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RESEARCH ARTICLE 1 2
GOLGI TRANSPORT 1B (GOT1B) Regulates Protein Export from 3 Endoplasmic Reticulum in Rice Endosperm Cells 4
5 Yihua Wang,a,1 Feng Liu,c,1 Yulong Ren,b,1 Yunlong Wang,a Xi Liu,a Wuhua Long,a Di 6 Wang,a Jianping Zhu,a Xiaopin Zhu,a Ruonan Jing,a Mingming Wu,a Yuanyuan Hao,a 7 Ling Jiang,a Chunming Wang,a Haiyang Wang,b Yiqun Bao,c and Jianmin Wana,b,2 8
9 a State Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene 10 Engineering Research Center, Nanjing Agricultural University, Nanjing 210095, P.R. China 11 b National Key Facility for Crop Resources and Genetic Improvement, Institute of Crop 12 Science, Chinese Academy of Agricultural Sciences, Beijing 100081, P.R. China c College of 13 Life Sciences, Nanjing Agricultural University, Nanjing 210095, P.R. China 14 1 These authors contributed equally to this work.15 2 Address correspondence to [email protected] or [email protected]. 16
17 Short title: GOT1B Regulates Protein Export from ER 18
19 One sentence summary: GOT1B regulates COPII-mediated protein export from the ER exit 20 sites (ERESs) in developing rice endosperm cells. 21
22 The author responsible for distribution of materials integral to the findings presented in this 23 article in accordance with the policy described in the Instructions for Authors 24 (www.plantcell.org) is: Jianmin Wan ([email protected] or [email protected]). 25
26 ABSTRACT 27 Coat protein complex II (COPII) mediates the first step of anterograde transport of newly 28 synthesized proteins from the endoplasmic reticulum (ER) to other endomembrane 29 compartments in eukaryotes. A group of evolutionarily conserved proteins (Sar1, Sec23, 30 Sec24, Sec13 and Sec31) constitutes the basic COPII coat machinery; however, the details of 31 how the COPII coat assembly is regulated remain unclear. Here, we report a protein transport 32 mutant of rice (Oryza sativa), named glutelin precursor accumulation4 (gpa4), which 33 accumulates 57-kDa glutelin precursors, and forms two types of ER-derived abnormal 34 structures. GPA4 encodes an evolutionarily conserved membrane protein GOT1B (also known 35 as Glup2), homologous to the Saccharomyces cerevisiae GOT1p. The rice GOT1B protein 36 co-localizes with Arabidopsis thaliana Sar1b at Golgi-associated ER exit sites (ERESs) when 37 they are co-expressed in Nicotiana benthamiana. Moreover, GOT1B physically interacts with 38 rice Sec23 and both proteins are present in the same complex(es) with rice Sar1b. The 39 distribution of rice Sar1 in the endomembrane system, its association with rice Sec23c and the 40 ERES organization pattern are significantly altered in the gpa4 mutant. Taken together, our 41 results suggest that GOT1B plays an important role in mediating COPII vesicle formation at 42 ERESs, thus facilitating anterograde transport of secretory proteins in plant cells. 43
44
45
Plant Cell Advance Publication. Published on November 1, 2016, doi:10.1105/tpc.16.00717
©2016 American Society of Plant Biologists. All Rights Reserved
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INTRODUCTION 46
COPII-mediated anterograde transport of newly synthesized proteins from the ER to 47
the Golgi apparatus is a vital cellular process in all eukaryotes so far analyzed 48
(D’Arcangelo et al., 2013; Venditti et al., 2014). Numerous studies of yeast and 49
mammalian cells have suggested a model in which five conserved proteins (Sar1, 50
Sec23, Sec24, Sec13 and Sec31) constitute the basic COPII coat machinery that can 51
fulfill the essential function of vesicle formation (Miller and Barlowe, 2010). The 52
assembly of COPII coat occurs on the ER membrane in a step-wise fashion and is 53
initiated by the small GTPase Sar1 (Secretion-associated and ras-superfamily 54
related1), which is activated by the guanine nucleotide exchange factor Sec12, an 55
ER-localized integral membrane protein (Barlowe and Schekman, 1993). The GTP 56
binding of Sar1 causes a conformational change that exposes its N-terminal 57
amphipathic α-helix, which inserts into the ER membrane to initiate vesicle formation. 58
Membrane-bound activated Sar1 then recruits the heterodimeric cargo adaptor 59
platform Sec23/Sec24 through direct interaction with Sec23, forming the pre-budding 60
complexes. Sec24 discriminates cargo molecules for incorporation into COPII 61
vesicles by recognizing specific ER export signals on diverse proteins (Miller et al., 62
2002, 2003). The membrane-bound inner coat complex Sar1-Sec23-Sec24 in turn 63
recruits the Sec13-Sec31 heterotetramer, which forms the cage-like outer layer of the 64
COPII coat to drive ER membrane curvature and release of the vesicles (Aridor et al., 65
1998; Giraudo et al., 2003; Stagg et al., 2006). Downstream events, including 66
hydrolysis of Sar1 in the completed coat, catalyzed by Sec23 and the outer coat, lead 67
to uncoating of the transport vesicles and recycling of the COPII components (Bi et 68
al., 2002; 2007). 69
In addition to the above five COPII proteins that constitute the minimal COPII 70
coat machinery, several accessory factors that are responsible for modulating coat 71
protein recruitment and COPII vesicle formation at ERESs have been identified, 72
including Sec16, Sec12, Sed4, phosphatidylinositol 4-phosphate (PI4P), p125A and 73
ALG-2 (D’Arcangelo et al., 2013). Another potential regulator of COPII vesicle 74
formation in yeast is GOT1p (Golgi transport1), which is not essential for yeast 75
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growth, but its deletion significantly affects the transport efficiency between the ER 76
and the Golgi compartments in vitro (Conchon et al., 1999). GOT1p is efficiently 77
packaged into in vitro-generated COPII vesicles; however, efforts to demonstrate 78
physical interaction between GOT1p and COPII coat components have failed 79
(Lorente-Rodríguez et al., 2009). Thus, the exact role of GOT1p in the regulation of 80
COPII vesicle-mediated transport remains elusive. 81
Increasing evidence has shown that COPII vesicles also mediate protein export 82
from the ER in plants (Marti et al., 2010). Many of the major molecular players 83
involved in COPII-mediated ER-Golgi trafficking have homologues in plants and 84
seem to play similar roles as their yeast and mammalian counterparts. For example, 85
transient expression of a dominant negative Sar1 (Arabidopsis thaliana Sar1 H74L) 86
mutant in tobacco and Arabidopsis cultured cells leads to retention of two Golgi 87
membrane proteins and a vacuolar storage protein in the ER, indicating a role for Sar1 88
in protein exit from the ER (Takeuchi et al. 2000). A partial loss-of-function mutation 89
in Arabidopsis Sec24A affects the recruitment of Sec24A to ERESs, resulting in the 90
formation of aberrant tubular clusters of ER and Golgi membranes, suggesting that 91
COPII coat proteins are important for maintaining ER and Golgi membrane integrity 92
in relation to ER protein export in plants (Faso et al., 2009). In addition, analysis of an 93
Arabidopsis Sec16A loss-of-function mutant demonstrated that Sec16A is involved in 94
the dynamic association of COPII coat components on the ER as Sec24 and Sec13 95
were found to cycle on and off the ERES at a much faster rate than in wild-type cells 96
(Takagi et al., 2013). Through live-cell imaging analyses, the Arabidopsis COPII 97
components (Sec13, Sec23, Sec24, and Sec31) have been found in punctate structures 98
which are associated with the ER and move with the Golgi stacks when expressed in 99
highly vacuolated leaf epidermal cells (Stefano et al., 2006; Hanton et al., 2007, 2009; 100
Sieben et al., 2008; Wei and Wang, 2008; Faso et al., 2009; Takagi et al., 2013; 101
Tanaka et al., 2013). These COPII coat protein-labeled punctate structures are 102
commonly indicated as ERESs. Notably, Arabidopsis Sar1 has been found at the 103
ERESs but also over the ER network to a variable degree that may depend on the 104
specific Sar1 isoform (Hanton et al., 2008). In rice (Oryza sativa), simultaneous 105
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knockdown of three Sar1 isoforms prevents vacuolar storage proteins from exiting the 106
ER in developing endosperm, suggesting an involvement of COPII vesicles in the 107
early secretory pathway in monocotyledonous plants (Tian et al., 2013). Despite great 108
efforts and advances, our knowledge of the highly regulated process of COPII vesicle 109
