TABLE 2.
List of insect-associated viral contigs discovered applying our bioinformatic pipeline to RNA sequencing data of thrips samplesa
| Contig | Length (no. of bases) | Accession no. | NCBI BLASTx first hitb | Identityc | GenBank accession no. | Suggested virus name | Paper ID | Origin |
|---|---|---|---|---|---|---|---|---|
| THR-D_DN15333 | 5,570 | ALV85426 | Diaphorina citri densovirus | 32 | MN764146 | Frankliniella occidentalis associated densovirus 1 | Foadenso1 | Thrips virus |
| THR-C_DN26815 | 19,679 | BAM99927 | Gentian Kobu-sho-associated virus | 37 | MN714664 | Frankliniella occidentalis associated flavi-like virus 1 | Foaflavi1 | Thrips virus |
| THR-A_DN28578 | 9,971 | QQN90111 | Soybean thrips iflavirus 2** | 65 | MN714670 | Frankliniella occidentalis associated iflavirus 1 | Foaifla1 | Thrips virus |
| THR-D_Contig1 | 19,113 | QPD01782 | Aphis citricidus meson-like virus | 33 | MN714663 | Frankliniella occidentalis associated mesonivirus 1 | Foameso1 | Thrips virus |
| THR-D_DN19783 | 14,297 | QLL27736 | Leveillula taurica associated rhabdo-like virus 1 | 30 | MN714688 | Frankliniella occidentalis associated mononegavirales virus 1 | Foamono1 | Thrips virus |
| THR-A_DN24521 | 12,116 | QPZ88392 | Soybean thrips rhabdo-like virus 3** | 40 | MN714690 | Frankliniella occidentalis associated mononegavirales virus 3 | Foamono3 | Thrips virus |
| THR-A_DN23655 | 4,933 | YP_009246486 | Yogue virus | 37 | MN764155 | Frankliniella occidentalis associated nairo-like virus 1 | Foanairo1 | Thrips virus |
| THR-C_DN25036 | 14,196 | YP_009342435 | Wuhan house centipede virus 1 | 25 | MN714666 | Frankliniella occidentalis associated negev-like virus 1 | Foanegev1 | Thrips virus |
| THR-A_DN26080 | 14,242 | AMO03221 | Buckhurst virus | 24 | MN714665 | Frankliniella occidentalis associated negev-like virus 2 | Foanegev2 | Thrips virus |
| THR-D_DN16267 | 8,294 | YP_009342435 | Wuhan house centipede virus 1 | 25 | MN714671 | Frankliniella occidentalis associated negev-like virus 3 | Foanegev3 | Thrips virus |
| THR-D_DN17549 | 9,618 | QQP18740 | Soybean thrips bunya-like virus 1** | 31 | MN764150 | Frankliniella occidentalis associated peribunyavirus-like virus 2 segm1 | Foaperi2_Seg1 | Thrips virus |
| THR-D_DN17549 | 4,566 | BBD75426 | Ixodes scapularis bunyavirus | 28 | MN764149 | Frankliniella occidentalis associated peribunyavirus-like virus 2 segm2 | Foaperi2_Seg2 | Thrips virus |
| THR-D_DN15448 | 5,780 | YP_009342465 | Wuhan insect virus 15 | 28 | MN764147 | Frankliniella occidentalis associated qin-like virus1 RNA1 | Foaqin1_RNA1 | Thrips virus |
| THR-D_DN15448 | 2,630 | YP_009342457 | Wuhan insect virus 15 | 27 | MN764148 | Frankliniella occidentalis associated qin-like virus1 RNA2 | Foaqin1_RNA2 | Thrips virus |
| THR-A_DN15734 | 2,856 | QHA33888 | Atrato Sobemo-like virus 2 | 51 | MN725049 | Frankliniella occidentalis associated sobemo-like virus 1 RNA1 | Foasobemo1_RNA1 | Thrips virus |
| THR-A_DN15734 | 1,604 | AWY11068 | Motts Mill virus | 38 | MN725050 | Frankliniella occidentalis associated sobemo-like virus 1 RNA2 | Foasobemo1_RNA2 | Thrips virus |
| THR-D_DN18360 | 12,138 | YP_009337819 | Hubei virga-like virus 12 | 38 | MN714667 | Frankliniella occidentalis associated virga-like virus 2 | Foavirga2 | Thrips virus |
| T-Ame_DN13171 | 3,410 | QPZ88398 | Soybean thrips sobemo-like virus 4** | 99* | MN714676 | Neohydatothrips associated sobemo-like virus 1 RNA1 | Ntasobemo1_RNA1 | Thrips virus |
| T-Ame_DN13171 | 1,555 | YP_009337912 | Hubei diptera virus 13 | 42 | MN714681 | Neohydatothrips associated sobemo-like virus 1 RNA2 | Ntasobemo1_RNA2 | Thrips virus |
