Richard A. Morgan, Feiyang Ma, Mildred J. Unti, Devin Brown, Paul George Ayoub et al.
Hematopoietic stem cell gene therapy is a promising approach for treating disorders of the hematopoietic system. Identifying combinations of cis-regulatory elements that do not impede packaging or transduction efficiency when included in lentiviral vectors has proven challenging. In this study, we deploy LV-MPRA (lentiviral vector-based, massively parallel reporter assay), an approach that simultaneously analyzes thousands of synthetic DNA fragments in parallel to identify sequence-intrinsic and lineage-specific enhancer function at near-base-pair resolution. We demonstrate the power of LV-MPRA in elucidating the boundaries of previously unknown intrinsic enhancer sequences of the human β-globin locus control region. Our approach facilitated the rapid assembly of novel therapeutic βAS3-globin lentiviral vectors harboring strong lineage-specific recombinant control elements capable of correcting a mouse model of sickle cell disease. LV-MPRA can be used to map any genomic locus for enhancer activity and facilitates the rapid development of therapeutic vectors for treating disorders of the hematopoietic system or other specific tissues and cell types.
Richard A. Morgan, Feiyang Ma, Mildred J. Unti, Devin Brown, Paul George Ayoub, Curtis Tam, Lindsay Lathrop, Bamidele Aleshe, Ryo Kurita, Yukio Nakamura, Shantha Senadheera, Ryan L. Wong, Roger P. Hollis, Matteo Pellegrini, Donald B. Kohn. Creating New β-Globin-Expressing Lentiviral Vectors by High-Resolution Mapping of Locus Control Region Enhancer Sequences. 2020-04-18. https://doi.org/10.1016/j.omtm.2020.04.006
An integrated lentiviral MPRA screened overlapping 103-bp human β-globin locus control region fragments tiled every 4 bp in HUDEP-2 erythroid progenitor cells. Each query was represented by three 13-bp barcodes and a reverse-complement library; cDNA barcode abundance after four days of erythroid differentiation was normalized to plasmid DNA barcode abundance.
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