Table 1 Microbes and pathogens detected by PhytoPipe in samples SRX6762507 and SRX6762511
From: PhytoPipe: a phytosanitary pipeline for plant pathogen detection and diagnosis using RNA-seq data
Sample | Types of microbes | Microbe name | Read number by classification | Contig number | Longest Contig size |
|---|---|---|---|---|---|
SRX6762507 (lL)b | Fungi | Aureobasidium pullulans EXF-150 | 87747 | 6149 | 6444 |
Viruses | apple stem pitting virus | 8552 | 135 | 9192 | |
Viruses | apple chlorotic leaf spot virus | 7315 | 10 | 7555 | |
Viruses | apple stem grooving virus | 4226 | 1 | 6488 | |
Viruses | hop latent virus | 278 | 3 | 4391 | |
Viruses | apple mosaic virus | 233 | 8 | 1992 | |
Viruses | apple rubbery wood virus 2 | 104 | 7 | 434 | |
Viroids | hop stunt viroid | 47 | 1 | 390 | |
Viroids | hop latent viroid | 18 | 1 | 347 | |
Viroids | apple hammerhead viroid-like RNA | 12 | 1 | 452 | |
SRX6762511 (1R)b | Bacteria | Actinoplanes friuliensis DSM 7358 | 16231 | 1732 | 6952 |
Bacteria | Bradyrhizobium sp. 170 | 13597 | 3016 | 13027 | |
Bacteria | Steroidobacter denitrificans | 12222 | 934 | 9892 | |
Viruses | apple stem pitting virus | 80565 | 58 | 9356 | |
Viruses | apple hammerhead viroid | 10059 | 2 | 1207a | |
Viruses | apple stem grooving virus | 4570 | 1 | 6482 | |
Viruses | apple rubbery wood virus 2 | 2694 | 9 | 1626 | |
Viruses | apple chlorotic leaf spot virus | 1670 | 21 | 7565 | |
Viruses | hop latent virus | 357 | 3 | 5364 | |
Viruses | apple mosaic virus | 297 | 9 | 1996 | |
Viroids | hop stunt viroid | 44 | 1 | 390 | |
Viroids | hop latent viroid | 8 | 1 | 342 |