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NAC Family Genes AT1G01720 AT1G77450
Yosuke Ishida From Kyoto Japan
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Basic information on my genes
AT1G01720 AT1G77450 1.1kbp 1.2kbp 1129 484 T-DNA T-DNA ATAF1 coding gene. SALK_057168 Transcript level increases in response to wounding. Activate CaMV35S promoter in Saccharomycos. SALK_087702 Function of protein is not known yet.
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Determination of genotype and T-DNA site (gene1)
Positive cont WT WT Plant Number 1613 1036 506 Gel purification Sequencing reaction using LBb1 primer T-DNA inserted site is same as that shown in web site LBb1 1129 T-DNA
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Determination of genotype and T-DNA site (gene2)
Positive cont Negative cont WT WT Plant Number 1613 1036 506 Gel purification Sequencing reaction using LBb1 primer T-DNA site is 107 bases upstream from that shown in web site. Inserted to 2nd exon. LBb1 374 T-DNA
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Observation under Normarski to find phenotype of homozygous mutant
Homozygous mutant of 1st gene Homozygous mutant of 2nd gene No significant difference between wild type and homozygous mutant
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RT-PCR analysis AT1G77450 AT1G01720
In which organ or tissue my genes is expressing? Gene 1 Gene 2 AT1G77450 AT1G01720 0.2kbp 0.7kbp PCR PCR mRNA Poly(A) mRNA Poly(A) RT RT cDNA cDNA 0.2kbp PCR 0.6kbp PCR 0.2kbp bands are expected kbp band and 0.7kbp bands are expected Tublin primers are added with RT-PCR primers in order to confirm that cDNA was synthesized
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Supporting genechip data
Silique+RT Silique-RT Leaf+RT Leaf-RT Seed+RT Leaf+RT Silique+RT Leaf+RT Leaf -RT Silique-RT Positive cont Negative cont Positive cont 1036 1036 506 506 Tublin Bands 396 Supporting genechip data
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Cloning promoter region
undigested plasmid vector AT1G01720 gDNA 12216 vector+inserted fragment 2.4 kbp PCR 4072 3054 2036 1613 1018 EcoRI 1.9kbp 506 0.5kbp EcoRI EcoRI 3.9kbp AT1G77450 1.9 kbp PCR No EcoRI site 4072 3054 2036 1.9 kbp 1613 EcoRI EcoRI 3.9kbp
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Sequencing analysis to find out mutation
AT1G01710 AT1G01720 AT1G77440 AT1G77450 ---t--- ---tag--- ---a--- ---ttgtta--- SP6 T7 SP6 T7 2.4 kbp 1.9 kbp 0.7kbp 0.8kbp 0.8kbp 0.8kbp SP6 T7 SP6 T7 Mutation sequence locates to 5’UTR of gene 255th ‘T’ downstream from 3’UTR end mutated into ‘A’ It is necessary to carry out sequencing reaction. It is possible that database is just differrent from my sequencing result.
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Summary and future work
Background 2 genes belong to ATAF subfamily of NAC family. They have very similar DNA sequence. Result of experiment Phenotype of homozygous mutant plants are wild type. Similar expression pattern (genechip) My hypothesis is one gene complement another If one gene lost function, another works instead of it. Expression study of KO plant would reveal the relationship between 2 genes.
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