- Original article
- Open Access
Guanine Nucleotide Exchange Factor 7B (RopGEF7B) is involved in floral organ development in Oryza sativa
© The Author(s). 2018
- Received: 16 March 2018
- Accepted: 10 July 2018
- Published: 30 July 2018
RAC/ROP GTPase are versatile signaling molecules controlling diverse biological processes including cell polarity establishment, cell growth, morphogenesis, hormone responses and many other cellular processes in plants. The activities of ROPs are positively regulated by guanine nucleotide exchange factors (GEFs). Evidence suggests that RopGEFs regulate polar auxin transport and polar growth in pollen tube in Arabidopsis thaliana. However, the biological functions of rice RopGEFs during plant development remain largely unknown.
We investigated a member of the OsRopGEF family, namely OsRopGEF7B. OsRopGEF7Bpro:GUS analysis indicates that OsRopGEF7B is expressed in various tissues, especially in the floral meristem and floral organ primordia. Knock-out and -down of OsRopGEF7B by T-DNA insertion and RNA interference, respectively, predominantly caused an increase in the number of floral organs in the inner whorls (stamen and ovary), as well as abnormal paleae/lemmas and ectopic growth of lodicules, resulting in decline of rice seed setting. Bimolecular fluorescence complement (BiFC) assays as well as yeast two-hybrid assays indicate that OsRopGEF7B interacts with OsRACs.
OsRopGEF7B plays roles in floral organ development in rice, affecting rice seed setting rate. Manipulation of OsRopGEF7B has potential for application in genetically modified crops.
- Agronomic traits
- Floral development
RAC/ROPs, plant Rho-like small G proteins, are multi-functional signaling switches regulating many cellular processes in plants, affecting leaf epidermal cell morphogenesis, polarized cell growth in pollen tubes and root hairs, and hormone and defense-related responses (Yang and Fu 2007; Yalovsky et al. 2008; Wu et al. 2011; Nibau et al. 2013; Huang et al. 2014). RAC/ROPs are essential signaling molecules that switch between a GTP-bound active form and a GDP-bound inactive form (Bourne et al. 1990, 1991; Wu et al. 2011). Activation of GTPases depends on guanine nucleotide exchange factors (GEFs) that stimulate the exchange of GDP- to GTP-bound form (Cherfils and Chardin 1999; Shichrur and Yalovsky 2006; Wu et al. 2011). It was shown that RAC/ROPs utilize mostly a plant-specific family of GEFs named RopGEFs for activation in plant kingdom (Berken et al. 2005).
Arabidopsis contains 14 RopGEFs in its genome, sequentially termed RopGEF1 to RopGEF14, sharing a conserved PRONE domain for GEF catalytic activity. Transient expression analyses provide evidence that RopGEF1 and RopGEF12 regulate polarized pollen tube growth (Gu et al. 2006; Zhang and McCormick 2007). ABA-mediated degradation of RopGEF1 also plays an important role in ABA-mediated inhibition of lateral root growth (Li et al. 2016). Most recently, our group reported that RopGEF1 is very important in the plant early development via affecting cell polarity and polar auxin transport (Liu et al. 2017). The study of a ropgef1ropgef4 double mutant suggests that RopGEF1 and RopGEF4 are specific regulators of ROP11 function in ABA-mediated stomatal closure (Li and Liu 2012). Arabidopsis full-genome chip transcriptome assay results in combination with physiological studies further support that RopGEF10 negatively regulates ABA responses by inducing a particular subset of genes associated with stress responses (Xin et al. 2005). Previously, our group has reported that Arabidopsis RopGEF7, is specifically expressed in the quiescent center (QC) precursors during embryogenesis and in the QC of postembryonic roots, regulating PLT-mediated maintenance of root meristem by connecting RopGEF-regulated RAC/ROP signaling and polar auxin transport (Chen et al. 2011). Furthermore, ROP3 interacts directly with RopGEF7 (Chen et al. 2011) and regulates Arabidopsis embryo development and seedling growth via affecting the polar auxin transport and thus controlling the establishment of auxin maxima (Huang et al. 2014).
