Experts and Doctors on molecular evolution in Seoul, South Korea

Summary

Locale: Seoul, South Korea
Topic: molecular evolution

Top Publications

  1. Kim B, Fujioka S, Takatsuto S, Tsujimoto M, Choe S. Castasterone is a likely end product of brassinosteroid biosynthetic pathway in rice. Biochem Biophys Res Commun. 2008;374:614-9 pubmed publisher
    ..However, only a single copy of this gene is found in the currently available genome sequences of graminaceous plants; this is a likely explanation for the absence of an endogenous pool of brassinolide in rice plants. ..
  2. Kim K, Sung S, Caetano Anolles G, Han J, Kim H. An approach of orthology detection from homologous sequences under minimum evolution. Nucleic Acids Res. 2008;36:e110 pubmed publisher
    ..Sensitivity and specificity estimates indicate that the concept of minimum evolution could be valuable for the detection of orthologs. ..
  3. Hwang C, Cho B. Cohaesibacter gelatinilyticus gen. nov., sp. nov., a marine bacterium that forms a distinct branch in the order Rhizobiales, and proposal of Cohaesibacteraceae fam. nov. Int J Syst Evol Microbiol. 2008;58:267-77 pubmed publisher
    ..nov., with the type species Cohaesibacter gelatinilyticus sp. nov. (type strain, CL-GR15(T)=KCCM 42319(T)=DSM 18289(T)). Cohaesibacteraceae fam. nov. is also proposed. ..
  4. Choe W, Hong S, Kim B, Ko S, Jung Y, Kim J, et al. Evolution of hepatitis B virus mutation during entecavir rescue therapy in patients with antiviral resistance to lamivudine and adefovir. Antivir Ther. 2009;14:985-93 pubmed publisher
    ..Combination treatment including potent antiviral agents should be recommended for patients with pre-existing rtM204V/I mutations. ..
  5. Chun J, Grim C, Hasan N, Lee J, Choi S, Haley B, et al. Comparative genomics reveals mechanism for short-term and long-term clonal transitions in pandemic Vibrio cholerae. Proc Natl Acad Sci U S A. 2009;106:15442-7 pubmed publisher
    ..cholerae undergoes extensive genetic recombination via lateral gene transfer, and, therefore, genome assortment, not serogroup, should be used to define pathogenic V. cholerae clones. ..
  6. Park J, Lee S, Choi J, Ahn K, Park B, Park J, et al. Fungal cytochrome P450 database. BMC Genomics. 2008;9:402 pubmed publisher
    ..The FCPD will facilitate systematic identification and multifaceted analyses of P450s at multiple taxon levels via the web. All data and functions are available at the web site http://p450.riceblast.snu.ac.kr/. ..
  7. Wang H, Kwon H, Yim W, Lim S, Moon J, Lee B, et al. Expressional diversity of wheat nsLTP genes: evidence of subfunctionalization via cis-regulatory divergence. Genetica. 2010;138:843-52 pubmed publisher
    ..These results indicate that their distinct physiological functions appear to be accomplished by a subfunctionalization process involving degenerative mutations in regulatory regions. ..
  8. Seo J, Park S, Park H, Kim S, Ro Y, Kim E, et al. Cloning, characterization and expression of a gene encoding dihydroxyacetone synthase in Mycobacterium sp. strain JC1 DSM 3803. Microbiology. 2007;153:4174-82 pubmed
    ..The expression of dasS in Mycobacterium sp. strain JC1 was free from catabolite repression. ..
  9. Lee S, Cho B, Park S, Kim S. Aminoacyl-tRNA synthetase complexes: beyond translation. J Cell Sci. 2004;117:3725-34 pubmed
    ..They may thus have joined the ARS community to coordinate protein synthesis with other biological processes. ..