| THR-E_DN17816 | 7,251 | QQM16265 | Degsystermes virus | 37 | MN764152 | Thrips tabaci associated bunyavirales 1 RNA1 | Ttabunya1_RNA1 | Thrips virus |
| THR-E_DN17816 | 1,222 | AOY18790 | Bunyavirus sp. | 26 | MN764153 | Thrips tabaci associated bunyavirales 1 RNA2 | Ttabunya1_RNA2 | Thrips virus |
| THR-E_DN23749 | 10,255 | APG79357 | Xingshan nematode virus 3 | 40 | MN764156 | Thrips tabaci associated bunya-like virus 2 | Ttabunya2 | Thrips virus |
| THR-E_DN23726 | 4,940 | APG79254 | Shayang ascaridia galli virus 1 | 38 | MN764154 | Thrips tabaci associated bunya-like virus 3 | Ttabunya3 | Thrips virus |
| THR-E_DN24108 | 4,897 | QIM73965 | Riboviria sp. | 36 | MN764151 | Thrips tabaci associated bunya-like virus 4 | Ttabunya4 | Thrips virus |
| THR-E_DN24112 | 12,836 | APG78763 | Hubei dimarhabdovirus virus 4 | 73 | MN714687 | Thrips tabaci associated dimarhabdovirus 1 | Ttadima1 | Thrips virus |
| THR-E_DN24095 | 7,929 | QQP18723 | Soybean thrips-associated dsRNA virus-1** | 39 | MN764138 | Thrips tabaci associated dsRNA virus 1 | Ttads1 | Thrips virus |
| THR-E_DN23955 | 8,740 | QQP18723 | Soybean thrips-associated dsRNA virus-1** | 56 | MN764139 | Thrips tabaci associated dsRNA virus 2 | Ttads2 | Thrips virus |
| THR-E_DN19401 | 3,243 | QPZ88376 | Soybean thrips virus 1** | 40 | MN764158 | Thrips tabaci associated jingmen-like virus 1 RNA1 | Ttajing1_RNA1 | Thrips virus |
| THR-E_DN19401 | 3,089 | QPZ88383 | Soybean thrips virus 2** | 36 | MN764159 | Thrips tabaci associated jingmen-like virus 1 RNA2 | Ttajing1_RNA2 | Thrips virus |
| THR-E_DN7390 | 3,135 | QQM16241 | Wifsystermes virus | 38 | MN714677 | Thrips tabaci associated luteo-like virus 1 RNA1 | Ttaluteo1_RNA1 | Thrips virus |
| THR-E_DN7390 | 1,541 | AKH40292 | Motts Mill virus | 40 | MN714682 | Thrips tabaci associated luteo-like virus 1 RNA2 | Ttaluteo1_RNA2 | Thrips virus |
| THR-E_DN24087 | 1,803 | DAD49837 | Lutzomyia longipalpis mitovirus 1 | 41 | MN714680 | Thrips tabaci associated mitovirus 1 | Ttamito1 | Thrips virus |
| THR-B_DN29294 | 2,816 | QDH89080 | Mitovirus sp. | 57 | MN714678 | Thrips tabaci associated mitovirus 2 | Ttamito2 | Thrips virus |
| THR-B_DN29604 | 3,063 | AWY10987 | Sclerotinia sclerotiorum mitovirus 29 | 63 | MN714686 | Thrips tabaci associated mitovirus 3 | Ttamito3 | Thrips virus |
| THR-E_DN24029 | 1,156 | QED42987 | Entomophthora narnavirus C | 47 | MN714683 | Thrips tabaci associated narna-like virus 2 | Ttanarna2 | Thrips virus |
| THR-E_DN18567 | 4,450 | Q02119 | Rice dwarf virus (isolate Akita) | 29 | MN764140 | Thrips tabaci associated reovirus 1 RNA1 | Ttareo1_RNA1 | Thrips virus |
| THR-E_DN18567 | 4,049 | NP_620541 | Rice ragged stunt virus | 23 | MN764141 | Thrips tabaci associated reovirus 1 RNA2 | Ttareo1_RNA2 | Thrips virus |
| THR-E_DN18567 | 3,679 | QIJ56929 | Scaphoideus titanus reo-like virus 1 | 31 | MN764142 | Thrips tabaci associated reovirus 1 RNA3 | Ttareo1_RNA3 | Thrips virus |
| THR-E_DN18567 | 3,207 | QHA33826 | Atrato reo-like virus | 25 | MN764143 | Thrips tabaci associated reovirus 1 RNA4 | Ttareo1_RNA4 | Thrips virus |
| THR-E_DN18567 | 2,522 | QIJ56928 | Scaphoideus titanus reo-like virus 1 | 31 | MN764144 | Thrips tabaci associated reovirus 1 RNA5 | Ttareo1_RNA5 | Thrips virus |
| THR-B_DN22880 | 4,173 | QQP18784 | Soybean thrips tombus-like virus 3 | 53 | MN714675 | Thrips tabaci associated tombus-like virus 1 | Ttatombus1 | Thrips virus |
| THR-B_DN23975 | 6,965 | YP_009337819 | Hubei virga-like virus 12 | 39 | MN714672 | Thrips tabaci associated virga-like virus 1 RNA1 | Ttavirga1_RNA1 | Thrips virus |
