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Basic Information
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CGSNL Gene Symbol
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SHL2
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Gene Symbol Synonym
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shl2, SHL2, sh2, OsRDR6, RDR6, DEL, OsDEL
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CGSNL Gene Name
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SHOOTLESS 2
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Gene Name Synonym
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shootless 2, shootless-2, Probable RNA-dependent RNA polymerase SHL2, Protein SHOOTLESS 2, SHOOTLESS2, RNA-dependent RNA polymerase 6, rod-like lemma, DEGENERATED LEMMA
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Protein Name
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PROBABLE RNA-DEPENDENT RNA POLYMERASE SHL2
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Allele
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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, del
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Chromosome No.
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1
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Explanation
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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=2.7.7.48 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. TO:0000975: grain width.
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Trait Class
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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
Character as QTL - Yield and productivity
Seed - Morphological traits - Grain shape
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Expression
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Sequence/Locus
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cDNA Accession No.
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AK108380
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MSU ID
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LOC_Os01g34350.1
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RAP ID
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Os01g0527600
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Links
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Oryzabase Chromosome View
(
IRGSP 1.0
/
Build5
)
RAP-DB
(
IRGSP 1.0
/
Build5
)
Related IDs List (
IRGSP 1.0
/
Build5
)
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INSD Accession List
(Test version)
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Link to INSD Accession List
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Map
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Locate(cM)
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Link map
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Classical linkage map
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References
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Jing Y., Wenbo C., Zhifeng H., Yan X., XinFang Z., Mi W., RuHui W., Wenqiang S., Jun Z., QianNan D., Guanghua H., Yunfeng L., Ting Z.
Physiol Mol Biol Plants 2023 29(3) 335-347
<i>DEGENERATED LEMMA</i> (<i>DEL</i>) regulates lemma development and affects rice grain yield.
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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.
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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.
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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.
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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.
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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.
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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.
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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.
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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
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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.
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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.
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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.
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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.
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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.
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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.
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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.
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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.
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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.
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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.
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Satoh, N., S.K. Hong, M. Matsuoka, H. Kitano and Y. Nagato
RGN 1997 14 145-147.
Characterization of shootless mutants in rice.
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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.
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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.
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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.
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DB Reference
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Gramene ID
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GR:0060880
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Ontologies
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Gene Ontology
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specification of floral organ identity( GO:0010093 )
inflorescence development( GO:0010229 )
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 )
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Trait Ontology
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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 )
inflorescence development trait( TO:0000621 )
grain yield( TO:0000396 )
spikelet anatomy and morphology trait( TO:0000657 )
lemma shape( TO:0000614 )
grain length( TO:0000734 )
grain width( TO:0000402 )
seed set percent( TO:0000455 )
1000-seed weight( TO:0000382 )
plant height( TO:0000207 )
tiller angle( TO:0000567 )
panicle length( TO:0000040 )
secondary branch number( TO:0000557 )
flower development trait( TO:0000622 )
grain shape( TO:0002730 )
grain number( TO:0002759 )
1000-dehulled grain weight( TO:0000592 )
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Plant Ontology
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plant embryo( PO:0009009 )
apical meristem( PO:0020144 )
inflorescence development stage( PO:0001083 )
spikelet( PO:0009051 )
spikelet floret( PO:0009082 )
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Related Strains
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Induced Mutation Lines(National Inst. of Genetics)
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1
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Lethal Embryo Mutation strain
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12
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Phenotype images
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Click to full size image in new window
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Photo from
Y. Nagato
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Last updated
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Feb 17, 2025
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