formation and its regulation is still limited in plants. 110
Plants generally accumulate large amounts of storage proteins in the seeds, which 111
provide nutrition for seed germination and seedling development. In rice, three types 112
of major storage proteins accumulate in the endosperm including glutelins, prolamins, 113
and α-globulin. The prolamins are retained in the ER lumen after synthesis and are 114
pinched off to form spherical protein bodies I (PBI) (Bechtel and Juliano, 1980; 115
Tanaka et al., 1980; Yamagata and Tanaka, 1986). Glutelins are initially synthesized 116
on the RER as 57-kDa precursors and then transported to the protein storage vacuoles 117
(PSV; also called protein body II [PBII]) through the Golgi apparatus and the dense 118
vesicle (DV)-mediated post-Golgi trafficking pathway (Krishnan et al., 1986; 119
Takemoto et al., 2002; Liu et al., 2013, Ren et al., 2014). The α-globulin is deposited 120
together with glutelins in PBIIs. Only those proglutelins arriving at the PBII/PSV can 121
be cleaved into the mature 40-kDa acidic and 20-kDa basic subunits (Wang et al., 122
2009; Kumamaru et al., 2010). Any defects in the proglutelin trafficking process 123
before reaching the PBII can lead to over-accumulation of the 57-kDa precursor 124
proteins (referred to as the 57H phenotype) in the seeds. Through the studies of 57H 125
mutants, several key factors involved in post-Golgi trafficking of storage proteins 126
have been characterized (Wang et al., 2010; Fukuda et al., 2011, 2013; Liu et al., 2013; 127
Ren et al., 2014). However, how these storage proteins are first exported from the ER 128
remains largely unknown. 129
In this study, we report the functional characterization of the rice gpa4 mutant, 130
which over-accumulates proglutelins in the mature seeds. We show that GPA4 131
encodes an evolutionarily conserved membrane protein GOT1B, homologous to the 132
Saccharomyces cerevisiae GOT1p, a protein known to be involved in vesicular 133
trafficking. When expressed in N. benthamiana, rice GOT1B co-localizes with 134
ArabidopsisSar1b at the ERESs. Yeast two-hybrid hunting identified rice Sec23, a key 135
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component of the minimal COPII coat machinery, as an interacting partner of GOT1B. 136
Through a series of biochemical and cellular studies, we concluded that GOT1B is 137
associated with Sec23c and Sar1b in protein complexes in vivo and plays an 138
important role in the proper assembly of the COPII pre-budding complex at the ERES 139
sites, thus affecting anterograde transport of secretory proteins (from ER to Golgi) in 140
plant cells. Further, we present evidence that this mechanism is likely to be conserved 141
across the eukaryotic kingdom. 142
143
144
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RESULTS 145
The gpa4-1 Mutant Has a Defect in Vacuolar Protein Trafficking 146
As part of our continuing efforts to dissect the vacuolar sorting mechanisms of seed 147
storage proteins in rice, we isolated two allelic 57H mutants named gpa4-1 (in the 148
indica variety 9311 background) and gpa4-2 (in the japonica variety Kinmaze 149
background). Phenotypic characterization was performed with gpa4-1 (which carries 150
a loss-of-function mutation, see below). In contrast to the transparent wild-type seeds, 151
gpa4-1 seeds appeared floury (Figure 1A). Scanning electron microscopy (SEM) 152
analysis revealed that the gpa4-1 endosperm comprised round and loosely packaged 153
compound starch granules instead of the tightly packaged, crystal-like structures 154
found in the wild type (Figure 1B and 1C). Meanwhile, the 1,000-grain weight was 155
significantly reduced in the gpa4-1 mutant (Figure 1D; Supplemental Table 1). 156
Interestingly, compared with the wild type, gpa4-1 accumulated a higher amount of 157
57-kDa proglutelins, accompanied by a significant reduction of the 40-kDa acidic and 158
20-kDa basic subunits of the mature glutelins as well as the 26-kDa α-globulin. 159
Prolamins of 16-kDa and 13-kDa were both notably decreased as well (Figure 1E and 160
1F). Immunoblots with isoform-specific antibodies revealed increased accumulation 161
of proglutelins for the major glutelin subfamilies (GluA and GluB). Moreover, the 162
precursor of vacuole-localized VPE1 was also greatly elevated in gpa4-1 (Figure 1G; 163
Wang et al., 2009). These results suggest that gpa4-1 is defective in the vacuolar 164
trafficking pathway. 165
In the wild-type seeds, most of the storage proteins started to accumulate from 166
about 6 d after flowering (DAF), but the storage proteins became detectable in gpa4-1 167
only at about 9 DAF (Supplemental Figure 1). The expression levels of the 168
representative genes encoding major storage proteins were all lower in the 12 DAF 169
endosperm of gpa4-1 compared to that of the wild type (Supplemental Figure 2), 170
which is consistent with a lower protein content in the gpa4-1 mature seeds 171
(Supplemental Table 1). These results suggest that the gpa4-1 mutant is also defective 172
in storage protein biosynthesis. 173
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174
The gpa4-1 Mutant Shows Defects in Protein Export from the ER in Developing 175
Endosperm Cells 176
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As live-cell imaging is not feasible in developing seeds, we compared storage protein 177
trafficking in the subaleurone layers of the gpa4-1 mutant to that of wild type. 178
Semi-thin sections (0.5 μm) of 12 DAF endosperm were subjected to coomassie 179
brilliant blue (CBB) staining. Two types of protein bodies were readily observed in 180
the wild type: dark-stained irregular-shaped PBIIs (contain glutelins and α-globulin) 181
and light-stained round-shaped PBIs (contain prolamins) (Figure 2A). In gpa4-1, the 182
section area of the corresponding dark-stained structures was much smaller than that 183
in 9311, and the mutant had many fewer light-stained spherical structures of normal 184
size (~1-2 µm in the wild type) (Figure 2A and 2B). This observation was further 185
supported by immunofluorescence assays with specific antibodies against prolamins 186
and glutelin acidic subunits (Figure 2G and 2H), suggesting that the gpa4-1 mutation 187
affects the formation of both types of protein bodies. 188
Notably, in addition to the typical PBIs and PBIIs, novel structures with a glutelin 189
core and a prolamin periphery were observed in the developing mutant endosperm 190
(Figure 2C and 2D). Moreover, α-globulin was also detected in the cores (Figure 2E 191
and 2F). As prolamins, glutelins, and α-globulin are all co-translationally transported 192
into their only co-localization site, the RER lumen, we deduced that the abnormal 193
structures might reflect a defect in ER export of storage proteins in rice endosperm. 194
To trace the origin and the formation of these novel structures, transmission 195
electron microscopy (TEM) and immunogold-labeling assays were adopted for 196
subcellular observation. In 12 DAF wild-type endosperm, individual irregular-shaped 197
PBIIs and spherical PBIs were readily observed (Figure 3A), whereas novel structures 198
were found only in gpa4-1 (Figure 3B). These structures were bounded by and 199
attached to the RER network, indicating that they were ER-derived (Figure 3B to 3E). 200
In 9 DAF endosperm, most of these structures had just a small electron-dense core 201
(Figure 3B). Only a few larger ones had protein aggregates in the peripheral regions 202
(Figure 3C). The structures continued to be filled with storage proteins as seed 203
development progressed and they finally grew into the typical structures of 1-2 µm in 204
diameter with an electron-dense core surrounded by large amounts of protein 205
aggregates with low electron density (Figure 3D). At 12 DAF in gpa4-1 endosperm, 206
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numerous PBI-like structures with an average diameter of 336.8 nm (± 54.2; n = 20 207
cells) were observed. These structures were bounded by and linked to the RER 208
membranes as well, indicating an ER origin (Figure 3F). 209
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Immunogold labeling analysis showed that in the first novel structure, the core 210
contained glutelins whereas its periphery contained prolamins (Figure 3G and 3H), 211
consistent with the immunofluorescence observations (Figure 2D). The second novel 212
