Summary
The Arabidopsis gene RESISTANCE TO POWDERY MILDEW8.1 ( RPW8.1) confers resistance to virulent fungal and oomycete pathogens that cause powdery mildew and downy mildew, respectively. However, the underlying mechanism remains unclear. Here, we show that ectopic expression of RPW8.1 boosts pattern‐triggered immunity (PTI) resulting in enhanced resistance against different pathogens in both Arabidopsis and rice. In Arabidopsis, transcriptome analysis revealed that ectopic expression of RPW8.1‐YFP constitutively up‐regulates expression of many pathogen‐associated molecular pattern (PAMP‐)‐inducible genes. Consistently, upon PAMP application, the transgenic line expressing RPW8.1‐YFP exhibited more pronounced PTI responses such as callose deposition, production of reactive oxygen species, expression of defence‐related genes and hypersensitive response‐like cell death. Accordingly, the growth of a virulent bacterial pathogen was significantly inhibited in the transgenic lines expressing RPW8.1‐YFP . Conversely, impairment of the PTI signalling pathway from PAMP cognition to the immediate downstream relay of phosphorylation abolished or significantly compromised RPW8.1‐boosted PTI responses. In rice, heterologous expression of RPW8.1‐YFP also led to enhanced resistance to the blast fungus Pyricularia oryzae (syn. Magnaporthe oryzae) and the bacterial pathogen Xanthomonas oryzae pv. oryzae (Xoo). Taken together, our data suggest a surprising mechanistic connection between RPW8.1 function and PTI, and demonstrate the potential of RPW8.1 as a transgene for engineering disease resistance across wide taxonomic lineages of plants.
Keywords: RPW8, disease resistance, Pseudomonas syringae, Pyricularia oryzae, Xanthomonas oryzae, pattern‐triggered immunity
Introduction
Plants are equipped with various cell surface‐localized pattern‐recognition receptors (PRRs) to detect pathogen‐associated molecular patterns (PAMPs) and activate defence responses termed PAMP‐triggered immunity (PTI) (Jones and Dangl, 2006). Typical defence responses in PTI include the activation of mitogen‐activated protein kinases (MAPKs), burst of reactive oxygen species (ROS), callose deposition and expression of immune‐related genes (Boller and Felix, 2009). Flg22 and chitin are two PAMPs frequently used in PTI‐related studies. Flg22 is a conserved 22‐amino acid peptide derived from bacterial flagella, and perceived by Flagellin Sensing2 (FLS2) in Arabidopsis and OsFLS2 in rice (Felix et al., 1999; Gomez‐Gomez and Boller, 2000; Takai et al., 2008). Chitin is a fungal cell wall‐derived PAMP perceived by the receptor‐like kinase chitin elicitor receptor kinase1 (CERK1) in Arabidopsis and OsCERK1 together with chitin oligosaccharide elicitor‐binding protein (OsCEBiP) in rice (Kaku et al., 2006; Miya et al., 2007). To date, several key components in PTI signalling have been identified. These include BRI1‐ASSOCIATED RECEPTOR KINASE1 (BAK1), a coreceptor that interacts with FLS2 to recognize flagella to initiate PTI (Chinchilla et al., 2007; Heese et al., 2007), and BOTRYTIS‐INDUCED KINASE1 (BIK1), a member of the AvrPphB susceptible1 (PBS1)‐like (PBL) protein family that relays the signal from FLS2 and BAK1 through phosphorylation (Lu et al., 2010; Zhang et al., 2010). Perception of flg22 by FLS2/BAK1 in Arabidopsis leads to activation of BIK1 and several other PBL family members including PBL1, PBL2 and PBS1, which in turn triggers ROS burst and other defence responses (Kadota et al., 2014; Li et al., 2014a).
Adapted pathogens subvert PTI by effector repertoires that target components of PTI signalling, thereby establishing the so‐called effector‐triggered susceptibility (ETS) (Jones and Dangl, 2006). For example, the well‐studied Pseudomonas syringae effector AvrPto targets the PRRs FLS2 and EFR to block PTI in Arabidopsis (Xiang et al., 2008). Another effector, HopAi1, targets the PTI signalling components MPK3 and MPK6 to compromise defence responses (Zhang et al., 2007). In turn, plants exploit resistance (R) proteins to recognize effectors to activate a stronger defence programme, called effector‐triggered immunity (ETI), to mount effective resistance. ETI is usually culminated in the hypersensitive response (HR), a rapid programmed cell death confined to the site of infection (Jones and Dangl, 2006). In some cases, however, defence responses in PTI and ETI may be indistinguishable (Thomma et al., 2011). Most of the identified R proteins are structurally conserved with a nucleotide‐binding site (NBS) and leucine‐rich repeats (LRR), and act as intracellular immune receptors to directly or indirectly recognize their cognate effectors (Bonardi et al., 2012). Some other genetically defined R proteins are cell surface‐localized receptor‐like transmembrane proteins (RLPs) or receptor‐like kinases (RLKs) (Dangl and Jones, 2001).
Some PRR and R genes have been demonstrated to function as transgenes across wide taxonomic lineages of plants, including from a dicot to a monocot, from a monocot to a dicot and between two different dicots. The Arabidopsis PRR gene EFR conferred enhanced resistance to different bacterial pathogens when expressed in Nicotiana benthamiana or tomato (Lacombe et al., 2010). Transgenic rice expressing EFR also showed broad‐spectrum resistance to bacterial pathogens (Schwessinger et al., 2015). Ectopic expression of the wheat resistance gene Lr34 conferred blast resistance in rice and leaf blight resistance in maize (Krattinger et al., 2016; Sucher et al., 2017). The barley powdery mildew resistance genes MLA1 and MLA13 retained their ability to recognize their cognate effectors from barley powdery mildew in transgenic Arabidopsis plants (Maekawa et al., 2012). However, it remains an open question whether R genes from a dicot can activate resistance in a monocot.
