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박상제,김영현,이상래,최세희,김명진,김선욱,김지수,심보웅,송봉석,정강진,진영배,이영전,박영호,박영일,허재원,장규태 한국분자세포생물학회 2015 Molecules and cells Vol.38 No.11
BCS1L gene encodes mitochondrial protein and is a member of conserved AAA protein family. This gene is involved in the incorporation of Rieske FeS and Qcr10p into complex III of respiratory chain. In our previous study, AluYRa2-derived alternative transcript in rhesus monkey genome was identified. However, this transcript has not been reported in human genome. In present study, we conducted evolutionary analysis of AluYRa2- exonized transcript with various primate genomic DNAs and cDNAs from humans, rhesus monkeys, and crabeating monkeys. Remarkably, our results show that AluYRa2 element has only been integrated into genomes of Macaca species. This Macaca lineage-specific integration of AluYRa2 element led to exonization event in the first intron region of BCS1L gene by producing a conserved 3′ splice site. Intriguingly, in rhesus and crabeating monkeys, more diverse transcript variants by alternative splicing (AS) events, including exon skipping and different 5′ splice sites from humans, were identified. Alignment of amino acid sequences revealed that AluYRa2- exonized transcript has short N-terminal peptides. Therefore, AS events play a major role in the generation of various transcripts and proteins during primate evolution. In particular, lineage-specific integration of Alu elements and species-specific Alu-derived exonization events could be important sources of gene diversification in primates.
지방중소도시의 도심재생을 위한 도심재생 정책 및 제도에 관한 비교연구
박상제(Park Sang-Je),정재용(Chung Jae-Yong) 대한건축학회 2009 대한건축학회 학술발표대회 논문집 - 계획계/구조계 Vol.29 No.1(계획계)
The present study induced suggestions by comparing downtown regeneration policies of the United States?England?Japan, which are advanced countries of downtown regeneration business, with our country's policy to criticize the downtown regeneration policy of our country's local small and mid-sized cities.
Alu-Derived Alternative Splicing Events Specific to Macaca Lineages in CTSF Gene
이자랑,박상제,김영현,최세희,조현무,이상래,김선욱,김지수,심보웅,송봉석,정강진,이영전,진영배,강필용,허재원,장규태 한국분자세포생물학회 2017 Molecules and cells Vol.40 No.2
Cathepsin F, which is encoded by CTSF, is a cysteine proteinase ubiquitously expressed in several tissues. In a previous study, novel transcripts of the CTSF gene were identified in the crab-eating monkey deriving from the integration of an Alu element–AluYRa1. The occurrence of AluYRa1-derived alternative transcripts and the mechanism of exonization events in the CTSF gene of human, rhesus monkey, and crab-eating monkey were investigated using PCR and reverse transcription PCR on the genomic DNA and cDNA isolated from several tissues. Results demonstrated that AluYRa1 was only integrated into the genome of Macaca species and this lineage-specific integration led to exonization events by produc-ing a conserved 3’ splice site. Six transcript variants (V1–V6) were generated by alternative splicing (AS) events, including intron retention and alternative 5’ splice sites in the 5’ and 3’ flanking regions of CTSF_AluYRa1. Among them, V3–V5 transcripts were ubiquitously expressed in all tissues of rhesus monkey and crab-eating monkey, whereas AluYRa1-exonized V1 was dominantly expressed in the testis of the crab-eating monkey, and V2 was only expressed in the testis of the two monkeys. These five transcript variants also had different amino acid sequences in the C-terminal region of CTSF, as compared to reference sequences. Thus, species-specific Alu-derived exonization by lineage-specific integration of Alu elements and AS events seems to have played an important role during primate evolution by producing transcript variants and gene diversification.
Identification and Promoter Analysis of PERV LTR Subtypes in NIH-Miniature Pig
정이든,하홍석,박상제,오근봉,임기선,김태훈,성환후,김희수 한국분자세포생물학회 2013 Molecules and cells Vol.35 No.2
Porcine endogenous retroviruses (PERVs) are integrated into the genomes of all pigs. Since some PERVs can also infect human cells, they represent a potential risk for xeno-transplantation involving pig cells or organs. The long terminal repeat (LTR) elements of PERVs show pro-moter activity that can affect human functional genes; therefore, we examined these elements in this study. We detected several expressed LTRs in the NIH-miniature pig liver, among which we identified 9 different subtypes. When these LTRs were compared, distinct structures that contained several insertion and deletion (INDEL) events and tandem repeats were identified in the U3 region. The transcriptional activity of the 9 LTR subtypes was analyzed in the PK15 porcine cell line and in the HepG2 and Hep3B human liver cell lines, and transcriptional regulation was found to be different in the 3 cell lines. The D LTR subtype was found to have stronger promoter activity than all other types in 4 different human cell lines (HepG2, Hep3B, U251, and 293). Using computational approaches, the D type was shown to contain 4 transcription factor-binding sites distinct from those in the U3 regions of the other subtypes. Therefore, deletion mutants were constructed and examined by a transient transfection luciferase assay. The results of this analysis indicated that the binding site for the Hand1:E47 transcription factor might play a positive role in the transcriptional regulation of PERV LTR subtype D in human liver cell lines.
In vitro CpG methylation and garcinol reduce PERV LTR promoter activity
하홍석,이영춘,박상제,정이든,안궁,문재우,한규동,오건봉,김태헌,성환후,김희수 한국유전학회 2012 Genes & Genomics Vol.34 No.2
Porcine endogenous retroviruses (PERVs) in the pig genome represent a potential risk of infection in pig-to-human transplantation. Long terminal repeats (LTRs) are known to be strong promoter elements that could regulate the transcription activity of PERV elements. It is possible that DNA methylation controls promoter activity of PERV family. Here,we analyzed CpG dinucleotides and CpG islands of six transcribed PERV LTRs. Promoter activity of the LTRs from the six clones methylated by CpG methyltransferase (M. SssI), and luciferase assay after garcinol treatment (histone acetyltransferase inhibitor) were examined, indicating that promoter activity of the PERV LTRs was significantly decreased.
이동현,최익수,송철수,정노원,박상제,김은규,하홍성,성은영,신영기,고우석,강경하 대한소화기학회 2000 대한소화기학회지 Vol.36 No.2
Ganglioneuromatosis is a benign tumor composed of ganglion cells, nerve fibers and spindle-shaped neural cells of probable schwann cell origin. They mostly occur in the retroperitoneum and posterior mediastinum. Gastrointestinal ganglioneuromatosis is rarely encountered in clinical practice. It may be associated with systemic disease such as multiple endocrine neoplasia IIb, von Recklinghausen's disease, juvenile polyposis and tuberous sclerosis. To our knowledge, it is the first report which presents a colonic ganglioneuromatosis combined with colonic adenoma.