Os04g0499300

The rice Rymv1 gene is well known as its resistence of the rice yellow mottle virus (RYMV).

Annotated Information

Function

Rymv1，rice yellow mottle virus disease resistant gene, encoding eukaryotic translation initiation factor isomer eIF (iso) 4G. Rmv1 initially located on chromosome 4 3.7cM interval SSR markers RM252 and AFLP markers E-ACG/M-ACA between the inner (Albar et al., 2003). Rymv1 located on chromosome 4, which corresponds to the position of Nipponbare sequencing atlas (5'-3 ') at 24766929 - 24761516 interval (Rice Genome Annotation Project). The isoform of the eukaryotic translation initiation factor 4G (eIF(iso)4G) plays in naturally occurring resistance in plant/virus interactions. A genetic and physical mapping approach was developed to isolate the Rymv1 locus controlling the high recessive resistance to Rice yellow mottle virus (RYMV) in the rice (Oryza sativa) variety Gigante. The locus was mapped to a 160-kb interval containing a gene from the eIF(iso)4G family. The stable transformation of a resistant line with the cDNA of this gene, derived from a susceptible variety, resulted in the loss of resistance in transgenic plants. The allelic variability of this gene was analysed in three resistant and 17 susceptible varieties from different cultivated rice species or subspecies. Compared with susceptible varieties, resistant varieties present specific alleles, characterized by either amino acid substitutions or short amino-acid deletions in the middle domain of the protein. The structure of this domain was modelled and showed that the substitutions were clustered on a small surface patch. This suggests that this domain may be involved in an interaction with the virus.

Rymv1 初步定位于水稻第4 染色体上SSR标记RM252 和AFLP标记E-ACG/M-ACA 之间的3.7cM 区间内(Albar et al.,2003)。后通过发掘新标记、构建物理图谱，将Rymv1 定位在BAC克隆OSJNBa0067K08 和OSJNBa0029H02 之间的160kb 区间内，并最终在OSJNBa0029H02 上找到Rymv1 的候选基因(Albar et al., 2006)。

Rymv1 定位在水稻第4 染色体上，对应于日本晴测序图谱的位置(5'-3')在24766929 - 24761516 区间(Rice Genome Annotation Project)。

Expression

Rymv1 contains nine exons and 8 introns, encoding eukaryotic translation initiation factor isomer eIF (iso) 4G.In the IR64 and Gigante, Rymv1 cDNA coding region of 2379bp, which encodes a protein consisting of 793 amino acids, wherein the first range of 208 ~ 435 amino acid domain corresponding MIF4G; 628 ~ 740 amino acid domain corresponding to the section MA3.Compared with the encoded products of the susceptible parent, antiviral protein MIF4G domain deleted or three single amino acid substitution of amino acids occurs, the variation of resistance at the surface of the three dimensional structure of the protein, suggesting MIF4G protein interaction domains and may be involved in virus recognition (Albar et al., 2006).EIF4E and fixed plant eIF4G eIF4F complex formation, and eIF (iso) 4E and eIF (iso) 4G formed eIF (iso) 4F complex, these two protein complexes involved in the initial steps of the translation of mRNA cap structure and recruitment of the ribosome.

Rymv1 包含9个外显子和8个内含子，编码真核翻译起始因子异构体eIF(iso)4G。在IR64和Gigante中，Rymv1 cDNA 编码区长2379bp，编码一个793氨基酸组成的蛋白，其中，第208~435 氨基酸区间对应MIF4G 功能域；第628~740 氨基酸区间对应MA3 功能域。与感病亲本的编码产物相比，抗病蛋白在MIF4G 域发生了3氨基酸的缺失或单氨基酸的置换，这些变异位于抗病蛋白三维结构的表面，暗示MIF4G 域可能参与了蛋白与病毒的交互识别作用(Albar et al., 2006)。

在植物中eIF4E 和eIF4G 形成eIF4F 复合体，而eIF(iso)4E 和eIF(iso)4G 形成eIF(iso)4F 复合体，这两个复合体参与了蛋白翻译起始步骤的mRNA 帽子结构的固定和核糖体的招募。

Evolution

[Note]

Rice yellow mottle virus disease occurs mainly in more than ten countries in West and Central Africa, such as Kenya. Mainly by leaf CPI (Apophylias spp.), Jump CPI (Chaetoenema spp.), Lobular A (Sesselia passilla) and African iron beetle (Trichispa sericeas) for semi-persistent transmission, also by sap inoculation. 水稻黄斑驳病毒病，主要发生在西非和中非的十多个国家，如肯尼亚。主要由叶甲类(Apophylias spp.)、跳甲类(Chaetoenema spp.)、小叶甲(Sesselia passilla)和非洲铁甲虫(Trichispa sericeas)作半持久性传播，亦可通过汁液接种。

