Table 2.
Flavivirid-derived EVEs.
| Sequence IDa | No. of Speciesb | No. of Sequencesc | lORFd | Hoste | |
| Flavivirus | |||||
| EFV-cISF.1-AedAeg* | 1 | 92 | 564 | Yellow fever mosquito | Aedes aegypti |
| EFV-cISF.2-AedAlb* | 1 | 35 | 643 | Tiger mosquito | Aedes albopictus |
| EFV-cISF.3-AnoMin* | 1 | 1 | 97 | Anopheles minimus | |
| EFV-cISF.4-AnoSin* | 1 | 1 | 138 | Anopheles sinensis | |
| EFV-cISF.5-TipOle | 1 | 4 | 226 | Marsh crane fly | Tipula oleracea |
| EFV-cISF.6-ConPat | 1 | 1 | 38 | Long-legged fly | Condylostylus patibulatus |
| EFV-Flavi.1-CraSow | 1 | 13 | 1182 | Peach blossom jellyfish | Craspedacusta sowerbyi |
| EFV-Flavi.2-DapMag* | 1 | 2 | 573 | Water flea | Daphnia magna |
| EFV-Flavi.3-LepArc* | 1 | 3 | 281 | Tadpole shrimp | Lepidurus arcticus |
| ‘Tamanavirus’ | |||||
| EFV-Tamana.1-LedTum | 1 | 1 | 55 | Meltwater stonefly | Lednia tumana |
| EFV-Tamana.2-LauKoh | 1 | 1 | 56 | Hawaiian cricket | Laupala kohalensis |
| EFV-Tamana.3-AmpSul | 1 | 2 | 44 | Spring stonefly | Amphinemura sulcicollis |
| EFV-Tamana.4-StyCho | 1 | 1 | 873 | Tube-eye | Stylephorus chordatus |
| Jingmenvirus | |||||
| EJP-Jingmen.1-Chironomus | 2 | 2 | 248 | Chironomus sp. | |
| EJP-Jingmen.2-Gerris | 1 | 1 | 45 | Water strider | Gerris buenoi |
| EJH-Jingmen.1-Gerris | 1 | 1 | 51 | ||
| X1 | |||||
| EFV-X1.1-PriCau | 1 | 2 | 347 | Penis worm | Priapulus caudatus |
| X2 | |||||
| EFV-X2.1-AusLim | 1 | 2 | 214 | Mangrove killifish | Austrofundulus limnaeus |
| EFV-X2.2-StyCho | 1 | 3 | 873 | Tube-eye | Stylephorus chordatus |
| EFV-X2.3-EurAff | 1 | 2 | 190 | Copepod | Eurytemora affinis |
| EFV-X2.4-Takifugu | 3 | 5 | 103 | Pufferfish | Takifugu |
| EFV-X2.5-Phycis | 2 | 2 | 129 | Phycid hakes | Phycis |
| EFV-X2.6-MorMor | 1 | 1 | 36 | Common mora | Mora moro |
| EFV-X2.7-BroBro | 1 | 1 | 56 | Cusk | Brosme brosme |
| EFV-X2.8-MacPee | 1 | 1 | 51 | Murray cod | Maccullochella peelii |
| EFV-X2.9-BolPec | 1 | 1 | 155 | Blue-spotted mudhopper | Boleophthalmus pectinirostris |
| PL | |||||
| EFV-PL2.1-CalCec | 1 | 5 | 78 | Red-banded hairstreak | Calycopis cecrops |
| EFV-PL2.2-EucHer | 1 | 2 | 187 | Stink bug | Eucheros histo |
| EFV-PL2.3-Apoidae | 11 | 239 | 2469 | Bees and sphecoid wasps | Superfamily Apoidea |
| EFV-PL2.4-AndCur | 2 | 6 | 961 | Cynipid gall wasp | Andricus |
| EFV-PL2.5-AnoGla | 1 | 1 | 26 | Long-horned beetle | Anoplophora glabripennis |
| EFV-PL2.6-XenBra | 1 | 16 | 2232 | Grasshopper | Xenocatantops brachycerus |
| EFV-PL2.7-OpeBru | 1 | 2 | 38 | Winter moth | Operophtera brumata |
| Pegi-Hepaci | |||||
| EFV-HepaPegi.1-ElyChl | 1 | 1 | 60 | Eastern emerald elysia | Elysia chlorotica |
Flavivirid-derived EVEs have been assigned standard IDs based on conventions established for endogenous retroviruses, wherein information about virus taxonomy and locus orthology is incorporated into the ID itself (Gifford et al. 2018). The ID comprises three elements separated by hyphens. For most EVEs characterised here, the first (i.e. leftmost) element is the classifier EFV. However, for ‘jingmenviruses’ the classifier component of the ID also specifies the gene it is derived from EJPand EJH, following conventions established for multipartite viruses and EVEs derived from mRNA sources (Kawasaki et al. 2021). The second ID element comprises two subcomponents separated by a period—the first defines the taxonomic position of the EVE in relation to established Flaviviridae taxonomy, and the second is a numeric ID that uniquely represents an EVE locus. The third ID component defines the known distribution of orthologous insertions among host species. If it is only known from a single species, a shortened version of the Latin binomial species name is used.
Number of species in which EVE locus was identified.
Number of sequences (i.e. distinct insertions) derived from this EVE that were identified via in silico screening.
Host species or species groups. *indicates EFV loci or lineages that have been reported previously.
L-ORF, longest open reading frame.