| THR-B_DN23975 | 3,565 | YP_009336553 | Hubei virga-like virus 9 | 26 | MW459159 | Thrips tabaci associated virga-like virus 1 RNA2 | Ttavirga1_RNA2 | Thrips virus |
| THR-E_DN21965 | 5,712 | YP_009337854 | Shahe yuevirus-like virus 1 | 25 | MN764157 | Thrips tabaci associated yue-like virus 1 RNA1 | Ttayue1_RNA1 | Thrips virus |
| THR-E_DN21965 | 1,853 | No significant similarity found | 0 | MW297844 | Thrips tabaci associated yue-like virus 1 RNA2 | Ttayue1_RNA2 | Thrips virus | |
| THR-E_DN23836 | 18,939 | YP_009026378 | Casuarina virus | 28 | MN714662 | Insect metagenomics mesonivirus 1 | Immeso1 | Insect virus |
| THR-D_DN18103 | 11,139 | YP_009505536 | Piry virus | 41 | MN714689 | Insect metagenomics mononegavirales virus 2 | Immono2 | Insect virus |
| THR-D_DN17285 | 3,058 | QNQ74064 | Plasmopara viticola lesion associated orfanplasmovirus 2 | 29 | MN764145 | Insect metagenomics narna-like virus 1 RNA1 | Imnarna1_RNA1 | Insect virus |
| THR-D_DN17285 | 2,461 | YP_001497520 | Paramecium bursaria Chlorella virus NY2A | 43 | MW297845 | Insect metagenomics narna-like virus 1 RNA2 | Imnarna1_RNA2 | Insect virus |
| THR-E_DN23507 | 2,646 | YP_009333179 | Beihai barnacle virus 10 | 42 | MN714679 | Insect metagenomics narna-like virus 2 | Imnarna2 | Insect virus |
| THR-E_DN1552 | 2,411 | QMP82343 | Hemipteran orthomyxo-related virus OKIAV188 | 32 | MN764160 | Insect metagenomics orthomyxo-like virus 1 RNA1 | Imortho1_RNA1 | Insect virus |
| THR-E_DN1552 | 2,263 | QMP82299 | Hemipteran orthomyxo-related virus OKIAV188 | 42 | MN764161 | Insect metagenomics orthomyxo-like virus 1 RNA2 | Imortho1_RNA2 | Insect virus |
| THR-E_DN1552 | 1,733 | QMP82317 | Hemipteran orthomyxo-related virus OKIAV188 | 34 | MN787040 | Insect metagenomics orthomyxo-like virus 1 RNA3 | Imortho1_RNA3 | Insect virus |
| THR-E_DN1552 | 1,075 | AAN34384 | Human immunodeficiency virus 1 | 31 | MW297846 | Insect metagenomics orthomyxo-like virus 1 RNA4 | Imortho1_RNA4 | Insect virus |
| THR-E_DN23568 | 9,979 | QKN89031 | Riboviria sp. | 35 | MN714669 | Insect metagenomics picorna-like virus 1 | Impico1 | Insect virus |
| THR-A_DN18812 | 3,345 | YP_009330120 | Hubei sobemo-like virus 25 | 76 | MN725051 | Insect metagenomics sobemo-like virus 2 RNA1 | Imsobemo2_RNA1 | Insect virus |
| THR-A_DN18812 | 1,549 | AKP18619 | Humaita-Tubiacanga virus | 46 | MN725052 | Insect metagenomics sobemo-like virus 2 RNA2 | Imsobemo2_RNA2 | Insect virus |
| THR-A_DN28235 | 3,634 | AXA52557 | Linepithema humile C virus 1 | 53 | MN787041 | Insect metagenomics tombusbipa-like virus 1 RNA1 | Imtombus2_RNA1 | Insect virus |
| THR-A_DN28235 | 2,271 | AXA52559 | Linepithema humile C virus 1 | 33 | MN787042 | Insect metagenomics tombusbipa-like virus 1 RNA2 | Imtombus2_RNA2 | Insect virus |
| THR-D_DN14008 | 6,340 | QDZ71189 | Megastigmus ssRNA virus | 35 | MN714674 | Insect metagenomics virga-like virus 1 RNA1 | Imvirga1_RNA1 | Insect virus |
| THR-D_DN14008 | 2,038 | YP_009337242 | Hubei virga-like virus 11 | 48 | MW459158 | Insect metagenomics virga-like virus 1 RNA2 | Imvirga1_RNA2 | Insect virus |
a
Columns show contig identifier code, contig length (in bases), first viral hit accession in NCBI:protein, first viral hit organism (NCBI BLASTx first hit), NCBI hit identity, new discovered virus identifier (ID) (GenBank accession no.), suggested virus name, the virus abbreviation (ID) in the paper, and the origin of the viral contig.
b
Double asterisks indicate all the hits from reference 16.
c
Asterisks indicate all the blast hits with identity higher than 90.