Rice contains 11 RopGEFs in its genome (Berken et al. 2005; Gu et al. 2006; Yoo et al. 2011). It was shown that PRONE-type RacGEFs in rice may play a role in the activation of OsRac1 in disease resistance response (Kawasaki et al. 2009). The expression levels of some OsRacGEFs were affected by treatment with sphingolipid elicitors (SE), implying that some OsRacGEFs may be regulated at the transcription level during plant response to stress (Kawasaki et al. 2009). OsRopGEF10 predominantly expressed in newly developed leaves before the appearance from the leaf sheath and regulated small papillae development (Yoo et al. 2011). However, studies on RopGEFs in rice are still limited.
In this work, we examined a RopGEF member in rice, namely OsRopGEF7B, which is a homolog of AtRopGEF7. AtRopGEF7 was reported to be essential for root meristem maintenance (Chen et al. 2011). Our results indicated that OsRopGEF7B was highly expressed in root meristem, floral meristem, floral organ primordia, and the inner floral organs. We further explored the roles of OsRopGEF7B in rice development by analyzing the osropgef7b-1 mutant and OsRopGEF7B-RNAi plants, both of which displayed variedly defective phenotypes, including increased number of stamens and ovaries, abnormal palea/lemma, and shortened plant height. Taken together, these results implicate that OsRopGEF7B plays a role in regulating floral organ development, thus subsequently affects rice seed setting rate.
OsRopGEF7B is Expressed in Various Tissues, Predominantly in Floral Meristem and Floral Organs
Loss-of-Function Mutation of OsRopGEF7B Causes Developmental Defects in Floral Organs
Numbers of floral organs in wild-type and osropgef7b-1 plants
More than two ovaries
Abnormal paleae/ lemmas
Number of stamens (n > 6)
Total flowers analyzed
Knockdown of OsRopGEF7B Induces the Similar Floral Phenotypes to Those of the T-DNA Insertion Line
RNAi L31 showed very similar floral phenotypes as osropgef7b-1, in detail, nearly 8% flowers (106 in 1366 flowers) observed displayed developmental defects, including abnormal palea / lemma or elongated sterile lemma (0.81%, n = 1366; Table 1; Fig. 4e), more than six stamens (4.83%, n = 1366; Table 1; Fig. 4f), two ovaries (3.95%, n = 1366; Table 1; Fig. 4g, j), more than two ovaries (0.88%, n = 1366; Table 1; Fig. 4h), and multiple stigmas (1.68%, n = 1366; Table 1; Fig. 4i). The lower percentage of developmental defects of RNAi L31 in flower compared with osropgef7b-1 could be explained by the fact that the transcript level of OsRopGEF7B in RNAi L31 still remains over 20% (Fig. 4a), but could not be detected by qRT-PCR in osropgef7b-1 (Fig. 2b). Thus, we proposed that OsRopGEF7B plays roles in floral organ development.
Knock-off and -down of OsRopGEF7B Affects Agronomic Traits in Rice
Because OsRopGEF7B was highly expressed in pollen (Fig. 1k, l), it likely plays roles in pollen development similar to the homolog in Arabidopsis, AtRopGEF12. Overexpression of a C-terminally truncated AtRopGRF12 interrupted pollen tube growth (Zhang and McCormick 2007). Thereofore, we analyzed the pollen development of osropgef7b-1 and RNAi L31, and our observations indicated that the percentage of pollen fertility from osropgef7b-1 mutant and RNAi L31 plant (Additional file 1: Figure S3B, D, I) are same to those of the wild type controls (Additional file 1: Figure S3A, C, I). Results of DAPI staining showed that all the fertile pollen grains from osropgef7b-1, RNAi L31 and the wild type contained three nuclei: two bright, intensely stained sperm nuclei and one diffused, weakly stained vegetative nucleus (Additional file 1: Figure S3E-H). The DAPI analysis indicated that the knock-out or -down of OsRopGEF7B did not affect pollen development. We also found that pollen tube elongation and pollen germination in vivo of both osropgef7b-1 mutant (Additional file 1: Figure S4D-F, M) and RNAi L31 plant (Additional file 1: Figure S4J-M) were not different from those of the wild type (Additional file 1: Figure S4A-C, G-I, M), indicating that the knock-out or -down of OsRopGEF7B did not affect pollen tube elongation. Taken together, our data suggest that the reduced seed setting of osropgef7b-1 mutant and RNAi plants might be partly attributable to the defects in female organ development, as pollen development and pollen tube growth in osropgef7b-1 and RNAi plants are quite normal.
