CABRI: Catalogue production guidelines: phages: data input

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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

Collection number

Other culture collection numbers

Restricted distribution

History of deposit

Host for propagation

Host used for propagation

Cell surface receptor

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

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

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

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

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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