FIG 6.

ISL3-associated genome changes in GM3 strains. (A) Read coverage showing deletion of the ISL3-1 element including the cphy1314 transposase gene (CFY1A shown). (B) Read coverage in CFY2C and CFY2D (shown) reveals the duplication of a 333-kb region from cphy2178-cphy2461 (genome position 2689393 to 3023191). (C) The cphy2178-cphy2461 region is a tandem duplication joined by an ISL3-2 element. Positions of qPCR primers and single-molecule restriction fragments of >400 kb from BioNano optical mapping that span the duplicated region are shown. (D) Relative abundance of the cphy2178-ISL3-cphy2461 junction in the GM3 culture from day 6 to 83 as measured by qPCR.