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structure contained prolamins like PBI (Figure 3I). Together, these observations 213
suggest that the export of all three types of storage proteins from the ER was 214
compromised, resulting in protein retention in the ER lumen and subsequent 215
formation of two types of abnormal structures. Consistent with the above results, 216
centrifugation-based fractionation assay showed that gpa4-1 accumulated more 217
storage proteins and VPE1 precursor in the P13 fraction (enriched in ER membranes) 218
compared with the wild type (Supplemental Figure 3). Moreover, chaperone proteins 219
like Bip1, PDIL1-1, and Hsp90 accumulated and the expression of all the ER 220
stress-related genes analyzed was significantly higher in 12 DAF endosperm of the 221
gpa4-1 mutant. 222
223
GPA4 Encodes a Conserved Membrane Protein Homologous to Yeast Got1p 224
The gpa4-1 mutant was isolated from a 60Co-irradiated population of indica cultivar 225
9311. Genetic analysis revealed that the mutant phenotype was inherited as a single 226
nuclear recessive mutation (Supplemental Table 2). Through map-based cloning, the 227
GPA4 locus was delineated to a 49-kb genomic region (Figure 4A). Sequence analysis 228
revealed that a 108 bp-fragment was deleted in the coding region of Os03g0209400. 229
Only the first 10 amino acids might be correctly translated in gpa4-1. In gpa4-2, a 230
single nucleotide substitution in the 3rd exon of Os03g0209400 caused the 231
replacement of the highly conserved Gly-47 with Asp. Thus, gpa4-1 most likely 232
represents a null mutant of Os03g0209400, while gpa4-2 is likely a partial 233
loss-of-function mutant (Figure 4B). Complementation tests with the entire coding 234
region of Os03g0209400 driven by the Ubiquitin promoter showed complete rescue 235
of the mutant phenotype, including the floury endosperm appearance, storage protein 236
composition, and storage protein deposit pattern in the subaleurone cells of 237
developing endosperm (Figure 4C to 4F). Therefore, we conclude that Os03g0209400 238
is the underlying gene for GPA4. Notably, a recent study reported that Os03g0209400, 239
which encodes GOT1B, is also the underlying gene for the glup2 mutation (Fukuda et 240
al., 2016). For simplicity, we term this gene GOT1B hereafter. 241
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242
RT-qPCR analysis revealed that the endogenous GOT1B was expressed in all 243
tissues examined, with relatively higher expression in the endosperm and young 244
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panicles (Figure 4G). During endosperm development, the expression of GOT1B was 245
lower at the early stage, peaked at ~15 DAF, and then decreased at 18 DAF, which 246
was correlated with the accumulation of storage proteins (Figure 4H). The rice 247
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genome has two other genes (Os10g0337600 and Os02g0602800) homologous to 248
GOT1B (Figure 5A). The Os10g0337600 protein shares 91% sequence similarity with 249
GOT1B. Unexpectedly, instead of compensating for the loss of GOT1B, the 250
expression of Os10g0337600 was greatly down-regulated in gpa4-1 developing 251
endosperm (Figure 4I). 252
GOT1B was predicted to encode a polypeptide of 140 amino acid residues with a 253
calculated molecular mass of 15.8-kDa and four transmembrane domains (TMDs). 254
Phylogenic analysis showed that GOT1B is conserved in eukaryotes and homologous 255
to yeast GOT1p and human GOT1 (hGOT1A and hGOT1B) (Figure 5A and 5B). To 256
analyze the membrane association of GOT1B, cDNA sequence of GOT1B without 257
any tags was subcloned into a binary vector and transiently expressed in N. 258
benthamiana leaf epidermal cells. We used tonoplast-localized rice Tip3-1 as a 259
positive control (Takahashi et al., 2004). After centrifuging cell homogenates at 260
100,000g, both GOT1B and Tip3-1 could be efficiently pelleted, and could not be 261
extracted with sodium chloride or sodium carbonate, but could be solubilized by 262
Triton X-100, confirming their membrane-inserted nature (Figure 5C). To determine 263
the topology of GOT1B, a protease digestion assay was performed using the 264
microsomal pellets prepared from N. benthamiana leaves transiently expressing 265
GFP-GOT1B and GOT1B-GFP. Regardless of the presence or absence of a detergent, 266
the N- and C-terminal GFP tags were completely digested (Figure 5D and 5E), 267
suggesting that both termini of GOT1B are cytoplasmically exposed (Figure 5F). 268
269
GOT1B Is Localized to the Golgi-associated ER Exit Sites To determine the 270
subcellular localization of GOT1B, two fusion constructs (GFP-GOT1B and 271
GOT1B-GFP) under the control of GOT1B native promoter were transformed into the 272
gpa4-2 mutant. Strikingly, only the GFP-GOT1B construct showed rescue of the 273
mutant phenotype (Supplemental Figure 4). From these results, we concluded that the 274
GFP-GOT1B fusion protein is biologically functional in vivo and, thus, should be 275
present at its correct subcellular localization. Then we observed the fluorescence of 276
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GFP-GOT1B in the roots of the complemented rice lines. The GFP signal showed a 277
punctate pattern rather than the ER-like tubular structures (Supplemental Figure 5A). 278
When expressed in N. benthamiana leaf epidermal cells, GFP-GOT1B was localized 279
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in dynamically moving punctate structures (Supplemental Movie 1), but faint signals 280
in the ER networks were observed in cells with higher expression levels 281
(Supplemental Figure 5B and 5C). To determine the nature of these punctate 282
structures, GFP-GOT1B was co-expressed with several fluorescent markers 283
characteristic for the ER (mRFP-HDEL; for monomeric red fluorescence protein), 284
ERES (AtSar1b-mRFP, Hanton et al., 2008), cis-Golgi (GmMan1-mRFP, Ren et al., 285
2014), trans-Golgi (ST-mRFP, Saint-Jore et al., 2002), and the trans-Golgi networks 286
(mRFP-SYP61, Ren et al., 2014) in N. benthamiana leaf epidermal cells (Figure 6A 287
to 6E). Confocal microscopy analysis revealed strong correlation between 288
GFP-GOT1B and the ERES marker signals (rs = 0.776) (Figure 6B; French et al., 289
2008), and relative weaker correlation with the Golgi markers (rs = 0.532 and 0.524 290
for cis-Golgi and trans-Golgi, respectively) (Figure 6C and 6D). Therefore, 291
GFP-GOT1B is mainly localized at the ERESs and is associated with Golgi stacks. 292
This localization pattern suggests the presence of sorting signals in GOT1B 293
terminal regions. To identify the possible signals, we generated a series of N- and 294
C-terminal deletion and site-directed mutagenesis constructs and examined their 295
localizations in N. benthamiana leaf epidermal cells (Supplemental Figure 6A). GFP 296
fusions of three N-terminal mutant constructs (ΔN2-10, ΔN5-10, and V2A F4A,) 297
were mainly localized to the ER tubule networks except the construct ΔN5-10 298
(Supplemental Figure 6B to 6D). Similarly, GFP fusions of three C-terminal mutant 299
constructs (ΔC125-140, ΔC125-133, and V138G V140G) were fully retained in the 300
ER except ΔC125-133 (Supplemental Figure 6E to 6G). Thus, GOT1B protein 301
possesses sorting signals at both termini. The N-terminal VSF and the C-terminal 302
RGKRVPV residues are essential for its proper localization. 303
Previous studies have demonstrated that Golgi markers and COPII components 304
are sensitive to Brefeldin A (BFA) treatment, which inhibits COPI-mediated 305
retrograde transport and ultimately disassembles the Golgi apparatus. Upon BFA 306
treatment, the distribution of COPII components is significantly changed; Nt-Sar1 is 307
redirected to the ER, while At-Sec13 and At-Sec24 are released into the cytosol 308
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(Brandizzi et al., 2002; daSilva et al., 2004; Yang et al, 2005; Hanton et al., 2009). 309
We observed that upon BFA treatment, the fluorescence of GmMan1-mRFP (a 310
cis-Golgi marker) was completely redirected to the ER as expected. Interestingly, the 311
punctate-localized GFP-GOT1B gradually changed to a typical ER pattern within 312
40-45 min (Figure 6F), indicating that GFP-GOT1B is also sensitive to BFA 313
treatment, like COPII components and Golgi markers. This observation lent further 314
