- Phylofenetic relationships of Amanita species based on ITS1-5.8S rDNA-ITS2 region sequences
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Lim, Young Woon , Jung, Hack Sung
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J. Microbiol. 1998;36(3):203-207.
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To determine the phylogenetic relatedness of Amanita species, internal transcribed spacers (ITSs) and the 5.8S ribosomal RNA gene were amplified by polymerase chain reaction and then sequenced according to the dideoxy chain termination method using an automatic DNA sequencer. The ITS region provided sufficient variability for phylogenetic analyses within the species. Analyses of the ITS sequence data by distance and parsimony methods revealed that the Amanita species are composed of three distinct groups whose main branch is strongly supported by bootstrap analysis. The Singerian system did not fully correspond to present phylogenetic results based on molecuar data. The amyloidd nature of the spores was still phylogenetically significant and the type of volva as well as the cap color were proved to be additional important characters in Amanita phylogenetics.
- Phylogenetic Analysis of the Contriciacease Based on Gene Sequences of Nuclear 18S Ribosomal DNAS
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Lee, Seung Shin , Jung, Hack Sung
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J. Microbiol. 1997;35(4):253-258.
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The nuclear 18S ribosomal RNA genes of seven corticioid species were sequenced. These sequences were analyzed and compared with those of 24 other species of the order Aphyllophorales and phylogenetic trees were constructed using parsimonious methods. Phylogenetic analyses showed that two species among examined members of the Corticiaceae, Resinicium bicolor and Thanatephorus praticola, are located distantly from the remaining six species. The separation of R. bicolor seems to be kphylogenetically significant because it has very unique cystidia. The independent lineage of T. practicola suggests that it is also phylogenetically distinct because it has unusual features like the homobasidium producing secondary spores and the spetal ultrastructure of pore cap. Furthermore, Auriscalpium vulgare, Bondarzewia berkeleyi, and Heterobasidion annosum from different families of the Aphyllophorales proved to be closely related to the species of the Corticiaceae. They all have amyloid spores and grouped with Aleyrodiscus amorphus, which is a member of the Corticiaceae. The amyloidity of spores seems to be an improtant character throughout the order of the Aphyllophorales.
- Phylogenetic of Trichaptum Based on Mitochondrial Small Subunit rDNA Sequences
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Ko, Kwan Soo , Jung, Hack Sung
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J. Microbiol. 1997;35(4):259-263.
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To study the phylogenetic relationships of species of Trichaptum and to infer intraspecific dibergence of T. abietinum, partial mitochondrial small subunit rDNA sequences were determined. Six strains of T. abietinum, two of T. biforme, and one of T. fusco-violaceum were examined. Parsimony and distance analyses showed that each Trichaptum species forms a distinct group and that T. abietinum consists of two or more subgroups. Strains from North America were distantly related to one another but the European strain formed an independent group with three Korean strains, suggesting the possibility that Korean taxa may be phylogenetically closer to European taxa than to North American taxa.
- Phylogenetic study of trichaptum inferred from nuclear ribosomal DNA sequences
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Ko, Kwon Soo , Hong, Soon Gyu , Jung, Hack Sung
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J. Microbiol. 1997;35(2):79-86.
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For the phylogenetic study of the genus Trichaptum, nuclear ribosomal DNA sequences from eight strains of four Trichaptium species were examined. Phylogenetic trees were constructed using molecular data on 18 rDNA and 5.8S rDNA and thei ITSs. Parsimony analyses of the Trichaptum species showed that T. biforme and T. laricinum made a monophyletic group respectively, suggesting that each species is phylogenetically independent. However, T. abietum represented a polyphyletic group and T. fusco-violaceum formed a polytomous group, suggesting that these species could be in the process of evolutionary differentiation. Examination of base substitutions of the 18S rRNA gene reveals that the C-T transition is most predominant and that there is a stronger transition bias between closely related organisms rather than between distantly related ones.
- Phylogenetic analysis of trichaptum based on the RFLP of PCR amplified DNAs
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Ko, Kwan Soo , Jung, Hack Sung
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J. Microbiol. 1996;34(4):295-299.