RPW8.1 and RPW8.2 (hereafter referred to as RPW8 unless otherwise indicated) are two homologous genes that confer broad‐spectrum resistance to powdery mildew pathogens in Arabidopsis ecotype Ms‐0 (Xiao et al., 2001). While these two genes are tandemly located in the RPW8 locus in Ms‐0, they are absent from the powdery mildew‐susceptible ecotype Col‐0 (Xiao et al., 2004). Thus, Col‐0 is ideal for functional analysis of RPW8.1 and RPW8.2 through transgenics. In previous studies, we constructed Arabidopsis transgenic lines expressing RPW8.1‐yellow fluorescent protein (YFP) and RPW8.2‐YFP from their native promoters in Col‐gl (Col‐0 containing the glabrous mutation) (Wang et al., 2007, 2009). Using these transgenic lines, we found that RPW8.2‐YFP is induced in leaf epidermal cells invaded by the haustorium, the feeding organ of powdery mildew, and specifically targeted to the extrahaustorial membrane (EHM) where it activates resistance to powdery mildew (Wang et al., 2009). By contrast, ectopic expression of RPW8.1‐YFP from the RPW8.1 promoter in Col‐gl results in enhanced resistance to both powdery mildew and oomycete pathogens (Ma et al., 2014). This interesting observation has thus prompted us to investigate the mechanism underlying RPW8.1‐YFP‐mediated resistance.
In this study, we examined the responses of the transgenic Arabidopsis lines expressing RPW8.1‐YFP or RPW8.2‐YFP to different PAMPs and bacterial strains, and the infection phenotypes of the RPW8.1‐YFP transgenic rice lines to fungal and bacterial pathogens. Collectively, our data demonstrate that ectopic expression of RPW8.1 leads to enhanced PTI signalling, explaining the broad‐spectrum resistance mediated by RPW8.1, and suggest that RPW8.1 could be exploited for engineering resistance in crops such as rice.
Results
RPW8.1, but not RPW8.2, enhances resistance to bacterial pathogens in Arabidopsis
Previously, we found that ectopic expression of RPW8.1 leads to enhanced resistance to both powdery mildew and downy mildew, while ectopic expression of RPW8.2 enhances resistance to only powdery mildew (Ma et al., 2014; Wang et al., 2007, 2009). These observations prompted us to examine the response of RPW8.1 and RPW8.2 transgenic lines to different strains of P. syringae. Our data showed that the multiplications of both the virulent strain P. syringae DC3000 and the nonpathogenic mutant strain P. syringae DC3000(hrcC ‐ ) in all three RPW8.1 transgenic lines (i.e. R1Y2, R1Y4 and R1Y5) were significantly lower than that in wild‐type (WT) Col‐gl plants, while there was no significant difference between the RPW8.2 transgenic line R2Y4 and WT plants (Figure 1a,b). However, there were only marginal differences between RPW8.1, RPW8.2 transgenic lines and WT in multiplication of both the avirulent strains P. syringae DC3000(avrRpm1) and P. syringae DC3000(avrRpt2) (Figure 1c,d). These observations suggest that RPW8.1, but not RPW8.2, might enhance PTI to improve resistance against the virulent bacterial strain and further restrict the growth of the nonpathogenic strain, whereas neither RPW8.1 nor RPW8.2 has impact on ETI in Arabidopsis.
Figure 1.
Ectopic expression of RPW8.1‐YFP enhances resistance to bacterial pathogens in Arabidopsis. (a‐d) Bacterial growth assay for the indicated strains in the indicated transgenic lines in comparison with the wild‐type (WT) Col‐gl. Error bars indicate standard deviation (SD, n = 6). Different letters above the bars indicate significant differences (P < 0.01) as determined by a one‐way ANOVA followed by post hoc Tukey HSD analysis. Similar results were obtained in three independent experiments.
Ectopic expression of RPW8.1 constitutively up‐regulates the expression of many PAMP‐inducible genes
To investigate whether RPW8.1's action is connected with PTI signalling, we first examined the expression of RPW8 after treatment of flg22 or chitin in the Arabidopsis accessions Shahdara and Wa that contain the wild‐type RPW8 alleles, and the accession Ws that contains nonfunctional alleles of both RPW8 and the flg22 receptor FLS2 (Gomez‐Gomez et al., 1999; Orgil et al., 2007). Results from quantitative RT‐PCR (qRT‐PCR) showed that RPW8.1 was induced in all the three accessions upon application of flg22 or chitin with the exception that RPW8.1 was not induced by flg22 in Ws (Figure S1a). Interestingly, the expression of RPW8.2 also showed PAMP‐induced patterns similar to that of RPW8.1 (Figure S1b). Consistently, both RPW8.1‐YFP and RPW8.2‐YFP were induced in the respective transgenic lines upon flg22 or chitin treatment (Figure S1c–f). These results suggest that both RPW8.1 and RPW8.2 are positively regulated by PTI at the transcription level.
Next, we examined whether there are a common set of genes regulated by PAMPs and ectopic expression of RPW8.1 through RNA‐seq analysis. Compared to untreated WT plants, more than 2000 genes were up‐regulated in WT plants treated by flg22 or chitin, whereas 598 genes displayed constitutive up‐regulation in untreated R1Y4 in comparison with untreated WT (Figure 2a). Among the up‐regulated genes in R1Y4, 384 (64.2%) genes were also up‐regulated by flg22, 351 (58.7%) genes were up‐regulated by chitin, and 309 (51.7%) genes were consensually induced by flg22 and chitin in WT (Figure 2a, Table S1). Gene Ontology (GO) assay revealed that these 309 genes were responsive to pathogens or involved in defence‐related hormone signalling (Table S2). To validate the RNA‐seq data, five genes were selected (highlighted green in Table S1) for expression analysis using qRT‐PCR. Consistent with the RNA‐seq data, all of the five genes were constitutively up‐regulated in R1Y4 (Figure 2b, c at 0 HPI). Moreover, these five genes were also up‐regulated in WT and further up‐regulated in R1Y4 by flg22 or chitin (Figure 2b,c). These data demonstrate that expression of RPW8.1 leads to enhanced transcription of many PAMP‐inducible genes.
Figure 2.
Ectopic expression of RPW8.1‐YFP constitutively up‐regulates the expression of PAMP‐inducible genes in Arabidopsis. (a) Comparison of gene numbers between PAMP‐inducible genes in wild‐type (WT) Col‐gl and constitutively up‐regulated genes in R1Y4. (b, c) Quantitative RT‐PCR data show that relative mRNA levels of the indicated genes upon application of flg22 (b) and chitin (c) at the indicated time points. Error bars indicate SD (n = 3). Student's t‐test was carried out to determine the significance of difference between WT and R1Y4 at 0 h postinfiltration (HPI). Asterisks (**) indicated significant difference at P ≤ 0.01. Similar results were obtained in two independent experiments.
