SynBio2Easy

SynBio2Easy automates batch operations on Synthetic Biology Open Language (SBOL) designs using Microsoft Excel® metadata to generate, annotate, and deposit plasmid libraries to SynBioHub for standardized sharing of synthetic constructs.

Key Features:

• Excel integration: Uses Microsoft Excel® tables as metadata inputs to programmatically manipulate SBOL documents.
• Automation and streamlining: Automates generation of plasmid libraries from design templates, bulk deposition into SynBioHub, and annotation of existing SBOL component definitions with notes and authorship information.
• Enhanced data sharing and FAIR support: Enables deposition to SynBioHub and supports Findable, Accessible, Reusable, Interoperable (FAIR) principles for synthetic biology datasets.
• Demonstrated scale: Was used to generate and deposit a collection of 3,661 cyanobacterium Synechocystis plasmids into the public SynBioHub repository.

Scientific Applications:

• Large-scale library generation: Creation of extensive plasmid libraries from SBOL design templates for synthetic biology experiments.
• SBOL data curation and annotation: Bulk annotation of SBOL component definitions with metadata such as notes and authorship.
• Repository deposition and data sharing: Bulk deposition of SBOL designs into SynBioHub to enable community access and reproducibility.

Methodology:

Processes Excel tables as metadata inputs to modify SBOL documents by generating plasmid libraries from templates, annotating SBOL component definitions with notes and authorship, performing bulk deposition to SynBioHub, and was developed after evaluation of SynBioHub and the SBOL ecosystem.