Fig. 6
Products of homologous recombination mediated by one, two, and three of the repetitive sequences R01, R04, and R07. The repeat units of R01, R04, and R07 are represented by black arrows. Sequences around the repeat units are shown in different colors. The circles represent circular chromosomes. The genomic configuration is named “c” followed by the configuration number. In contrast, the circular chromosomes of a particular genomic configuration are named “c” followed by the configuration number, “-”, and the chromosome number. The double-headed arrows indicated the source circular chromosomes, the repetitive elements, and the product circular chromosomes, separated with horizontal lines. The genomic configuration name is prefixed with “Mac”, representing “major configuration” if it is the most abundant configuration. Otherwise, the genomic configuration name is prefixed with “Mic”, representing “minor configuration”. Each configuration can have a set of chromosomes. Mac1 is the genomic configuration containing chromosomes MC1 (Mac1-1) and MC2 (Mac1-2). Mac1-1 and Mac1-2 can undergo recombination mediated by R01, R04, R07 to form circular chromosomes Mic1-1, Mic2-1, and Mic3-1, respectively. Mac1-1 and Mac1-2 can undergo recombination mediated by repetitive sequences R01 and R04 to form a circular chromosome Mic4-1. Mac1-1 and Mac1-2 can undergo recombination mediated by repetitive sequences R01 and R07 to form two circular chromosomes: Mic5-1 and Mic5-2. Mac1-1 and Mac1-2 can undergo recombination mediated by repetitive sequences R04 and R07 to form two circular chromosomes: Mic6-1. Lastly, Mac1-1 and Mac1-2 can form Mic7 through recombinations mediated by R01, R04, and R07 together. Please note that we consider the Mac1 as the baseline configuration. Only newly formed circular chromosomes are shown for each newly formed genome configuration. By definition, it should also contain the circular chromosome in the source configuration that does not undergo recombination.
