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Impact of metagenomic assembly and MAG binning on recovery of GIs. GIs were recovered in a similarly poor fashion to plasmids. Regardless of binning (x-axis) and assembly (panel) methods, <40% of GIs were correctly assigned to the correct source genome. MaxBin2 and CONCOCT placed GIs in a bin the majority of the time (orange); however, a very small fraction was correctly binned (green). Generally, GIs were correctly binned better than plasmids with DAS Tool, MetaBAT2 and CONCOCT.