More Information

Publications41

  1. Shin J, Van K, Kim D, Kim K, Jang Y, Choi B, et al. The lipoxygenase gene family: a genomic fossil of shared polyploidy between Glycine max and Medicago truncatula. BMC Plant Biol. 2008;8:133 pubmed publisher
    ..In conclusion, the soybean Lx gene family expanded by ancient polyploidy prior to taxon divergence, followed by a soybean- specific duplication and tandem duplications, respectively. ..
  2. Kim S, Kuzuyama T, Chang Y, Kwon H, Kim S. Cloning and functional characterization of 2-C-methyl-D-erythritol 4-phosphate cytidyltransferase (GbMECT) gene from Ginkgo biloba. Phytochemistry. 2006;67:1435-41 pubmed
    ..Full 88 N-terminal residues were necessary to deliver the protein into the chloroplast as shown by protein-targeting analysis with GFP as a reporter protein in Arabidopsis thaliana protoplasts. ..
  3. Choi J, Bae J, Lyu J, Kim T, Kim Y. Nucleosome deposition and DNA methylation at coding region boundaries. Genome Biol. 2009;10:R89 pubmed publisher
    ..The epigenetic marks we identified here seem to secure the first and last coding exons from exon skipping as they are indispensable for accurate translation. ..
  4. Moon H, Hong S. Nutlet morphology and anatomy of the genus Lycopus (Lamiaceae: Mentheae). J Plant Res. 2006;119:633-44 pubmed
    ..In addition, the systematic and biological implications of the nutlet characteristics investigated are briefly discussed...
  5. Hahn Y. Molecular evolution of TEPP protein genes in metazoans. Biochem Genet. 2009;47:651-64 pubmed publisher
    ..No homolog was detected in birds, insects, nematodes, and teleost fishes despite the extensive sequence data of these species, implying that the TEPP gene might be lost in these lineages. ..
  6. Seo J, Ohshima K, Lee H, Son M, Choi H, Lee S, et al. Molecular variability and genetic structure of the population of soybean mosaic virus based on the analysis of complete genome sequences. Virology. 2009;393:91-103 pubmed publisher
    ..Our finding suggests that recombination as well as mutation is an important evolutionary process in the genetic diversification of SMV population. ..
  7. Kim E, Kim J, Rhee H, Lee J. Growth arrest of Synechocystis sp. PCC6803 by superoxide generated from heterologously expressed Rhodobacter sphaeroides chlorophyllide a reductase. FEBS Lett. 2009;583:219-23 pubmed publisher
    ..The growth arrest of Synechocystis sp. PCC6803 by COR may give an insight into the evolutionary path from bacteriochlorophyll a biosynthetic pathway to chlorophyll a, which bypasses COR reaction...
  8. Kim K, Choi K, Jansen R. Two chloroplast DNA inversions originated simultaneously during the early evolution of the sunflower family (Asteraceae). Mol Biol Evol. 2005;22:1783-92 pubmed publisher
    ..The divergence time estimates also suggest that the Asteraceae originated in the mid Eocene (42-47 MYA)...
  9. Ahn H, Eom S, Yoon H, Lee B, Cho H, Suh S. Crystal structure of class I acetohydroxy acid isomeroreductase from Pseudomonas aeruginosa. J Mol Biol. 2003;328:505-15 pubmed
    ..Thus, our work lowers the likelihood of the previous proposal that "domain duplication followed by exchange of a secondary structure element can be a source of such a knot in the protein structure" being correct. ..
  10. Yeom J, Go H, Shin E, Kim H, Han S, Moore C, et al. Inhibitory effects of RraA and RraB on RNAse E-related enzymes imply conserved functions in the regulated enzymatic cleavage of RNA. FEMS Microbiol Lett. 2008;285:10-5 pubmed publisher
    ..Our findings suggest that these regulators of RNAse activity have a conserved intrinsic property enabling them to directly act on RNAse E-related enzymes and inhibit their general ribonucleolytic activity. ..