OsRopGEF7B Does Not Affect the Expression of a Set of Transcription Factors Which are Associated with Floral Development in Rice
To further investigate how OsRopGEF7B works in regulating flower development, we examined several genes which encode transcription factors associated with floral development. Genetic studies showed that mutation in YABBYs, ETTIN, OsMADS1, OsMADS6 and OsMADS55 affect floral organ identification (Sessions et al. 1997; Nemhauser et al. 2000; Prasad et al. 2005; Yadav et al. 2011; Teo et al. 2014). Therefore, we carried out qRT-PCR to analyze the transcripts of these genes in both osropgef7b-1 and RNAi L31 at both seedling and floral stages. The results indicated that the genes analyzed were not significantly affected by OsRopGEF7B mutation (Additional file 1: Figure S5A, B).
We previously reported that knock-down of RopGEF7 affects PIN1 accumulation and polarization to impact polar auxin transport and thereby influences embryo and root development in Arabidopsis (Chen et al. 2011). PIN1 is also required for floral development (Yamaguchi et al. 2013; Holt et al. 2014). Thus we performed the qRT-PCR analysis of four OsPINs, and the data showed no changes in neither of them compared with wild type at both seedling and floral stages (Additional file 1: Figure S5C, D). Our data suggest that OsRopGEF7B might do not influence the expression of YABBYs, ETTIN, OsMADS1, OsMADS6, OsMADS55 and PIN1 in rice.
OsRopGEF7B interacts with OsRACs in Rice Protoplasts and Yeast Cells
The roles of RopGEFs in regulating plant growth and development in rice were rarely reported. Here, we provided experimental evidence that OsRopGEF7B has functions during the vegetative growth and reproductive development in rice, especially in the processes of floral organ development.
Our data revealed that OsRopGEF7B is predominantly expressed in floral meristem, floral organ primordia, anther, filament and stigma (Fig. 1e-l). The knock-out mutant and knock-down transgenic plants, osropgef7b-1 and RNAi L31, respectively, showed increases in the numbers of the inner floral organs (ovary and stamen) (Table 1; Figs. 2i-q, 4f-j). Specifically, some of the osropgef7b-1(10.13%) and RNAi L31 (3.95%) plants have more than one ovary (Table 1; Figs. 2i-q, 4f-j). In the wild type flower, carpel is composed of ovary, style and stigma; the carpel primordium is developed from the floral meristem (Chu et al. 2006). Initiation of the floral meristems is the start of flower development, followed by floral meristem identity specification and maintenance, floral organ primordia initiation, floral organ identity specification, floral stem cell termination, and finally floral organ maturation (Guo et al. 2015). In this multistep process, each of numerous genes is expressed in a spatiotemporally regulated manner. Phenotypes of mutants give clues which role the corresponding gene plays in flower development. The floral organ number1 (fon1) mutant of Arabidopsis shows abnormal flowers from stage 6, after the three-whorl stamen primordia have initiated. The prolonged floral meristem activity continues to produce extra stamen and carpel primordia, resulting in generating additional stamens and carpels (Huang and Ma, 1997). The fon1 mutant of rice also exhibits an enlarged floral meristem and subsequently increased the number of all floral organs (Nagasawa et al., 1996; Suzaki et al., 2004). FON4 of rice plays a more important role on the carpel development than on the outer whorls; the fon4–1 displayed an increase in the number of carpel that results from the extra carpel primordia in the enlarged floral meristem; almost all fon4–1 and fon4–2 flowers and most of fon4–3 flowers contain more than one carpel (Chu et. 2006). Thus, phenotypic similarities between osropgef7b-1 (and RNAi L31) and fon mutants suggest that mutation in OsRopGEF7B might strengthen the activity of flower meristem subsequently producing extra carpel primordia resulting in the generation of additional carpels (as well as additional ovaries). Thus, normal expression of OsRopGEF7B seems to be required for restricting the numbers of inner floral organs. To understand the mechanism underlying this phenotype, the detailed morphological analysis of the floral meristem in osropgef7b-1 and RNAi L31 plants compared to wild type is needed in the future study.
