Throughout the Breeding Management System, users can view germplasm details by clicking on any germplasm GID or name in blue hyperlink text.
Preferred Name (see below for more information on naming)
GID: BMS instance-specific germplasm identifier. Number assigned new germplasm in acceding order (1,2,3…..1456, 1457)
UUID: Globally unique identified. Randomly generated alphanumeric sequence unlikely to replicated across BMS instances, genebanks, etc.
Group ID: Germplasm assigned or descended from a group progenitor will share group ID
Creation Date
Location
Reference
Some germplasm details, like location, date, and reference are editable.
Select the pencil and paper icon to reveal the editing popup. Confirm edits by selecting Update.
The screenshot below illustrates germplasm, IB1-1-1, that has a derived name, set by a customized naming convention. Institutes and breeding programs create naming conventions to suit their needs as a part of BMS installation (See your IBP data manager for more information). In the following scenario, the prefix, “IB”, refers to the institute, Integrated Breeding. “IB1” indicates that this is the first IB cross. “IB1-1-1” indicates that the line has been inbred twice (F3 generation).
Germplasm names can be edited or added without impacting the pedigree, GID, or UUID.
Select New to add a germplasm name. In the following example, the breeder wants to give IBP1-1-1 a more human-readable commercial line name, Fabuloso. Selecting Preferred Name insures that “Fabuloso” replaces “IBP1-1-1” in most BMS tabular views.
Notice that while Fabuloso has become the preferred name for this germplasm, the original derived name, IB1-1-1 remains associated with the germplasm details.
Attributes are non-heritable qualitative descriptors of germplasm. For example, after quantitative characterization in a study or studies, a line may be given a “Rust Resistant” attribute.
Select New to assign an attribute to the germplasm.
Create Attribute. Choose variable from the drop-down list and describe.
The germplasm is now characterized as Rust Resistant.
Germplasm Attributes and Germplasm Passport variables are now part of the Ontology. You can now use the ontology to control scales and properties of the germplasm attributes and passport data. |
Group Source: most recent ancestor created by a generative breeding method
Immediate Source: most recent ancestor
Breeding Method: method of creation
Select “Include derivative and maintenance lines” and Apply to reveal the full pedigree tree in list format.
Fabuloso’s full pedigree is 4 generations deep.
Create a graphical pedigree by selecting “View Pedigree Graph”. Enter the generation depth (level) of interest and choose whether to include derivative and maintenance lines.
Without derivative and maintenance methods
With derivative and maintenance lines
Click on a given node of the pedigree tree and the germplasm details of such node will open in a separate window (node highlighted in blue).
You can also download the pedigree graph by clicking on the Download button.
The observations tab allows a review of studies where the germplasm has been grown and/or evaluated. In the case below, Fabuloso has only been grown in a single study, F3 Nursery Winter 18. Search options are available to narrow the search to specific locations and observation levels.
The Inventory tab allows the review of lots and transactions. See more in Manage Inventory.
The Lists tab provides links to germplasm lists in which the germplasm of interest has been included.
If the germplasm has been sampled for genotyping, the details about the sample are listed.
You can upload, delete, and download photos and files in the Files tab and optionally associate the variables included in the germplasm as attributes or passport variables. The file extensions supported: png, jpeg, jpg, pdf, json, csv, mpeg, tiff, bmp, and gif.
Click on a GID/Designation link
Files tab
Browse for the file
Notice that a preview is generated.
In this case, the germplasm selected does not have attributes/passport variables associated.
Upload
A success message is displayed. The file name is added in the files table. If you click in the file row, the preview is generated again.
Descriptors tab > Create an attribute for the germplasm (See above)
Files tab> Browse for the file
Associate the file to the attribute created
Upload, the success message is displayed, the new file is added it the files table. The variable is associated to the file. Click on the row and you can see the preview.
When a variable is associated to a file, an icon is displayed in the Descriptors>Attributes or Passport section. If you click on the icon you will be redirected to the Files tab.
Under Actions column you can download a file clicking on the Download icon, and delete a file by clicking on the trash icon.
Confirm the delete file action. A success message is displayed, and the file will not be displayed anymore. If the file had an associated variable, it would be disassociated after deleting.
When looking at your germplasm details, names, descriptors, or pedigree you can now see an audit trace button that will enable you to see a comprehensive report of the change of the corresponding record.
Click on the Audit trace button.
The changes are highlighted in green. The Audit trace table annotates the date, the event type like creation or edition, the user who performed the event, and the timestamp. The timestamp is the one persisted in the server, indicating the timezone used.