To further determine whether expression of RPW8.1 can enhance PTI signalling, we examined the expression of PRR genes and other components in PTI signalling by qRT‐PCR upon PAMP application. Intriguingly, the relative mRNA levels of all of the tested PRRs and the PBLs, including FLS2, CERK1, BAK1, BIK1, PBL1 and PBL2, were induced to higher levels in R1Y4 than in WT by flg22 or chitin (Figure S2a,b). Thus, expression of RPW8.1 can indeed amplify PTI signalling by enhancing the expression of PRRs and PBLs upon PAMP perception by certain PRRs.
Ectopic expression of RPW8.1 heightens PAMP‐triggered defence responses in Arabidopsis
To further test whether ectopic expression of RPW8 boosts PTI, we examined some typical PTI responses. Compared to WT, R1Y4 displayed higher phosphorylated levels of MPK3 and MPK6 at 5 minutes after flg22 treatment, while R2Y4 displayed similar levels at 5 minutes but obviously lower levels at 10 minutes (Figure 3a). Similarly, R1Y4 showed faster and higher levels of ROS production compared to WT upon flg22 or chitin application (Figure 3b,c). R2Y4 also displayed slightly higher levels of ROS accumulation after flg22 treatment but similar levels after chitin application (Figure 3b,c). In addition, R1Y4 displayed significantly more callose deposition than WT, while R2Y4 showed levels slightly lower than WT after treatment with flg22 and chitin (Figure 3d). Consistently, the expression of FRK1 and WRKY29 were induced earlier and elevated to significantly higher levels in R1Y4 than that in WT (Figure 3e). Intriguingly, R2Y4 also displayed higher transcription levels of these two genes (Figure 3e), although R2Y4 did not exhibit enhanced resistance to the bacterial strains (Figure 1).
Figure 3.
Ectopic expression of RPW8.1‐YFP results in enhanced PAMP‐induced defence responses. (a) Western blot analysis shows MAPK activation in wild‐type (WT) Col‐gl, R1Y4 and R2Y4 by flg22 at the indicated time points. Phosphorylated MAPKs were detected by anti‐pERK sera. Ponceau S‐stained rubisco was used as loading control. (b, c) Comparison of PAMP‐induced burst of reactive oxygen species (ROS) in WT, R1Y4 and R2Y4. Error bars indicate SD (n = 4). (d) Comparison of PAMP‐induced callose deposition in WT, R1Y4 and R2Y4. (e) Quantitative RT‐PCR data show the expression pattern of the indicated PTI marker genes in WT, R1Y4 and R2Y4 upon application of flg22 or chitin. Relative mRNA level was normalized to that in WT at 0 hr. Error bars indicate SD (n = 3). Different letters above the bars indicate significant differences at P < 0.01. All the experiments were repeated two times with similar results.
In addition, we detected H2O2 production, HR‐like cell death and the expression of Pathogenesis‐related (PR) genes in R1Y4 plants induced by flg22 or chitin. Upon PAMP application, H2O2 accumulation and clusters of dead cells were often observed in R1Y4, but they were rarely seen in R2Y4 and WT (Figure 4a). Detailed microscopic examinations demonstrated that HR‐like cell death was elicited upon PAMP application in R1Y4 (Figure 4b–e). PAMP‐induced H2O2 accumulation was first detectable in the chloroplasts of one or several individual cells (Figure 4b). Then, such H2O2‐accumulating cells were shrunken in the apoplast among the neighbouring cells, but the chloroplasts were still visible (Figure 4c). Later on, the chloroplasts disappeared and the cells disintegrated in the apoplastic space among neighbouring cells, which might further trigger death of neighbouring cells as indicated by the bubbling of their cytoplasm (Figure 4d). Eventually, clusters of dead cells were observed (Figure 4e). On the contrary, PAMP‐induced cell death and H2O2 accumulation were not observed in WT, but occasionally seen in mesophyll cells of R2Y4 (Figure 4f); however, cell shrinkage or bubbling of the cytoplasm was not observed in either WT or R2Y4 (Figure 4a,f). The relative mRNA levels of PR1 and PR2 in R1Y4 were induced to significantly higher levels than those in WT (Figure 4g,h). Intriguingly, similar to the expression of FRK1 and WRKY29, the expression of PR1 and PR2 was also significantly induced by flg22 or chitin to higher levels in R2Y4 than in WT at 6 h and/or 12 h postinfiltration (HPI), albeit they were not as high as those in R1Y4 (Figure 4g,h).
Figure 4.
Ectopic expression of RPW8.1‐YFP results in PAMP‐induced ETI‐like responses. (a) DAB ‐(3,3’‐diaminobenzidine‐) and trypan blue‐stained leaves from the indicated lines show H2O2 production and dead cells, respectively. (b‐e) Micrographs show flg22/chitin‐induced ETI‐like responses in R1Y4. Note that during early period of PAMP treatment, H2O2 was enriched in cells, especially in chloroplasts, and the cells were intact (b). Then, the H2O2‐accumulated cells were shrunken in the apoplastic space along the neighbouring cells, but the chloroplasts (arrows) were still visible (c). Finally, bubbles (arrows) from the shrinking cytoplasm (arrowheads) were formed in some neighbouring cells of the shrunken cells (*) (d), and eventually formed clusters of dead cells as demonstrated by trypan blue staining (e). Size bar, 10 μm. (f) Micrographs show flg22‐/chitin‐induced H2O2 in WT and R2Y4 cells. Note that flg22‐ and chitin‐induced H2O2 accumulation and cell death were not observed in WT cells, but occasionally observed in R2Y4 cells. (g, h) Expression pattern of defence‐related genes PR1 and PR2 in the indicated lines upon application of flg22 (g) and chitin (h). Relative mRNA levels were normalized to that in WT at 0 hr. Error bars indicate SD (n = 3). Different letters above the bars indicate significant differences at P < 0.01. Similar results were obtained in two independent experiments.
These results demonstrate that RPW8.1, but not RPW8.2, can heighten PAMP‐induced defence responses.
