Difference between revisions of "Os07g0232900"
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| + | The rice ''Os07g0232900 '' was reported as ''Heavy metal ATPases 3 ('''OsHMA3''')'' in 2010 and 2011 four times by researchers from Japan<ref name="ref1" /><ref name="ref2" /><ref name="ref3" /><ref name="ref3" />. | ||
| + | |||
| + | ==Annotated Information== | ||
| + | ===Function=== | ||
| + | [[File:OsHAM3_1.jpg|right|thumb|320px|'''Figure 1.''' ''Mutant VS. WT(from reference) <ref name="ref4" />.<br>(C and D) shows a Complementation test. Cd concentration in the shoots (C) and roots (D) of three independent transgenic lines carrying '''OsHMA3''' and empty vector in Anjana Dhan background. (E and F) shows the Effect of decreased expression of '''OsHMA3''' on Cd accumulation. Cd concentration in the shoots (E) and roots (F) of three independent RNAi lines and vector control plants in Nipponbare background.'']] | ||
| + | [[File:OsHAM3_2.jpg|right|thumb|320px|'''Figure 2.''' ''Complementary Test of OsHMA3 in S. cerevisiae(Yeast) <ref name="ref2" />]] | ||
| + | [[File:OsHAM3_3.jpg|right|thumb|320px|'''Figure 4.''' ''The modular structure of the OsARF family.(from reference) <ref name="ref3" />.'']] | ||
| + | * '''''OsHAM3''''' encodes a P1B-type ATPase, acting as a Cd transporter, which can control the ability of root-to-shoot Cd translocation<ref name = "ref2" /><ref name = "ref3" /><ref name = "ref4" />. This gene is involved in the efflux of divalent metal ions across a vacuole membrane<ref name = "ref3" />. | ||
| + | * Defective function of '''''OsHAM3''''' leads to high Cd accumulation in 3 different rice cultivars: Cho-Ko-Koku, Anjana Dhan as well as Jarjan<ref name = "ref1" /><ref name = "ref2" /><ref name = "ref3" /><ref name = "ref4" />, while the rice cultivar Nipponbare with intact function of '''''OsHAM3''''' gets low accumulation rate of Cd. | ||
| + | * '''''OsHMA3''''' from the low Cd-accumulating cultivar limits the translocation of Cd from the roots to the above-ground tissues by selectively sequestrating Cd into the root vacuoles, thus decrease the accumulation rate of Cd in the whole plant<ref name = "ref2" /><ref name = "ref4" />. | ||
| + | * In contrast, the allelic gene '''''OsHMA3mc''''' from the high Cd-accumulating cultivar lost the function to act as a firewall of Cd because of a single amino acid mutation<ref name = "ref4" />.The study of this gene will be of great value for phytoremediation of Cd-polluted paddy Welds<ref name = "ref1" />. | ||
| + | |||
| + | ===Wild Type & Mutations=== | ||
| + | '''Cd Accumulation Rates in different Rice plants, counted by ''Daisei Uenoa et al.'' ''' | ||
| + | * Analysis with three independent transgenic lines showed that introduction of '''''OsHMA3''''' from Nipponbare into Anjana Dhan resulted in decreased Cd accumulation in the shoots (P < 0.01) (Fig 1C), but increased Cd accumulation in the roots (P<0.01) (Fig 1D)<ref name = "ref4" />. | ||
| + | * Furthermore, when '''''OsHMA3''''' expression was knocked down in Nipponbare by RNAi, the concentration of Cd in the shoot was increased by 2.1- to 2.5-times in the RNAi lines compared with the empty-vector control plants (P < 0.05) (Fig. 1E) and the root Cd concentration was decreased by 74 to 60% in the RNAi line (P < 0.05) (Fig 1F)<ref name = "ref4" />.<br><br> | ||
| + | '''Complementary Test of ''OsHMA3'' in'' S. cerevisiae(Yeast)'' by ''Hidenori Miyadate et al.'' ''' | ||
| + | * The wild-type yeast strain ('''BY4743''') can grow, with only slight inhibition, in media containing up to 60 μM of CdCl2. The mutant strain ('''YDR135c'''), which lacks Cd transport to the vacuole, shows severe growth inhibition above 30 μM CdCl2(Fig 2)<ref name = "ref2" />. | ||
| + | * Expression of '''''OsHMA3''''' in the mutant yeast strain increased its Cd tolerance('''YDR135c-A63''') so that its level of tolerance was only slightly inferior to that of the wild strain. By contrast, mutant yeast expressing '''''OsHMA3mc''''' did not grow at 30 μM CdCl2('''YDR135c-A63-CKK'''), indicating that '''''OsHMA3mc''''' had no effect on Cd sensitivity in YDR135c<ref name = "ref2" />(Fig 2). | ||
Revision as of 15:28, 18 April 2013
The rice Os07g0232900 was reported as Heavy metal ATPases 3 (OsHMA3) in 2010 and 2011 four times by researchers from Japan[1][2][3][3].