support to the notion that GOT1B might play a role in COPII-mediated ER-Golgi 315
protein transport. 316
317
GOT1B Directly Interacts with the COPII Component Sec23 318
COPII-mediated vesicle trafficking is essential for ER-Golgi anterograde protein 319
transport in all eukaryotes so far analyzed (Marti et al., 2010; Miller and Barlowe, 320
2010; D'Arcangelo et al., 2013; Venditti et al., 2014). The phenotypic characterization 321
and the specific subcellular localization suggest a possible relationship between 322
GOT1B and the COPII system. Thus, we performed a yeast two-hybrid (Y2H) study 323
between GOT1B and the five basic components of COPII coat as well as Sec12 and 324
Sec16. We found that GOT1B could interact with Sec23c, but not other COPII 325
components (Figure 7A and Supplemental Figure 7A). As GOT1B encodes an integral 326
membrane protein, we next used a split-ubiquitin based yeast two-hybrid system to 327
verify this interaction (Johnsson and Varshavsky, 1994). In this assay, GOT1B clearly 328
interacted with both Sec23b and Sec23c. The interaction between GOT1B and Sec23a 329
could not be clearly determined because of the self-activation activity of pBT3-N- 330
GOT1B (Supplemental Figure 7B). In the subsequent in vivo bimolecular 331
fluorescence complementation (BiFC) assay in N. benthamiana leaf epidermal cells, 332
GOT1B was found to interact with all three Sec23 isoforms (Figure 7B and 333
Supplemental Figure 7C). 334
As Sec23c had the highest expression level in endosperm (Supplemental Figure 335
7E), we focused on verifying the GOT1B -Sec23c interaction in vivo. We raised 336
specific antibodies against these proteins (Supplemental Figure 8) and used them in 337
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co-immunoprecipitation (Co-IP) assay with total extract of developing endosperm 338
(Figure 7C). In wild type, Sec23c protein was immunoprecipitated by the anti- 339
GOT1B antibodies, while in the gpa4-1 mutant, no Sec23c protein was pulled down 340
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by the same antibodies (Supplemental Figure 7D). The yeast GOT1p and human 341
GOT1 could also interact with their corresponding Sec23 partner in the Y2H assay. 342
Further, the GOT1 proteins from all three species (human, rice, and yeast) could 343
interact with rice Sec23c (Supplemental Figure 7F). In addition, yeast GOT1 could 344
rescue the mutant phenotypes of gpa4-2 (Supplemental Figure 9). These observations 345
suggest that GOT1B performs a highly conserved role in eukaryotes. 346
To further confirm that GOT1B is involved in the COPII system, we performed 347
Co-IP in the 12 DAF endosperm extract of wild type using anti-Sar1b antibodies. 348
Interestingly, both Sec23c and GOT1B were co-immunoprecipitated (Figure 7D), 349
indicating that these three proteins were present in the same complex(es) in vivo. 350
Notably, the migration of the Sec23c immunoprecipitated by anti- GOT1B and 351
anti-Sar1b antibodies was a little slower than that in the total extracts (Figure 7C and 352
7D), suggesting that Sec23c might be subject to post-translational modification and 353
that the modified Sec23c might be the preferred binding partner for GOT1B and 354
Sar1b. Immunoblot analysis with anti-phosphorylation antibodies showed that the 355
larger band was a phosphorylated form of Sec23c in both IP samples (Figure 7E). 356
This result is consistent with the earlier finding that yeast Sec23p is a phosphoprotein 357
(Lord et al., 2011). 358
359
The Distribution Patterns of Sar1 and ERESs Are Affected in the gpa4-1 Mutant 360
Previous studies have suggested that yeast GOT1p likely participates in the budding 361
step of COPII vesicles (Lorente-Rodríguez et al., 2009). To examine the possible 362
defects of COPII vesicle formation in the gpa4 mutant, we first prepared the 363
microsomal and soluble fractions from endosperm of wild type and gpa4-1. Although 364
the amounts of membrane-associated fractions of endogenous Sec12b, Sar1b, Sar1c, 365
and Sec23c showed no significant difference between the wild type and gpa4-1 366
(Figure 8A and 8B), the distribution of the Sar1 proteins in the endomembrane system 367
was affected; more Sar1b and Sar1c accumulated in the P13 fraction of the gpa4-1 368
mutant compared with the wild type (Figure 8C and Supplemental Table 3), while the 369
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distribution of Sec23c showed no obvious change. Previous studies have shown that 370
Sar1 is mainly localized to the ERESs in plant cells (Hanton et al., 2008). The altered 371
distribution of Sar1 proteins in endomembrane system might affect the formation or 372
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distribution of ERESs. To directly test this, the ERES maker AtSar1b-GFP was 373
transformed into wild type and the gpa4-2 mutant. Expression of AtSar1b-GFP in rice 374
did not notably affect rice growth and development (Supplemental Figure 10 and 375
Supplemental Table 4). In wild-type root cells, most of the fluorescence of 376
AtSar1b-GFP was dispersed throughout the cytoplasm, with only some sporadic 377
punctate ERES structures. In the gpa4-1 mutant, AtSar1b-GFP showed a typical, more 378
concentrated punctate pattern (Figure 8D). These results suggest that more rice Sar1 379
proteins might be associated with the ERESs, which is consistent with the above 380
fractionation assay result. Further, co-IP assays showed that less Sec23c, but more 381
proglutelin protein was pulled down by anti-Sar1b antibodies in the gpa4-1 mutant 382
than that in the wild type (Figure 8E). These observations together support the notion 383
that GOT1B plays an important role in the formation of COPII vesicles at the ERESs 384
and proper sorting of proglutelins from the ER to the Golgi. 385
386
387
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DISCUSSION 388
gpa4 Is Defective in Storage Protein Exit from the ER 389
In this study, we isolated a rice glutelin precursor accumulation mutant named gpa4-1, 390
which is allelic with the recently reported glup2/got1b mutant (Fukuda et al., 2016). 391
Our cytological, immunocytochemical, and biochemical studies showed that export of 392
storage proteins from the ER is significantly repressed, resulting in the retention of 393
these proteins in the ER lumen in gpa4-1 endosperm cells and formation of two novel 394
types of ER-derived abnormal structures. These structures are quite different to those 395
observed in previously reported 57H mutants in which the 57-kDa proglutelins are 396
over-accumulated. The esp2 mutant, resulted from the knockout of PDIL1-1, develops 397
large amounts of ER-derived small PBI-like vesicles containing cross-linked glutelins 398
and prolamins in developing endosperm (Kumamaru et al., 2002). The w379/glup3 399
mutants, both resulted from mutation of VPE1, develop round-shaped PBII (Wang et 400
al., 2009; Kumamaru et al, 2010). While the other three mutants defective in 401
post-Golgi trafficking, gpa1/glup4/osrab5a, gpa2/glup6/osvps9a, and gpa3, all 402
develop large amounts of protein granules and paramural bodies (PMB) in the 403
apoplast (Wang et al., 2010; Fukuda et al., 2011, 2013; Liu et al., 2013; Ren et al., 404
2014). Moreover, PDIL1-1 functions in the ER lumen, and VPE1 plays a role in 405
PSV/PBII, while GPA1, GPA2, and GPA3 form a complex that is present in the 406
trans-Golgi networks and prevacuolar compartments. The localizations of these 407
proteins are quite different from that of GOT1B. Thus, gpa4 represents a novel type 408
of 57H mutant in rice. 409
Notably, the first type of abnormal structure in gpa4-1 was very similar to the 410
MAG bodies observed in the Arabidopsis mag2, mag4, and mag5 mutants (Li et al., 411
2006; Takahashi et al., 2010; Takagi et al., 2013). Each of these MAG bodies contains 412
an electron dense core (composed of 2S albumin) and a peripheral matrix region 413
(composed of 12S globulin). In Arabidopsis, MAG2 interacts with two ER-localized 414
t-SNAREs (target-soluble NSF [N-ethylmaleimide-sensitive fusion protein] 415
attachment protein receptor), Sec20 and Ufe1 (Li et al., 2006). MAG4 is a 416
- 23 -
Golgi-localized tethering factor which has domains homologous to those found in 417
bovine vesicular transport factor p115 (Takahashi et al., 2010). MAG5 is the ortholog 418
of the Saccharomyces cerevisiae and Homo sapiens Sec16, which is localized to the 419
cup-shaped ERESs and regulates COPII turnover (Takagi et al., 2013). These three 420
