ENA prokaryotic pathogen minimal sample checklist

describes the physical, environmental and/or local geographical source of the biological sample from which the sample was derived

geographical coordinates of the location where the specimen was collected

name of persons or institute who collected the specimen

The date the sample was collected with the intention of sequencing, either as an instance (single point in time) or interval. In case no exact time is available, the date/time can be right truncated i.e. all of these are valid ISO8601 compliant times: 2008-01-23T19:23:10+00:00; 2008-01-23T19:23:10; 2008-01-23; 2008-01; 2008.

The geographical origin of the sample as defined by the specific region name followed by the locality name.

name of the expert who identified the specimen taxonomically

identifies sequences derived by direct molecular isolation from a bulk environmental DNA sample (by PCR with or without subsequent cloning of the product, DGGE, or other anonymous methods) with no reliable identification of the source organism

mating type of the organism from which the sequence was obtained; mating type is used for prokaryotes, and for eukaryotes that undergo meiosis without sexually dimorphic gametes

The geographical origin of where the sample was collected from, with the intention of sequencing, as defined by the country or sea name. Country or sea names should be chosen from the INSDC country list (http://insdc.org/country.html).

Health status of the host at the time of sample collection.

scientific name of the laboratory host used to propagate the source organism from which the sample was obtained

Scientific name of the natural (as opposed to laboratory) host to the organism from which sample was obtained.

Unique identifier that references the biological material from which the sample was obtained and that ideally exists in a curated collection (e.g. stock centres, seed banks, DNA banks). The ID should have the following structure: name of the institution (institution code) followed by the collection code (if available) and the voucher id (institution_code:collection_code:voucher_id). Please note institution codes and collection codes are taken from a controlled vocabulary maintained by the INSDC: https://ftp.ncbi.nih.gov/pub/taxonomy/biocollections/

Unique identifier that references the culture (e.g. live microbial and viral cultures and cell lines) from which the sample has been obtained and that have been deposited in curated culture collections. The ID needs to provide an institution code and the culture id, with optional collection code, in the following structure: (-institution_code:(collection_code):voucher_id. Please note institution codes (and optional collection codes) are taken from a controlled vocabulary maintained by the INSDC: https://ftp.ncbi.nih.gov/pub/taxonomy/biocollections/

Unique identifier that references the physical specimen that remains after the sequence has been obtained and that ideally exists in a curated collection. The ID should have the following structure: name of the institution (institution code) followed by the collection code (if available) and the voucher id (institution_code:collection_code:voucher_id). Please note institution codes and collection codes are taken from a controlled vocabulary maintained by the INSDC: https://ftp.ncbi.nih.gov/pub/taxonomy/biocollections/

individual isolate from which the sample was obtained

name of sub-species of organism from which sample was obtained

name or identifier of a genetically or otherwise modified strain from which sample was obtained, derived from a parental strain (which should be annotated in the strain field; sub_strain from which sample was obtained

serological variety of a species (usually a prokaryote) characterized by its antigenic properties

Name of the strain from which the sample was obtained.