Drosophila Larval Brain Neoplasms Present Tumour-Type Dependent Genome Instability

G3 : Genes - Genomes - Genetics
Fabrizio RossiCayetano Gonzalez

Abstract

Single nucleotide polymorphisms (SNPs) and copy number variants (CNVs) are found at different rates in human cancer. To determine if these genetic lesions appear in Drosophila tumors we have sequenced the genomes of 17 malignant neoplasms caused by mutations in l(3)mbt, brat, aurA, or lgl We have found CNVs and SNPs in all the tumors. Tumor-linked CNVs range between 11 and 80 per sample, affecting between 92 and 1546 coding sequences. CNVs are in average less frequent in l(3)mbt than in brat lines. Nearly half of the CNVs fall within the 10 to 100Kb range, all tumor samples contain CNVs larger that 100 Kb and some have CNVs larger than 1Mb. The rates of tumor-linked SNPs change more than 20-fold depending on the tumor type: at late time points brat, l(3)mbt, and aurA and lgl lines present median values of SNPs/Mb of exome of 0.16, 0.48, and 3.6, respectively. Higher SNP rates are mostly accounted for by C > A transversions, which likely reflect enhanced oxidative stress conditions in the affected tumors. Both CNVs and SNPs turn over rapidly. We found no evidence for selection of a gene signature affected by CNVs or SNPs in the cohort. Altogether, our results show that the rates of CNVs and SNPs, as well as the distribution of C...Continue Reading

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Citations

Jun 3, 2020·Open Biology·Stephan U Gerlach, Héctor Herranz
Aug 15, 2021·Nature Reviews. Cancer·David BilderJung Kim

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Datasets Mentioned

BETA
PRJEB25187

Methods Mentioned

BETA
dissection

Software Mentioned

muTect
IGVtools
biomaRt R package
R
R package “ CGHcall ”
R statistical language package mgcv
BWA
picard
RealignerTargetCreator
liftOver

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