bioRxiv Science⌕ Search

Biology subjects

Gallegos, J.

Publications and source records attributed to Gallegos, J..

2 recordsLinked to original sources

Cell-based epitope screen identifies a novel B chain-derived Hybrid Insulin Peptide recognized by human and mouse autoreactive CD4 T cells

Type 1 diabetes (T1D) is mediated by autoreactive CD4 T cells that recognize pancreatic {beta}-cell antigens MHC class II molecules. The B-chain of insulin is thought to be a primary autoantigen although native peptide sequences from the B-chain bind weakly to disease-associated MHC risk alleles. Hybrid Insulin Peptides (HIPs), consist of proinsulin fragments fused with peptides from other {beta}-cell proteins, and may endow B-chain peptides with C-terminal acid residues that allow strong binding to MHC risk alleles and subsequent stimulation of autoreactive T cells. Here we applied a high-throughput cell-based screening platform with Signaling and Antigen-presenting Bifunctional Receptors (SABRs) to interrogate a theoretical library of insulin B-chain HIPs against clonally expanded CD4 T cell receptors from NOD mouse islets. We identified a previously undescribed HIP containing a fragment of insulin B-chain combined with a calreticulin-derived peptide. I-Ag7 tetramers loaded with the InsB/Calr HIP bind to T cell clones as well as islet-infiltrating CD4 T cells and CD4 T cells from a recent-onset HLA-DQ2 T1D donor reacted exclusively to the InsB/Calr HIP. Collectively, these results demonstrate that insulin B-chain-derived peptides can undergo post-translational modification through HIP formation to generate neoepitopes with increased antigenicity, and underscore the utility of cell-based screening for identifying disease-relevant neoepitopes in T1D.

immunology↗

Challenges and opportunities for strain verification by whole-genome sequencing

Laboratory strains, cell lines, and other genetic materials change hands frequently in the life sciences. Despite evidence that such materials are subject to mix-ups, contamination, and accumulation of secondary mutations, verification of strains and samples is not an established part of many experimental workflows. With the plummeting cost of next generation technologies, it is conceivable that whole genome sequencing (WGS) could be applied to routine strain and sample verification in the future. To demonstrate the need for strain validation by WGS, we sequenced haploid yeast segregants derived from a popular commercial mutant collection and identified several unexpected mutations. We determined that available bioinformatics tools may be ill-suited for verification and highlight the importance of finishing reference genomes for commonly-used laboratory strains.

bioinformatics↗