Korea Biological Resource CenterGenomeResource CenterRESEARCHERSHong-Seog Park hspark@kribb.re.krComparative analysis of gene structure between humanand chimpanzee brain using bioinformatics toolsSang-Haeng Choi shchoi@kribb.re.krConstruction of genome/cDNA library for animal, plant,and microorganismYoung Joo Kim yjkim8@kribb.re.krBioinformatics: Disease associated protein networkanalysisDae-Soo Kim kds2465@kribb.re.krBioinformatics: Comparative analysis of primatetranscriptomeRESEARCH AREASAnimal genomes / Plant genomesDiscovery and characterization of chimpanzee specificfusion genes with the next generation sequencingplatformThe sequencing and de novo assembly of the flatfishgenome using NGS methodsLarge-scale screening and identification of diseaserelatedfusion genesMass gene collection of industrially used plants,especially domestically grown medicinal plantsBioinformatic analysis of whole human exon capture forhigh-throughput sequencingMicrobial genomeGenome sequencing and comparative structure analysisbased on massive genome sequencing of various bacteriaMeta-genome research of environmental organismsBioinformaticsSupport of large scale bioinformatics analysis andcollaborative research.Developing software for the analysis of generegulation and function data.Director Hong-Seog ParkT + 82-42-879-8132F + 82-42-879-6169E hspark@kribb.re.krACHIEVEMENTSComparative analysis of the gene structures of chimpanzee and human brainsOf all animals, the chimpanzee most closely resembles humans. We constructed cDNAlibraries of the chimpanzee brain (Cerebrum and Cerebellum) and sequenced 26,880reads. We discovered 14,673 unique genes in the cerebrum and 16,477 unique genes inthe cerebellum.Whole human exome capture for high-throughput sequencingWe captured the entire human exome with hybridization by using synthesizedoligonucleotides, based on a high-density microarray design, and we sequenced the exonswith high-throughput sequencing on a Genome Sequencer FLX instrument. Of theuniquely mapped reads, 71% fell within target regions, and these corresponded to acoverage of 94% of human genes, 87% of exons, and 70% of the total base-pair length ofthe CCDS set.Conjoined gene formation mechanism and expression: insight into the genetic structurallandscape of the human genomeRecently, conjoined genes (CGs) have emerged as an important genetic factor necessaryfor understanding the human genome. However, the formation mechanism andexpression patterns of the conjoined genes remained a mystery. We discovered 57extremely low-expressed novel conjoined gene transcript variants (CGTVs) belonging tofive novel human conjoined genes (CGs) homologous to chimpanzee CGs. Through asophisticated structural analysis (at the sequence level) of these CGTVs, we discovered anovel CG formation mechanism. Also, our structural analysis revealed that exons that arefarther from the intergenic region have a higher conservation in the formation of a CG. Inaddition, we have identified that most newly created novel exons originate fromtransposable elements. With respect to CG function, we discovered that the CGTVs wereexpressed in strongly tumor-biased or tumor-specific manners.Novel insight into transcriptional structures of sperm competition-associated genes bychimpanzee testis transcriptome sequencingA comprehensive structural analysis of chimpanzee testis sperm competition-associatedtranscripts may reveal new insights. We sequenced 7,680 clones from a chimpanzeetestis full-length cDNA library and obtained 1,933 non-redundant high-quality full-lengthcDNA sequences. Comparative analysis between human and chimpanzee showed that 78sperm competition-associated genes (SCAGs), most of which were yet uncharacterized,had undergone severe structural changes (mutations at the start/stop codons, INDELs,alternative splicing variations and fusion forms) on genomic and transcript levels duringchimpanzee evolution. Specifically, 39 SCAGs including UBC, ODF2 and CD59 showedmarkedly chimpanzee-specific structural changes.Our goal is to understand the biological phenomena of life through genomic science, which is a systematic andcomprehensive technology of the genomes of various organisms. The Genome Research Center (GRC) established a solidplatform for genomic sciences, and archived many world-leading research products through international cooperation.We are actively collaborating with many academic and industry research groups to contribute to genome technologyadvancement in Korea.SELECTED PUBLICATIONSHong-Seog Park (Co-corresponding) BMC Plant Biol. 10:253.Classification of rice (Oryza sativa L. Japonica nipponbare) immunophilins (FKBPs, CYPs)and expression patterns under water stressHong-Seog Park (Corresponding) Genome. 