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CABRI Guidelines for Catalogue Production

Guidelines prepared for CABRI by BCCM, CBS, CERDIC, DSMZ, ECACC, HGMP, INRC, MSDN
Page layout by CERDIC


Data input & authentication Flat file preparation Flat file submission


Data input & authentication for phages

Data Sets

Data entry and validation

Element name

Collection number

Element type

Other culture collection numbers

Restricted distribution

Literature

History of deposit

Host for propagation

Host used for propagation

Lysogenic

Cell surface receptor

Virus used for


Element name

Field

Element name

Description

Contains the name of the element

Input process

As given by the depositor

Required for

MDS

Collection number

Field

Collection number

Description

Contains the number of the element in the collection under which the element is distributed

Input process

collection acronym followed by a number

Required for

MDS

Element type

Field

Element type

Description

Contains element type.

Input process

CABRI agreed list:
phage
transposon
minitransposon
IS element

Required for

MDS

Other culture collection numbers

Field

Other culture collection numbers

Description

Numbers of the element under which it is distributed by other culture collections, incl. non-CABRI numbers if possible (e.g. ATCC, NCTC, plasmid collection of Vicente, …)

Input process

HGMP will be asked to generate the content of this field automatically, based on the name of the element. Clients must be warned that although the elements have the same name, the physical material may vary.

Reference list: not necessary if automated

Required for

MDS

Restricted distribution

Field

Restricted distribution

Description

Restriction for the delivery and the use of the phage

Input process

enter "no", or a text field describing the appropriate restrictions: hazard group, import/export regulations, .. The text may contain codes which refer to text files explaining the restrictions in more detail.

Required for

MDS

Literature

Field

Literature

Description

Original publication in which the element is described.

Input process

new entry:

JournalTitle Year;Volume(issue):beginning page#'-'ending page#

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

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

existing catalogues: conversion by SRS following CABRI agreed standard 

Required for

MDS

History of deposit

Field

History of deposit

Description

Contains the history of the element from author to depositor, in reverse order. The name of the depositor must be entered obligatory; history when known.

Input process

Free text

Required for

MDS

Host for propagation

Field

Host for propagation

Description

Description of suitable host strains (on family, genus, species level), where possible completed with requirements for infection on phenotypic level (e.g. gram-negative bacteria, or E. coli LamB+)

Input process

Free text

Required for

MDS

Host used for propagation

Field

Host used for propagation

Description

Taxonomic designation and strain designation of the host organism used for propagation of the phage (e.g. E. coli MC1061)

Input process

Free text

Required for

MDS

Lysogenic

Field

Lysogenic

Description

Logical field: "yes" or "no". Enter "yes" when the infecting bacteriophage genome can become integrated into the bacterial host DNA, and is subsequently replicated and transmitted to progeny bacteria like any other chromosomal gene.

Input process

enter "yes" or "no",

Required for

MDS

Cell surface receptor

Field

Cell surface receptor

Description

Name of the cell surface receptor

Input process

Free text

Required for

RDS

Virus used for

Field

Virus used for

Description

Possible usage of the virus

Input process

Reference list:

- PVT format (Vicente et al., World J Microbiol Biotechnol 1992;8:519-526:
generalized transduction
specialized transduction
plasmid specificity
phage typing
other virus uses

Required for

MDS
 
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Site maintained by Paolo Romano. Last revised: April 2017.