  11. Xiao R, Park K, Oh Y, Kim J, Park C. Structural characterization of the genome of BERV gamma4, the most abundant endogenous retrovirus family in cattle. Mol Cells. 2008;26:404-8 pubmed
    ..Combined with our recent reports on characterization of ERVs in bovine, this study will contribute to illuminate ERVs in the cattle of which no information was previously available...
  12. Lee C, Cho Y. Aspects of mammalian spermatogenesis: electrophoretical analysis of protamines in mammalian species. Mol Cells. 1999;9:556-9 pubmed
    ..According to the results of an electrophoretical analysis of the mammalian protamines, the predicted point of gene duplication during evolution is deduced carefully. ..
  13. Kim H, Lee W, Lee S. Morphometric relationship, phylogenetic correlation, and character evolution in the species-rich genus Aphis (Hemiptera: Aphididae). PLoS ONE. 2010;5:e11608 pubmed publisher
    ..To infer whether the morphological relationships are correlated with the genetic relationships, we compared the morphometric dataset with a phylogeny reconstructed from the combined dataset of three mtDNA and one nuclear DNA regions...
  14. Yim S, Kim T, Hu H, Kim J, Kim B, Lee J, et al. Copy number variations in East-Asian population and their evolutionary and functional implications. Hum Mol Genet. 2010;19:1001-8 pubmed publisher
    ..A total of 476 (11.9%) CNVRs were associated with segmental duplications. CNVS/CNVRs identified in this study will be valuable resources for studying human genome diversity and its association with disease. ..
  15. Cho S, Lee M, Yang J, Lee J, Song H, Suh S. Crystal structure of Escherichia coli CyaY protein reveals a previously unidentified fold for the evolutionarily conserved frataxin family. Proc Natl Acad Sci U S A. 2000;97:8932-7 pubmed
    ..This study also provides a framework for the interpretation of disease-associated mutations in frataxin and for understanding the possible functions of this protein family. ..
  16. Jeong Y, Mun J, Kim H, Lee S, Kim S. An upstream region in the first intron of petunia actin-depolymerizing factor 1 affects tissue-specific expression in transgenic Arabidopsis (Arabidopsis thaliana). Plant J. 2007;50:230-9 pubmed
    ..In addition, we have also shown that intron-mediated enhancement is a conserved mechanism, which regulates the expression of the petunia and Arabidopsis ADF genes that are expressed in vegetative tissues...
  17. Shim J, Sternberg P, Lee J. Distinct and redundant functions of mu1 medium chains of the AP-1 clathrin-associated protein complex in the nematode Caenorhabditis elegans. Mol Biol Cell. 2000;11:2743-56 pubmed
    ..Thus, apm-1 and unc-101 encode two highly related micro1 chains that share redundant and distinct functions within AP-1 clathrin-associated protein complexes of the same tissue. ..
  18. Lee S, Jeong S, Lee K. Evolution of TEM beta--lactamase genes identified by PCR with newly designed primers in Korean clinical isolates. Clin Microbiol Infect. 2001;7:98-100 pubmed
  19. Bae Y, Moon S, Kong Y, Cho S, Rhyu M. CsRn1, a novel active retrotransposon in a parasitic trematode, Clonorchis sinensis, discloses a new phylogenetic clade of Ty3/gypsy-like LTR retrotransposons. Mol Biol Evol. 2001;18:1474-83 pubmed
    ..With its high repetitiveness and preserved mobile activity, it is proposed that CsRn1 may play a significant role in the genomic evolution of C. sinensis...
  20. Cho H, Acharjee S, Moon M, Oh D, Vaudry H, Kwon H, et al. Molecular evolution of neuropeptide receptors with regard to maintaining high affinity to their authentic ligands. Gen Comp Endocrinol. 2007;153:98-107 pubmed
    ..Such analysis provides clues for understanding how GPCRs maintain high affinity to their authentic ligands. ..
  21. Baek C, Farrand S, Lee K, Park D, Lee J, Kim K. Convergent evolution of Amadori opine catabolic systems in plasmids of Agrobacterium tumefaciens. J Bacteriol. 2003;185:513-24 pubmed
