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Insight into Host-driven in Planta Evolution of Columnea Latent Viroid through Quasi-species Population |
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| รหัสดีโอไอ | |
| Creator | Parichate Tangkanchanapas |
| Title | Insight into Host-driven in Planta Evolution of Columnea Latent Viroid through Quasi-species Population |
| Contributor | Kanjana Warawichanee, Annelies Haegeman, Monica H?fte, Kris De Jonghe |
| Publisher | Department of Agriculture |
| Publication Year | 2567 |
| Journal Title | Thai Agricultural Research Journal |
| Journal Vol. | 42 |
| Journal No. | 3 |
| Page no. | 272-286 |
| Keyword | columnea latent viroid, quasi-species, population stud, mutations, high-throughput sequencing |
| URL Website | tci-thaijo.org/index.php/thaiagriculturalresearch |
| Website title | Thai Agricultural Research Journal |
| ISSN | 3027-7272 |
| Abstract | With a high mutation rate and fast replication, a population of mutated viroid progenies is generated and co-exists in the same host plant as a population of variants (so-called quasi-species), showing a huge level of genetic diversity. In our work, we report the evidence of the quasi-species in CLVd in several solanaceous plants; tomato (Rutgers and Seda 50), bolo maka and eggplant. An infectious dsDNA CLVd was synthesized from the recombinant plasmid containing the full-length genome of CLVd isolate Solanum-1 (JF742632) and then inoculated on the plants under specific conditions. The initial inoculation only successfully infected tomato cv. Rutgers. This CLVd-infected Rutgers was used for subsequent inoculation of the above-mentioned host plants. When all host plants proved to be systemically infected, RNA extraction and RT-PCR were performed. To study the CLVd population in individual host plants, the specific CLVd primers linked with an eight base sample-tagging sequence were used for amplifying libraries. The average 20,237 CLVd reads per PCR-replicate and 22 progeny variants in total from the first infected tomato plant were obtained. Among these 22 of CLVd variants, we found 22 total number of single-nucleotide polymorphisms in which average three point-mutations per CLVd genome mainly in Terminal Right and Pathogenic domains were observed. In addition, the estimated mutation rate of CLVd was calculated at 8.15 X10-3. Our data demonstrate that CLVd in a host plant exists as a population of quasi-species while showing host specificity of the dominant variants as host-driven in planta evolution. |