factors all function in protein export from ER and are related to the COPII vesicles. 421
The high phenotypic similarity between gpa4-1 and the mag mutants suggests that the 422
protein trafficking defect in gpa4-1 is likely associated with the COPII system. 423
Consistent with this notion, simultaneous knockdown of rice Sar1a/b/c results in 424
almost the same phenotype as observed in the gpa4-1 mutant (Tian et al., 2013). In 425
addition, the blocking of large amounts of storage proteins in the ER lumen may 426
affect the normal function of ER, which probably in turn affects the biogenesis of 427
PBIs, resulting in the formation of the second type of small PBI-like structures 428
(immature PBIs) in the gpa4-1 mutant. 429
430
GOT1B Encodes a Golgi-associated ERES-localized Membrane Protein 431
Cloning and characterization of GPA4 revealed that it encodes GOT1B, which is 432
homologous to the yeast and human GOT1 with four TMDs. Both termini face to the 433
cytosol. The structure and topology of GOT1B is highly conserved relative to the 434
yeast GOT1p (Conchon et al., 1999; Lorente-Rodríguez et al., 2009). However, 435
earlier studies have reported conflicting subcellular localization of yeast GOT1p. 436
Conchon et al. (1999) demonstrated that both GOT1p and human GOT1A (hGOT1A) 437
show a punctate pattern overlapping with the cis-Golgi apparatus. Further subcellular 438
fractionation assays confirmed their cis-Golgi localization. Notably, a faint ER-like 439
staining was also observed for hGOT1A, in addition to the punctate pattern. However, 440
Huh et al. (2003) showed that a C-terminally GFP-tagged GOT1p (GOT1p-GFP) is 441
localized to the ER. In a recent study, it was proposed that GOT1p may cycle between 442
the ER and the Golgi compartments (Lorente-Rodríguez et al., 2009). In this study, 443
we showed that the biologically functional GFP-GOT1B fusion protein indeed 444
exhibited a typical punctate localization pattern in the root cells of the complemented 445
- 24 -
transgenic lines. This fusion protein is predominantly localized at the 446
AtSar1b-mRFP-labeled ERESs with faint signals in the ER when transiently 447
expressed in N. benthamiana leaf epidermal cells (Figure 6 and Supplemental Figure 448
5), and still shows relatively high correspondence (rs > 0.5) with Golgi markers. Thus, 449
our result seems to support the ER-Golgi secretory unit model, in which ERESs are 450
associated with mobile Golgi stacks (daSilva et al., 2004). The interaction between 451
GOT1B and Sec23c and their coexistence with Sar1b further support this localization 452
pattern. Based on these results, we conclude that GOT1B is predominantly localized 453
at the Golgi-associated ERESs, and likely plays a role in COPII-mediated anterograde 454
protein transport from the ER to the Golgi. 455
456
GOT1B likely Participates in Regulating the Assembly of COPII Pre-budding 457
Complexes in vivo 458
Yeast Got1p was initially identified in a synthetic lethal screen with sft2Δ and was 459
proposed to be involved in the fusion of uncoated COPII vesicles to the Golgi 460
(Conchon et al., 1999). However, later studies found the trafficking defects of the 461
original got1p strain could be due to additional mutation(s) in the mutant background 462
(Lorente-Rodríguez et al., 2009). GOT1 was also isolated as a strong suppressor of 463
thermosensitive allele of yip1-2 (Lorente-Rodríguez et al., 2009). Yip1p is an 464
evolutionarily conserved, essential 35.5-kDa integral Golgi membrane protein 465
functioning in COPII budding in the membrane scission stage (Matern et al., 2000; 466
Heidtman et al., 2005). Meanwhile, multicopy GOT1 is a suppressor of genes 467
involved in vesicle formation rather than those participating in vesicle tethering, 468
fusing, and retrograde transport. Moreover, in vitro assays showed that GOT1p can be 469
packaged into COPII vesicles (Lorente-Rodríguez et al., 2009). These results together 470
suggest that GOT1p likely participates in the assembly or budding stage of COPII 471
vesicles. 472
In this study, using a combination of Y2H, BiFC and co-IP assays, we showed 473
that GOT1B specifically interacts with rice Sec23 isoforms (Figure 7A to 7C). We 474
- 25 -
also showed that the yeast, human counterparts of GOT1B can physically interact 475
with their corresponding Sec23 proteins (Supplemental Figure 7F). Our co-IP assays 476
further showed that Sar1b, GOT1B, and Sec23c are present in the same complex(es) 477
in vivo (Figure 7D). These observations together suggest that GOT1B likely functions 478
before the budding of COPII vesicles, as Sar1 hydrolyzes its bound GTP and 479
dissociates from the membrane once the COPII vesicle is released. The altered 480
fractionation pattern of the pre-budding complex components (Sar1b and Sar1c) and 481
the lower amount of modified Sec23c protein immunoprecipitated by anti-Sar1b 482
antibodies in the gpa4 mutant (Figure 8A to 8C and 8E) also support the notion that 483
GOT1B functions in COPII vesicle formation, probably participating in the regulation 484
of the formation or stability control of the pre-budding complex of the COPII coat. In 485
further support of this, we observed distinct patterns of ERESs in the wild type and 486
gpa4 (Figure 8D). The dispersed distribution of ERESs in wild type might be due to 487
the rapid recycling of COPII vesicles between the ER and the Golgi apparatus, while 488
in the mutant, the recycling of COPII vesicles is likely disrupted, causing blockage of 489
COPII components as well as proglutelins (cargos) in the ERESs. 490
Based on the above results, we propose a speculative model for GOT1B in COPII 491
coat assembly. As GOT1B itself is localized to the ERESs, it may work together with 492
Sar1 to facilitate the recruitment of the Sec23/Sec24 heterodimer to form the 493
pre-budding complexes in which cargos have been preloaded. Then the Sec13/Sec31 494
heterotetramer is recruited to form the outer coat of the COPII vesicles before vesicle 495
budding and subsequent fusion with the cis-Golgi apparatus (Figure 8F). In the 496
gpa4-1 mutant, the absence of GOT1B protein may reduce the binding strength or 497
efficiency between Sar1 and the Sec23/Sec24 heterodimer, resulting in the instability 498
of the pre-budding complexes and defective COPII vesicle formation. The assembly 499
deficiency of COPII vesicles may in turn affect the recycling of COPII coat components, 500
leading to blockage of COPII coat components in the ERESs. 501
The COPII system is highly conserved in eukaryotes for anterograde protein 502
transport, and defects in this system cause many types of diseases in human (Miller et 503
al., 2013). Our results reveal the in vivo function of GOT1B in regulating 504
- 26 -
COPII-mediated secretory protein trafficking and provide evidence that GOT1B 505
might function in regulating the formation or stability of the COPII pre-budding 506
complexes. However, earlier studies have shown that COPII vesicle budding can be 507
reconstituted in vitro in the absence of Got1p (Matsuoka et al., 1998); thus, it is 508
possible that GOT1B may function as a modulator to facilitate COPII coat formation 509
rather than being a stoichiometric subunit of the COPII coat. Notably, a recent study 510
reported that prolamin mRNA sorting is defective in the glup2/got1B mutant and that 511
GOT1B is required for localization of prolamin and α-globulin RNAs to the protein 512
body-ER and for efficient export of proglutelin and α-globulin proteins from the ER 513
to the Golgi apparatus (Fukuda et al., 2016). The identification and functional studies 514
of GOT1B now pave the way for further investigating the detailed biophysical 515
mechanisms of COPII vesicle formation and its regulation in eukaryotes. 516
517
518
- 27 -
METHODS 519
Plant Materials and Growth Conditions 520
Two allelic gpa4 mutants, named gpa4-1 and gpa4-2, were isolated in this study. 521
gpa4-1 was isolated from a 60Co-irradiated M2 population of the indica rice (Oryza 522
sativa) cultivar 9311. gpa4-2 was isolated from an MNU-treated M2 population of the 523
japonica rice cultivar Kinmaze. Both mutants were backcrossed at least three times 524
with their corresponding wild type to remove other mutation sites. All plants were 525
grown in paddy fields during normal growing seasons or in a greenhouse. 526
Protein Extraction from Rice Seeds and Immunoblot Analysis 527
