PT  - JOURNAL ARTICLE
AU  - Daly, Grant T.
AU  - Prakash, Aishwarya
AU  - Benton, Ryan G.
AU  - Johnsten, Tom
TI  - A Method for Computationally Constructing Eukaryotic Synthetic Signal Peptide Sequences
AID  - 10.1101/2021.11.19.469281
DP  - 2021 Jan 01
TA  - bioRxiv
PG  - 2021.11.19.469281
4099  - http://biorxiv.org/content/early/2021/11/20/2021.11.19.469281.short
4100  - http://biorxiv.org/content/early/2021/11/20/2021.11.19.469281.full
AB  - We developed a computational method for constructing synthetic signal peptides from a base set of signal peptides (SPs) and non-SP sequences. A large number of structured “building blocks”, represented as m-step ordered pairs of amino acids, are extracted from the base. Using a straightforward procedure, the building blocks enable the construction of a diverse set of synthetic SPs that could be utilized for industrial and therapeutic purposes. We have validated the proposed methodology using existing sequence prediction platforms such as Signal-BLAST and MULocDeep. In one experiment, 9,555 protein sequences were generated from a large randomly selected set of “building blocks”. Signal-BLAST identified 8,444 (88%) of the sequences as signal peptides. In addition, the Signal-BLAST tool predicted that the generated synthetic sequences belonged to 854 distinct eukaryotic organisms. Here, we provide detailed descriptions and results from various experiments illustrating the potential usefulness of the methodology in generating signal peptide protein sequences.Competing Interest StatementThe authors have declared no competing interest.