Table 1.
A list of plant viruses identified by RNA-seq.
| Contig (DDBJ Accession No.) |
Length (nt) |
NGS Reads |
BLASTn/BLASTx Results (nt/aa) | Genus (or Group) Tentative Virus Name |
||||
|---|---|---|---|---|---|---|---|---|
| Accession No. | E-Value | Identity a | Segment/ Protein |
Virus (Abbreviation) |
||||
| DN122318_c150_g1_i1 (LC726798) |
3363 | 5,854,518 |
AB179764.1/ QFZ79258.1 |
0/ 0 |
97.0/ 99.5 |
RNA1/ protein 1a |
Cucumber mosaic virus (CMV) b |
Cucumovirus |
| DN111361_c93_g1_i1 (LC726799) |
2866 | 1,863,038 |
AF314188.1/ Q86783.1 |
0/ 0 |
98.6/ 99.4 |
RNA2/ RdRP |
||
| DN124624_c138_g1_i1 (LC726800) |
1367 | 741,776 |
KP710853.1/ ACB56605.1 |
0/ 0 |
98.5/ 99.6 |
RNA3/ MP |
||
| DN133764_c33_g1_i1 (LC726792) |
5901 | 313,982 |
KC790225.1/ AGO58930.1 |
0/ 0 |
97.8/ 99.5 |
RNA1/ polyprotein |
Broad bean wilt virus 2 (BBWV-2) |
Fabavirus |
| DN132884_c28_g1_i1 (LC726793) |
3653 | 253,794 |
AB746939.1/ AZF99051.1 |
0/ 0 |
92.1/ 97.3 |
RNA2/ polyprotein |
||
| DN132743_c15_g1_i1 (LC726785) |
9598 | 149,164 |
KX421104.1/ ARN61640.1 |
0/ 0 |
98.0/ 99.0 |
– e/ polyprotein |
Zucchini yellow mosaic virus (ZYMV) |
Potyvirus |
| DN97429_c17_g1_i1 (LC726783) |
10,344 | 133,131 |
MF085000/ AWB03290.1 |
0/ 0 |
98.3/ 99.2 |
–/ polyprotein |
Papaya ringspot virus (PRSV) |
|
| DN133242_c23_g1_i2 c
(LC726791) |
6247 | 126,843 |
KC119188.1/ AGD80385.1 |
0/ 0 |
97.2/ 99.0 |
–/ polyprotein |
Turnip mosaic virus (TuMV)/ |
|
| DN105402_c0_g2_i1 (LC726786) |
9451 | 43,227 |
MW961163.1/ QJW82783.1 |
0/ 0 |
78.4/ 88.1 |
–/ polyprotein |
Konjac mosaic virus (KoMV) |
|
| DN134304_c2_g2_i7 (LC726784) |
9894 | 1267 |
MN914159.1/ QIQ08170.1 |
0/ 0 |
94.2/ 97.6 |
–/ polyprotein |
Watermelon mosaic virus (WMV) |
|
| DN71321_c0_g2_i1 (LC726782) |
12,267 | 3976 |
NC_040586.1/ YP_009552078.1 |
0/ 0 |
98.9/ 99.5 |
–/ replicasepolyprotein |
Brassica napus RNA virus 1 (BnRV1) |
Waikavirus |
| DN128817_c10_g1_i1 c
(LC726796) |
4345 | 62,121 |
KT946712.1/ AMR60139.1 |
0/ 0 |
82.5/ 91.5 |
–/ RdRP |
Ixeridium yellow mottle virus 2 (IxYMV-2) |
Umbravirus |
| DN134266_c8_g3_i2 d
(LC726802) |
2740 | 15,684 |
LC428358.1/ BBG75734.1 |
0/ 0 |
96.9/ 97.3 |
–/ P1 |
Brassica yellows virus (BrYV)/ |
Polerovirus |
| DN134266_c8_g2_i1 d
(LC726803) |
1175 | 10,234 |
LC428358.1/ BBG75771.1 |
0/ 0 |
98.4/ 98.7 |
–/ CP |
||
| DN130249_c0_g1_i1 (LC726801) |
2816 | 1920 |
MN497834.1/ QKG33160.1 |
0/ 0 |
95.1/ 97.4 |
–/ RdRP |
Turnip yellows virus-associated RNA (TuYV-aRNA) | Unassigned polerovirus associated RNA |
| DN120852_c1_g1_i1 d
(LC726794) |
4806 | 12,352 | – e/ QTF33728.1 |
–/ 0 |
–/ 64.1 |
–/ RdRP |
Grapevine enamovirus 1 |
Enamovirus Qingdao RNA virus 1 (QRV1) f |
| DN30870_c0_g1_i1 d
(LC726795) |
1118 | 2961 | –/ YP_009249825.1 |
–/ 7 × 1084 |
–/ 53.4 |
–/ CP read-through domain |
Alfalfa enamovirus 1 | |
| DN131759_c2_g1_i1 (LC726797) |
3462 | 9913 | –/ APG77086.1 |
–/ 0 |
–/ 48.3 |
–/ RdRP |
Beihai narna-like virus 23 | narna-like virus Qingdao RNA virus 2 (QRV2) f |
| DN118628_c0_g1_i1 (LC726787) |
7275 | 3409 | –/ QUV77595.1 |
–/ 0 |
–/ 37.1 |
RNA1/ RdRP |
Apple rubbery wood virus 1 |
Rubodvirus Qingdao RNA virus 3 (QRV3) f |
| DN109466_c0_g1_i1 (LC726788) |
1433 | 235 | –/ AYS94195.1 |
–/ 8 ×−1021 |
–/ 33.5 |
RNA2/ putative CP |
||
| DN109396_c0_g1_i1 (LC726789) |
6279 | 2527 | –/ NC_033490.1 |
–/ 9 ×−1059 |
–/ 22.2 |
RNA1/ RdRP |
Wuhan insect virus 15 |
Qinvirus Qingdao RNA virus 4 (QRV4) f |
| DN12572_c0_g1_i1 (LC726790) |
2628 | 1611 | –/ YP_009342457.1 |
–/ 3 × 1007 |
–/ 29.3 |
RNA2/ hypothetical protein |
||
a Nucleotide/amino acid sequence identity (%). b The predominant sequence contigs derived from CMV subgroup I were selected for subsequent analyses, whereas the virus of another CMV subgroup (II) was also detected in the RNA pool (see Supplementary File S1). c Lacking the sequences regions of the 3′ terminal genomes. d These sequence contigs were likely derived from a polerovirus and a noble enamovirus, respectively. e No or very week hits/not applicable. f A member of the putative novel virus species.