Total protein extraction and immunoblot assays were performed as described 528
previously (Wang et al., 2010; Liu et al., 2013; Ren et al., 2014). 529
Map-based Cloning 530
To map the GPA4 locus, an F2 population derived from the cross between the gpa4-1 531
mutant (indica) and a japonica variety Nipponbare was developed. In this population, 532
total proteins were extracted form one half of an individual F2 seed and resolved by 533
SDS-PAGE gel to monitor the accumulation of proglutelins. Meanwhile, the other 534
half of the identified mutant seed with embryo was grown for DNA isolation. In total, 535
1155 recessive individuals were used for fine mapping of GPA4. The primers used in 536
fine mapping are listed in Supplemental Table 5. 537
Microscopic Observation 538
The immunofluorescence analyses, scanning electron microscopy, transmission 539
electron microscopy, and subsequent immunogold labeling experiments were 540
performed as described previously (Wang et al., 2010; Liu et al., 2013; Ren et al., 541
2014). 542
Phylogenetic Analysis 543
Homologs of rice GOT1B were identified using the BLASTP search program of the 544
- 28 -
National Center for Biotechnology Information (http://www.ncbi.nlm.nih.gov). The 545
phylogenetic tree was constructed using MEGA 5.0 (http://www.megasoftware.net), 546
based on the neighbor-joining method with the following parameters: p-distance 547
model, pairwise deletion and bootstrap (1000 replicates; random seed). 548
Antibodies 549
Synthetic peptides of GOT1B (Os03g0209400, TSFLDRYRGKRVPV), GluA1 550
(Os01g0762500, RRGSPRECRFDR), GluB1 (Os02g0249800, SQSQKFRDEHQK), 551
α-globulin (Os05g0499100, CEGSSSEQGYYGEGS), 10-kDa prolamin 552
(Os03g0766100, Pro10, TLAMGTMDPCRQ), 13-kDa prolamin-a (Os07g0206400, 553
Pro13a, RFDPLSQSYRQY), 13-kDa prolamin-b (Os07g0219300, Pro13b, 554
QLRNNQVLQQLR), 16-kDa prolamin (Os06g0507200, Pro16, EQSRRLQLSSCQ), 555
PDIL1-1 (Os11g0199200, CKAESAPAEPLKDEL), Sar1c (Os06g0225000, 556
PTQHPTSEELSIGRC), and Tip3-1 (Os10g0492600, RPGRRFTVGRSEDAC) were 557
synthesized. Recombinant proteins of Sec12b (Os11g0610700, 1-227AA), Sar1b 558
(Os01g0338000, 1-193AA), Sec23c (Os11g0433500, 1-366AA), Bip1 559
(Os02g0115900, 461-665AA), and VPE1 (Os04g0537900, 24-497AA) were 560
bacterially produced in pET-32a and purified. The synthetic peptides or recombinant 561
proteins were injected to rabbits or mice to generate corresponding polyclonal 562
antibodies or monoclonal antibody at Yingji Biotech Co. LTD 563
(http://www.immunogen.com.cn/). The anti-EF-1α antibodies were purchased from 564
Agrisera (As111633, lot 1209). The Anti-Hsp90 antibodies were purchased from BGI 565
(AbM51099-31-PU, lot 2012022301). Antibodies of phosphorylation were purchased 566
from Abcam (ab17464, lot GR276547-1). The anti-GFP antibodies were purchased 567
from Roche (11814460001, lot 14717400). All the antibodies were used in 1:1000 568
dilutions in immunoblot analyses. 569
570
Yeast Two-Hybrid Assay 571
The cDNA of GOT1B was cloned into pGBT9, while the coding regions of the COPII 572
- 29 -
components were cloned into pGADT7 by Clontech In-Fusion HD® Cloning Kit 573
(639650). Various combinations of plasmids were co-transformed into the yeast strain 574
AH109 for interaction study, following the manufacturer’s instructions. 575
The split ubiquitin based DUAL hunter starter kit was purchased from 576
Dualsystems Biotech (P01601-P01609). The cDNA of GOT1B was cloned into 577
pBT3-N, while the coding regions of the rice Sec23 isoforms were cloned into 578
pPR3-N. Corresponding plasmids were co-transformed into the yeast strain NMY51 579
following the manufacturer’s instructions. Primers used in this assay are listed in 580
Supplemental Table 5. 581
RT-qPCR Analysis 582
Total RNA was isolated using the RNA prep pure plant kit (TIANGEN, Beijing, 583
China). The first-strand cDNA was synthesized using Oligo (dT)18 as the primer, and 584
PrimeScript Reverse Transcriptase (TaKaRa, Dalian, China) for reverse transcription. 585
Rice Ubiquitin (UBQ) was used as an internal control. Real-time PCR analysis was 586
performed using an ABI 7500 real-time PCR system with the SYBR Green Mix 587
(Bio-Rad, Hercules, CA, USA) and three biological repeats (three plants grown 588
separately). Primers used in this assay are listed in Supplemental Table 5. 589
Subcellular Fractionation 590
The wild-type and the gpa4-1 developing endosperm were used for fractionation as 591
described previously with some modifications (Tamura et al., 2005). At 12 DAF, 592
developing endosperm was homogenized in a mortar on ice in a triple volume of 593
buffer A (100 mM HEPES-KOH, pH 7.5, 0.3 M Sucrose, 5 mM EGTA, 5 mM MgCl2, 594
and protease inhibitor [complete cocktail tablets; Roche]). The homogenate was 595
filtered through cheesecloth and centrifuged at 50g for 20 min to remove starch. The 596
supernatant was further centrifuged at 2000g for 20 min at 4oC to obtain the 597
supernatant (S2) and pellet fractions (P2). Then the S2 fraction was further 598
centrifuged at 1,3000g and 100,000g to obtain the P13, P100, and S100 fractions for 599
immunoblot analysis. 600
- 30 -
To perform subcellular fractionation, N. benthamiana leaves (~3 g) transiently 601
expressing GOT1B were homogenized in 10 mL of the above buffer. The homogenate 602
was filtered and centrifuged at 2000g for 20 min at 4oC to remove the cell debris. The 603
supernatant was ultracentrifuged at 100,000g for 1 h at 4oC to obtain the microsomal 604
pellet. Then the microsomal pellets were resuspended in 150 µL of each solution of 605
buffer A, high salt-buffer (1 M NaCl, 100 mM HEPES-KOH, pH 7.5, 0.3 M sucrose, 606
5 mM EGTA, and 5mM EDTA), alkaline buffer (0.1 M Na2CO3, pH 11, 0.3 M 607
sucrose, 5 mM EGTA, and 5mM EDTA), and Triton X-100 buffer (1% [v/v] Triton 608
X-100, 100 mM HEPES-KOH, pH 7.5, 0.3 M sucrose, 5 mM EGTA, and 5mM 609
EDTA). After incubation for 20 min on ice, these supernatants were ultracentrifuged 610
at 100,000g for 1 h at 4oC to obtain the supernatant and pellet fractions for 611
immunoblot analysis. 612
To determine the membrane topology of GOT1B, the microsomal pellets were 613
resuspended in buffer A in the presence or absence of 1% (v/v) Triton X-100 and then 614
were incubated with 10 ng/µL proteinase K (Roche) for 15 min on ice. The reactions 615
were terminated by adding equal volume of 2 × SDS-PAGE loading buffer and then 616
were subjected to immunoblot analysis. 617
Transient Expression Analysis in N. benthamiana 618
For transient expression analysis in N. benthamiana leaf epidermal cells, the coding 619
region of GOT1B was amplified and inserted into the binary vector 620
pCAMBIA1305GFP to produce the GFP-GOT1B (BglII site) or GOT1B-GFP 621
(XbaI-BamHI sites) fusion constructs. For BiFC assay, the coding sequences of 622
GOT1B and rice Sec23 isoforms were cloned into pYN1 and pYC1 vectors (kind gift 623
of Dr. John A. Lindbo, OARDC, The Ohio State University, Wooster, OH, USA) to 624
produce YN-GOT1B and YC-Sec23a/b/c, respectively. All the constructs were 625
introduced into the Agrobacterium strain EHA105 and then used to infiltrate N. 626
benthamiana leaves, as described previously (Waadt et al., 2008). Confocal imaging 627
was performed using a Zeiss LSM780 laser scanning confocal microscope. Image 628
analysis was performed using Image J software. 629
- 31 -
Co-immunoprecipitation 630
Developing endosperm was homogenized and solubilized in triple volumes of NB1 631
buffer (50 mM Tris-MES, pH 7.5, 0.5 M sucrose, 1 mM MgCl2, 10 mM EDTA, 5 632
mM DTT, 0.2% (v/v) Nonidet P-40, 10 mM NaF, and complete proteinase inhibitors) 633
and then centrifuged at 20,000g for 20 min at 4oC to remove the cell debris and fatty 634
acids. 1 mL of total extract was pre-incubated with 20 µL of Protein-A-agarose beads 635
(Roche, 11134515001). The extracts were incubated with the corresponding 636
antibodies or the same amount of IgG from rabbit serum (Sigma, I5006) for 3 h and 637
then incubated with Protein-A-agarose beads for additional 2 h. After extensive 638
washing, the agarose beads were centrifuged at 500g and boiled in the 5 × 639
SDS-PAGE sample buffer for subsequent immunoblot analysis. For phosphorylation 640
assay, the transblotted PVDF membrane was cut into two halves along the marker 641
lane. Then the left half was incubated with anti-phosphorylation antibodies, while the 642
right half was incubated with anti-OsSec23c antibodies. 643
Accession Numbers 644
