Table 1. Summary assembly and annotation statistics for Illumina sequencing of A. rabiei isolate, ArD2 (Verma et al. 2016) and PacBio SMRT sequencing for ArME14.
| Assembly statistics | ArD2 Illumina (13) | ArME14 PacBio SMRT |
|---|---|---|
| Genome size (bp) | 34,658,250 | 40,927,385 |
| Total sequenced bases | 100 Gb | ∼6.8 Gb |
| Coverage | 178x | 166x (928,353 reads) |
| Number of scaffolds/contigs | 338 a | 33 b |
| Largest scaffold/contig size (bp) | 1,160,210 a | 3,373,759 b |
| L50 | 64 a | 9 b |
| N50 (bp) | 154,808 a | 1,812,190 b |
| GC (%) | 51.6 | 49.2 |
| % Repetitive sequence | 9.9 | 12.6 |
| Complete chromosomes | — | 12 |
| Annotation statistics | ||
| Number of protein coding genes | 10,596 | 11,257 |
| Predicted secreted proteins | 758 c (1,111 d) | 1,145 c |
| Predicted effectors | 328 c (36 d) | 39 c |
| Predicted sec. metabolite clusters | 26 e | 26 |
| Predicted no. of CAZymes | 1,727 c (441 f) | 451 c f |
a
Scaffolds for ArD2 Illumina assembly (GCA_001630375.1).
b
Contigs for ArME14 PacBio SMRT assembly.
c
Differences in numbers likely due largely to different selection criteria.
d
Secretome and effector predictions for ArD2 assembly using the same methods applied to ArME14.
e
Unknown prediction method for secondary metabolite clusters.
f
CAZyme prediction using dbCAN2 meta server in this study.