Annotated Information
Function
(C and D) shows a Complementation test. Cd concentration in the shoots (C) and roots (D) of three independent transgenic lines carrying OsHMA3 and empty vector in Anjana Dhan background. (E and F) shows the Effect of decreased expression of OsHMA3 on Cd accumulation. Cd concentration in the shoots (E) and roots (F) of three independent RNAi lines and vector control plants in Nipponbare background.
- OsHAM3 encodes a P1B-type ATPase, acting as a Cd transporter, which can control the ability of root-to-shoot Cd translocation[2][3][4]. This gene is involved in the efflux of divalent metal ions across a vacuole membrane[3].
- Defective function of OsHAM3 leads to high Cd accumulation in 3 different rice cultivars: Cho-Ko-Koku, Anjana Dhan as well as Jarjan[1][2][3][4], while the rice cultivar Nipponbare with intact function of OsHAM3 gets low accumulation rate of Cd.
- OsHMA3 from the low Cd-accumulating cultivar limits the translocation of Cd from the roots to the above-ground tissues by selectively sequestrating Cd into the root vacuoles, thus decrease the accumulation rate of Cd in the whole plant[2][4].
- In contrast, the allelic gene OsHMA3mc from the high Cd-accumulating cultivar lost the function to act as a firewall of Cd because of a single amino acid mutation[4].The study of this gene will be of great value for phytoremediation of Cd-polluted paddy Welds[1].
Wild Type & Mutations
Cd Accumulation Rates in different Rice plants, counted by Daisei Uenoa et al.
- Analysis with three independent transgenic lines showed that introduction of OsHMA3 from Nipponbare into Anjana Dhan resulted in decreased Cd accumulation in the shoots (P < 0.01) (Fig 1C), but increased Cd accumulation in the roots (P<0.01) (Fig 1D)[4].
- Furthermore, when OsHMA3 expression was knocked down in Nipponbare by RNAi, the concentration of Cd in the shoot was increased by 2.1- to 2.5-times in the RNAi lines compared with the empty-vector control plants (P < 0.05) (Fig. 1E) and the root Cd concentration was decreased by 74 to 60% in the RNAi line (P < 0.05) (Fig 1F)[4].
Complementary Test of OsHMA3 in S. cerevisiae(Yeast) by Hidenori Miyadate et al.
- The wild-type yeast strain (BY4743) can grow, with only slight inhibition, in media containing up to 60 μM of CdCl2. The mutant strain (YDR135c), which lacks Cd transport to the vacuole, shows severe growth inhibition above 30 μM CdCl2(Fig 2)[2].
- Expression of OsHMA3 in the mutant yeast strain increased its Cd tolerance(YDR135c-A63) so that its level of tolerance was only slightly inferior to that of the wild strain. By contrast, mutant yeast expressing OsHMA3mc did not grow at 30 μM CdCl2(YDR135c-A63-CKK), indicating that OsHMA3mc had no effect on Cd sensitivity in YDR135c[2](Fig 2).
