Table 1 Most commonly used modifiers recommended for public biodiversity sequence records
From: How to publish a new fungal species, or name, version 3.0
NCBI qualifier | Note (INSDC controlled vocabulary link listed where applicable) | Example |
|---|---|---|
collected_by | Name of person who collected the sample, please use initials and surname. | /collected_by = “A.H. Smith” |
collection_date | Day, month and year when the sequenced specimen was collected. | /collection_date = “23-Aug-1948” |
country | Country where the sample was collected. Additional region or locality information must be after the country name and separated by a ‘:’. See http://www.insdc.org/documents/country-qualifier-vocabulary | /country = “USA: Washington, Pierce County, Mt. Rainier National Park” |
culture_collection | Format for cultures in culture collections: ‘institution-code:culture-id’. culture-id and institution-code are mandatory. When possible use code documented in NCBI BioCollections or WFCC. | /culture_collection = “CBS:1752” |
host | Use full verified binomial, if possible. Incomplete names such as genus sp. is acceptable. | /host = “Quercus longinux” |
isolate | Use this for lab numbers/ field numbers of the specific specimen/culture from which this sequence was obtained. | /isolate = “JT13209” |
isolation_source | Reserved for physical or environmental source and substrate information. | /isolation_source = “dead wood” |
lat_lon | Latitude and longitude, in decimal degrees, of where the sample was collected. | /lat_lon = “28.721667 N 17.785278 W” |
note | Add any additional unstructured information such as isolation method, isotype info not addressed in the other fields. | /note=”“DNA isolation: REPLI-g Single Cell Kit (Qiagen)” |
specimen_voucher | Format for dried specimens: ‘institution-code: internal-code:specimen-id’. specimen-id is mandatory. When possible use code documented in NCBI BioCollections or Index Herbariorum or indicate personal herbaria by adding in front:‘personal:’ See http://www.insdc.org/controlled-vocabulary-specimenvoucher-qualifier | /specimen_voucher = “MICH:14410” or /specimen_voucher = “MICH:AH Smith 30,553” or /specimen_voucher = “personal: AH Smith 30,553” |
strain | Use this for strain numbers of pure cultures, i.e. those not deposited in culture collections. | /strain = “ABC 1234” |
tissue_type | Ignore this field unless it refers to source tissue information e.g. blood, skin etc.. | |
type_material | This field is not user submitted - it is automatically updated only after the publication or nomenclature database entry is verified by NCBI Taxonomy curators. Please provide the full publication as a pdf to gb-admin@ncbi.nlm.nih.gov. (Do NOT use the Type modifier for this information). See http://www.insdc.org/controlled-vocabulary-typematerial-qualifer | /type_material = “holotype of Tuber anniae” |