Gene - Detail

Detail of Gene

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Basic Information
CGSNL Gene Symbol LCD1
Gene Symbol Synonym NRAMP5, OsNRAMP5, OsNramp5, OsLCD1
Allele osnramp5, osnramp5-1, lcd-kmt1, osnramp5-2, lcd-kmt2, osnramp5-3, lcdkmt3, nramp5
Chromosome No. 7
Explanation Q8H4H5. AB690551, AB690552, AB690553. AB698459. MH07t0175300. TO:0006059: cadmium concentration. TO:0006059: cadmium content trait. TO:1000056: shoot system cadmium content. TO:1000030: root system cadmium content. TO:1000039: root system manganese content. TO:1000064: shoot system manganese content. TO:0006048: manganese concentration. one of the two candidate genes for qSER-7 (QTL for stigma exsertion rate on chromosome 7). TO:0006059: cadmium content trait. GO:0097054: L-glutamate biosynthetic process. TO:0020096: mineral and ion transport trait. TO:0020090: zinc content trait.
Trait Class Biochemical character
Seed - Physiological traits - Storage substances
Tolerance and resistance - Stress tolerance
Reproductive organ - Spikelet, flower, glume, awn
cDNA Accession No. AK070788
MSU ID LOC_Os07g15370.1
RAP ID Os07g0257200
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 map Classical linkage map
Feng K., Li J., Yang Y., Li Z., Wu W.
Int J Mol Sci 2023  24(9) 
Cadmium Absorption in Various Genotypes of Rice under Cadmium Stress.
Syu C.H., Nieh T.I., Hsieh M.T., Lo Y.C., Du P.R., Lin Y.W., Wu D.H.
Plants (Basel) 2022  11(21) 
Uncovering the Genetic of Cadmium Accumulation in the Rice 3K Panel.
Zhang J., Zhu Y., Yu L., Yang M., Zou X., Yin C., Lin Y.
Cells 2022  11(3) 
Research Advances in Cadmium Uptake, Transport and Resistance in Rice (<i>Oryza sativa</i> L.).
Ma C., Hao Y., Zhao J., Zuverza-Mena N., Meselhy A.G., Dhankher O.P., Rui Y., White J.C., Xing B.
Nanomaterials (Basel) 2021  11(4) 
Graphitic Carbon Nitride (C3N4) Reduces Cadmium and Arsenic Phytotoxicity and Accumulation in Rice (<i>Oryza sativa</i> L.).
Xue W., Wang P., Tang L., Zhang C., Wang C., Huang Y., Zhang X., Li Y., Zhao B., Liu Z.
Ecotoxicol. Environ. Saf. 2021  211  111921
Citric acid inhibits Cd uptake by improving the preferential transport of Mn and triggering the defense response of amino acids in grains.
Wang K., Yan T.Z., Xu S.L., Yan X., Zhou Q.F., Zhao X.H., Li Y.F., Wu Z.X., Qin P., Fu C.J., Fu J., Zhou Y.B., Yang Y.Z.
Sci Rep 2021  11(1)  6053
Validating a segment on chromosome 7 of japonica for establishing low-cadmium accumulating indica rice variety.
Liu J., Zhan J., Chen J., Lu X., Zhi S., Ye G.
Front Genet 2021  12  701658
Validation of Genes Affecting Rice Grain Zinc Content Through Candidate Gene-Based Association Analysis.
Desai J.S., Lawas L.M.F., Valente A.M., Leman A.R., Grinevich D.O., Jagadish S.V.K., Doherty C.J.
Proc. Natl. Acad. Sci. U.S.A. 2021  118(25) 
Warm nights disrupt transcriptome rhythms in field-grown rice panicles.
Chang J.D., Huang S., Yamaji N., Zhang W., Ma J.F., Zhao F.J.
Plant Cell Environ. 2020  43(10)  2476-2491
OsNRAMP1 transporter contributes to cadmium and manganese uptake in rice.
Liu A., Zhou Z., Yi Y., Chen G.
BMC Genomics 2020  21(1)  127
Transcriptome analysis reveals the roles of stem nodes in cadmium transport to rice grain.
Cao Z.Z., Lin X.Y., Yang Y.J., Guan M.Y., Xu P., Chen M.X.
BMC Plant Biol. 2019  19(1)  250
Gene identification and transcriptome analysis of low cadmium accumulation rice mutant (lcd1) in response to cadmium stress using MutMap and RNA-seq.
Treesubsuntorn C., Thiravetyan P.
Plant Biol (Stuttg) 2019  21(5)  862-872
Calcium acetate-induced reduction of cadmium accumulation in Oryza sativa: Expression of auto-inhibited calcium-ATPase and cadmium transporters.
Liu Y., Zhang A., Wang F., Kong D., Li M., Bi J., Zhang F., Wang J., Luo X., Pan Z., Yu X., Liu G., Luo L.
Rice (N Y) 2019  12(1)  46
Fine mapping a quantitative trait locus, qSER-7, that controls stigma exsertion rate in rice (Oryza sativa L.).
Himeno S., Sumi D., Fujishiro H.