Labs working on this gene

1 UMR 5096, IRD/CNRS/Universite´ de Perpignan, BP 64501, 34394 Montpellier CEDEX 5, France

2 UMR 1097, IRD/CIRAD/Agro-M/INRA, BP64501, 34394 Montpellier CEDEX 5, France

3 Africa Rice Center, WARDA, 01 BP 2031, Cotonou, Benin

Structured Information

Gene Name	Os04g0499300
Description	Initiation factor eIF-4 gamma, middle domain containing protein
Version	NM_001059754.2 GI:297602993 GeneID:4336300
Length	2548 bp
Definition	Oryza sativa Japonica Group Os04g0499300, complete gene.
Source	Oryza sativa Japonica Group ORGANISM Oryza sativa Japonica Group Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliophyta; Liliopsida; Poales; Poaceae; BEP clade; Ehrhartoideae; Oryzeae; Oryza.
Chromosome	Chromosome 4
Location	Chromosome 4:25344788..25347335
Sequence Coding Region	25345201..25346256,25346777..25347043,25347116..25347235
Expression	GEO Profiles:Os04g0499300
Genome Context	<gbrowseImage1> name=NC_008397:25344788..25347335 source=RiceChromosome04 preset=GeneLocation </gbrowseImage1>
Gene Structure	<gbrowseImage2> name=NC_008397:25344788..25347335 source=RiceChromosome04 preset=GeneLocation </gbrowseImage2>
Coding Sequence	<cdnaseq>atggagagaagggacaaagaaaggattgtcaaactaagaacacttggaaatatccgtctaattggtgagctacttaagcaaaagatggtacctgaaaagatagttcatcacattgttcaggaactcttggggtctggacctgataaaaaggcttgccctgaagaggaaaacgttgaggctatttgtcagttcttcaatacaattggtaaacagcttgacgagaacccaaaatctcgtcgaattaatgatacctacttcattcagatgaaggagttaacaacaaaccttcagttggcaccacgtctgaggtttatggttcgtgatgtggttgatcttcgttcaaacaattgggtgcctcgacgtgaagaggtaaataaaatcaccctaattaaggccaagacaatcagtgaaattcatgatgaggctatgaagacacttggactacggccaggggcaacaggactcacgaggaatggccgtaatgcaccaggtggtcctctttcccctggtggattcccaatgaatcgaccaggaacaggagggatgatgcctgggatgcctggaacacctggtatgcctggatcaagaaagatgcctggaatgcctgggttagataatgataactgggaagttccacgttctaaatcaatgccaagaggcgactctcttcgtaaccagggtccgttgcttaataagccatcatctattaacaagccatcatctattaactccaggcttcttcctcatggaagtggagcactaattggtaagagtgctcttttgggcagtggtggtccaccatctcgcccttccagccttatggctagtctcactcatacaccagctcaaactgcaccatcaccaaaacctgtaagtgcagctccagctgttgtgcctgtcacagacaaagcagccggttcttcccatgagatgccagctgcagttcagaagaagacggtatcccttcttgaagagtattttggcatacgtattctggatgaagcacaacaatgtatcgaggagcttcagtgtcctgagtactactctgagattgtgaaagaagctatcaatcttgctttggataagggtcccaacttcattgatcctcttgttaggctgctggagcatctgcacgccaagaaaattttcaagactgaggacctgaaaactggatgcttactgtatgcagccctgctggaagatattggtattgaccttcctctagctccagccttgtttggtgaagttgttgcacgactgagtttgtcgtgtggcttgagctttgaagttgttgaggagattctaaaagcagtggaggatacatacttccgcaaaggaatttttgatgctgtcatgaaaaccatgggcggaaactcttcaggtcaggctatattgagctcgcatgctgtggtaatcgacgcctgcaacaaacttttgaaataa</cdnaseq>
Protein Sequence	<aaseq>MERRDKERIVKLRTLGNIRLIGELLKQKMVPEKIVHHIVQELLG SGPDKKACPEEENVEAICQFFNTIGKQLDENPKSRRINDTYFIQMKELTTNLQLAPRL RFMVRDVVDLRSNNWVPRREEVNKITLIKAKTISEIHDEAMKTLGLRPGATGLTRNGR NAPGGPLSPGGFPMNRPGTGGMMPGMPGTPGMPGSRKMPGMPGLDNDNWEVPRSKSMP RGDSLRNQGPLLNKPSSINKPSSINSRLLPHGSGALIGKSALLGSGGPPSRPSSLMAS LTHTPAQTAPSPKPVSAAPAVVPVTDKAAGSSHEMPAAVQKKTVSLLEEYFGIRILDE AQQCIEELQCPEYYSEIVKEAINLALDKGPNFIDPLVRLLEHLHAKKIFKTEDLKTGC LLYAALLEDIGIDLPLAPALFGEVVARLSLSCGLSFEVVEEILKAVEDTYFRKGIFDA VMKTMGGNSSGQAILSSHAVVIDACNKLLK</aaseq>
