Feasibility and limitations of cultured skin fibroblasts for germline genetic testing in hematologic disorders. Issue 7 (14th April 2022)

• Record Type: Journal Article
• Authors: DeRoin, Lia; Cavalcante de Andrade Silva, Marcela; Petras, Kristin; Arndt, Kelly; Phillips, Nathaniel; Wanjari, Pankhuri; Subramanian, Hari Prasanna; Montes, David; McElherne, James; Theissen, Megan; Briese, Renee; Das, Soma; Godley, Lucy A.; Segal, Jeremy; del Gaudio, Daniela; Fitzpatrick, Carrie; Churpek, Jane E.
• Is Part Of: Human mutation. Volume 43:Issue 7(2022)
• Page Start: 950
• Page End: 962
• Publication Date: 2022-04-14
• Subjects: germline genetics -- inherited -- leukemia -- lymphoma -- myelodysplastic syndrome -- skin fibroblasts; Human chromosome abnormalities -- Periodicals; Mutation (Biology) -- Periodicals; 616.04205
• DOI: 10.1002/humu.24374
• Languages: English
• ISSNs: 1059-7794

Abstract

Abstract: To avoid acquired variants found in the blood, cultured skin fibroblasts are a recommended DNA source for germline genetic testing in patients with hematologic disorders, but data are lacking regarding practicality and limitations. We conducted a retrospective cohort study of 350 subjects with hematologic disorders who underwent skin fibroblast culture for germline genetic testing. We analyzed next‐generation sequencing data from the targeted capture of 144 inherited cancer and bonemarrow failure genes to identify variants at heterozygous and subclonal variant allele frequencies. Sixteen (5%) biopsies failed to culture. Culture failure was more likely in samples with delays in culture initiation (OR = 4.3; p < 0.01) or a pathogenic variant in a telomere gene (OR = 42.6; p < 0.01). Median culture time was 28 days (IQR 22−29 days). Culture time was longer for subjects with prior allogeneic stem cell transplantation (+10.7%; p = 0.02) and shorter in subjects with a heterozygous pathogenic variant (−11.9%; p < 0.01), larger biopsy size (−10.6%; p < 0.01), or lymphoid malignancy (−8.4%; p < 0.01). Subclonal variants were identified in 10 (4%) and confirmed in five (56%) of eight with alternate samples available. Subclonal and discordant variants illustrate that germline testing from cultured skin fibroblasts requires phenotypic correlation and, in rare cases, follow‐up studies for optimal interpretation.