Functional Characterization of a Strong Bi-directional Constitutive Plant Promoter Isolated from Cotton Leaf Curl Burewala Virus

Khan, Zainul A.; Abdin, M. Z.; Khan, J. A.

doi:10.1371/journal.pone.0121656

Cited by 25 publications

(18 citation statements)

References 66 publications

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“…Although CPTY-Pro had the most elements, it did not promote expression. Interestingly, although CPTY-pro is a TATA-less promoter, this fact did not explain its behaviour, this observation is consistent with the observation of Khan et al 2015 ) when it has observed a weak activity of CLCuBuV CP promoter which has been explained to probably be due to the absence of AC2 gene product in CLCuBuV (Amrao et al 2010 ). The role of transactivator AC2 protein for activation of virion sense promoter which has already been reported (Hong et al 1996 and Sunter et al 1990 ) and may have a great effect on the activity of CP promoter.…”

Section: Discussionsupporting

confidence: 80%

Impact of cis-acting elements’ frequency in transcription activity in dicot and monocot plants

et al. 2015

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The production of new cultivars via recombinant DNA technology is important in applied agriculture. Promoters play fundamental roles in successful transformation and gene expression. Fragments of the upstream regulatory region of the movement protein gene of the Tomato yellow leaf curl virus (TYLCV; two fragments) and Watermelon chlorotic stunt virus (WmCSV, two fragments) and one fragment of the coat protein putative promoter of TYLCV (CPTY-pro) were isolated to assess their abilities to drive expression in monocot and dicot plants. We used bioinformatic analyses to identify tentative motifs in the fragments. The five promoter fragments were isolated, fused with the GUS reporter gene, and transformed into tomato, watermelon, and rice plantlets via Agrobacterium infiltration. GUS expression driven by each putative promoter was analysed using histochemical and fluorometric analyses. In both dicots and the monocots, the highest level of GUS expression was obtained using a truncated regulatory region from TYLCV (MMPTY-pro) followed by a truncated regulatory region from WmCSV (MMPWm-pro). However, the corresponding full-length fragments from TYLCV and WmCSV showed essentially equivalent expression levels in the fluorometric GUS assay compared with the enhanced Cauliflower mosaic virus e35S-pro. In addition, CPTY-pro showed no expression in either the dicots or the monocot. This study demonstrated that MMPTY-pro and MMPWm-pro may be useful as plant promoters.

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Section: Discussionsupporting

confidence: 80%

Impact of cis-acting elements’ frequency in transcription activity in dicot and monocot plants

et al. 2015

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“…3A and Supplementary Figure 6 ). This conserved structure is directly involved in virus replication as a site for Rep binding and nick formation, and has putative bidirectional promoters 4 33 34 . Also, IRs are strain-specific and interact only with specific Rep proteins 35 36 37 .…”

Section: Resultsmentioning

confidence: 99%

CRISPR/Cas9-Mediated Immunity to Geminiviruses: Differential Interference and Evasion

Ali

Tashkandi

et al. 2016

Sci Rep

218

155

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The CRISPR/Cas9 system has recently been used to confer molecular immunity against several eukaryotic viruses, including plant DNA geminiviruses. Here, we provide a detailed analysis of the efficiencies of targeting different coding and non-coding sequences in the genomes of multiple geminiviruses. Moreover, we analyze the ability of geminiviruses to evade the CRISPR/Cas9 machinery. Our results demonstrate that the CRISPR/Cas9 machinery can efficiently target coding and non-coding sequences and interfere with various geminiviruses. Furthermore, targeting the coding sequences of different geminiviruses resulted in the generation of viral variants capable of replication and systemic movement. By contrast, targeting the noncoding intergenic region sequences of geminiviruses resulted in interference, but with inefficient recovery of mutated viral variants, which thus limited the generation of variants capable of replication and movement. Taken together, our results indicate that targeting noncoding, intergenic sequences provides viral interference activity and significantly limits the generation of viral variants capable of replication and systemic infection, which is essential for developing durable resistance strategies for long-term virus control.

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“…Similarly, plant BDPs function in the regulation of important agricultural traits131415161718. The transcription of bidirectional protein-coding gene pairs arranged with in a head-to-head orientation is controlled by bidirectional promoters (BDPs), which have been intensively investigated in eukaryotic genomes, ranging from yeast1920, Drosophila 21, and humans522 to plants2324.…”

mentioning

confidence: 99%

Functional characterization of open chromatin in bidirectional promoters of rice

Fang

Wang

et al. 2016

Sci Rep

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Bidirectional gene pairs tend to be highly coregulated and function in similar biological processes in eukaryotic genomes. Structural features and functional consequences of bidirectional promoters (BDPs) have received considerable attention among diverse species. However, the underlying mechanisms responsible for the bidirectional transcription and coexpression of BDPs remain poorly understood in plants. In this study, we integrated DNase-seq, RNA-seq, ChIP-seq and MNase-seq data and investigated the effect of physical DNase I hypersensitive site (DHS) positions on the transcription of rice BDPs. We found that the physical position of a DHS relative to the TSS of bidirectional gene pairs can affect the expression of the corresponding genes: the closer a DHS is to the TSS, the higher is the expression level of the genes. Most importantly, we observed that the distribution of DHSs plays a significant role in the regulation of transcription and the coexpression of gene pairs, which are possibly mediated by orchestrating the positioning of histone marks and canonical nucleosomes around BDPs. Our results demonstrate that the combined actions of chromatin structures with DHSs, which contain functional cis-elements for interaction with transcriptional machinery, may play an important role in the regulation of the bidirectional transcription or coexpression in rice BDPs. Our findings may help to enhance the understanding of DHSs in the regulation of bidirectional gene pairs.

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Functional Characterization of a Strong Bi-directional Constitutive Plant Promoter Isolated from Cotton Leaf Curl Burewala Virus

Cited by 25 publications

References 66 publications

Impact of cis-acting elements’ frequency in transcription activity in dicot and monocot plants

Impact of cis-acting elements’ frequency in transcription activity in dicot and monocot plants

CRISPR/Cas9-Mediated Immunity to Geminiviruses: Differential Interference and Evasion

Functional characterization of open chromatin in bidirectional promoters of rice

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