Gene Sequence	<dnaseqindica>1080..2135#293..559#101..220#tacattcaagcgtgtgctgttgaacaattgtcaggaagcatttgaaggtgctgagagcctaagggctgaaatagcaaaattgactggccctgaccaagagatggagagaagggacaaagaaaggattgtcaaactaagaacacttggaaatatccgtctaattggtgagctacttaagcaaaagatggtacctgaaaagatagttcatcacattgttcaggtatgcattagcaaattggtaataaagttattattattcaggggtagcttgtctaatctgttctatatgcaggaactcttggggtctggacctgataaaaaggcttgccctgaagaggaaaacgttgaggctatttgtcagttcttcaatacaattggtaaacagcttgacgagaacccaaaatctcgtcgaattaatgatacctacttcattcagatgaaggagttaacaacaaaccttcagttggcaccacgtctgaggtttatggttcgtgatgtggttgatcttcgttcaaacaattgggtgcctcgacgtgaagaggtaaataaaatcaccctagtgttttattttagttatcttttatacatgcattgtctttctttcataatgacgttagtctcttggttgtaccgaggtgctgctatgagtactttggtcaatggctaccaaattctagcaccatagttatctgtagtggctctttaactgtgagcttattagataaacatgcatgctcatgtgggaatggcaagcaatcgccagtgctatgaaattgcatatatttatttagaatcaacgggtttgtctattgctttgtacacccctatattaataagagaatggccatgtttataatccatatttgaaataattcatcagttcaccgttttgactatacattgaagcattctgtttggtaccataatgttgtttctggcttacactaaatttaatgccaagtatggcttcaatgtttttgttcccactcttagtttgctgtttgtattagcaatcactggttagctggatttataaatttattatccattctgagttttgtgatgcttgcaatcttcagattaaggccaagacaatcagtgaaattcatgatgaggctatgaagacacttggactacggccaggggcaacaggactcacgaggaatggccgtaatgcaccaggtggtcctctttcccctggtggattcccaatgaatcgaccaggaacaggagggatgatgcctgggatgcctggaacacctggtatgcctggatcaagaaagatgcctggaatgcctgggttagataatgataactgggaagttccacgttctaaatcaatgccaagaggcgactctcttcgtaaccagggtccgttgcttaataagccatcatctattaacaagccatcatctattaactccaggcttcttcctcatggaagtggagcactaattggtaagagtgctcttttgggcagtggtggtccaccatctcgcccttccagccttatggctagtctcactcatacaccagctcaaactgcaccatcaccaaaacctgtaagtgcagctccagctgttgtgcctgtcacagacaaagcagccggttcttcccatgagatgccagctgcagttcagaagaagacggtatcccttcttgaagagtattttggcatacgtattctggatgaagcacaacaatgtatcgaggagcttcagtgtcctgagtactactctgagattgtgaaagaagctatcaatcttgctttggataagggtcccaacttcattgatcctcttgttaggctgctggagcatctgcacgccaagaaaattttcaagactgaggacctgaaaactggatgcttactgtatgcagccctgctggaagatattggtattgaccttcctctagctccagccttgtttggtgaagttgttgcacgactgagtttgtcgtgtggcttgagctttgaagttgttgaggagattctaaaagcagtggaggatacatacttccgcaaaggaatttttgatgctgtcatgaaaaccatgggcggaaactcttcaggtcaggctatattgagctcgcatgctgtggtaatcgacgcctgcaacaaacttttgaaataatagccccttggcagccttggcatatcaaccttttggatgctgtgcctagccaaaacagcatcgtgtattctctatagcttaggtgtttcaccccagaggaactctcgtactggagatgtgagcaacagccagttttgtgctgtatatttttgcaaggtcagatgagtgttcattattgtttcgacaacgaaggaaagaaagaagccatggattttgctatcgggtgacagcttaattcgctggagcctgagatgaacaaggcttaatgtggtatttttgtgtccctttattagttcttttctgtgcgtacacattttgtaacaatgtactatggttttggagtattctgttggtttacaatatatcgtgtcattgtagcggtcaaattttgatacctaattctgaggtttgct</dnaseqindica>
External Link(s)	NCBI Gene:Os04g0499300, RefSeq:Os04g0499300