Single amplified genome

Single amplified genome (SAG) data are produced through processes of single-cell isolation, cell lysis, whole genome amplification and sequencing. Because most cells contain a single or very few genome copies, introducing even trace amounts of contaminant DNA can severely affect SAG data quality. This page describes the guideline for SAG data submission to distinguish SAG from other genomes.

Single cell

DDBJ

source feature

  • For an organism name, metagenome and names with “uncultured” can not be used.
  • As a keyword, add /note="single amplified genome".
  • Describe isolation source in /isolation_source. For example, "one of ten single-cell amplified genomes of the same hot spring water; single-cell genome amplified by MDA (multiple displacement amplification)".

BioSample

Package and attributes

  • Select Other samples package.
  • For an organism name, metagenome and names with “uncultured” can not be used. Use an organism name same as SAG entry.
  • Describe identification or description of the specific individual in isolate and isolation souce in isolation_source.
  • As a keyword, add sample_type=”single amplified genome”.

Multiple cells

DDBJ

source feature

  • For an organism name, metagenome and names with “uncultured” can not be used.
  • As a keyword, add /note="single amplified genome".
  • Indicate that SAG derives from multiple samples and genomes in /note. For example, "co-assembly of 10 single-cell amplified genomes".
  • Describe isolation source in /isolation_source.

BioSample

Package and attributes

  • Select Other samples package and create a combined sample of samples registered as ”Single cell”.
  • Indicate that the sample is combined in sample_title. For example, “Sample group: combined samples of SAMD00192892-SAMD00192901 (Co_assembled genome)“
  • Indicate source sample accessions of the combined sample as derived_from = “SAMD00192892-SAMD00192901” and note = “This sample group is the combination of the individual BioSamples: SAMD00192892-SAMD00192901.”
  • Describe identification or description of the specific individual in isolate and isolation souce in isolation_source.

Real-world examples