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Sense and antisense OsDof12 transcripts in rice.

Li D, Yang C, Li X, Ji G, Zhu L - BMC Mol. Biol. (2008)

Bottom Line: Interestingly, the expression of both genes was significantly induced under drought treatment, and inhibited by dark treatment.In addition, the analysis of cis-regulatory elements indicated that either of the two promoters contained 74 classes of cis-regulatory elements predicted, of which the two promoter regions shared 53 classes.Based on the expression profiles of OsDof12 and OsDof12os, the expression patterns of GUS in the ProOsDof12-GUS and ProOsDof12os-GUS transgenic rice plants and the predicted common cis-regulatory elements shared by the two promoters, we suggest that the co-expression patterns of OsDof12 and OsDof12os might be attributed to the basically common nature of the two promoters.

View Article: PubMed Central - HTML - PubMed

Affiliation: State Key Laboratory of Plant Genomics & National Plant Gene Research Center (Beijing), Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Chaoyang District, Beijing 100101, PR China. djli@genetics.ac.cn

ABSTRACT

Background: Antisense transcription is a widespread phenomenon in plants and mammals. Our previous data on rice gene expression analysis by microarray indicated that the sense and antisense transcripts at the OsDof12 locus were co-expressed in leaves. In current study, we analyzed the expression patterns in detail and looked for the possible mechanism related to their expression patterns.

Results: OsDof12, being a single copy gene located on rice chromosome 3, encodes a predicted Dof protein of 440 amino acids with one intron of 945 bp. The antisense transcript, OsDofl2os, overlaps with both the exonic and intronic regions of OsDof12 and encodes a functionally unknown protein of 104 amino acids with no intron. The sense-antisense OsDof12 transcripts were co-expressed within the same tissues, and their expressions were not tissue-specific in general. At different developmental stages in rice, the OsDof12 and OsDof12os transcripts exhibited reciprocal expression patterns. Interestingly, the expression of both genes was significantly induced under drought treatment, and inhibited by dark treatment. In the ProOsDof12-GUS and ProOsDof12os-GUS transgenic rice plants, the expression profiles of GUS were consistent with those of the OsDof12 and OsDof12os transcripts, respectively. In addition, the analysis of cis-regulatory elements indicated that either of the two promoters contained 74 classes of cis-regulatory elements predicted, of which the two promoter regions shared 53 classes.

Conclusion: Based on the expression profiles of OsDof12 and OsDof12os, the expression patterns of GUS in the ProOsDof12-GUS and ProOsDof12os-GUS transgenic rice plants and the predicted common cis-regulatory elements shared by the two promoters, we suggest that the co-expression patterns of OsDof12 and OsDof12os might be attributed to the basically common nature of the two promoters.

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Southern blotting analysis of OsDof12. Single band was detected in genomic DNA digested with HindIII(H) or EcoRI(E) using probe C. A total of 10 μg Lambda DNA (Promega) was digested with HindIII and served as the molecular length marker.
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Figure 1: Southern blotting analysis of OsDof12. Single band was detected in genomic DNA digested with HindIII(H) or EcoRI(E) using probe C. A total of 10 μg Lambda DNA (Promega) was digested with HindIII and served as the molecular length marker.

Mentions: BLAST results show that the OsDof12 gene is a single copy gene located on rice chromosome 3 [27]. To further confirm this, total DNA from rice leaves was extracted and digested with HindIII and EcoRI, respectively, and analyzed by Southern blotting under stringent conditions. To prevent cross hybridization, we used the OsDof12 specific probe (probe C) that spans the segment from 670 bp to 1378 bp in the OsDof12 full-length cDNA. As shown in Figure 1, only one band with expected size was detected in the Southern hybridization, which confirms that the OsDof12 gene is a single copy in rice genome.


Sense and antisense OsDof12 transcripts in rice.

Li D, Yang C, Li X, Ji G, Zhu L - BMC Mol. Biol. (2008)

Southern blotting analysis of OsDof12. Single band was detected in genomic DNA digested with HindIII(H) or EcoRI(E) using probe C. A total of 10 μg Lambda DNA (Promega) was digested with HindIII and served as the molecular length marker.
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC2576344&req=5

Figure 1: Southern blotting analysis of OsDof12. Single band was detected in genomic DNA digested with HindIII(H) or EcoRI(E) using probe C. A total of 10 μg Lambda DNA (Promega) was digested with HindIII and served as the molecular length marker.
Mentions: BLAST results show that the OsDof12 gene is a single copy gene located on rice chromosome 3 [27]. To further confirm this, total DNA from rice leaves was extracted and digested with HindIII and EcoRI, respectively, and analyzed by Southern blotting under stringent conditions. To prevent cross hybridization, we used the OsDof12 specific probe (probe C) that spans the segment from 670 bp to 1378 bp in the OsDof12 full-length cDNA. As shown in Figure 1, only one band with expected size was detected in the Southern hybridization, which confirms that the OsDof12 gene is a single copy in rice genome.

Bottom Line: Interestingly, the expression of both genes was significantly induced under drought treatment, and inhibited by dark treatment.In addition, the analysis of cis-regulatory elements indicated that either of the two promoters contained 74 classes of cis-regulatory elements predicted, of which the two promoter regions shared 53 classes.Based on the expression profiles of OsDof12 and OsDof12os, the expression patterns of GUS in the ProOsDof12-GUS and ProOsDof12os-GUS transgenic rice plants and the predicted common cis-regulatory elements shared by the two promoters, we suggest that the co-expression patterns of OsDof12 and OsDof12os might be attributed to the basically common nature of the two promoters.

View Article: PubMed Central - HTML - PubMed

Affiliation: State Key Laboratory of Plant Genomics & National Plant Gene Research Center (Beijing), Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Chaoyang District, Beijing 100101, PR China. djli@genetics.ac.cn

ABSTRACT

Background: Antisense transcription is a widespread phenomenon in plants and mammals. Our previous data on rice gene expression analysis by microarray indicated that the sense and antisense transcripts at the OsDof12 locus were co-expressed in leaves. In current study, we analyzed the expression patterns in detail and looked for the possible mechanism related to their expression patterns.

Results: OsDof12, being a single copy gene located on rice chromosome 3, encodes a predicted Dof protein of 440 amino acids with one intron of 945 bp. The antisense transcript, OsDofl2os, overlaps with both the exonic and intronic regions of OsDof12 and encodes a functionally unknown protein of 104 amino acids with no intron. The sense-antisense OsDof12 transcripts were co-expressed within the same tissues, and their expressions were not tissue-specific in general. At different developmental stages in rice, the OsDof12 and OsDof12os transcripts exhibited reciprocal expression patterns. Interestingly, the expression of both genes was significantly induced under drought treatment, and inhibited by dark treatment. In the ProOsDof12-GUS and ProOsDof12os-GUS transgenic rice plants, the expression profiles of GUS were consistent with those of the OsDof12 and OsDof12os transcripts, respectively. In addition, the analysis of cis-regulatory elements indicated that either of the two promoters contained 74 classes of cis-regulatory elements predicted, of which the two promoter regions shared 53 classes.

Conclusion: Based on the expression profiles of OsDof12 and OsDof12os, the expression patterns of GUS in the ProOsDof12-GUS and ProOsDof12os-GUS transgenic rice plants and the predicted common cis-regulatory elements shared by the two promoters, we suggest that the co-expression patterns of OsDof12 and OsDof12os might be attributed to the basically common nature of the two promoters.

Show MeSH