53(7):568-74.Whole human exome capture for high-throughput sequencingHong-Seog Park (Corresponding) Genome. 53(9):658-66.Comparative genomic analysis of the false killer whale (Pseudorca crassidens) LMBR1locusHong-Seog Park (Corresponding) J Bacteriol. 192(24):6490-1.Genome sequence of Leuconostoc argentinum KCTC 3773Hong-Seog Park (Corresponding) Mol Cells. 29(2):131-44.Comparative analysis of expressed sequence tags from the white-rot fungi(Phanerochaete chrysosporium)50 KRIBB Annual Report 2010KRIBB Annual Report 2010 51
Korea Biological Resource CenterACHIEVEMENTSAnimal ModelResource CenterAnimal model establishment and research supports for animal experimentsWe have established 3 mouse models for human disease research as transgenic andknockout strains, and supported 84 cases of IACUC-approved animal experiment, 19cases of pathological experiment, and 30 cases of hematological and biochemicalanalyses. Also, we have performed (4 times) educational service associated with animalethics and appropriate animal experiments for animal experimenters and periodicalhealth monitorings (4 times) of animals being maintained for the prevention of diseasetransmission.RESEARCHERSChul-Ho Lee chullee@kribb.re.krDevelopment of animal models for human metabolicdiseaseDiscovery and validation of functional genes associatedwith metabolic diseaseByung-Hwa Hyun hyunbh@kribb.re.krGenetic study of animal models for human neurologicaldiseasesDevelopment of animal models with non-humanprimatesRESEARCH AREASDevelopment and establishment of animal models forhuman diseases by using transgenic, knock-out andselective breeding techniquesResearch supports for animal experiments, veterinarycare, and pathological, hematological and biochemicalanalyses using animal model resourcesFunctional validation of the genes associated withhuman diseasesTechnical supports for the disease model production andmaintenanceDirector Chul Ho LeeT + 82-42-860-4637F + 82-42-860-4609E chullee@kribb.re.krRESEARCH ACTIVITIESIn 2010, we published 17 papers concerning metabolic diseases (arising from ourresearch using disease animal model resources) and registered 2 patents.Also, we contributed 29 papers for publications resulting from KRIBB research into animalexperiment support; including animal husbandry and pathological, hematological andbiochemical analyses.SELECTED PUBLICATIONSChul-Ho Lee (Corresponding) Food Chem Toxicol. 48(11):3177-83.Antioxidant effects of the chestnut (Castanea crenata) inner shell extract in t-BHP-treatedHepG2 cells, and CCl 4- and high-fat diet-treated miceJung Hwan Hwang coccs99@kribb.re.krPhenotyping and development of genetically alteredanimal modelsGenetic quality control of animal modelsYong-Hoon Kim milknut@kribb.re.krSupports for veterinary care and histopathologicalanalysisMicrobiological and environmental quality control ofanimal modelsChul-Ho Lee (Corresponding) Food Chem. 121(2):437-42.Chestnut (Castanea crenata) inner shell extract inhibits development of hepatic steatosisin C57BL/6 mice fed a high-fat dietByung-Hwa Hyun (Co-corresponding) In Vitro Cell Dev Biol Anim. 46(2):148-54.The effects of various antioxidants on the development of parthenogenetic porcine embryosByung-Hwa Hyun (Co-corresponding) J Biol Chem. 285(37):28627-34.Effects of regulator of G protein signaling 19 (RGS19) on heart development and functionChul-Ho Lee (Corresponding) Life Sci. 87(13-14):405-10.Differential modulatory effects of rosiglitazone and pioglitazone on white adipose tissue indb/db miceThe goal of our center is to establish an infrastructure for animal experiments and to generate animal models for humandiseases by mutagenesis (such as transgenic, gene targeting and natural breeding) for in vivo validation of genesassociated with human diseases.52 KRIBB Annual Report 2010KRIBB Annual Report 2010 53