Toxicol Res 2019  35(4)  311-317
Toxicometallomics of Cadmium, Manganese and Arsenic with Special Reference to the Roles of Metal Transporters.
Chen X., Ouyang Y., Fan Y., Qiu B., Zhang G., Zeng F.
J. Exp. Bot. 2018  69(21)  5279-5291
The pathway of transmembrane cadmium influx via calcium-permeable channels and its spatial characteristics along rice root.
Tanaka N., Uraguchi S., Kajikawa M., Saito A., Ohmori Y., Fujiwara T.
Plant J. 2018  96(5)  997-1006
A rice PHD-finger protein OsTITANIA, is a growth regulator that functions through elevating expression of transporter genes for multiple metals.
Luo B., Chen J., Zhu L., Liu S., Li B., Lu H., Ye G., Xu G., Fan X.
Front Plant Sci 2018  9  1192
Overexpression of a High-Affinity Nitrate Transporter <i>OsNRT2.1</i> Increases Yield and Manganese Accumulation in Rice Under Alternating Wet and Dry Condition.
Mani A., Sankaranarayanan K.
Protein J. 2018  37(3)  237-247
In Silico Analysis of Natural Resistance-Associated Macrophage Protein (NRAMP) Family of Transporters in Rice.
Tsunemitsu Y., Yamaji N., Ma J.F., Kato S.I., Iwasaki K., Ueno D.
Plant Signal Behav 2018  13(1)  e1422466
Rice reduces Mn uptake in response to Mn stress.
Ding Y., Ye Y., Jiang Z., Wang Y., Zhu C.
Front Plant Sci 2016  7  235
MicroRNA390 Is Involved in Cadmium Tolerance and Accumulation in Rice.
Takahashi R., Ishimaru Y., Shimo H., Bashir K., Senoura T., Sugimoto K., Ono K., Suzui N., Kawachi N., Ishii S., Yin Y.G., Fujimaki S., Yano M., Nishizawa N.K., Nakanishi H.
PLoS ONE 2014  9(6)  e98816
From laboratory to field: OsNRAMP5-knockdown rice is a promising candidate for Cd phytoremediation in paddy fields.
Ishimaru Y., Bashir K., Nakanishi H., Nishizawa N.K.
Plant Signal Behav 2012  7(7)  1-4
OsNRAMP5, a major player for constitutive iron and manganese uptake in rice.
Ishimaru Y., Takahashi R., Bashir K., Shimo H., Senoura T., Sugimoto K., Ono K., Yano M., Ishikawa S., Arao T., Nakanishi H., Nishizawa N.K.
Sci Rep 2012  2  286
Characterizing the role of rice NRAMP5 in Manganese, Iron and Cadmium Transport.
Ishikawa S., Ishimaru Y., Igura M., Kuramata M., Abe T., Senoura T., Hase Y., Arao T., Nishizawa N.K., Nakanishi H.
Proc. Natl. Acad. Sci. U.S.A. 2012  109(47)  19166-71
Ion-beam irradiation, gene identification, and marker-assisted breeding in the development of low-cadmium rice.
Sasaki,A., Yamaji,N., Yokosho,K. and Ma,J.F.
Plant Cell 2012  24(5)  2155-2167
Nramp5 is a major transporter responsible for manganese and cadmium uptake in rice
Takahashi R. , Ishimaru Y. , Senoura T. , Shimo H. , Ishikawa S. , Arao T. , Nakanishi H. , Nishizawa N.K.
J. Exp. Bot. 2011    -
The OsNRAMP1 iron transporter is involved in Cd accumulation in rice.
Narayanan NN, Vasconcelos MW, Grusak MA.
Plant Physiol. Biochem. 2007  45(5)  277-86.
Expression profiling of Oryza sativa metal homeostasis genes in different rice cultivars using a cDNA macroarray.
TextPresso Search Search textpresso for LCD1 ( Recent references may be retrievable, but without any warranty )
DB Reference
Gramene ID -
Gene Ontology cadmium ion transmembrane transport( GO:0070574 )
manganese ion transport( GO:0006828 )
response to organic substance( GO:0010033 )
L-phenylalanine biosynthetic process( GO:0009094 )
threonine biosynthetic process( GO:0009088 )
alanine biosynthetic process( GO:0006523 )
phloem transport( GO:0010233 )
plasma membrane( GO:0005886 )
glutamate biosynthetic process( GO:0006537 )
response to temperature stimulus( GO:0009266 )
temperature compensation of the circadian clock( GO:0010378 )
circadian rhythm( GO:0007623 )
metal ion transport( GO:0030001 )
integral to membrane( GO:0016021 )
ion transport( GO:0006811 )
iron ion homeostasis( GO:0055072 )
cadmium ion transport( GO:0015691 )
response to cadmium ion( GO:0046686 )
Trait Ontology stigma exsertion( TO:0000044 )
temperature response trait( TO:0000432 )
amino acid content( TO:0002673 )
grain size( TO:0000397 )
forage yield( TO:0000388 )
Plant Ontology exodermis( PO:0005772 )
root endodermis( PO:0005059 )
Related Strains
Phenotype images
Last updated
Aug 30, 2023