Repair characteristics and time-dependent effects in response to heavy-ion beam irradiation in Saccharomyces cerevisiae: a comparison with X-ray irradiation

• Published in: Applied microbiology and biotechnology Vol. 104; no. 9; pp. 4043 - 4057
• Main Authors: Guo, Xiaopeng, Zhang, Miaomiao, Gao, Yue, Lu, Dong, Li, Wenjian, Zhou, Libin
• Format: Journal Article
• Language: English
• Published: Berlin/Heidelberg Springer Berlin Heidelberg 01.05.2020; Springer; Springer Nature B.V
• Subjects: Analysis; Annotations; Biomedical and Life Sciences; Biotechnology; breeding; Deoxyribonucleic acid; DNA; DNA Breaks, Double-Stranded - radiation effects; DNA damage; DNA repair; DNA Repair - radiation effects; Encyclopedias; Enrichment; Fungi; Gene Expression Profiling; gene expression regulation; gene ontology; Genes; Genomes; Genomics; Heavy Ions; Homologous recombination; Homologous recombination repair; Homology; Ion beams; Irradiation; Life Sciences; Microbial Genetics and Genomics; Microbiology; Microorganisms; Mutagenesis; Mutation; Post-irradiation; Proteomics; Radiation; Radiation damage; Repair; Saccharomyces cerevisiae; Saccharomyces cerevisiae - genetics; Saccharomyces cerevisiae - radiation effects; Time dependence; Time Factors; Transcription; transcription (genetics); Transcriptomics; X ray irradiation; X-radiation; X-Rays; Yeast; Massachusetts; China; Heavy-ion beam irradiation; RNA-seq; X-ray irradiation; Cellular repair; Saccharomyces cerevisiae
• ISSN: 0175-7598; 1432-0614; 1432-0614
• DOI: 10.1007/s00253-020-10464-8

Heavy-ion beam (HIB) irradiation has been widely used in microbial mutation breeding. However, a global cellular response to such radiation remains mostly uncharacterised. In this study, we used transcriptomics to analyse the damage repair response in Saccharomyces cerevisiae following a semi-lethal HIB irradiation (80 Gy), which induced a significant number of DNA double-strand breaks. Our analysis of differentially expressed genes (DEGs) from 50 to 150 min post-irradiation revealed that upregulated genes were significantly enriched for gene ontology and Kyoto encyclopaedia of genes and genomes terms related to damage repair response. Based on the number of DEGs, their annotation, and their relative expression, we established that the peak of the damage repair response occurred 75 min post-irradiation. Moreover, we exploited the data from our recent study on X-ray irradiation-induced repair to compare the transcriptional patterns induced by semi-lethal HIB and X-ray irradiations. Although these two radiations have different properties, we found a significant overlap (> 50%) for the DEGs associated with five typical DNA repair pathways and, in both cases, identified homologous recombination repair (HRR) as the predominant repair pathway. Nevertheless, when we compared the relative enrichment of the five DNA repair pathways at the key time point of the repair process, we found that the relative enrichment of HRR was higher after HIB irradiation than after X-ray irradiation. Additionally, the peak stage of HRR following HIB irradiation was ahead of that following X-ray irradiation. Since mutations occur during the DNA repair process, uncovering detailed repair characteristics should further the understanding of the associated mutagenesis features.