Previously, our group reported that Arabidopsis RopGEF7, grouped into the same clade with OsRopGEF7B (Additional file 1: Figure S7), maintains the stem cell niche by auxin-dependent PLT pathway. Knock-down of AtRopGEF7 by RNA interference technique indicated that AtRopGEF7 can regulate the auxin efflux transporter PIN1, PIN3 and PIN7 accumulation and thereby affects polar auxin transport that affects root development (Chen et al. 2011; Huang et al. 2014). Additionally, auxin plays vital roles in determining floral organ development. Plants harboring mutations in PIN1 often show strong defects in inflorescence with naked stems, often produce only a few abnormal flowers. pin1 mutant flowers exhibit variable petals number, fused floral organs, and expansion of the stylar and stigmatic regions of the gynoecium (Okadala et al. 1991; Cheng and Zhao 2007; Yamaguchi et al. 2013; Holt et al. 2014). Similarly, osropgef7b-1 and RNAi L31 exhibited fused ovaries (Table 1; Figs. 2i-q, 4f-j), and osropgef7b-1 showed three glumes (Fig. 2h). Though our results indicated that the transcripts of all four OsPIN1 members are maintained at the same levels in osropgef7b-1 and RNAi L31 as those in the wild type (Additional file 1: Figure S5C, D), we could not exclude the possibility that OsRopGEF7B might regulate PIN1 at the posttranscriptional level.
In Arabidopsis, overexpression of RopGEF1 and RopGRF12 affects pollen tube growth (Gu et al. 2006; Zhang and McCormick 2007). Meanwhile, the microarray data from the RiceXPro online database (http://ricexpro.dna.affrc.go.jp/category-select.php) showed that nine out of eleven rice RopGEFs were highly expressed in anther. The OsRopGEF7Bpro:GUS analysis results indicate that OsRopGEF7B is strongly expressed in anther (Fig. 1i-l). However, our data indicated that knock-out or -down of OsRopGEF7B does not affect pollen development (Additional file 1: Figure S3) and pollen tube elongation (Additional file 1: Figure S4), which might be explained by the functional redundancy of OsRopGEF members. Interestingly, we also found that knock-out or -down of OsRopGEF7B markedly influenced plant height, panicle length, and seed setting rates in osropgef7b-1 and RNAi L31 in comparison with wild type (Fig. 5a-i). Taken together, these results suggest that OsRopGEF7B influences rice seed setting partly through mediating floral organ development.
The X-ray structure analysis provided that the catalytic PRONE domain of AtRopGEF8 is found in a ternary complex with Rop4 and GDP (Thomas et al., 2007) and immunity studies have provided evidence that PRONE-type OsRacGEFs may be involved in disease responses through activation of OsRAC1 in rice (Kawasaki et al. 2009; Kawano et al., 2010), and OsRopGEF10 regulates small papillae development through activating OsRAC1 (Yoo et al. 2011). Additionally, yeast two-hybrid assays displayed that OsRAC1 interacts with OsRacGEF1 and OsRacGEF2 via their PRONE domain (Akamatsu et al. 2013, 2015), and the CEBiP/CERK1-OsRacGEF-OsRac1 module plays a major role for early signaling in rice chitin-triggered immunity (Akamatsu et al. 2013). The above-mentioned evidence suggested that OsRopGEFs act at the upstream of OsRACs. Given the interactions between RopGEFs and RACs during various biological processes in the plant cells, we further investigated the relationship between RopGEFs and RACs in rice protoplasts and yeast cells. Expectedly, the BiFC analysis indicated that OsRopGEF7B interacts with all OsRACs at plasma membrane but OsRAC4 which only shows very weak interaction (Figure 6), and the Y2H assay confirmed the results of the BiFC analysis (Figure 7; Additional file 1: Figure S6B). Therefore, it is speculated that RopGEF7B might interact with OsRACs in plant cells. Identifying the exact cooperative roles of OsRopGEF7B and OsRACs will help to further elucidate how RopGEF7B regulates rice floral development.