Ectopic expression of RPW8.1 activates multiple layers of defence responses against virulent bacterial pathogens
To address why the expression of RPW8.1, but not RPW8.2 can enhance resistance to the virulent bacterial strain P. syringae DC3000, we compared defence responses of R1Y4 and R2Y4 upon infection of this strain. Although expression of both RPW8.1‐YFP and RPW8.2‐YFP was induced in R1Y4 and R2Y4 by P. syringae DC3000 (Figure S3), all the canonical PTI responses were only observed in R1Y4. While both FRK1 and WRKY29 were significantly induced in R1Y4, only WRKY29 was induced in R2Y4 (Figure 5a), which agrees with its induction in R2Y4 by PAMP application (Figure 3e), and FRK1 was not induced in WT and R2Y4 (Figure 5a). Callose deposition was obviously induced in R1Y4, but rarely found in WT and R2Y4 (Figure 5b). Both PR1 and PR2 were constitutively expressed and were further up‐regulated to higher levels in R1Y4 than those in WT plants (Figure 5c). By contrast, although PR1 was induced in R2Y4 to a very high level at 24 HPI, the expression level of PR2 was comparable to those in WT at all tested time points (Figure 5c). Furthermore, H2O2 accumulation and clusters of dead cells were observed more frequently in R1Y4 than in WT, whereas there was no apparent difference between R2Y4 and WT plants (Figure 5d).
Figure 5.
Ectopic expression of RPW8.1‐YFP activates multiple layers of defence responses to a virulent bacterial pathogen. (a, c) Quantitative RT‐PCR analysis on the expression of the indicated marker genes upon infection of P. syringae DC3000. Error bars indicate SD (n = 3). Different letters above the bars indicate significant differences at P < 0.01. Similar results were obtained in two independent experiments. (b, d) P. syringae DC3000 induced callose deposition (b), H2O2 production and cell death (d) in the indicated lines revealed by aniline blue, DAB and trypan blue staining, respectively. (e) Adenylate cyclase activity assay shows the different capability of effector secretion in WT and R1Y4 upon P. syringae DC3000 infection. The cAMP accumulation was normalized to the bacterial colony numbers at the indicated hours after infiltration (HPI). (f, g) Comparison of AvrPto‐ or HopAi1‐mediated suppression on flg22‐induced FRK1::LUC expression. The LUC reporter activity (%) was normalized to the activity of empty vector. Values were normalized to the internal control 35S::RLUC . Error bars indicate SD (n = 3). Different letters above the bars indicate significant differences at P < 0.01. Similar results were obtained in three independent experiments.
Given that expression of RPW8.1 confers enhanced resistance to the virulent bacterial strain P. syringae DC3000, we hypothesized that the expression of RPW8.1 may counteract bacterial virulence on suppressing PTI. Because P. syringae DC3000 secretes a suite of effectors to block PTI responses (Cunnac et al., 2009), we first exploited a calmodulin‐dependent adenylate cyclase (Cya) reporter system (Schechter et al., 2004) to examine whether expression of RPW8.1 could interfere with effector secretion. In this experiment, to avoid the difference caused by less entry of pathogen into the host cells of R1Y4, we used half of the treated leaves to measure the propagation of bacteria and the other half to measure the activity of adenylate cyclase. Our data showed that the normalized cAMP accumulation per 1000 colonies of bacteria in R1Y4 displayed 10‐20% decrease at 9 and 12 HPI compared to that in WT (Figure 5e), indicating that the inhibition of effector secretion is due to expression of RPW8.1. Second, we analysed transcriptional suppression of FRK1 reporter by AvrPto and HopAi1, two well‐studied P. syringae type III virulent effectors (Li et al., 2005), using a dual‐luciferase reporter assay (Zhang et al., 2010). Flg22‐induced expression of FRK1 reporter in AvrPto‐ or HopAi1‐expressing WT protoplasts was suppressed to 10% of that in control WT protoplasts at 3 and 6 HPI, whereas such suppression in R1Y4 protoplasts was significantly lessened with the expression level being 20–25% of that in control R1Y4 protoplasts at 3 HPI and 30‐50% at 6 HPI (Figure 5f,g). Interestingly, although the FRK1 reporter at 3 HPI in R2Y4 displayed a similar level of suppression as that in WT, the expression level at 6 HPI was significantly higher than that in HopAi1‐expressing WT protoplasts (Figure 5g), implying that the expression of RPW8.2 might also repress virulence of certain effectors.
These results indicate that ectopic expression of RPW8.1 might activate multiple layers of defence to counteract the infection of virulent bacteria.
PTI signalling is required for RPW8.1‐mediated immunity
Next, we tested whether defects in PTI signalling can abolish or compromise RPW8.1‐mediated immunity. We made fls2/R1Y4, cerk1/R1Y4 and bik1/R1Y4 lines through crossing fls2, cerk1 and bik1 mutant with R1Y4, respectively, and found diminishment of R1Y4's pits/bulge phenotypes in these mutants’ background (Ma et al., 2014) (Figure S4a), although RPW8.1‐YFP was still inducible as indicated by increased YFP signal in cerk1/R1Y4 and bik1/R1Y4 upon flg22 application, and in fls2/R1Y4 and bik1/R1Y4 upon chitin application (Figure S5). While ROS burst and callose deposition induced by flg22 or chitin were completely abolished in fls2/R1Y4 or cerk1/R1Y4, respectively, flg22‐induced defence responses in cerk1/R1Y4 and chitin‐induced defence responses in fls2/R1Y4 were the same as those in R1Y4 (Figure 6a–c). ROS production and callose deposition in bik1/R1Y4 were compromised to the same levels as in WT, which were obviously lower than that in R1Y4 (Figure 6a–c).
Figure 6.
PTI signalling is required for RPW8.1‐enhanced defence responses. (a, b) Burst of reactive oxidative species (ROS) induced by flg22 (a) and chitin (b) in the indicated lines in comparison with the wild‐type (WT) Col‐gl. Error bars indicate SD (n = 4). (c) Quantitative analysis of PAMP‐induced callose deposition in the indicated lines. Error bars indicate standard deviation (SD, n = 6). (d, e) Bacterial growth assay for P. syringae DC3000(hrcC ‐ ) (d) and P. syringae DC3000 (e) in the indicated lines. Error bars indicate SD (n = 4). (f) P. syringae DC3000‐induced callose deposition in the indicated lines. Error bars indicate SD (n = 6). (g) Comparison of AvrPto‐ or HopAi1‐mediated suppression on flg22‐induced FRK1::LUC expression in the indicated lines. The PFRK1:LUC reporter activity (%) was normalized to the activity in WT protoplasts transfected without effectors. Error bars indicate SD (n = 3). Different letters above the bars in (c‐g) indicate significant differences at P < 0.01. All the experiments were independently repeated twice with similar results.
