AutoESD: a web tool for automatic editing sequence design for genetic manipulation of microorganisms

Area of Science:

• Molecular Biology
• Bioinformatics
• Genomics

Background:

• Genetic manipulation relies on precise DNA sequence editing.
• Current methods for designing editing sequences are manual, low-throughput, and error-prone.
• Existing tools lack standardization and can be challenging for non-expert users.

Purpose of the Study:

• To introduce AutoESD, an automated system for editing sequence design (ESD).
• To provide a cloud-based platform for high-throughput and precise ESD across various genetic manipulation techniques.
• To streamline the ESD process for experimental biologists.

Main Methods:

• Development of a cloud-based, serverless architecture for AutoESD.
• Implementation of algorithms for designing editing sequences for homologous recombination techniques.
• Enabling simultaneous processing of multiple manipulation types and targets (CDS, intergenic regions).

Main Results:

• AutoESD successfully automates precise editing sequence design for genetic manipulation.
• The platform supports high-throughput processing of hundreds of tasks with thousands of targets in minutes.
• AutoESD is the first cloud platform offering automated, precise, and high-throughput ESD across species and genomic loci.

Conclusions:

• AutoESD significantly advances genetic engineering by providing an automated, reliable, and scalable solution for editing sequence design.
• The platform democratizes access to precise genome engineering by simplifying a complex, error-prone process.
• AutoESD is poised to accelerate research in molecular biology and synthetic biology through efficient sequence design.