OsRopGEF7B is predominantly expressed in floral organs, especially in meristem, floral organ primordia, anther, filament and stigma. osropgef7b-1 mutant and RNAi L31 transgenic plants, exhibited increase in the numbers of the inner floral organs (ovary and stamen), generating decrement in seed setting. Meanwhile, OsRopGEF7B strongly interacted with OsRACs except the OsRAC4 which only shows very weak interaction. It suggested that OsRopGEF7B mediates the development of floral organs via activating OsRACs in rice. Understanding the function of OsRopGEF7B gives new clues to further elucidate the development of rice floral organs and has possible application in genetically modified crops.
Plant Materials and Growth Conditions
Rice plants (Oryza sativa cv. Zhonghua11 (ZH11), DongJin, RNAi lines, and osropgef7b-1) were grown under normal field conditions in the rice growing season at the South China Agricultural University, Guangzhou, or grown in a growth chamber under 14-h-light long-day conditions at 28 °C day/night cycles.
Chimeric Gene Construction and Plant Transformation
The OsRopGEF7Bpro:GUS construct was generated by inserting a 3024 bp OsRopGEF7B promoter sequence into pCAMBIA 1305.1 at PstI and NcoI sites. To construct the RNAi vector, a 327 bp fragment of OsRopGEF7B was amplified from the cDNA pool using the primer set OsRopGEF7B-RNAi-F and OsRopGEF7B-RNAi-R, then inserted into the BamHI and HindIII sites (for forward insertion) and the MluI and PstI sites (for reverse insertion) of the pYLRNAi.5 vector with an Ubiquitin promoter provided by Dr. Yao-Guang Liu (Luo et al. 2013). These binary constructs were introduced into Agrobacterium tumefaciens strain EHA105 and were used for rice transformation following a previously described protocol (Li et al. 2011; Liu et al. 2014). Primers for generating these constructs were listed in Additional file 2: Table S1.
RNA Isolation and qRT-PCR Analyses
For analyzing gene expression, total RNA was extracted using the RNeasy plant mini kit (Qiagen). Genomic DNA contamination was removed by RNase-free DNase I treatment. First-strand cDNA was synthesized with Primescript cDNA synthesis kit (TaKaRa) and oligo (dT) primers. qRT-PCR analysis was performed using the synthesized cDNAs and the primers listed in Additional file 2: Table S1. Constitutively expressed OsActin1 (accession No. LOC_Os03g50885) was used as an internal control to which the level of OsRopGEF7B in different tissues was normalized. Data are presented as averages with SD from at least three biological replicates.
Paraffin Section and Microscopy
Rice spikelets were fixed in a fixative solution (50% ethanol, 10% glacial acetic acid and 3.7% formaldehyde) overnight at 4 °C. After dehydration with ethanol in a series of concentrations and infiltration with xylene, the materials were embedded in paraffin (Sigma-Aldrich) as described before (Zhang et al. 2010). Sections of 8 μm in thickness were cut with a microtome and stained with 0.05% toluidine blue. Samples were observed using Nomarski optics on an Olympus BX51 microscope connected to a Ritiga 2000R digital camera.
Pollen in Vivo Germination and Elongation Analyses
To examine the pollen grains, rice mature flowers 1 day prior to anthesis were collected and fixed in 70% (v/v) ethanol and then the pollen grains were stained with I2-KI staining as described by Huang et al. (2014). The pollen grains were counted under a bright field microscope (Olympus BX51) and densely stained pollen grains were counted as fertile pollen grains. For 4′,6-diamidino-2-phenylindole (DAPI) staining, pollen grains from the dehisced anthers were fixed in 3:1 ethanol:acetic acid (EAA) solution for 1 h, then dehydrated and stained with DAPI. The stained pollen grains were observed using a microscope under UV light (Leica DM2500).
To analyze the pollen in vivo germination, rice flowers were emasculated and artificially pollinated. After 30 min, the pistils were collected and directly stained with aniline blue on a glass slide for 2–3 min before observation by fluorescence microscopy (Olympus BX51) as described by Chhun et al. (2007). The pollen tube growth of germinated pollen attached to stigmas was visualized by fluorescence microscopy with CFP channel.
