Home

Description

Search Catalogues

Browse catalogues

Collections

Guidelines

Search Web Site

Contacts

FAQ

Site Map

Mirrors

GUIDELINES FOR CATALOGUE PRODUCTION

Data input & authentication
for bacteria & archaea

Data Sets

Data entry and validation

Accession number

Other culture collection numbers

Restrictions

Organism type

Name

Infrasubspecific names

Status

Other names

History of deposit

Conditions for growth

Form of supply

Serovar

Isolated from

Geographic origin

Mutant

Genotype

Literature


  1. Accession number
  2. Field

    Accession number

    Description

    collections’ own accession number of the strain

    Input process

    consists of collection acronym followed by a number or alphanumeric identifier separated with a blank

    Make sure unique number is given to each strain

    Required for

    MDS
  3. Other culture collection numbers
  4. Field Other culture collection numbers
    Description accession numbers of the strain in other collections
    Input process New strain: as given by depositor

    Existing strain: if strain is sent to another collection, get and add accession number used in that collection. It can not be given if the strain is unique in the collection.

    numbers from individual researchers are also allowed

    Collection acronyms: CABRI agreed list

    Numbers are separated by semicolon

    Required for

    MDS
  5. Restrictions
  6. Field

    Restrictions

    Description

    value "no", or a text field describing the appropriate restrictions: hazard group, import/export regulations

    Input process

    Enter ‘No’, or actual restrictions, which may be linked to a file for conditions of delivery

    The text may contain codes which refer to text files explaining the restrictions in more detail.

    Required for

    MDS
  7. Organism type
  8. Field

    Organism type

    Description

    contain value "Bacteria" or "Archaea".

    Input process

    Enter "B" or "A"

    Required for

    MDS
  9. Name
  10. Field

    Name

    Description

    full scientific and most recent name of the strain:

    - Genus name and species epithet
    - Subspecies *
    - Pathovar *
    - Authors of the name
    - Year of valid publication or validation
    - Approbation of the name

    Input process

    Enter full scientific name as given by depositor and confirmed (or changed) by collection. Names of authors of the name, year of valid publication or validation and approbation are included after a comma.

    Values for approbation:

    AL = approved list, c.f.r. IJSB 1980
    VL = validation list, in IJSB after 1980
    VP = validly published, paper in IJSB after 1980


    Reference list: DSMZ list of bacterial names

    Required for

    MDS
  11. Infrasubspecific names
  12. Field

    Infrasubspecific names

    Description

    variety designation, epithet, authors and reference.

    Does not apply to all strains

    Input process

    Enter type and epithet of the variety as given by depositor and confirmed (or changed) by collection. Names of authors and reference are included.
    This field excludes the pathovar name and the serovar name, which are both infrasubspecific names but are to be netered int the NAME field

    Format: see MINE format (Stalpers et al., Systematic Applied Microbiol 1990; 13:92-103 http://www.urbanfischer.de/journals/sam/mic_biol.htm)

    Required for

    MDS
  13. Status
  14. Field

    Status

    Description

    nomenclatural status of the strain (like "type", "neotype", etc.)

    Does not apply to all strains

    Input process

    Enter information on type and scientific name of organism, for which material from which strain was isolated is type material.

    Format: see MINE format (Stalpers et al., Systematic Applied Microbiol 1990;13:92-103).

    Required for

    MDS
  15. Other names
  16. Field

    Other names

    Description

    names used for the strain in the past (not synonyms) that may still be in use. Same format as Name field.

    Does not apply to all strains.

    Input process

    Enter previous names used for the strain if they are no synonyms of the current name.

    Same format as Name field.

    Required for

    RDS
  17. History of deposit
  18. Field

    History of deposit

    Description

    history of the element from depositor to isolator.

    - Name of depositor
    - Institute of depositor
    - Name of isolator
    - Institute of isolator
    - Names and institutes in between

    Input process

    Enter information as given by depositor

    Format: see MINE format (Stalpers et al., Systematic Applied Microbiol 1990;13:92-103).

    Required for

    MDS
  19. Conditions for growth
  20. Field

    Conditions for growth

    Description

    Culture medium
    Atmospheric an light conditions
    Temperature conditions

    Input process

    Each collection has to provide its own list of culture media and recipes, medium provided for strain is linked to medium in this file.
    (http://www.dsmz.de/media/media.htm)

    Atmospheric and light conditions should only be given if they are special.

    Additional remarks on the cultivation like 'freshly prepared medium is necessary' or 'extended incubation time…' if necessary'

    Required for

    MDS
  21. Form of supply
  22. Field

    Form of supply

    Description

    form in which the strain will be sent to the customer

    Input process

    Values: ‘Active', ‘Dried', 'Dried ice'

    Required for

    MDS
  23. Serovar
  24. Field

    Serovar

    Description

    serovar name and author.

    Required for some medically important species.

    Does not apply to all strains

    Input process

    Format: see MINE format (Stalpers et al., Systematic Applied Microbiol 1990;13:92-103).

    Required for

    RDS
  25. Isolated from
  26. Field

    Isolated from

    Description

    name of substrate or host from which the strain was isolated.

    Input process

    Enter information as given by depositor or as retrieved from public information sources

    Format: see MINE format (Stalpers et al., Systematic Applied Microbiol 1990;13:92-103).

    Required for

    RDS
  27. Geographic origin
  28. Field

    Geographic origin

    Description

    name of country where strain originated from, followed by details on location.

    Input process

    Enter information as given by depositor or as retrieved from public information sources
    Format: see MINE format (Stalpers et al., Systematic Applied Microbiol 1990;13:92-103).

    CABRI agreed list for country: name based on country code file retrieved from: ftp://ftp.ripe.net/iso3166-countrycodes
    updated by the RIPE Network Co-ordination Centre, in co-ordination with the ISO 3166 Maintenance Agency at DIN Berlin.

    Exception for UK, USA, USSR, Netherlands, North Korea

    Required for

    RDS
  29. Mutant
  30. Field

    Mutant

    Description

    type and parent of mutant if strain is a mutant strain.

    Applies only to a small number of strains.

    Input process

    Free text: enter information as given by depositor or as retrieved from public information sources

    Required for

    RDS
  31. Genotype
  32. Field

    Genotype

    Description

    names of chromosomal markers of the strain. Especially recommended for strains of species for which many genetically modified strains exist.

    Does not apply to all strains

    Input process

    Format: see MINE format (Stalpers et al., Systematic Applied Microbiol 1990;13:92-103).

    Required for

    RDS
  33. Literature
  34. Field

    Literature

    Description

    reference to publication in which the strain is described.

    Especially recommended for type strains

    Input process

    new entry:

    Journal Title Year;Volume(issue):beginning page#-ending page#

    The journal title is abbreviated following international standard rules (ISSN abbreviations).

    The abbreviations are without dot. Authors and title of the article are not mentioned.

    existing catalogues: conversion by SRS following CABRI agreed standard

    This reference can be followed by the Pubmed ID enclosed within square brackets as follows:
    [PMID: 1234567], where '1234567' is the Pubmed ID of the paper

    Required for

    RDS

Guidelines prepared for CABRI by BCCM, CBS, CERDIC, DSMZ, ECACC, HGMP, INRC, MSDN
Update: March 2000
Page layout by CERDIC
Copyright CABRI, 2000

© The CABRI Consortium 1999-2012.
This work cannot be reproduced in whole or in part without the express written permission of the CABRI consortium.
Site maintained by Paolo Romano. Last revised on January 2012.