Building in vitro tools for livestock genomics: chromosomal variation within the PK15 cell line.

ABSTRACT:

Background

Cultured porcine cell lines are powerful tools for functional genomics and in vitro phenotypic testing of candidate causal variants. However, to be utilised for genomic or variant interrogation assays, the genome sequence and structure of cultured cell lines must be realised. In this work, we called variants and used read coverage in combination with within-sample allele frequency to detect potential aneuploidy in two immortalised porcine kidney epithelial (PK15) cell lines and in a pig embryonic fibroblast line.

Results

We compared two PK15 cultured cells samples: a new American Type Culture Collection (ATCC) sample and one that has been utilised and passaged within the laboratory for an extended period (> 10 years). Read coverage and within-sample allele frequen

SUBMITTER: Johnsson M 

PROVIDER: S-EPMC10782621 | biostudies-literature | 2024 Jan

REPOSITORIES: biostudies-literature