Citrus tristeza virus (CTV) is probably the most destructive viral pathogen of citrus. It causes chronic losses to commercial citrus production in all citrus-growing areas. The complete sequences of at least 42 genomes of different CTV strains have been obtained using different technologies including sequencing of multiple overlapped RT-PCR-amplified fragments with sizes of less than 4 kb, or from small viral RNA (svRNA), through next-generation high-throughput sequencing (NGS) technologies. The large size of CTV genome (>19.2 kb) makes it impractical to obtain and amplify full-length cDNA in a single step. The strategy of ligation of multiple cDNA fragments to assemble a full-length cDNA clone involves several serial cloning steps and sometimes subcloning phases using enzymatic digestion with restriction nucleases and ligation reactions. In this protocol, we describe a strategy to clone the entire genome of CTV obtained from two RT-PCR amplified products. These 5′- and 3′-genomic halves, which were designed to be overlapped in 15 nt in their 3′- and 5′-ends, respectively, were used as templates for further overlapped PCR to amplify the entire ~20 kb CTV genome. The resultant full cDNA PCR product was then inserted into pCAMBIA-binary vector.
CITATION STYLE
Mawassi, M., Haviv, S., & Maslenin, L. (2019). Amplification and Cloning of Large cDNA Fragments of the Citrus tristeza virus Genome. In Methods in Molecular Biology (Vol. 2015, pp. 151–161). Humana Press Inc. https://doi.org/10.1007/978-1-4939-9558-5_11
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