Consistent with the PTI responses, multiplication of the mutant bacteria P. syringae DC3000(hrcC ‐ ) in fls2/R1Y4 and bik1/R1Y4 was similar to that in fls2 and bik1, respectively, which was significantly higher than that in R1Y4, whereas the bacterial growth was similar in cerk1/R1Y4 and R1Y4 (Figure 6d). Furthermore, the multiplication of the virulent strain P. syringae DC3000 in fls2/R1Y4 was similar to that in fls2, which was significantly higher than that in R1Y4, whereas the growth was similar in cerk1/R1Y4 and R1Y4 (Figure 6e). Consistently, P. syringae DC3000‐induced callose deposition in fls2/R1Y4 decreased to the level similar to that in fls2 plants, significantly lower than that in R1Y4 and cerk1/R1Y4 (Figure 6f). The expression of FRK1 reporter in WT protoplasts was suppressed significantly by both AvrPto and HopAi1, whereas the suppression was significantly relieved in R1Y4 and cerk1/R1Y4 (Figure 6g). Intriguingly, the expression of FRK1 reporter in cerk1/R1Y4 was significantly higher than that in R1Y4 (Figure 6g). Considering that the expression of FRK1 is also highly inducible by senescing (Robatzek and Somssich, 2002), the higher level of FRK1 transcription in cerk1/R1Y4 might have resulted from early leaf senescence. Moreover, cerk1/R1Y4 displayed susceptibility to a virulent powdery mildew strain, whereas fls2/R1Y4 showed similar resistance as seen in R1Y4 (Figure S4b).
These results indicate that PTI signalling is required for RPW8.1‐mediated defence responses and resistance to virulent pathogens.
Ectopic expression of RPW8.1 in rice enhances postinvasive resistance to P. oryzae
That RPW8.1 boosts PTI in Arabidopsis prompted us to test whether RPW8.1 could improve resistance in rice. We thus constructed transgenic rice lines expressing RPW8.1‐YFP from the rice OsPR10a (Os12g36830) promoter for achieving P. oryzae‐inducible expression (Hashimoto et al., 2004; McGee et al., 2001) in TP309, a Japonica accession susceptible to P. oryzae and Xanthomonas oryzae pv. oryzae (Xoo). Upon inoculation of P. oryzae, the expression of RPW8.1‐YFP was increased at the transcriptional and translational level (Figure S6a,b), and the YFP signal from the fusion protein was also observed in sheath cells (Figure S6c), indicating that the OsPR10a promoter was indeed inducible by P. oryzae. The transgenic rice lines (T3) expressing RPW8.1‐YFP displayed enhanced resistance against the virulent P. oryzae strains Guy11 and eGFP‐tagged Zhong8‐10‐14 (GZ8) as evidenced by less and smaller disease lesions on inoculated leaves (Figure 7a–d). Then, two transgenic lines were used for examination of the expression of defence‐related genes, including Kaurene Synthase4 (OsKS4), OsNAC4 (for Oryza sativa no apical meristem [NAM]) (Park et al., 2012), OsPR10b and OsMAS1 (Os04 g10010) (Li et al., 2014b; Miyamoto et al., 2016; Yamaguchi et al., 2013). The expressions of all tested genes were induced to levels remarkably higher in the transgenic line #48 than those in the control line at 12‐48 HPI, while OsKS4 was induced to significantly higher levels at 48 HPI, and OsPR10b and OsMAS1 were induced to remarkably higher levels at 24‐48 HPI in the transgenic line #27 (Figure 7e).
Figure 7.
Ectopic expression of RPW8.1‐YFP enhances resistance against P. oryzae in rice. (a‐d) Representative leaf sections from the indicated transgenic lines and the wild‐type (WT) TP309 show the blast disease phenotypes (a, b) and statistical analyses on the lesion area (c, d) caused by the P. oryzae strain Guy11 (a, c) and the eGFP‐tagged strain GZ8 (b, d). Error bars indicate SD (n = 10). (e) P. oryzae induced expression of the indicated defence‐related genes in the indicated transgenic rice lines in comparison with WT. Relative mRNA levels were normalized to that in untreated WT plants. Error bars indicate SD (n = 3). Different letters above the bars in (c‐e) indicate significant differences at P < 0.01. All the experiments were independently repeated two times with similar results.
Next, we detected induction of RPW8.1‐YFP and the defence‐related genes OsNAC4 and OsKS4 in the transgenic rice lines by PAMPs. The relative mRNA level of RPW8.1 was up‐regulated at 6 HPI of chitin and at 12 HPI of flg22 (Figure S7a). The RPW8.1‐YFP protein levels were up‐regulated in the transgenic lines upon flg22‐ or chitin application (Figure S7b), and the YFP signals were also increased in the sheath cells (Figure S7c). In addition, both OsKS4 and OsNAC4 were induced to obviously higher levels in the transgenic lines than that in the control line upon flg22 or chitin application (Figure S7d,e).
We also observed less aggression of GZ8 on leaf sheath from one RPW8.1 transgenic rice line compared with the control line. The GZ8 spores germinated at 12 HPI, and the percentage of germinated spores did not display significant difference (Figure 8). The primary invasive hyphae were formed at 24 HPI, and the invasive hyphae extended from the primary infected cells to the neighbouring cells at 36 HPI (Figure 8a). Notably, the percentage of the hyphae extending into the neighbour cells in the transgenic line expressing RPW8.1‐YFP was significantly lower than that in WT (Figure 8b).
Figure 8.
Ectopic expression of RPW8.1‐YFP in rice enhances postinvasive resistance to P. oryzae. (a) Confocal images show the infection process of the eGFP‐tagged strain Zhong‐8‐10‐14 on sheath cells from the wild‐type (WT) TP309 and the transgenic line expressing RPW8.1‐YFP . Note that appressoria (arrows) were observed at 12 h postinoculation (HPI). Invasive hyphae (red arrowheads) in the primary infected cells were observed at 24 HPI. The invasive hyphae extended to the neighbour cells (white arrowheads) at 36 HPI. Size bars, 20 μm. Similar results were obtained in two independent experiments. (b) Quantitative analyses on the process of infection from at least 50 conidia at the indicated time points on the indicated lines. Note that the number of invasive hyphae extended from the primary infected cells into the neighbouring cells is obviously lower in the RPW8.1‐YFP transgenic line than that in the control WT at 36 HPI (*).
