Reconstruction of full antibody sequences in NGS datasets and accurate VL:VH coupling by cluster coordinate matching of non-overlapping reads

Computational and Structural Biotechnology Journal

André F. Faustino¹  Ana P. Batista²  Miguel A. Antunes²  Remi Boeuf³  Stefan Ewert³  Jorge Moura-Sampaio³ 

[1] Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa, Av. da República, 2780-157 Oeiras, Portugal;Novartis Institutes for BioMedical Research, Basel, Switzerland;iBET, Instituto de Biologia Experimental e Tecnológica, Apartado 12, 2781-901 Oeiras, Portugal;

关键词: Next-generation Sequencing;    Phage-display;    Synthetic Libraries;    Randomization;    Diversity;    CDR;   

DOI  :  

来源: DOAJ

【 摘 要 】

Next-generation sequencing (NGS) is an indispensable tool in antibody discovery projects. However, the limits on NGS read length make it difficult to reconstruct full antibody sequences from the sequencing runs, especially if the six CDRs are randomized. To overcome that, we took advantage of Illumina’s cluster mapping capabilities to pair non-overlapping reads and reconstruct full Fab sequences with accurate VL:VH pairings. The method relies on in silico cluster coordinate information, and not on extensive in vitro manipulation, making the protocol easily deployable and less prone to PCR-derived errors. This work maintains the throughput necessary for antibody discovery campaigns, and a high degree of fidelity, which potentiates not only phage-display and synthetic library-based discovery methods, but also the NGS-driven analysis of naïve and immune libraries.

【 授权许可】

Unknown