Gene - Detail

Detail of Gene

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Basic Information
CGSNL Gene Symbol SHL2
Gene Symbol Synonym shl2, SHL2, sh2, OsRDR6, RDR6
Gene Name Synonym shootless 2, shootless-2, Probable RNA-dependent RNA polymerase SHL2, Protein SHOOTLESS 2, SHOOTLESS2, RNA-dependent RNA polymerase 6, rod-like lemma
Allele shl2-1, shl2-2, shl2-3, shl2-4, shl2-5, shl2-6, shl2-7, shl2-8, shl2-9, shl2-10,shl2-11, shl2-12, shl2-rol, rol, rdr6, rdr6-11, osrdr6-1, osrdr6, Osrdr6-mei, Osrdr6-bi, Osrdr6-edit
Chromosome No. 1
Explanation In embryogenesis, shoot apical meristem is not differentiated. Coleoptile and epiblast are lost. Scutellum and radicle are normal. Extremely reduce the expression domain of homeobox gene OSH1. EC= RNA-dependent RNA polymerase. AB353923. Q8LHH9. PO:0009009; embryo ; PO:0020144; apical meristem. GRO:0007044; 06-heading stage ; GRO:0007042; 08-dough stage ; GRO:0007045; 09-mature grain stage ; GRO:0007046; 07-milk stage. a predicted lethal-phenotype gene in Lloyd et al. 2015. the NCBI Gene Expression Omnibus database under accession number GSE151871.
Trait Class Seed - Morphological traits - Embryo
Tolerance and resistance - Disease resistance
Vegetative organ - Shoot apical meristem(SAM)
Reproductive organ - Spikelet, flower, glume, awn
Tolerance and resistance - Stress tolerance
Reproductive organ - Pollination, fertilization, fertility - Meiosis
Reproductive organ - Pollination, fertilization, fertility - Sterility
cDNA Accession No. AK108380
MSU ID LOC_Os01g34350.1
RAP ID Os01g0527600
Links Oryzabase Chromosome View ( IRGSP 1.0 / Build5 )
RAP-DB ( IRGSP 1.0 / Build5 )
Related IDs List ( IRGSP 1.0 / Build5 )
INSD Accession List
(Test version)
Link to INSD Accession List
Link map Classical linkage map
Gu X., Si F., Feng Z., Li S., Liang D., Yang P., Yang C., Yan B., Tang J., Yang Y., Li T., Li L., Zhou J., Li J., Feng L., Liu J.Y., Yang Y., Deng Y., Wu X.N., Zhao Z., Wan J., Cao X., Song X., He Z., Liu J.
Nat Commun 2023  14(1)  4441
The OsSGS3-tasiRNA-OsARF3 module orchestrates abiotic-biotic stress response trade-off in rice.
Wang J., Liu Y., Hu S., Xu J., Nian J., Cao X., Chen M., Cen J., Liu X., Zhang Z., Liu D., Zhu L., Hu J., Ren D., Gao Z., Shen L., Dong G., Zhang Q., Li Q., Yu S., Qian Q., Zhang G.
Int J Mol Sci 2022  23(15) 
<i>LEAF TIP RUMPLED 1</i> Regulates Leaf Morphology and salt tolerance in Rice.
Liu C., Shen Y., Qin B., Wen H., Cheng J., Mao F., Shi W., Tang D., Du G., Li Y., Wu Y., Cheng Z.
Plant Cell 2020  32(10)  3273-3289
<i>Oryza sativa</i> RNA-Dependent RNA polymerase 6 Contributes to Double-Strand Break Formation in Meiosis.
He Y., Shi Y., Zhang X., Xu X., Wang H., Li L., Zhang Z., Shang H., Wang Z., Jian-Li Wu
Plant Physiol. 2020  184(1)  283-299
The OsABCI7 Transporter Interacts with OsHCF222 to Stabilize the Thylakoid Membrane in Rice.
Hong W., Qian D., Sun R., Jiang L., Wang Y., Wei C., Zhang Z., Li Y.
Sci Rep 2015  5  11324
OsRDR6 plays role in host defense against double-stranded RNA virus, Rice Dwarf Phytoreovirus.
Lloyd J.P., Seddon A.E., Moghe G.D., Simenc M.C., Shiu S.H.
Plant Cell 2015   
Characteristics of Plant Essential Genes Allow for within- and between-Species Prediction of Lethal Mutant Phenotypes.
Komiya R., Ohyanagi H., Niihama M., Watanabe T., Nakano M., Kurata N., Nonomura K.I.
Plant J. 2014  78(3)  385-97
Rice germline-specific Argonaute MEL1 protein binds to phasiRNAs generated from more than 700 lincRNAs.
Toriba T.a b, Hirano H.Y.a
Plant Journal 2014  77  616-626
The DROOPING LEAF and OsETTIN2 genes promote awn development in rice
Song X., Wang D., Ma L., Chen Z., Li P., Cui X., Liu C., Cao S., Chu C., Tao Y., Cao X.
Plant J. 2012  71(3)  378-89
Rice RNA-dependent RNA polymerase 6 acts in small RNA biogenesis and spikelet development.