These observations indicate that ectopic expression of RPW8.1‐YFP can also enhance PTI in rice to render postinvasive resistance against P. oryzae
Ectopic expression of RPW8.1 in rice results in enhanced resistance to Xoo
That expression of RPW8.1‐YFP was inducible by flg22 in transgenic rice prompted us to test whether the RPW8.1 transgenic rice lines are resistant to the bacterial pathogen Xoo, the causative agent of rice leaf blight disease. As shown in Figure 9a, all of the RPW8.1‐YFP transgenic lines displayed alleviated symptom and shorter lesions compared to the control plants at 14 dpi of POX99. The average lesion length of the transgenic lines was in the range of 8 to 10 cm at 14 dpi, significantly shorter than that (~15 cm) of control plants (Figure 9b). Quantitative analysis revealed that the transgenic lines expressing RPW8.1‐YFP supported significantly less bacterial growth than the control plants (Figure 9c). These data indicate that ectopic expression of RPW8.1 in rice results in enhanced resistance to Xoo.
Figure 9.
Ectopic expression of RPW8.1‐YFP in rice enhances resistance to Xoo. (a) Leaf sections from the indicated transgenic lines show the disease phenotypes in comparison with the wild‐type (WT) TP309 at 14 days postinoculation (dpi) of Xoo. Similar results were obtained in two independent experiments. (b, c) Statistical analysis on lesion length (b) and bacterial growth (c) at 14 dpi. Error bars indicate SD (n = 10). Different letters above the bars indicate significant differences at P < 0.01. All the experiments were independently repeated twice with similar results. (d) A hypothetical model for the RPW8.1‐PTI connection.
However, we also noticed that ectopic expression of RPW8.1‐YFP in rice led to some negative impact on agronomic traits. As shown in Table S4, the yield‐component traits, including number of filled grain per panicle and 1000‐grain weight, were significantly lower in the transgenic lines than in the WT, indicating substantial fitness penalties, despite we used the pathogen‐inducible promoter of OsPR10a. The recently reported uORF‐mediated translational control system (Xu et al., 2017) may be used to reduce the cost of resistance associated with R genes such as RPW8.1 when they are exploited for engineering disease resistance in crops in the future.
Discussion
Previously, we found that ectopic expression of RPW8.1 activates resistance to virulent powdery mildew and oomycete pathogens (Ma et al., 2014). Here, we further found that ectopic expression of RPW8.1 also enhances resistance against a virulent bacterial strain (Figure 1), and provided evidence that RPW8.1, but not RPW8.2, boosts PTI basal defence signalling to activate defence responses against different virulent pathogens. First, higher PTI responses such as ROS burst, callose deposition and defence gene expression were consistently observed in R1Y4 but not in R2Y4 upon PAMP application and bacterial infection, although both RPW8.1 and RPW8.2 seemed to be inducible by PAMPs (Figure S1) and bacteria (Figure S3). Second, the defence responses triggered by virulent powdery mildew and oomycete pathogens observed in a previous report (Ma et al., 2014), such as H2O2 accumulation and cell death, and the transcription of PR genes, were all induced by PAMP application in R1Y4 but not in R2Y4 (Figure 4). Third, the ectopic expression of RPW8.1 constitutively up‐regulated many PAMP‐inducible genes in R1Y4, and over 50% of the RPW8.1‐up‐regulated genes were consensually inducible by flg22 and chitin in WT plants (Figure 2). Fourth, the PAMP‐triggered transcription of PRRs and their downstream PTI components were significantly increased in RPW8.1‐transgenic plants (Figure S2). Conversely, RPW8.1‐mediated up‐regulation of flg22‐induced and chitin‐induced PTI responses were completely abolished in the fls2 or cerk1 background, respectively, and significantly compromised in the bik1 background (Figure 6a–d). Consequently, RPW8.1‐mediated PTI responses and resistance to the virulent bacterial pathogen were also completely abolished in fls2 mutant background (Figure 6e–g). Taken together, these results indicate that RPW8.1 and RPW8.2 activate different resistance mechanisms to mount defences against pathogen invasion, and PTI signalling is required for RPW8.1‐mediated up‐regulation of defence responses against different virulent pathogens.
During plant–microbe co‐evolution, adapted pathogens use effectors to subvert PTI. In turn, plant R proteins recognize directly or indirectly cognate effectors to mount ETI that usually culminates in HR (Jones and Dangl, 2006). Even though it is unlikely that RPW8.1 plays a role in effector recognition, in this study we did observe ETI‐like defence responses in plants expressing RPW8.1‐YFP upon infection of a virulent bacterial strain (Figures 1 and 5). A plausible explanation is that expression of RPW8.1 can significantly boost PTI, thereby counterbalancing the suppression of PTI by pathogen effectors. More intriguingly, we observed attenuation of both effector secretion and effector virulence as a result of ectopic expression of RPW8.1 (Figure 5e–g). How expression of RPW8.1 could achieve this is currently unknown. The distinct subcellular localization of RPW8.1‐YFP may provide a clue. First, RPW8.1‐YFP discretely accumulated around chloroplasts in mesophyll cells, which may cause stress on chloroplasts, leading to constitutive defence responses (Figure 2 and Ma et al., 2014). Second, upon PAMP application or pathogen infection, RPW8.1‐YFP expressed from the RPW8.1 promoter was further up‐regulated and formed big fluorescent punctate bodies proximal to chloroplasts in Arabidopsis mesophyll cells. Enhanced RPW8.1 expression likely heightened PTI signalling and defence responses via a feedback amplification circuit (Figures 3, 4, S2 and S3), leading to H2O2 production and cell contraction before the collapse of chloroplasts in the early infection period. During the late infection period, chloroplasts in the H2O2‐enriched cells disintegrated followed by cell demise, which further resulted in cytoplasmic bubbling in neighbour cells (Figure 4d). In turn, it is conceivable that the heightened defence responses, such as chloroplast‐produced ROS/H2O2, in RPW8.1‐expressing Arabidopsis leaf cells might inhibit the secretion of virulent effectors and/or counterbalance the virulent effectors’ suppression of PTI. Consistently, in transgenic rice plants, most of the RPW8.1‐YFP fluorescent punctate bodies were also found to be localized proximal to the chloroplasts/plastids upon P. oryzae infection (Figure S6c) and PAMP treatment (Figure S7c). Similar PTI‐boosting mechanism may be activated by expression of RPW8.1 in rice cells, resulting in reduced infection of P. oryzae and Xoo. These observations on chloroplast/plastid‐associated localization of RPW8.1‐YFP in both Arabidopsis and rice point a likely role of chloroplasts/plastids for RPW8.1‐mediated basal resistance against virulent pathogens with possibly attenuation of effector secretion and/or their virulence activities.
