature, and other tissues Li et al., 2019
Os07g0162700 Alpha/beta hydrolase fold-3 domain containing protein Associated with housekeeping roles that participate in the breakdown and recycling of cellular metabolites, processing of external nutrients and detoxification of xenobiotics Gershater and Edwards, 2007
Os08g0113000 Peroxidase 47 precursor (EC 1.11.1.7) (Atperox P47) (ATP32) Removal of H2O2, oxidation of toxic reductants, biosynthesis and degradation of lignin, suberization, auxin catabolism, response to environmental stresses such as wounding, pathogen attack and oxidative stress UniProt (Reviewed)
Os10g0376400 Phosphate-induced protein 1 conserved region containing protein Respond to abiotic stress (drought, cold, heat and salt) Quan et al., 2018
Os10g0409400 beta subunit of polygalacturonase 1, Abiotic stress response, Cell wall formation and abiotic stress response Liu et al., 2013
Os10g0508700 Pectinesterase inhibitor domain containing protein Control the activity of Pectin Methyl Esterase Marzin et al., 2016
Os11g0300700 Protein kinase domain Central components in plant responses to environmental stresses such as drought, high salinity, cold, and pathogen attack Wang et al., 2020
Downregulated in TN1 in all stresses
Os01g0311600 Sulfotransferase family protein Respond to abiotic stress in rice; Asociated with drought, salt and ABA stress in chinese cabbaga Chen et al., 2012; Jin et al., 2019
Os01g0823100 Alpha-expansin OsEXPA2 Involved in stem elongation; important for seed germination Marowa et al., 2016; Huang et al., 2000
Os01g0871600 Peptide transporter PTR2-B Various role in rice development mainly in grain filling and germination stages, Also upregulated upon drought and salt stresses Ouyang et al., 2010
Os01g0953400 NB-ARC domain containing protein Regulate the activity of R protein Ooijen et al., 2008
Os02g0538400 Armadillo-like helical domain containing protein Role in plant development and abiotic stress signalling Sharma et al., 2014
Os02g0616300 Similar to Protein argonaute MEL1 Development of pre-meiotic germ cells and the progression of meiosis Komiya et al., 2014; UniProt
Os03g0250200 TB2/DP1 and HVA22 related protein family protein Inhibits gibberllin mediated PCD, involved in vesicular trafficking Guo and Ho, 2008
Os04g0541100 Similar to Gt-2 Probable glycosyl transferase, required for cell wall synthesis Cao et al., 2008
Os05g0469800 Pyruvate decarboxylase Enzyme involved in alcohol fermentation, Also when overproduced enhance submergence tolerance in rice Quimio et al., 2000
Os05g0477600 Alpha-expansin OsEXPA4 Internode elongation, Cell wall organisation in plants Choi et al., 2003;
Os05g0488000 Peptidase C1A, papain family protein Role in seed development and stress tolerance Wang et al., 2018
Os05g0552400 Zinc finger, RING/FYVE/PHD-type domain containing protein Involved in abiotic stress (salt and osmotic) tolerance in Arabidiopsis Zang et al., 2016
Os06g0142300 Early nodulin 93 ENOD93 protein family protein Candidate gene for brown plant hopper resistance in herbicide resistant rice; Required for somatic embryogenesis in oil palm Wang et al., 2015; Chan et al., 2020
Os06g0179000 Glycoside hydrolase family 79, N-terminal protein Response to biotic and abiotic stresses, defense against herbivores, activation of phytohormones, lignification, and cell wall remodelling Opassiri et al., 2006
Os06g0549900 FAD linked oxidase, N-terminal domain containing protein Required for the import and folding of small cysteine-containing proteins in the mitochondrial intermembrane space UniProt
Os06g0610800 Peptidase A1 domain containing protein. Aspartic proteinase nepenthesin-1 Aspartic-type endopeptidase activity. Involved in biotic and abiotic stress responses 1.UniProt (reviewed); 2. Figueirido et al., 2021
Os07g0648000 Armadillo-like helical domain containing protein Role in plant development and abiotic stress signalling Sharma et al., 2014
Os08g0442400 BABY BOOM Key regulators of plant cell totipotency. Induce somatic embryogenesis Jha and Kumar, 2018; Khanday et al., 2020
Os08g0473900 1,4-alpha-D-glucan glucanohydrolase Important for breakdown of endosperm starch during germination UniProt; Guttikonda et al., 2020
Os08g0507100 Cytochrome P450 family protein Function in development regulation and drought stress response Wei and Chen, 2018
Os09g0241700 Homeodomain-like containing protein Negative regulators in abiotic stress responses; Play role in reproductive development and abiotic stress signaling in rice Bhattacharjee et al., 2016; Jain et al., 2008
Os09g0451400 ACC oxidase Ethylene biosynthesis Lee and Yoon, 2018
Os10g0109900 Major facilitator superfamily, general substrate transporter domain containing protein Transport small compounds across biological membranes. Cadmium transporters in rice Drew et al., 2021, Nino-Gonzalez et al., 2019; Yan et al., 2019
Os10g0556100 beta-expansin EXPB4 Internode elongation in rice Lee et al., 2001
Os11g0212900 Serine/threonine protein kinase-related domain containing protein Involved in abiotic stress (salt and osmotic) tolerance in Arabidiopsis Zang et al., 2016
Os11g0508600 Sugar transporter TAL effector-mediated susceptibility to bacterial pathogen (Xanthomonas) Teper and Wang, 2021
Os11g0598300 NB-ARC domain containing protein Regulate the activity of R protein Ooijen et al., 2008
Os11g0672300 Protein kinase domain containing protein central components in plant responses to environmental stresses such as drought, high salinity, cold, and pathogen attack Wang et al., 2020
Os11g0675200 NB-ARC domain containing protein Regulate the activity of R protein Ooijen et al., 2008
Os11g0676200 NBS-LRR-like protein NBA2 (Fragment) Component of R protein, Induce effector triggered immunity DeYoung and Innes, 2006; Sagi et al., 2017
Os12g0569800 Heat shock protein 70 Involved in macromolecular translocation, carbohydrate metabolism, innate immunity, photosystem II repair and regulation of kinase activities Wang et al., 2014
Os12g0637400 Purple acid phosphatase (EC 3.1.3.2) Inorganic Phosphorous remobilization from senescing to non-senescing leaves and organic Phosphorous utilization Gao et al., 2017