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China has two populations of  Lentinula edodes  sensu lato as follows:  L. edodes  sensu stricto and an unexcavated morphological species respectively designated as A and B. In a previous study, we found that the nuclear types of the two populations are distinct and that both have two branches (A1, A2, B1 and B2) based on the internal transcribed spacer 2 (ITS2) sequence. In this paper, their mitogenome types were studied by resequencing 20 of the strains. The results show that the mitogenome type (mt) of ITS2-A1 was mt-A1, that of ITS2-A2 was mt-A2, and those of ITS2-B1 and ITS2-B2 were mt-B. The strains with heterozygous ITS2 types had one mitogenome type, and some strains possessed a recombinant mitogenome. This indicated that there may be frequent genetic exchanges between the two populations and both nuclear and mitochondrial markers were necessary to identify the strains of  L. edodes  sensu lato. In addition, by screening SNP diversity and comparing four complete mitogenomes among mt-A1, mt-A2 and mt-B, the  cob ,  cox3 ,  nad2 ,  nad3 ,  nad4 ,  nad5 ,  rps3  and  rrnS  genes could be used to identify mt-A and mt-B and that the  cox1, nad1  and  rrnL  genes could be used to identify mt-A1, mt-A2 and mt-B.

Mitogenome types of two Lentinula edodes sensu lato populations in China