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GUIDELINES
FOR CATALOGUE PRODUCTION
Data input & authentication
for bacteria & archaea |
 |
Data Sets
Data entry and validation
-
Accession number
|
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 |
- Other
culture collection numbers
| 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 |
- Restrictions
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 |
- Organism type
Field |
Organism type |
Description |
contain value
"Bacteria" or "Archaea". |
Input process |
Enter
"B" or "A" |
Required for |
MDS |
- Name
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 |
- Infrasubspecific names
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 fieldFormat: 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 |
- Status
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 |
- Other
names
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 |
- History of deposit
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 |
- Conditions for growth
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 |
- Form of supply
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 |
- Serovar
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 |
- Isolated from
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 |
- Geographic origin
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 |
- Mutant
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 |
- Genotype
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 |
- Literature
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 1999-2003.
This work cannot be reproduced in whole or in part without the express
written permission of the CABRI consortium.
Site maintained by the CABRI webmaster.
Last revised on January 15th, 2002.
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