Effects of Integrating and Non-Integrating Reprogramming Methods on Copy Number Variation and Genomic Stability of Human Induced Pluripotent Stem Cells

• DOI: 10.1371/journal.pone.0131128
• Publication Date: 2015-07-01T18:36:35Z
• Authors: Xiangjin Kang; Qian Yu; Yuling Huang; Bing Song; Yaoyong Chen; Xingcheng Gao; Wenyin He; Xiaofang Sun; Yong Fan
• Keywords: Reprogramming

Human-induced pluripotent stem cells (iPSCs) are derived from differentiated somatic using defined factors and provide a renewable source of autologous for cell therapy. Many reprogramming methods have been employed to generate human iPSCs, including the use integrating vectors non-integrating vectors. Maintenance genomic integrity iPSCs is highly desirable if be used in clinical applications. Here, Affymetrix Cytoscan HD array, we investigated aberration profiles 19 lines: 5 embryonic (ESC) lines, 6 iPSC lines (“integrating lines”), (“non-integrating 2 parental which were derived. The genome-wide copy number variation (CNV), loss heterozygosity (LOH) mosaicism patterns investigated. maximum sizes CNVs genomes 20 times higher than those lines. Moreover, total was much other average numbers novel with low degree overlap DGV likely pathogenic high ISCA (International Symposium on Computer Architecture) database highest Different single nucleotide polymorphisms (SNP) calls revealed that, genotype as reference, displayed more variations did This study describes genome stability generated either DNA-integrating or method, corresponding cells, hESCs. Our results highlight importance high-resolution method monitor aberrations intended applications avoid any negative effects culture.