Table 1:
Information to provide when submitting UViG sequences to INSDC databases.
| Information to provide | Where to add | Description | Suggested syntaxa |
|---|---|---|---|
| organism | Submission portal + MIUViG checklist structured comment | UViG: lowest ranking taxon that can be confidently assigned according to ICTV demarcation criteria. Isolated virus: virus name. |
[ <“lowest fitting taxon” sp.> | virus name ] |
| isolate | Submission portal + MIUViG checklist structured comment | Unique name or code for this sequence. Do not use taxonomic information here. | <Unique identifier> |
| Source of UViG | MIUViG checklist structured comment | Type of sample used for UViG assembly | [ metagenome (not viral targeted) | viral fraction metagenome (virome) | sequence-targeted metagenome | metatranscriptome (not viral targeted) | viral fraction RNA metagenome (RNA virome) | sequence-targeted RNA metagenome | microbial single amplified genome (SAG) | viral single amplified genome (vSAG) | isolate microbial genome | other ] |
| Assembly software | MIUViG checklist structured comment | Tool(s) used for assembly and optionally binning. Include version and parameters. | {software};{version};{parameters} |
| Assembly quality | MIUViG checklist structured comment | Assembly quality in categories as per the MIUViG criteria. Finished: Single, validated, contiguous sequence per replicon without gaps or ambiguities, with extensive manual review and annotation. High-quality draft genome: One or multiple fragments, totalling ≥ 90% of the expected genome or replicon sequence or predicted complete. Genome fragment(s): One or multiple fragments, totalling < 90% of the expected genome or replicon sequence, or for which no genome length could be estimated. |
[ Finished genome | High-quality draft genome | Genome fragment(s) ] |
| Completeness score | MIUViG checklist structured comment | (Optional) Estimated completeness of the UViG in percentage. | {quality};{percentage} |
| Completeness approach | MIUViG checklist structured comment | (Optional) Approach used to estimate completeness, such as identification of terminal repeats or presence of all CDS | {text} |
| Virus identification software | MIUViG checklist structured comment | Tool(s) used for identification of sequence as virus. Include versions and parameters. | {software};{version};{parameters} |
| Predicted genome type | MIUViG checklist structured comment | Type of genome predicted for the UViG. | [ DNA | dsDNA | ssDNA | RNA | dsRNA | ssRNA | ssRNA (+) | ssRNA (−) | mixed | uncharacterized ] |
a
entries between []: choose one of the listed descriptors; entries between <>: fill in the UViG or virus information for this record; entries between {}: enter data for your methods used.