  22. Kim Y, Choi E, Lee H. Genetic variability of the fusion protein and circulation patterns of genotypes of the respiratory syncytial virus. J Med Virol. 2007;79:820-8 pubmed publisher
    ..Our results indicated that the F gene of the RSVs may be continuously evolving under selective pressure in a distinct pattern, and that the genetic variability of the F protein is associated with that of the G protein...
  23. Song H, Hwang J, Yi H, Ulrich R, Yu Y, Nierman W, et al. The early stage of bacterial genome-reductive evolution in the host. PLoS Pathog. 2010;6:e1000922 pubmed publisher
    ..The detailed IS intervention, unveiled for the first time in this study, may represent the key component of a general mechanism for early bacterial evolution in the host...
  24. Ko K, Jung H. Three nonorthologous ITS1 types are present in a polypore fungus Trichaptum abietinum. Mol Phylogenet Evol. 2002;23:112-22 pubmed
    ..However, Type III was amplified only in three T. abietinum strains collected from Korea, indicating that a new local geographic subtype has arisen in Korean strains. ..
  25. Ki J, Park H, Lee J. The complete mitochondrial genome of the cyclopoid copepod Paracyclopina nana: a highly divergent genome with novel gene order and atypical gene numbers. Gene. 2009;435:13-22 pubmed publisher
    ..We present the first complete mitogenome sequence from a cyclopoid copepod, thereby increasing our understanding of copepod and crustacean evolution from the mitochondrial point of view...
  26. Jo S, Koo D, Kim J, Hur C, Lee S, Yang T, et al. Evolution of ribosomal DNA-derived satellite repeat in tomato genome. BMC Plant Biol. 2009;9:42 pubmed publisher
    ..This result could serve as an example towards understanding the initiation and the expansion of the satellite repeats in complex eukaryotic genome. ..
  27. Lee Y, Tsunekawa K, Moon M, Um H, Hwang J, Osugi T, et al. Molecular evolution of multiple forms of kisspeptins and GPR54 receptors in vertebrates. Endocrinology. 2009;150:2837-46 pubmed publisher
    ..These data shed new light on the molecular evolution of the kisspeptin-GPR54 system in vertebrates...
  28. Lee H, Jansen R, Chumley T, Kim K. Gene relocations within chloroplast genomes of Jasminum and Menodora (Oleaceae) are due to multiple, overlapping inversions. Mol Biol Evol. 2007;24:1161-80 pubmed
    ..However, their genome organization is surprisingly similar despite the distant relationship of these 2 angiosperm families...
  29. Song J, Gu S, Bennett S, Arai S, Puorger M, Hilbe M, et al. Seewis virus, a genetically distinct hantavirus in the Eurasian common shrew (Sorex araneus). Virol J. 2007;4:114 pubmed
    ..Intensified efforts are underway to clarify the genetic diversity of SWSV throughout the geographic range of the Eurasian common shrew, as well as to determine its relevance to human health...
  30. Ok S, Jeong H, Bae J, Shin J, Luan S, Kim K. Novel CIPK1-associated proteins in Arabidopsis contain an evolutionarily conserved C-terminal region that mediates nuclear localization. Plant Physiol. 2005;139:138-50 pubmed
  31. Kim K, Shin J, Van K, Kim D, Lee S. Dynamic rearrangements determine genome organization and useful traits in soybean. Plant Physiol. 2009;151:1066-76 pubmed publisher
    ..Moreover, multiple Rxp quantitative trait loci on different soybean chromosomes actually comprise homeologous regions produced by two rounds of polyploidy events...
  32. Um H, Han J, Hwang J, Hong S, Vaudry H, Seong J. Molecular coevolution of kisspeptins and their receptors from fish to mammals. Ann N Y Acad Sci. 2010;1200:67-74 pubmed publisher
    ..Together, kisspeptin and GPR54 provide an excellent model for understanding molecular coevolution of the peptide ligand and GPCR pairs. ..