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. Author manuscript; available in PMC: 2019 Jul 31.
Published in final edited form as: Virology. 2018 Feb 12;518:14–24. doi: 10.1016/j.virol.2018.02.005

Table 2.

Mitovirus sequences from different plant tissues

Virus abbreviation and straina Plant tissue Virus-specific reads (fraction of total) reads × 1e5)b Contig length (nt) Mean coverage (per nt position)c
BevuMVl-KWS2320d roots ≥5.1 2704 ≥454
leaves 1.0 2810 579
inflorescences ≥9.2 2825 ≥1416
seeds ≥34 2799 ≥357
seedlings 4.9 2800 410
CasaMV1-MPC/MSUe roots 3.4 2818 137
stems 12 2824 450
leaves 3.3 2805 177
flower buds 9.8 2823 353
flowers 10 2811 394
DapiMV1-RioRiataf stem 5.5 2796 93
leaf 4.9 2806 102
flower bud 6.7 2791 106
PeexMV1-OPGC943g apical shoot 2.1 2659 43
trichome 2.3 2680 37
callus 1.0 2667 14
flowers ≥30 2700 ≥740
seedling 1.0 2664 17
SochMV1-G4h leaves 0.8 2750 84
immature ovules 5.5 2747 1326
mature ovules ≥6.5 2754 ≥1465
a

The viruses shown here are those from Table 1 for which a complete coding sequence could be assembled from each of the different sampled tissues.

b

Each fractional value has been multiplied by 100,000 for ease of comparison, The ≥ symbol reflects that in some cases a single SRA data set scored ≥20,000 hits (the limit for reporting by the online version of Blast at NCBI).

c

Positional coverage determined after using the Map Reads to Contigs function in CLC Genomics Workbench.

d

The five BevuMV1-KWS2320 nt sequences are 100% identical across a 2680-nt region of shared overlap. SRA data sets for young leaves (BioProject PRJNA254489) and old leaves (BioProject PRJNA41497) (Stracke et al., 2014) were combined for this analysis.

e

The five CasaMV1-MPC/MSU nt sequences are >99.9% identical (1 nt difference) across a 2804-nt region of shared overlap. SRA data sets for young, mature, and mixed leaves were combined for this analysis. SRA data sets for primary stem and stem–petioles were also combined for this analysis.

f

The three DapiMV1-RioRiata nt sequences are 100% identical across a 2791-nt region of shared overlap.

g

The five PeexMV1-OPGC943 nt sequences are 100% identical across a 2665-nt region of shared overlap.

h

The three SochMV1-G4 nt sequences are 100% identical across a 2732-nt region of shared overlap.