Sequence data from this article can be found in the GenBank/EMBL databases under 645
the following accession numbers: GOT1B (Os03g0209400), Sec12b (Os11g0610700), 646
Sar1a (Os01g0254000), Sar1b (Os01g0338000), Sar1c (Os06g0225000), Sar1d 647
(Os12g0560300), Sec23a (Os01g0321700), Sec23b (Os08g0474700), Sec23c 648
(Os11g0433500), Sec24 (Os11g0482100), Sec13a (Os02g0135800), Sec13b 649
(Os03g0831800), Sec13c (Os07g0246300), Sec31 (Os07g0657200). The accession 650
numbers for proteins in the phylogentice analysis are SbGOT1, XP_003617250.1; 651
ZmGOT1-2, NP_001150565.1; ZmGOT1-1, NP_001141744.1; HvGOT1, 652
BAJ99406.1; GOT1B, NP_001049334.1; Os10g0337600, BAH00874.1; SiGOT1, 653
XP_004985256.1; AtGOT1, NP_186968.2; At5g01430, NP_190511.1; BrGOT1, 654
XP_009130652.1; GsGOT1, KHN46642.1; MtGOT1, XP_003617250.1; At1g05785, 655
NP_683279.1; Os02g0602800, NP_001047360.1; GOT1p, NP_014020.1; hGOT1B, 656
NP_057156; DmGOT1A, NP_727945.1; DmGOT1B, NP_001014746.1; DrGOT1A, 657
XP_001336385.1; MmGOT1, NP_080956.1; hGOT1A, NP_940849; PtGOT1, 658
- 32 -
XP_009439600.1; OaGOT1, XP_012042315.1; SsGOT1, XP_003130159.1. 659
660
Supplemental Data 661
The following materials are available in the online version of this article. 662
Supplemental Figure 1. Time-Course Analysis of Storage Proteins during 663
Endosperm Development of the Wild-Type 9311 and the gpa4-1 Mutant. 664
Supplemental Figure 2. RT-qPCR Assay of the Expression of Representative 665
Genes Coding for Storage Proteins in 12 DAF Endosperm. 666
Supplemental Figure 3. Immunoblot Analyses Showing Defective Export of 667
Storage Proteins from the ER in gpa4-1. 668
Supplemental Figure 4. Rescue of the gpa4-2 Mutant Phenotype by the 669
GFP-GOT1B Fusion Construct. 670
Supplemental Figure 5. Localization Pattern of GFP-GOT1B Fusion Protein. 671
Supplemental Figure 6. Both the N- and C-termini Are Essential for the Proper 672
Localization of GOT1B Protein. 673
Supplemental Figure 7. Interaction between GOT1B and Sec23. 674
Supplemental Figure 8. Immunoblot Analyses Showing the Specificity of 675
Antibodies. 676
Supplemental Figure 9. Rescue of the gpa4-2 Mutant Phenotypes by Yeast 677
GOT1. 678
Supplemental Figure 10. The Seeds of Transgenic Rice Lines Expressing 679
AtSar1b-GFP Show No Difference from Their Corresponding Recipient Plants. 680
Supplemental Table 1. Comparison of Important Agronomic Traits between Wild 681
Type and gpa4 Mutants. 682
Supplemental Table 2. Segregation of Mutant Phenotype in Reciprocal Crosses 683
between the Wild Type and the gpa4-1 Mutant. 684
Supplemental Table 3. The Distribution of COPII-Related Proteins in the 685
Endomembrane System. 686
Supplemental Table 4. Comparison of Important Agronomic Traits between 687
- 33 -
AtSar1b-GFP Transgenic Lines and Their Corresponding Recipient Plants. 688
Supplemental Table 5. Primers Used in This Study. 689
690
Supplemental Data set 1. Text file of the alignment used for the phylogenetic 691
analysis in Figure 5A. 692
Supplemental Movie 1. Time-Lapse Microscopy of Tobacco Leaf Epidermal Cells 693
Expressing GFP-GOT1B. 694
695
ACKNOWLEDGEMENTS 696
This work was supported by grants from the National Natural Science Foundation of 697
China (Grants 31330054, 31371598, and 31401360), a project from the ministry of 698
Agriculture of China for Transgenic Research (Grants 2014ZX0800925B, 699
2014ZX08009-003, and 2014ZX08001006), and the Fundamental Research Funds for 700
Excellent Young Scientists of ICS-CAAS (Grant to YR, 2014JB04-009; 701
1610092015003-08). This work was also supported by Key Laboratory of Biology, 702
Genetics and Breeding of Japonica Rice in Mid-lower Yangtze River, Ministry of 703
Agriculture, P. R. China, and Jiangsu Collaborative Innovation Center for Modern 704
Crop Production. We thank Dr. Jinxing Lin and Dr. Xiaojuan Li (Beijing Forestry 705
University), Dr. Xiaohua Wang and Dr. Jingjing Xing (Institute of Botany, the 706
Chinese Academy of Sciences) for kind help with fluorescence observation. We also 707
thank Dr. Shuhua Yang (China Agricultural University) for kindly providing the split 708
ubiquitin based Y2H hybrid vectors.709
710
AUTHOR CONTRIBUTIONS 711
J.W., H.W., Y.B. and Y.H.W. designed the research. X.L., W.L., and D.W. screened the712
mutant materials. F.L., Y.R, and Y.L.W. performed immunofluorescence and 713
immunogold labeling experiments. Y.H.W., F.L. and J.Z. performed the Co-IP assays. 714
X.Z. and R.J. performed vector constructions. Y.H.W., F.L., M.W., L.J., and C.W.715
- 34 -
performed other experiments. J.W., H.W., Y.H.W. and F.L. analyzed the data and716
wrote the article. Y.H.W., F.L. and Y.R. contributed equally to this work. 717
718
Figure Legends 719
Figure 1. Phenotypic Analysis of the gpa4-1 Mutant. 720
(A) Transverse sections of representative wild-type (Indica variety 9311) and gpa4-1721
mutant dry seeds. Bar = 1 mm. 722
(B) and (C) Scanning electron microscopy (SEM) images of transverse sections of723
wild-type (B) and gpa4-1 mutant (C) seeds. Bars = 10 μm. 724
(D) 1,000-grain weight of wild type and gpa4-1. Values are mean ± SD. **P < 0.01 (n725
= 3, Student’s t test). 726
(E) SDS-PAGE profiles of total proteins of dry seeds from the wild type and the727
gpa4-1 mutant. pGlu, 57-kDa proglutelins; αGlu, 40-kDa glutelin acidic subunits; 728
α-Glb, 26-kDa α-globulin; βGlu, 20-kDa glutelin basic subunits; Pro, prolamins. 729
(F) Immunoblot analysis of seed storage proteins using anti-glutelin and730
anti-α-globulin antibodies. Blue triangles indicate the 57-kDa proglutelins. Hollow 731
arrows denote the glutelin acidic subunits (black) and basic subunits (red) in (F) and 732
(G). 733
(G) Immunoblot analysis of the major glutelin subfamily proteins (i.e. GluA and734
GluB) and VPE1. Arrows indicate different forms of VPE1. pV, VPE1 precursor; iV, 735
intermediate VPE1; mV, mature VPE1. EF-1α was used as a loading control in (F) 736
and (G). 737
738
Figure 2. Light and Immunofluorescence Microscopy of Protein Bodies in the 739
Subaleurone Cells of the Wild Type and the gpa4-1 Mutant. 740
(A) and (B) Sections of 12 DAF endosperm of wild type (A) and gpa4-1 (B) stained741
with coomassie brilliant blue (CBB). Red and white triangles indicate the dark-stained 742
glutelin-containing structures (PBIIs in wild type) and the light-stained 743
prolamin-containing structures (PBIs in wild type), respectively. SG, starch grains. 744
Bars = 10 μm. 745
- 35 -
(C) to (F) Immunofluorescence microscopy images of storage proteins in wild-type 746
(C and E) and gpa4-1 (D and F) seeds. Secondary antibodies conjugated with Alexa 747
fluor 488 (green) and Alexa fluor 555 (red) were used to trace the antigens recognized 748
by the anti-glutelin and anti-prolamin antibodies, respectively, in (C) and (D). Similar 749
reactions were performed with anti-α-globulin antibodies instead of anti-glutelin 750
antibodies in (E) and (F). White arrows in (D) and (F) indicate the novel structures. 751
The insets in (D) and (F) are the enlarged images of the corresponding boxed areas. 752
Bars = 10 μm. 753
(G) and (H) Measurement of the diameters of PBIIs (G) and the number of PBIs with754
normal size per 100 µm2 (H). Values are mean ± SD. **P < 0.01 (n = 84 for wild type 755
and 56 for gpa4-1 in [G]; n = 4 [total 470 PBIs] for wild type and 5 [total 334 PBIs] 756
for gpa4-1 in [H]. Student’s t test). 757
758
Figure 3. Ultrastructure of Subaleurone Cells of Developing Endosperm of the 759
Wild Type and gpa4-1 Mutant. 760
(A) Two types of protein bodies were observed in wild-type endosperm. Bar = 2 μm.761
(B) The first type of novel structure was observed from 9 DAF in endosperm of the762
gpa4-1 mutant. Stars represent this type of novel structure in (B) to (E). Bar = 1 μm. 763
(C) Enlarged image of the boxed area in (B). Triangles indicate protein aggregates in764
the periphery of the first type of novel structure. Bar = 200 nm. 765
(D) The first type of novel structure in 12 DAF endosperm cells. Bar = 1 μm.766
(E) The first type of novel structure is directly linked with the ER. Bar = 1 μm.767
(F) The second type of novel structure (red triangles), in 12 DAF endosperm cells.768
Bar = 500 nm. 769
(G) to (I) Immunoelectron microscopy localization of glutelins and prolamins in770
subaleurone cells of developing wild-type endosperm (G) and the gpa4-1 mutant ([H] 771
and [I]). (G) Glutelins and prolamins are accumulated separately in the wild type. (H) 772
