| Autor: |
Bipin Balan, Lijin K. Gopi, Dhinoth Kumar Bangaruswamy |
| Jazyk: |
angličtina |
| Rok vydání: |
2017 |
| Předmět: |
|
| Zdroj: |
Canadian Journal of Biotechnology, Vol 1, Iss Special Issue-Supplement, Pp 294-294 (2017) |
| Druh dokumentu: |
article |
| ISSN: |
2560-8304 |
| DOI: |
10.24870/cjb.2017-a278 |
| Popis: |
RNA sequencing (RNA-Seq) technology has enabled the researchers to investigate the host global gene expression changes in plant-virus interactions which helped to understand the molecular basis of virus diseases. The re-analysis of RNA-Seq studies using most updated genome version and the available best analysis pipeline will produce most accurate results. In this study, we re-analysed the Apple stem grooving virus (ASGV) infected apple shoots in comparison with that of virus-free in vitro shoots [1] using the most updated Malus x domestica genome downloaded from Phytozome database. The re-analysis was done by using HISAT2 software and Cufflinks program was used to mine the differentially expressed genes. We found that ~20% more reads was mapped to the latest genome using the updated pipeline, which proved the significance of such re-analysis. The comparison of the updated results with that of previous was done. In addition, we performed protein-protein interaction (PPI) to investigate the proteins affected by ASGV infection. |
| Databáze: |
Directory of Open Access Journals |
| Externí odkaz: |
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