Commit ddc67f0c authored by Matija Obreza's avatar Matija Obreza

Documentation

parent afb329c6
Accession passport data basics Accession passport data basics
============================== ==============================
Matija Obreza <matija.obreza@croptrust.org>
December 2015: Documentation commit {buildNumber} December 2015: Documentation commit {buildNumber}
:keywords: genebank documentation, accession passport data
:revnumber: {projectVersion} :revnumber: {projectVersion}
:doctype: book :doctype: book
:toc: left :toc: left
...@@ -12,13 +14,13 @@ December 2015: Documentation commit {buildNumber} ...@@ -12,13 +14,13 @@ December 2015: Documentation commit {buildNumber}
:pygments-linenums-mode: table :pygments-linenums-mode: table
[[intro]] [[intro]]
Introduction Introduction
------------ ------------
This manual contains basic information on commonly used standards for accession This manual contains basic information on commonly used standards for accession
documentation and formats for data exchange. It documents Genesys extensions to documentation and formats for data exchange.
the standards.
https://www.genesys-pgr.org[Genesys PGR] (Plant Genetic Resources) is a free online global portal accessible at https://www.genesys-pgr.org[Genesys PGR] (Plant Genetic Resources) is a free online global portal accessible at
link:$$https://www.genesys-pgr.org$$[www.genesys-pgr.org] link:$$https://www.genesys-pgr.org$$[www.genesys-pgr.org]
...@@ -32,6 +34,15 @@ The manual introduces ...@@ -32,6 +34,15 @@ The manual introduces
* <<mcpd-genesys,Genesys extensions>> to MCPD * <<mcpd-genesys,Genesys extensions>> to MCPD
* <<other-standards,Other standards>> relevant to accession documentation * <<other-standards,Other standards>> relevant to accession documentation
== Acknowledgements
Special thanks go to Michael Mackay, Angela Marcela Hernandez, Edwin Rojas for their
input, feedback and support.
You can contact {author} at {email}.
include::sections/accedoc.adoc[] include::sections/accedoc.adoc[]
include::sections/wiews.adoc[] include::sections/wiews.adoc[]
include::sections/mcpd.adoc[] include::sections/mcpd.adoc[]
......
...@@ -36,8 +36,10 @@ maintained by the genebank. ...@@ -36,8 +36,10 @@ maintained by the genebank.
*Sequence number* is assigned manually or by a computer system to ensure there are *Sequence number* is assigned manually or by a computer system to ensure there are
no duplicates. Some institutes prefer to zero-pad the number `00000102`. no duplicates. Some institutes prefer to zero-pad the number `00000102`.
The *suffix* allows differentiating samples of the same original material. The The *suffix* allows differentiating samples of the same original material. A suffix
exact meaning of the suffix is different for every institute. might be used after making a selection from the original accession (e.g. a
single seed descent) to be maintained as a separate sample.
The exact meaning of the suffix is different for every institute.
[cols="1,1,1,2", options="header"] [cols="1,1,1,2", options="header"]
.Example accession numbers .Example accession numbers
...@@ -92,7 +94,9 @@ to obtain material from either collection. ...@@ -92,7 +94,9 @@ to obtain material from either collection.
Accession genus, species, species author, subtaxon and subtaxon authority are usually Accession genus, species, species author, subtaxon and subtaxon authority are usually
known, but are subject to change after expert identification or change in taxonomic system. known, but are subject to change after expert identification or change in taxonomic system.
https://npgsweb.ars-grin.gov/gringlobal/taxon/abouttaxonomy.aspx[GRIN Taxonomy for Plants] and the Mansfeld database can serve for validating accession taxa. https://npgsweb.ars-grin.gov/gringlobal/taxon/abouttaxonomy.aspx[GRIN Taxonomy for Plants] and
the http://mansfeld.ipk-gatersleben.de/[Mansfeld's World Database of Agriculture and Horticultural Crops] can serve for validating accession taxa.
[[accedoc-storage]] [[accedoc-storage]]
=== Storage and maintenance === Storage and maintenance
......
...@@ -107,6 +107,9 @@ consistent manner. ...@@ -107,6 +107,9 @@ consistent manner.
When the institute is not known, the identifier should be preceeded by a colon. When the institute is not known, the identifier should be preceeded by a colon.
|<<mcpd-wiews,DUPLSITE>>|FAO WIEWS code of the institute(s) where a safety duplicate of the accession is maintained. |<<mcpd-wiews,DUPLSITE>>|FAO WIEWS code of the institute(s) where a safety duplicate of the accession is maintained.
The WIEWS institute code for Svalbard Global Seed Vault is NOR051.
|DUPLINSTNAME|Name of the institute where a safety duplicate of the accession is maintained. |DUPLINSTNAME|Name of the institute where a safety duplicate of the accession is maintained.
|<<mcpd-storage,STORAGE>>|Type of germplasm storage. If germplasm is maintained under different types of storage, |<<mcpd-storage,STORAGE>>|Type of germplasm storage. If germplasm is maintained under different types of storage,
multiple choices are alllowed, separated by a semicolon (e.g. `20;30`). multiple choices are alllowed, separated by a semicolon (e.g. `20;30`).
...@@ -123,7 +126,6 @@ Values for `INSTCODE`, `COLLCODE`, `BREDCODE`, `DONORCODE` and `DUPLSITE` must b ...@@ -123,7 +126,6 @@ Values for `INSTCODE`, `COLLCODE`, `BREDCODE`, `DONORCODE` and `DUPLSITE` must b
<<wiews-instcode,FAO WIEWS codes>> of institutes. <<wiews-instcode,FAO WIEWS codes>> of institutes.
[[mcpd-sampstat]] [[mcpd-sampstat]]
==== Biological status of accession ==== Biological status of accession
......
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