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Genome-wide Single Nucleotide Polymorphism-based Assay for Phylogenetic Relationship of the Flammulina velutipes
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  • Journal title : The Korean Journal of Mycology
  • Volume 43, Issue 4,  2015, pp.231-238
  • Publisher : The Korean Society of Mycology
  • DOI : 10.4489/KJM.2015.43.4.231
 Title & Authors
Genome-wide Single Nucleotide Polymorphism-based Assay for Phylogenetic Relationship of the Flammulina velutipes
Woo, Sung-I; Kim, Eun-Seon; Han, Jae-Gu; Jang, Kab Yeul; Shin, Pyung-Gyun; Oh, Youn-Lee; Oh, Min Ji; Jo, Sung-Hwan; Lee, Jeong-Hee; Kim, Kyung-Soo; Kong, Won-Sik;
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Genome-wide reanalyzed data of 25 Flammulina strains were compared against the reference genome (KACC42780) to establish a genome-wide single nucleotide polymorphism (SNP). The rate of mapping differences between the strains reflected in the strain variation in its result. Genome-wide SNPs distribution divided into types of homozygous SNP and heterozygous SNP moreover all of the strains demonstrated a wide variation in all of the regions. In the further study of topological relationship between the collected strains, phylogenetic tree was separated into 3 major groups. Group I contained F. velutipes var. related strains of ASI 4062, 4148, 4195. Group 2 contained strains that are different species of ASI 4188 F. elastica, ASI 4190 F. fennae, and ASI 4194 F. rossica. The other 19 strains F. velutipes were classified as a single group. However, further experiment to discriminate its genetic relationship between the white group and brown group did not verify its validity. The inferred tree exhibited a phylogenetic relationship between Korea white fruitbody forming strains of ASI 4210, 4166, 4178 and Japan white fruitbody forming strains of ASI 4209, 4167 confirmed to be genetically closely related.
Flammulina velutipes;SNP;Single nucleotide polymorphisms;Phylogenetic analysis;
 Cited by
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