Whole genome and normalized mRNA sequencing reveal genetic status of TK6, WTK1, and NH32 human B-lymphoblastoid cell lines

Mutation Research. Genetic Toxicology and Environmental Mutagenesis
Javier RevolloVasily N Dobrovolsky

Abstract

Closely related TK6, WTK1, and NH32 human B-lymphoblastoid cell lines differ in their p53 functional status. These lines are used frequently in genotoxicity studies and in studies aimed at understanding the role of p53 in DNA repair. Despite their routine use, little is known about the genetic status of these cells. To provide insight into their genetic composition, we sequenced and analyzed the entire genome of TK6 cells, as well as the normalized transcriptomes of TK6, WTK1, and NH32 cells. Whole genome sequencing (WGS) identified 21,561 genes and 5.17×10(6) small variants. Within the small variants, 50.54% were naturally occurring single nucleotide polymorphisms (SNPs) and 49.46% were mutations. The mutations were comprised of 92.97% single base-pair substitutions and 7.03% insertions or deletions (indels). The number of predicted genes, SNPs, and small mutations are similar to frequencies observed in the human population in general. Normalized mRNA-seq analysis identified the expression of transcripts bearing SNPs or mutations for TK6, WTK1, and NH32 as 2.88%, 2.04%, and 1.71%, respectively, and several of the variant transcripts identified appear to have important implications in genetic toxicology. These include a single ...Continue Reading

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Citations

Mar 12, 2020·Toxicological Sciences : an Official Journal of the Society of Toxicology·Xilin LiNan Mei
Mar 8, 2021·Genes and Environment : the Official Journal of the Japanese Environmental Mutagen Society·Manabu YasuiMasamitsu Honma
Nov 18, 2020·Mutation Research. Genetic Toxicology and Environmental Mutagenesis·Fumio KasaiArihiro Kohara

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