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. 2018 Mar 27;8:5272. doi: 10.1038/s41598-018-23622-w

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© The Author(s) 2018

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Chromosomal arm replacement by homologous recombination after DSB induction at IKI-L. (A) Analysis of the coverage of sequencing reads along the chromosome of a DSB survivor at IKI-L (WT17). Genome sequencing reads of strain WT17 plotted along the S. ambofaciens ATCC 23877 genome as a reference are shown as a pink area. Yellow boxes symbolize HR1-R and HR1-L (two duplicated copies of a sigma factor encoding gene: hasL, SAM23877_0517, and hasR, SAM23877_6930). (B) Hybrid read resulting from recombination between HR1-L and HR1-R sequences. HR1-L and HR1-R sequences were aligned with one typical hybrid_read found in WT17 sequencing data. The alignment shown covers the 3’ end of the hasL/R sequences (from position 600 to 846). Polymorphism is symbolized with a colored background. The stop codon is boxed. (C) WT17 chromosome structure. The hybrid HR1 sequence is labelled HR1-L/R. The I-SceI cut at IKI-L resulted in the loss of the left chromosomal arm and in a homologous recombination event between HR1-R and HR1-L leading to the duplication of the right chromosomal arm over 825 kb.