Jiang L., Qian D., Zheng H., Meng L.Y., Chen J., Le W.J., Zhou T., Zhou Y.J., Wei C.H., Li Y.
Virus Res. 2012  163(2)  512-9
RNA-dependent RNA polymerase 6 of rice (Oryza sativa) plays role in host defense against negative-strand RNA virus, Rice stripe virus.
Toriba T., Suzaki T., Yamaguchi T., Ohmori Y., Tsukaya H., Hiro-Yuki Hirano
Plant Cell 2010  22(5)  1452-62
Distinct regulation of adaxial-abaxial polarity in anther patterning in rice.
Zong J., Yao X., Yin J., Zhang D., Ma H.
Gene 2009  447(1)  29-39
Evolution of the RNA-dependent RNA polymerase (RdRP) genes: duplications and possible losses before and after the divergence of major eukaryotic groups.
Yang JH, Seo HH, Han SJ, Yoon EK, Yang MS, Lee WS.
Nucleic Acids Res. 2007  36(4)  1220-6.
Phytohormone abscisic acid control RNA-dependent RNA polymerase 6 gene expression and post-transcriptional gene silencing in rice cells.
Nagasaki H, Itoh J, Hayashi K, Hibara K, Satoh-Nagasawa N, Nosaka M, Mukouhata M, Ashikari M, Kitano H, Matsuoka M, Nagato Y, Sato Y.
Proc. Natl. Acad. Sci. U.S.A. 2007  104(37)  14867-71
The small interfering RNA production pathway is required for shoot meristem initiation in rice.
Satoh, N., Itoh, J.-I. and Nagato, Y.
Genetics 2003  164  335-346
The SHOOTLESS2 and SHOOTLESS1 genes are involved in both initiation and maintenance of the shoot apical meristem through regulating the number of indeterminate cells.
Satoh, N. and Y. Nagato
RGN 2000  17  26-28
SHOOTLESS 2 gene is required for both initiation and maintenance of shoot apical meristem in rice.
Ito, M., Y. Sato, N. Nagasawa, H. Kitano, Y. Nagato and M. Matsuoka
RGN 1999  16  39-41.
Mapping of two SHOOTLESS genes, SHL1 and SHL2, by RFLP analysis.
Satoh, N., S-K. Hong, A. Nishimura, M. Matsuoka, H. Kitano, Y. Nagato.
Development 1999  126  3629-3636.
Initiation of shoot apical meristem in rice: characterization of four SHOOTLESS genes.
Satoh, N., S.K. Hong, M. Matsuoka, H. Kitano and Y. Nagato
RGN 1997  14  145-147.
Characterization of shootless mutants in rice.
Satoh, N., S.K. Hong, H. Kitano, M. Matsuoka and Y. Nagato
Breeding Science 1996  46(Suppl. 2)  270
Characterization of rice shootless mutants using several molecular markers.
Hong, S.K., T, Aoki, H. Kitano, H. Satoh and Y. Nagato
Dev Genet. 1995  16  298-310.
Phenotypic diversity of 188 rice embryo mutants.
Kitano, H., Y. Tamura, H. Satoh and Y. Nagato
Plant J. 1993  3(4)  607-610.
Hierarchical regulation of organ differentiation during embryogenesis in rice.
TextPresso Search Search textpresso for SHL2 ( Recent references may be retrievable, but without any warranty )
DB Reference
Gramene ID GR:0060880
Gene Ontology defense response to bacterium( GO:0042742 )
response to heat( GO:0009408 )
meiotic DNA double-strand break formation( GO:0042138 )
DNA methylation( GO:0006306 )
organ morphogenesis( GO:0009887 )
RNA binding( GO:0003723 )
RNA-directed RNA polymerase activity( GO:0003968 )
mitochondrion( GO:0005739 )
tissue development( GO:0009888 )
RNA interference( GO:0016246 )
maintenance of shoot apical meristem identity( GO:0010492 )
defense response to virus( GO:0051607 )
response to stress( GO:0006950 )
response to temperature stimulus( GO:0009266 )
response to abscisic acid stimulus( GO:0009737 )
production of siRNA involved in RNA interference( GO:0030422 )
gene silencing by RNA( GO:0031047 )
Trait Ontology embryo related trait( TO:0000064 )
floret anatomy and morphology trait( TO:0000274 )
awn anatomy and morphology trait( TO:0002718 )
viral disease resistance( TO:0000148 )
abscisic acid sensitivity( TO:0000615 )
stress trait( TO:0000164 )
temperature response trait( TO:0000432 )
sterility related trait( TO:0000485 )
heat tolerance( TO:0000259 )
hydrogen peroxide content( TO:0000605 )
bacterial blight disease resistance( TO:0000175 )
Plant Ontology plant embryo( PO:0009009 )
apical meristem( PO:0020144 )
Related Strains
Induced Mutation Lines(National Inst. of Genetics) 1
Lethal Embryo Mutation strain 12
Phenotype images
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Photo from Y. Nagato
Last updated
Nov 10, 2023