The first type of novel structure contains a glutelin (6 nm gold, blue arrows) core and 773
a prolamin (15 nm gold, red arrows) periphery. (I) The second type of novel structure 774
contains prolamins (15 nm gold, red arrows). Bars = 500 nm in (G) and (H); 200 nm 775
- 36 -
in (I). 776
777
Figure 4. Map-based Cloning and Expression Analysis of GOT1B. 778
(A) Fine mapping of the GPA4 locus. The molecular markers and the number of779
recombinants are shown. 780
(B) Gene structure and the mutation site in Os03g0209400. Os03g0209400 comprises781
6 exons (closed boxes) and 5 introns (lines). ATG and TGA represent the start and 782
stop codon, respectively. A 108-bp fragment deletion and a nucleotide substitution 783
occurred in the coding region of Os03g0209400 in gpa4-1 and gpa4-2, respectively. 784
(C) to (F) The Os03g0209400 cDNA under the control of Ubiquitin promoter rescues785
the grain appearance (C), the storage protein composition pattern (D), and the storage 786
protein trafficking defects ([E] and [F]) of the gpa4-2 mutant. L1 to L4 denote the 787
grains from four independent T1 transgenic lines. Stars represent the abnormal 788
structure with a glutelin core and a prolamin periphery in (E). Bars = 2 μm in (E) and 789
(F). 790
(G) RT-qPCR assay showing that GOT1B is expressed in various wild-type tissues791
examined, with the highest expression in panicles before heading. S, shoot; E, 792
endosperm; L, leaf; R, root; SL, seedling; LS, leaf sheath; P, panicle before heading. 793
EF-1α was used as an internal control in (G) to (I). For each RNA sample, three 794
technical replicates were performed. Values are mean ± SD. 795
(H) RT-qPCR assay showing that GOT1B is expressed throughout endosperm796
development. The expression of GOT1B in gpa4-1 was much lower compared with 797
that in the wild type. For each RNA sample, three technical replicates were performed. 798
Values are mean ± SD. 799
(I) The expression of GOT1B and its homologs in 12 DAF endosperm cells. For each800
RNA sample, three technical replicates were performed. Values are mean ± SD. 801
802
Figure 5. Phylogenic Tree and Topology Analysis of the GOT1B Protein. 803
(A) Phylogenic tree of the GOT1B protein and its homologs in eukaryotes. The804
phylogenic tree was constructed using MEGA version 5.0. Sb, Sorghum biocolor; Zm, 805
- 37 -
Zea mays; Hv, Hordeum vulgare; Os, Oryza sativa; Si, Setaria italica; At, Arabidopsis 806
thaliana; Br, Brassica rapa; Gs, Glycine soja; Mt, Medicago truncatula; H, human 807
sapiens; Dm, Drosophila melanogaster; Mm, Mus musculus; Pt, Pan troglodytes; Oa, 808
Ovis aries; Ss, Sus scrofa. The sequence alignment used for this analysis is available 809
as Supplemental Data set 1. 810
(B) Sequence alignment of GOT1B and its homologous proteins. Red lines indicate811
the four transmembrane domains predicted by TMHMM Server v. 2.0 812
(http://www.cbs.dtu.dk/services /TMHMM). 813
(C) Membrane association of GOT1B protein expressed in N. benthamiana. GOT1B814
was expressed in tobacco leaf epidermal cells. 100,000g membrane pellets were 815
prepared and extracted with indicated buffers before centrifugation and analysis of the 816
pellets (P100) and supernatants (S100) by immunoblot. Triangle indicates the GPA4 817
protein band. Arrow indicates the Tip3-1 protein band. 818
(D) and (E) Protease protection assays. Membrane preparations containing the819
GOT1B protein tagged at either the C- (D) or N-terminus (E), as indicated, were 820
digested with proteinase K in the presence or absence of detergent, and then analyzed 821
by immunoblot. 822
(F) The proposed topology of GOT1B protein. TMD, transmembrane domain.823
824
Figure 6. Subcellular Localization of GOT1B in the Leaf Epidermal Cells of N. 825
benthamiana. 826
(A) to (E) Confocal microscopy images showing that GFP-GOT1B generates punctate827
signals in the cytosol and its distribution is obviously distinct from that of marker 828
proteins characteristic for the ER (mRFP-HDEL [A]) and the trans-Golgi networks 829
(mRFP-SYP61 [E]), but is partially localized with the marker proteins characteristic 830
for ER exit sites (AtSar1b-mRFP [B]), cis-Golgi (GmMan1-mRFP [C]), and 831
trans-Golgi apparatus (ST-mRFP [D]). PSC coefficients (rs) between GFP-GOT1B 832
and each marker are shown in the right panel. Values are mean ± SD. n = 3. Bars = 10 833
μm in (A) to (E). 834
(F) BFA treatment (100 μg/mL) of leaf epidermal cells coexpressing GFP-GOT1B835
- 38 -
and GmMan1-mRFP. The localization pattern of GFP-GOT1B and GmMan1-mRFP 836
gradually changed from punctate patterns (0-5 min) to typical ER patterns (40-45 837
min). Bars = 10 μm. 838
839
Figure 7. GOT1B Physically Interacts with Sec23 Proteins. 840
(A) Y2H assay showing that GOT1B interacts with Sec23c. The bait plasmid841
(pGBKT7-Lam or pGBKT7-53) was co-transformed into the AH109 yeast strain with 842
the prey plasmid (pGADT7-T) to serve as negative and positive controls, respectively. 843
(B) BiFC assay showing that GOT1B can interact with three Sec23 isoforms in leaf844
epidermal cells of N. benthamiana. The Golgi-localized membrane proteins COG3 845
and COG8 (a pair of interacting proteins) were used as the negative control (Tan et al., 846
1996). Bars = 10 μm. 847
(C) Co-IP assay showing that Sec23c can be immunoprecipitated by anti-GOT1B848
polyclonal antibodies in total extract of developing endosperm. Immunoblots with 849
anti-PDIL1-1 and anti-Sec12b antibodies showing no ER lumenal and membrane 850
protein contamination in the IP samples. Red arrows indicate the corresponding 851
protein bands. Triangles indicate the heavy chain of rabbit IgG protein. T, total extract; 852
IP, immunoprecipitation; IB, immunoblot. 853
(D) Co-IP assay showing that both Sec23c and GOT1B can be immunoprecipitated by854
anti-OsSar1b antibodies in total extract of developing endosperm. 855
(E) Immunoblot analysis of the IP samples with anti-phosphorylation antibodies (left)856
and anti-Sec23c antibodies (right), respectively. M, protein markers. 857
858
Figure 8. Mutation of GOT1B Affects the Distribution of COPII Coat 859
Components and ERESs. 860
(A) Immunoblot analysis showing the distribution of COPII coat components in the861
various membrane fractions in wild type and gpa4-1. P2, pellet obtained following the 862
centrifugation at 2,000g; P13, pellet obtained following the centrifugation at 13,000g. 863
P100, pellet obtained following centrifugation at 100,000g; S100, supernatant 864
obtained following centrifugation at 100,000g. 865
- 39 -
(B) Quantitative analysis of the ratio of the signal intensity of membrane fractions 866
compared with total proteins (P2 + P13 + P100/Total, Total = P2 + P13 + P100 + 867
S100) in the immunoblot shown in (A). Three independent experiments were 868
performed. Values are mean ± SD. 869
(C) Quantitative analysis of the ratio of signal intensity of each protein in P13 870
compared with total protein in the immunoblot shown in (A). **P < 0.01 (n = 3 871
independent experiments, Student’s t test). 872
(D) Fluorescence observation of the ERES status (marked by AtSar1b-GFP) in root 873
cells of wild type and the gpa4-2 mutant. Bars = 10 µm. 874
(E) In vivo co-IP assay showing that reduced amounts of Sec23c were precipitated in 875
gpa4-1 mutant compared to wild type. Immunoblots with Anti-PDIL1-1 and 876
anti-Sec12b antibodies showing no ER lumenal and membrane protein contamination 877
in the IP samples. 878
(F) A working model depicting the function of GOT1B in the formation of COPII 879
vesicles. GOT1B participates in COPII coat formation at the ERESs via interaction 880
with Sec23c. The heterodimer of Sec23/Sec24 is recruited by GOT1B and Sar1 881
cooperatively to form the pre-budding complexes in which proglutelin cargos are 882
loaded. Then, the heterotetrimer of Sec13/Sec31 is recruited to form the outer coat of 883
the COPII vesicles before vesicle budding and subsequent fusion with the cis-Golgi 884
apparatus. 885
886
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DOI 10.1105/tpc.16.00717; originally published online November 1, 2016;Plant Cell
Yiqun Bao and Jianmin WanXiaopin Zhu, Ruonan Jing, Mingming Wu, Yuanyuan Hao, Ling Jiang, Chunming Wang, Haiyang Wang,
Yihua Wang, Feng Liu, Yulong Ren, Yunlong Wang, Xi Liu, Wuhua Long, Di Wang, Jianping Zhu,Endosperm Cells
GOLGI TRANSPORT 1B Regulates Protein Export from Endoplasmic Reticulum in Rice
This information is current as of November 17, 2020
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