Based on the results from this work and our previous studies, we hypothesize that RPW8.1 might be associated with an unidentified immune regulator (UIR) (Figure 9d). Ectopic expression of RPW8.1 may activate this hypothetical UIR that in turn up‐regulates basal chloroplast‐derived ROS/H2O2, thereby activating defence responses. Upon PAMP recognition, MAPK cascades are activated, resulting in further up‐regulation of chloroplast‐derived ROS/H2O2. During this process, the PTI signalling may modulate the UIR that may further up‐regulate RPW8.1 via a positive feedback circuit. In turn, increased expression of RPW8.1 could further enhance PTI signalling through increased expression or recruitment of PRRs and strengthening of the MAPK cascades, possibly via the UIR, leading to inhibition of effector‐mediated virulence, increased production of chloroplast‐derived ROS/H2O2 and other defence responses. Although the intrinsic mechanistic connection between RPW8.1 and PTI via the UIR remains to be fully characterized, this regulatory node may be conserved between dicots and monocots, making RPW8.1 a promising R gene for engineering disease resistance across broad taxonomic lineages of crop species.
Experimental procedures
Generation of transgenic plants
Arabidopsis accessions Shahdara, Wa, Ws and transgenic lines expressing RPW8.1‐YFP (i.e. R1Y2,R1Y4 and R1Y5) and expressing RPW8.2‐YFP (i.e. R2Y4) in the WT Col‐gl background were from previous reports (Ma et al., 2014; Orgil et al., 2007; Wang et al., 2009). To generate ectopic expression of RPW8.1‐YFP in PTI signalling mutant background, R1Y4 was crossed with fls2 (SALK_141277), cerk1 (SALK_092023) and bik1 (CS852520) (Veronese et al., 2006; Wan et al., 2008; Xiang et al., 2008). Homologous fls2, cerk1 and bik1 in fls2/R1Y4, cerk1/R1Y4 and bik1/R1Y4 were obtained by screening F2 individuals with gene‐specific primers fls2‐F/fls2‐R, cerk1‐F/cerk1‐R, bik1‐F/bik1‐R and T‐DNA primer LB (Table S3). Arabidopsis plants were grown in a growth room maintained at 23 °C and 70% relative humidity with a 10‐/14‐h day/night regime.
To generate transgenic rice lines expressing RPW8.1‐YFP, the cassette RPW8.1‐YFP in the plasmid pPR81EYFP from Wang et al. (2007) was put downstream to the OsPR10a (Os12 g36830) promoter that was amplified with POsPR10‐F and POsPR10‐R (Table S3), leading to the construct pPPR10:RPW8.1‐YFP. Then, the construct pPPR10:RPW8.1‐YFP was introduced into rice accession TP309 following a previous report (Li et al., 2014b). Rice plants were grown either in paddy fields or in a growth room maintained at 26 °C and 70% relative humidity with a 14‐/10‐h day/night regime.
Bacterial disease assay in Arabidopsis
Five‐week‐old Arabidopsis plants were syringe‐infiltrated with the virulent strain P. syringae DC3000 at the concentration of OD600 = 0.0005, the avirulent strains P. syringae DC3000(avrRpm1) and DC3000(avrRpt2) at OD600 = 0.002, or spray‐inoculated with the mutant strain P. syringae DC3000(hrcC ‐ ) at OD600 = 0.5. (Yuan and He, 1996). Bacterial propagation was determined as previously described (Li et al., 2010) at 0 and 3 dpi, respectively.
RNA‐Seq analysis
Five‐week‐old plants of Col‐gl and R1Y4 were infiltrated with 1 μm of flg22 or 20 μg/mL of chitin, and samples were collected at 0, 1, 3, 6 and 12 HPI. Total RNA was extracted by TRIzol Reagent (Invitrogen, Thermo Fisher Scientific, Shanghai, China). RNA quality was determined using Agilent 2100 Bioanalyzer (Agilent Technologies Canada Inc, Mississauga, ON, Canada). RNA libraries were constructed from 2 μg of total RNA and subjected to deep sequencing at an Illumina Hiseq 2500 platform (BioMarker Technologies Illumina, Inc, Shanghai, China). After removing adaptor sequences and filtering low‐quality sequences, clean reads from each samples were mapped to the TAIR10 reference genome by TopHat2 with default parameters (Kim et al., 2013). The FPKM (fragments per kilobase of transcript per million fragments mapped) method was used to calculate the normalized expression data of each library (Mortazavi et al., 2008). Differentially expressed genes (DEGs) were identified by DEseq2 (Love et al., 2014) with the criteria of absolute log2 (fold change) ≥1 and false discovery rate (FDR) ≤0.01. Gene ontology (GO) enrichment analysis on DEGs was performed using GOseq (Young et al., 2010).
Assays for PTI defence responses in Arabidopsis
For examining the activation of MAPKs, 5‐week‐old plants were sprayed with 10 μm of flg22 in 0.02% Silwet L‐77 and samples were collected for protein extraction at 5 and 10 min after PAMP application. Fifteen micrograms of total protein was electrophoresed on 10% SDS‐PAGE gel, and the protein blot was reacted with anti‐p‐ERK serum (Cell Signaling Technology, Danvers, USA) to detect and determine phosphorylation status of MPK3, MPK4 and MPK6 as previously described (Li et al., 2010). For examining the production of ROS, leaf strips were incubated in 200 μL water in a 96‐well plate for 12 h, and treated with 1 μm flg22 or 20 μg/mL chitin in 200 μL buffer containing 20 mm luminol, 10 μg/mL horseradish peroxidase (Sigma‐Aldrich Shanghai Trading Co Ltd, Shanghai, China). ROS burst indicated as relative luminescence units was determined with a GLOMAX96 Microplate Luminometer (Promega (Beijing) Biotech Co., Ltd, Beijing, China) for 40–60 min. For examining callose deposition, leaves syringe‐infiltrated with 1 μm flg22 or 1 20 μg/mL chitin, or P. syringae DC3000 (OD600 = 0.002) were collected, cleared, and stained with 0.01% aniline blue for half an hour following a previous report (Hauck et al., 2003). Representative images of callose deposition were captured with a fluorescence microscope (Zeiss imager A2.0) and calculated using ImageJ as previously reported (Zhang et al., 2007).
