Studies on ultrasound-mediated insertion-deletion polymorphisms of DNA and underlying mechanisms based on Ames tester strains

• Published in: Ultrasonics sonochemistry Vol. 92; p. 106270
• Main Authors: Li, Yunliang, Ruan, Siyu, Lu, Feng, Xie, Pengfei, Liu, Xiaoshuang, Ma, Haile
• Format: Journal Article
• Language: English
• Published: Netherlands Elsevier B.V 01-01-2023; Elsevier
• Subjects: Direct repeat sequences; DNA; INDEL Mutation; InDels; Mechanism; Mutagenesis; Sono-physico-chemical effect; Ultrasonography; Ultrasound; Mutagenesis; Ultrasound; InDels; Mechanism; Direct repeat sequences
• ISSN: 1350-4177; 1873-2828
• DOI: 10.1016/j.ultsonch.2022.106270

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•Ultrasonication promoted the reversion mutation and InDels in hisD3052 gene of TA98 strain.•Ultrasound-mediated InDels polymorphism was similar to lognormal distribution.•Sonication had regulation effects on genes involved in DNA replication and repair.•Mechanisms of ultrasound-mediated InDels polymorphism was proposed.
Low-lethality ultrasound technology has received more and more attention in regulating microorganisms of fermentation industry. Herein, two representative Ames tester strains TA97a and TA98 as model organisms were used to explore the effects of ultrasound on insertion-deletion (InDel) polymorphisms of microbial DNA and its underlying mechanisms. Results revealed that a promotion was observed in the reversion mutation of TA98 upon sonication. Sequencing results from 1752 TA98 revertants showed that there was a total of 127 InDels, of which the InDels unique to ultrasound were 36 more than that of the control. Compared with the control, ultrasound-mediated InDels of DNA displayed additional −29 bp deletion and +7 ∼ +43 bp insertions of direct repeat sequences. Combined with the analysis of transcriptomics and prediction of secondary structure of single-stranded DNA from InDels core region (No. 832 ∼ 915 bp) in hisD3052 gene of TA98 strain, ultrasound-mediated “thermal breathing” mechanism was proposed based on the formation of DNA hairpin structure with micro-homologous sequence. This finding implied that low-intensity ultrasound is expected to be developed a new low-lethal mutagenic technology for continuous mutagenesis.