To assay pollen in vivo elongation, at 30 min, 1 h, and 2 h time points following artificial pollination, rice pistils were collected and fixed in EAA solution for 30 min and then softened in 1 N KOH for 30 min at 55 °C. Next, the pistils were washed with PBS buffer for 2 h at room temperature. The samples were observed by fluorescence microscopy (Olympus BX51) with CFP channel. Pollen elongation can be seen in a time-dependent manner (Chhun et al. 2007).
Bimolecular Fluorescence Complement (BiFC) Assay in Rice Protoplasts
To generate the fusion proteins of nYFP-OsRopGEF7B and cYFP-OsRACs, the coding sequences of OsRopGEF7B and OsRACs were inserted into the EcoRI and SalI sites of pSAT6-nEYFP-C1 and pSAT6-cEYFP-C1 vectors (Citovsky et al. 2006), respectively. Both plasmids of 35Spro:nYFP:RopGEF7B, and 35Spro:cYFP:OsRACs were cotransformed into rice protoplasts for BiFC assays. Protoplast isolation and transfection were performed as described by Tao et al. (2005). YFP was visualized by an Olympus BX51 microscope using YFP filter sets: the excitation and emission filters Ex490 to 510 nm/DM515 nm/BA520 to 550 nm (Tao et al. 2005). Primers used for constructing the above-mentioned plasmids were listed in Additional file 2: Table S1 online.
Yeast Two-Hybrid Assay
The full-length coding sequences of OsRopGEF7B and OsRACs were amplified and cloned into pGBKT7 (BD, Clontech) and pGADT7 (AD, Clontech) vectors, respectively. The primers used to generate the Y2H constructs were listed in Additional file 1: Table S1. The constructs were co-transformed by pairs into the yeast stain AH109, and the transformants were selected on synthetic dextrose (SD) medium lacking tryptophan and leucine (SD/−Trp/−Leu) following incubation at 28 °C for 3~ 4 days according to the Yeast Protocol Handbook (Cat. No. 630412, Clontech, Japan). Single co-transformed yeast clones of SD/−Trp/−Leu plates were transferred to SD medium lacking tryptophan, leucine, histidine and adenine (SD/−Trp/−Leu/-His/−Ade) in 10-fold serial dilutions to identify the protein-protein interactions. The positive (pGBKT7–53 / pGADT7-T) and negative (pGBKT7-Lam / pGADT7-T) controls were used. After confirmation that neither autoactivation nor toxicity exists in those yeast cells co-transformed with pGBKT7-OsRopGEF7B and the null pGADT7 vector as well as pGADT7-OsRACs and the null pGBKT7 vector, respectively, the Y2H screening was performed according the procedure in the Yeast Protocol Handbook. The potential protein-protein interactions were confirmed by growing the yeast cells in SD/−Trp/−Leu/-His/−Ade/3-AT plates supplemented with 3 mM 3-AT (3-amino-1,2,4-triazole, Sigma-Aldrich).
All the data represented the average with the standard deviation of the average (SD) from three biological experiments. Significant difference was determined by paired two-tailed Student’s t-tests. P < 0.05 was considered significant.
We thank Yaoguang Liu and Hongquan Yang for providing RNAi and BiFC vectors. We thank Junli Huang for comments on the manuscript and Dongyu Jia for helpful discussion on this work.
This research was supported by grants from the National Natural Science Foundation of China (91535101 and 31600217).
Availability of Data and Materials
All relevant data are provided as figures within the paper.
J H performed the experiments; H L and Y L provide technical assistant to J H; T B discussed and revised the manuscript. L T designed experiments and modified the manuscript; T L designed and performed the experiments and wrote the manuscript. All authors read and approved the final manuscript.
1State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, South China Agricultural University, Guangzhou 510,642, China. 2Guangdong Provincial Key Laboratory of Protein Function and Regulation in Agricultural Organisms, College of Life Sciences, South China Agricultural University, Guangzhou 510,642, China. 3Senckenberg Biodiversity and Climate Research Center, Georg-Voigt-Str. 14–16, D-60325 Frankfurt am Main, Germany.
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