Structured Information
| Gene Name |
Os07g0232900 |
|---|---|
| Description |
ATPase, P-type, K/Mg/Cd/Cu/Zn/Na/Ca/Na/H-transporter family protein |
| Version |
NM_001065775.2 GI:297606939 GeneID:4342783 |
| Length |
3809 bp |
| Definition |
Oryza sativa Japonica Group Os07g0232900, 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 | |
| Location |
Chromosome 7:7437901..7441709 |
| Sequence Coding Region |
7437901..7439339,7439452..7439657,7439841..7440171,7440268..7440405,7440619..7440874 |
| Expression | |
| Genome Context |
<gbrowseImage1> name=NC_008400:7437901..7441709 source=RiceChromosome07 preset=GeneLocation </gbrowseImage1> |
| Gene Structure |
<gbrowseImage2> name=NC_008400:7437901..7441709 source=RiceChromosome07 preset=GeneLocation </gbrowseImage2> |
| Coding Sequence |
<cdnaseq>atggccggaaaggatgaggcggaagggctcgaggcgaggctgctgctgctgccgcctgaggcggcggcggaggagccgacgaggtgtggcggcggcgacggcggcggcggcgggaggaagcggaagaagacgtaccttgatgtccttggcgtgtgctgctccgcggaggtcgcgctggtggagcggctgctcgcgccgctcgacggcgtccgcgtggtgtccgtcgtcgtggcgtcccgcaccgtcgtcgtcgagcacgaccccgccgccgccccggagtccgccatcgtgaaggcgctgaacaaggccggcctcgaggcgtcggtgcgagcctacggcagcagcggcgtggtcagccggtggccgagcccgtacatcgtcgcctccggcgtcctcctcacggcgtccttcttcgagtggctcttccctcccctgcagtgcctggccgtggcggccgtcgtcgccggcgcgccgccgatggtgcgccgtgggttcgccgcggcgagccggctgtcgctcgacatcaacgtcctcatgctcatcgccgtcgccggcgcgctctgcctcggcgactacacggaggccggcgccatcgtcttcctcttcaccaccgcagaatggctcgagacgctggcctgcacaaaggcgagcgccgggatgtcgtcgttgatgggcatgctgccggtgaaggcggtcatcgcgacgacgggcgaggttgtcagcgtgcgcgacgtccgcgtgggcgacgtcgtcgcggtcagggccggcgagatcgtccccgtcgacggcgtggtggtcgacggccagagcgaggtcgacgagaggagcctcaccggcgagtccttcccggtgccgaagcagccgcactccgaggtctgggccggcacaatgaactttgacggttacattgctgtgagaactacggctctcgccgagaactcgacggtggcgaagatggagaggctggtggaggcggcgcagaacagcaggtcgaagacgcagcggctgatcgattcgtgcgcaaagtactacacgccggccgtggtggttgttgcagcaggagtggccctgatcccggctctgctcggagcagatggccttgagcaatggtggaagctggctctggtgatgcttgtgagcgcgtgcccctgcgcattagtgctgtcgacaccggtggcatccttctgcgcaatgctgcgcgctgcgaggatggggatcttcatcaagggtggagatgttcttgaatcacttggggagatcagggccgtcgcgttcgacaagaccgggacgatcaccagaggagagttcagcatcgactcgttccatctggttggggatcacaaggttgagatggatcatcttctttactggattgcaagcattgagagcaagtcaagccacccaatggcagctgcacttgtggagtatgctcaatccaaatccatccaaccaaacccggaaaatgtgggcgattttcggatatatcccggggaggggatctatggagagatccatggaaagcacatctacattgggaacagaaggacattggcaagagcgtcatcacctcagtcaactcaagaaatgggtgagatgatcaagggcgtgtcgatcggctacgtgatctgcgacggcgagctcgccggcgtcttctcgctctccgacgactgccggaccggcgcggcggaggcgatccgggagcttggatcgctgggcatcaagtcggttatgctgaccggggacagcagcgcggcggcgacgcacgcgcagggccagctcggcggcgtcatggaggagctccactccgagctcctcccggaggacaaggtccggctcgtcagcggcctcaaggcgaggttcggcccgacgatgatggtcggggacgggatgaacgacgcggcggcgctggcggcggcggacgtgggcgtgtccatgggcatctccgggtcggcggcggcgatggagaccagccacgcgacgctcatgtcgagcgacgtgctcagggtccccgaggccgtcaggctcggccggtgcgcccgccggaccatcgccgtcaacgtggccggctcggtggccgtgaaggccgccgtgctcgcgctggccgcggcgtggcgccccgtgctctgggccgccgtgctcgccgacgtcgggacgtgcctcctcgtcgtgctcaacagcatgacgctgctcagggaggagtggaagggcggcgccaaggaggacggcgcgtgccgcgccacggcgaggtcgctggtgatgaggtcccagctcgccgccgactcccaagcacccaacgccgcagacgctggcgccgccggccgtgagcaaacgaacggctgccgttgctgtccgaagccgggcatgtcgcccgagcactcggttgtcatcgacatccgagccgacggcgagcgtcaagaagagcggccggccgaggcggccgtcgttgccaaatgttgcggcggaggcggcggcgagggcatccgctgcggagcctccaagaagccaactgcaacggtcgttgttgccaaatgttgcgggggcggcggcggcggcgagggcaccaggtgcggcgcgtccaagaatccggcaacggcggccgtcgttgccaaatgttgcagcggaggcggcggcgagggcatcggctgcggagcctccaagaagccaactgcaacggccgttgttgccaaatgttgcggcggcggcggcgagggcaccaggtgcgccgcgtccaagaagccggcaacggcggccgtcgttgccaaatgttgcggtggcgatggcggcgagggcaccggatgtggtgcctccaagaggtcgccgccggctgagggaagctgcagcggcggtgaaggcggtaccaatggtgttggtcgttgctgcacgagcgtgaagaggccaacctgttgcgacatgggagcggcggaggtgtccgattcttcgccggagacggcgaaagactgcagaaatgggaggtgttgcgcgaagacgatgaactccggtgaagtgaaaggatga</cdnaseq> |
| Protein Sequence |
<aaseq>MAGKDEAEGLEARLLLLPPEAAAEEPTRCGGGDGGGGGRKRKKT YLDVLGVCCSAEVALVERLLAPLDGVRVVSVVVASRTVVVEHDPAAAPESAIVKALNK AGLEASVRAYGSSGVVSRWPSPYIVASGVLLTASFFEWLFPPLQCLAVAAVVAGAPPM VRRGFAAASRLSLDINVLMLIAVAGALCLGDYTEAGAIVFLFTTAEWLETLACTKASA GMSSLMGMLPVKAVIATTGEVVSVRDVRVGDVVAVRAGEIVPVDGVVVDGQSEVDERS LTGESFPVPKQPHSEVWAGTMNFDGYIAVRTTALAENSTVAKMERLVEAAQNSRSKTQ RLIDSCAKYYTPAVVVVAAGVALIPALLGADGLEQWWKLALVMLVSACPCALVLSTPV ASFCAMLRAARMGIFIKGGDVLESLGEIRAVAFDKTGTITRGEFSIDSFHLVGDHKVE MDHLLYWIASIESKSSHPMAAALVEYAQSKSIQPNPENVGDFRIYPGEGIYGEIHGKH IYIGNRRTLARASSPQSTQEMGEMIKGVSIGYVICDGELAGVFSLSDDCRTGAAEAIR ELGSLGIKSVMLTGDSSAAATHAQGQLGGVMEELHSELLPEDKVRLVSGLKARFGPTM MVGDGMNDAAALAAADVGVSMGISGSAAAMETSHATLMSSDVLRVPEAVRLGRCARRT IAVNVAGSVAVKAAVLALAAAWRPVLWAAVLADVGTCLLVVLNSMTLLREEWKGGAKE DGACRATARSLVMRSQLAADSQAPNAADAGAAGREQTNGCRCCPKPGMSPEHSVVIDI RADGERQEERPAEAAVVAKCCGGGGGEGIRCGASKKPTATVVVAKCCGGGGGGEGTRC GASKNPATAAVVAKCCSGGGGEGIGCGASKKPTATAVVAKCCGGGGEGTRCAASKKPA TAAVVAKCCGGDGGEGTGCGASKRSPPAEGSCSGGEGGTNGVGRCCTSVKRPTCCDMG AAEVSDSSPETAKDCRNGRCCAKTMNSGEVKG</aaseq> |