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To infer phylogenetic relationships between species of Trichaptum (Polyporaceae), RFLP analyses of PCR-amplified DNAs were accomplished. Regions coding for ITSs of nuclear SSU rRNA genes and for mitochondrial SSU rRNA genes from thirteen strains of four Trichaptum species (T. abietinum, T. biforme, T. fusco-violaceum, and T. laricinum) were amplified and digested with eight restriction enzymes. All the fragmentation patterns were characterized and coded as 0/1 for the absence/presence of fragments. A phylogenetic tree based on the combined data sets was constructed using the Dollo parsimony method. While every two strains of T. abietinum, T. biforme, T. fusco-violaceum, and T. laricinum formed an independent group, the other strains of T. abietimum and T. fusco-violaceum made mixed groupings among compared strains. It is inferred that T. abietinum and T. fusco-violaceum have more variations, possibly geographic or physiological ones, than other species in the genus.
- Phylogenetic study of trichaptum species based on the RFLP analysis of mitochondrial DNA
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Kim, Mi Sun , jung, Hack Sung
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J. Microbiol. 1996;34(3):215-219.
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Eight strains of Trichaptunm (Polyporaceae), two strains from each species of T. abietinum, T. biforme, T. fusco-violaceum, and T. laricinum were examined to see their phylogenetic relationship by digesting mitochondrial DNAs with EcoRV, Hind III, XbaI, and PstI, and then analyzing fragmentation patterns with the methods of Nei and Li. T. abietinum, T. biforme, and T. laricinum developed an independent phylogenetic lineage, respectively, but T. fusco-violaceum FP-133997-sp showed a close relationship with two strains of T. bioforme, and T. fusco-violaceum HHB-4016-sp barely grouped with those of T. laricinum. Based on the results of the RFLP analysis of mtDNA, it is concluded that T. fusco-violaceum is under way to differentiation into two different subgroups.
- Restriction and Transcription Maps of Mitochondrial DNA of Trimorphomyces papilionaceus
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Jeoung, Won Jin , Hong, Soon Gyu , Kang, Young Won , Jung, Hack Sung
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J. Microbiol. 1995;33(2):149-153.
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Mitochondrial DNA has been isolated from Trimorphomyces papilionaceus. By analyzing DNA fragments digested by restriction enzymes, a restriction site map has been constructured. The mtDNA of T. papilionaceus amounts to 48.5 kb in size and is circular in structure. Entire mitochondrial DNA was cloned in E coli plasmids and Northern blot hybridization was done using cloned and subcloned DNAs as probes. Based on hybridization results of mitochondrial RNA transcripts, a transcription map was prepared.
- Sequence Analysis of the Cytochrome b Gene of Trimorphomyces papilionaceus Mitochondria
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Kim, Young Hyun , Kang, Young Won , Jung, Hack Sung
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J. Microbiol. 1995;33(1):5-9.
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The DNA sequence of the cytochrome b (cob) gene region of Trimorphomyces papilionaceus mitochondrial DNA has been determined. The cob gene is interrupted by an intron of 1267 bp, which has an open reading frame of 897 bp contiguous to to the upstream exon. The intron belongs to group IB and contains a reading frame with a GIY-10-YVG motif. The deduced amino acid sequence shows 52~60% homology with those of other reported fungi. The phylogenetic relationship of T. papilionaceus with Neurospora crassa, Podospora adserina, Aspergillus nidulans, Saccharomyces cerevisiae, Schizosaccharomyces pombe, and Homo sapiens were inferred through sequence alignment and homology comparison of amino acids deduced from cob genes. When Homo sapiens was set as an outgroup, two ascomycetous yeasts S. cerevisiae and S. pombe made one group and three ascomycetous fungi N. crassa, P. anserine, and a basidiomycetous fungus T. papilionaceus the other group, suggesting that the former group evolved first and then the latter group separated into ascomycetous and basidiomycetous fungi right after that.
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