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The ribosomal intergenic spacer (IGS) variation was compared for the nine main cultivated varieties of  Pyropia yezoensis  in China obtained from the Chinese National  Pyropia  Germplasm Repository. The full length of the IGS is 5984 bp including several sequence repeats and some complex structures. The sequence analysis of four partial IGS amplicons ranged from 3628 bp to 3776 bp; and the G+C content is 52.5%. Through similarity analysis and multiple sequence alignment of these partial IGS amplicons from the nine varieties, we have found 278 variable sites which account for approximately 7.5% of the whole IGS length. Both comparison of partial IGS sequences and phylogenetic analysis indicate high levels of genetic variation among different  P. yezoensis  cultivars in different areas of China. In comparison to the IGS of  P .  haitanensis , this study highlights the important function of classification of IGS in  P. yezoensis . Therefore, the IGS sequence may be used to identify intraspecific variation in  P. yezoensis .

Ribosomal intergenic spacer (IGS) sequence can distinguish varieties of Pyropia yezoensis cultivated in China