| Gene Sequence |
<dnaseqindica>2371..3809#2053..2258#1539..1869#1305..1442#836..1091#392..747#1..289#atggccggaaaggatgaggcggaagggctcgaggcgaggctgctgctgctgccgcctgaggcggcggcggaggagccgacgaggtgtggcggcggcgacggcggcggcggcgggaggaagcggaagaagacgtaccttgatgtccttggcgtgtgctgctccgcggaggtcgcgctggtggagcggctgctcgcgccgctcgacggcgtccgcgtggtgtccgtcgtcgtggcgtcccgcaccgtcgtcgtcgagcacgaccccgccgccgccccggagtccgccatcggtaagccaccgcgcgcgcgcgcgccattaatcctccacgcgattctcgcgcgagattctcactgaatcgagtcgtcgtcgtcgtctttgtcttggagtgcagtgaaggcgctgaacaaggccggcctcgaggcgtcggtgcgagcctacggcagcagcggcgtggtcagccggtggccgagcccgtacatcgtcgcctccggcgtcctcctcacggcgtccttcttcgagtggctcttccctcccctgcagtgcctggccgtggcggccgtcgtcgccggcgcgccgccgatggtgcgccgtgggttcgccgcggcgagccggctgtcgctcgacatcaacgtcctcatgctcatcgccgtcgccggcgcgctctgcctcggcgactacacggaggccggcgccatcgtcttcctcttcaccaccgcagaatggctcgagacgctggcctgcacaaaggtaggagtacatgtcaatgtcctcttcaccaaatccatggcgatcttggcacgaacccggacgaacactcacgttgcgaggtgtgcaggcgagcgccgggatgtcgtcgttgatgggcatgctgccggtgaaggcggtcatcgcgacgacgggcgaggttgtcagcgtgcgcgacgtccgcgtgggcgacgtcgtcgcggtcagggccggcgagatcgtccccgtcgacggcgtggtggtcgacggccagagcgaggtcgacgagaggagcctcaccggcgagtccttcccggtgccgaagcagccgcactccgaggtctgggccggcacaatgaactttgacggtaaacaaacaaacaatcaaaaaaatctctcatctcttagtttcagagttcccaaatgtacggaactctgaaacgtccgtgtcgttgaattgtccgtcttttctcatcagcttaagttctggtaaactgattgacgcatccaactcaatagtcacaatagcacacatttgttcatgtcatgatcaatgggattgagaggctgtcacgtttcaggttacattgctgtgagaactacggctctcgccgagaactcgacggtggcgaagatggagaggctggtggaggcggcgcagaacagcaggtcgaagacgcagcggctgatcgattcgtgcgcaaagtactacacgccgggtgcgcaatcggcatcgcctaaactctcaacatctccaattttacaacacaaaattcatcagtaacaaagacatttctgttcttggtgcgttgcagccgtggtggttgttgcagcaggagtggccctgatcccggctctgctcggagcagatggccttgagcaatggtggaagctggctctggtgatgcttgtgagcgcgtgcccctgcgcattagtgctgtcgacaccggtggcatccttctgcgcaatgctgcgcgctgcgaggatggggatcttcatcaagggtggagatgttcttgaatcacttggggagatcagggccgtcgcgttcgacaagaccgggacgatcaccagaggagagttcagcatcgactcgttccatctggttggggatcacaaggttgagatggatcatcttctttactggtaagactgagaaagaagatttcatttcagctcttggaatgcagctgctacactgaacaaatttgacagattttcaactgttgtcggtttacgacttgtcgaaaaatccttagtacttgtgatggtttgaattgacttgaacagtgaaatgcttggcacaaattatgtctttggttattgcaggattgcaagcattgagagcaagtcaagccacccaatggcagctgcacttgtggagtatgctcaatccaaatccatccaaccaaacccggaaaatgtgggcgattttcggatatatcccggggaggggatctatggagagatccatggaaagcacatctacattgggaacagaaggacattggcaagagcgtcatcacctcagtcaagtgagcaaaacacatcatttgtagtagtagtacagttcctgacaattaagcttcagaattagctgatcagctgaagctgagctgactgaactgaaatctgtgacgtttacagctcaagaaatgggtgagatgatcaagggcgtgtcgatcggctacgtgatctgcgacggcgagctcgccggcgtcttctcgctctccgacgactgccggaccggcgcggcggaggcgatccgggagcttggatcgctgggcatcaagtcggttatgctgaccggggacagcagcgcggcggcgacgcacgcgcagggccagctcggcggcgtcatggaggagctccactccgagctcctcccggaggacaaggtccggctcgtcagcggcctcaaggcgaggttcggcccgacgatgatggtcggggacgggatgaacgacgcggcggcgctggcggcggcggacgtgggcgtgtccatgggcatctccgggtcggcggcggcgatggagaccagccacgcgacgctcatgtcgagcgacgtgctcagggtccccgaggccgtcaggctcggccggtgcgcccgccggaccatcgccgtcaacgtggccggctcggtggccgtgaaggccgccgtgctcgcgctggccgcggcgtggcgccccgtgctctgggccgccgtgctcgccgacgtcgggacgtgcctcctcgtcgtgctcaacagcatgacgctgctcagggaggagtggaagggcggcgccaaggaggacggcgcgtgccgcgccacggcgaggtcgctggtgatgaggtcccagctcgccgccgactcccaagcacccaacgccgcagacgctggcgccgccggccgtgagcaaacgaacggctgccgttgctgtccgaagccgggcatgtcgcccgagcactcggttgtcatcgacatccgagccgacggcgagcgtcaagaagagcggccggccgaggcggccgtcgttgccaaatgttgcggcggaggcggcggcgagggcatccgctgcggagcctccaagaagccaactgcaacggtcgttgttgccaaatgttgcgggggcggcggcggcggcgagggcaccaggtgcggcgcgtccaagaatccggcaacggcggccgtcgttgccaaatgttgcagcggaggcggcggcgagggcatcggctgcggagcctccaagaagccaactgcaacggccgttgttgccaaatgttgcggcggcggcggcgagggcaccaggtgcgccgcgtccaagaagccggcaacggcggccgtcgttgccaaatgttgcggtggcgatggcggcgagggcaccggatgtggtgcctccaagaggtcgccgccggctgagggaagctgcagcggcggtgaaggcggtaccaatggtgttggtcgttgctgcacgagcgtgaagaggccaacctgttgcgacatgggagcggcggaggtgtccgattcttcgccggagacggcgaaagactgcagaaatgggaggtgttgcgcgaagacgatgaactccggtgaagtgaaaggatga</dnaseqindica> |
| External Link(s) |
- ↑ 1.0 1.1 1.2 Cite error: Invalid
<ref>tag; no text was provided for refs namedref1 - ↑ 2.0 2.1 2.2 2.3 2.4 2.5 2.6 Cite error: Invalid
<ref>tag; no text was provided for refs namedref2 - ↑ 3.0 3.1 3.2 3.3 3.4 3.5 Cite error: Invalid
<ref>tag; no text was provided for refs namedref3 - ↑ 4.0 4.1 4.2 4.3 4.4 4.5 4.6 Cite error: Invalid
<ref>tag; no text was provided for refs namedref4