Quantitative RT‐PCR, Western blot and Microscopy analysis
Quantitative RT‐PCR was performed following previous reports (Li et al., 2010) with Actin2 (in Arabidopsis) or OsUbi1 (in rice) as internal control. Statistical analysis was performed by t‐test or by a one‐way ANOVA followed by post hoc Tukey HSD analysis. For Western blot analysis, protein extraction and gel blotting were performed as described in a previous report (Wang et al., 2007) with antigreen fluorescent protein (GFP) serum to detect YFP‐tagged protein. Accumulation of YFP‐tagged proteins were observed, and images were acquired by LSCM as previously described (Huang et al., 2014) using Nikon80i. H2O2 production and dead cells were stained by DAB and trypan blue, respectively (Xiao et al., 2003).
Reporter assay in protoplasts
Protoplasts isolated from 5‐week‐old plants of Col‐gl, R1Y4, R2Y4, fls2, fls2/R1Y4, cerk1, cerk1/R1Y4 were cotransfected with FRK1::LUC (firefly luciferase) and 35S::RLUC (RLUC, Renilla luciferase) along with the 35S::AvrPto or 35S::HopAi1 or empty vector (EV) constructs as described (Zhang et al., 2010). Proteins were isolated with the Dual‐Luciferase Reporter system kit (Promega) following the manufacturer's instructions, and LUC activity was determined with the GLOMAX96 Microplate Luminometer (Promega). The reads of RLUC were used as internal control for the reads of FRK1 reporter. The relative expression level of FRK1 reporter in 35S::AvrPto‐ or 35S::HopAi1‐cotransfected samples was normalized to those in EV‐cotransfected samples.
Adenylate cyclase assay
To assay the secretion of bacterial effectors in plant tissue, leaves from 5‐week‐old Arabidopsis plants were syringe‐infiltrated with strain P. syringae DC3000(AvrPto‐Cya) (OD600 = 0.05). Then, treated leaves were collected at 0, 6, 9 and 12 HPI. Half of the treated leaves were used to measure the bacterial propagation, and half were used to measure the activity of adenylate cyclase as previously described (Schechter et al., 2004).
P. oryzae inoculation and disease resistance assay
The P. oryzae strains Guy11 and GZ8 were grown and inoculated as previously described (Li et al., 2014b). For monitoring the infection process of P. oryzae to rice, the spore suspensions of GZ8 were inoculated on 10‐cm‐long leaf sheaths and the inoculated epidermal layer was excised and analysed as described (Kankanala et al., 2007). Images were acquired using LSCM (Huang et al., 2014)
Xoo inoculation and bacterial leaf blight disease assay
Six‐week‐old rice plants were cut‐inoculated with the Xoo strain PXO99, and the disease lesion length and bacterial growth in the inoculated leaves were determined according to a previous report (Chern et al., 2005).
Conflict of interest
The authors declare no conflict of interest.
Supporting information
Figure S1 PAMPs up‐regulate the expression of RPW8.1 and RPW8.2.
Figure S2 Ectopic expression of RPW8.1‐YFP enhances the transcription of PRRs and PTI components upon application of PAMPs.
Figure S3 P. syringae DC3000 up‐regulates the expression of RPW8.1‐YFP and RPW8.2‐YFP.
Figure S4 PTI signaling is required for RPW8.1‐mediated resistance to powdery mildew in Arabidopsis.
Figure S5 PTI signaling is required for PAMP‐induced accumulation of RPW8.1‐YFP. Representative confocal images show the subcellular accumulation of PAMP‐induced RPW8.1‐YFP in the indicated lines.
Figure S6 P. oryzae up‐regulates the expression of RPW8.1 in transgenic rice plants.
Figure S7 PAMPs up‐regulate expression of RPW8.1 in transgenic rice plants.
Table S1 List of the 309 flg22‐/chitin‐inducible and RPW8.1‐up‐regulated genes.
Table S2 GO term enrichment of the 309 flg22‐/chitin‐inducible and RPW8.1‐ up‐regulated genes.
Table S3 Primers used in this study.
Table S4 Comparison of some agronomic traits between wild‐type and transgenic lines.
Acknowledgements
We thank Dr. Jian‐Min Zhou for help with MAPK phosphorylation and effector secretion/virulence assay, Dr. Li‐Huang Zhu for providing the eGFP‐tagged strain GZ8, Dr. Xue‐Wei Chen for providing the Xoo strain PXO99, Yuan‐Geng Lu, Wei Wang, Ji‐Qun Zhao and Yi Shi for technique supports, Dr. Viswanathan Chandran for critical reading of the manuscript. This work was supported by the National Natural Science Foundation of China (grants 31371931 and 31672090 to W‐MW, 31471761 to YL) and by the National Science Foundation (grant IOS‐1457033 to SX).
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Associated Data
This section collects any data citations, data availability statements, or supplementary materials included in this article.
Supplementary Materials
Figure S1 PAMPs up‐regulate the expression of RPW8.1 and RPW8.2.
Figure S2 Ectopic expression of RPW8.1‐YFP enhances the transcription of PRRs and PTI components upon application of PAMPs.
Figure S3 P. syringae DC3000 up‐regulates the expression of RPW8.1‐YFP and RPW8.2‐YFP.
Figure S4 PTI signaling is required for RPW8.1‐mediated resistance to powdery mildew in Arabidopsis.
Figure S5 PTI signaling is required for PAMP‐induced accumulation of RPW8.1‐YFP. Representative confocal images show the subcellular accumulation of PAMP‐induced RPW8.1‐YFP in the indicated lines.
Figure S6 P. oryzae up‐regulates the expression of RPW8.1 in transgenic rice plants.
Figure S7 PAMPs up‐regulate expression of RPW8.1 in transgenic rice plants.
Table S1 List of the 309 flg22‐/chitin‐inducible and RPW8.1‐up‐regulated genes.
Table S2 GO term enrichment of the 309 flg22‐/chitin‐inducible and RPW8.1‐ up‐regulated genes.
Table S3 Primers used in this study.
Table S4 Comparison of some agronomic traits between wild‐type and transgenic lines.