서산, 태안 및 고흥 지역에서 마늘 흑색썩음병을 일으키는 Sclerotium cepivorum의 살균제 감수성 조사

김형조(Hyung Jo Kim),최우봉(Woobong Choi),김흥태(Heung Tae Kim) 한국농약과학회 2013 농약과학회지 Vol.17 No.2

해양에서 분리한 Exiguobacterium sp. SC2-1의 항산화 활성 및 특성

김만철,박근태,손홍주,최우봉,허문수,Kim Man-Chul,Park Guen- Tae,Son Hong-Joo,Choi WooBong,Heo Moon-Soo 한국미생물학회 2005 미생물학회지 Vol.41 No.1

제주도 연안의 해수로부터 항산화물질을 생산하는 세균을 분리하였으며 항산화물질의 특성을 조사하였다. 분리된 항산화 생성 균주는 그람양성의 통성혐기성균으로 운동성을 가진 단간균이었으며 생육시 NaCl를 필요로 하였다. 분리균주는 형태학적, 배양적, 생화학적 특성 및 165 rDNA 염기서열 분식결과 Exiguobacterium 속으로 동정되어 Ekiguobaoteriurn sp. SC2-1로 명명하였다. 항산화물질 생산균주 배양액의 radical 소거활성은 DPPH (1,1-diphenyl-2-picrylhydrazyl) 법을 사용하였으며, 항산화물질 생성 최적조건은 $25^{\circ}C,\;NaCl\;4\%,\;pH\;6\~8$ 이었으며, 최적 탄소원은 $1\%$ maltose였다. 배양액의 hydroxyl radical 소거활성은 $73\%$였으며 superoxide radical 소거활성은 $35\%$를 나타내었다. For the reseach of the natural marine antioxidant, an antioxidant-producing bacterium was isolated from seawater in Jeju costal area. The isolated strain SC2-1 was Gram-positive, catalase positive, oxidase negative, motile and small rods. The strain utilized sucrose, dextrose, fructose, mannitol and maltose as a sole carbon and energy source and NaCl required for growth. The radical scavenging activity of the culture supernatant was detemined by DPPH method. This bacterium was identified based on morphological, biochemical characteristics and 16S rDNA sequence analysis, and then was named Exiguobacterium sp. SC2-1. The optimum conditions of culture for production antioxidnat were $25^{\circ}C$, pH 6-8 and $4\%$ NaCl. The stain showed the highest activity and growth cultured in medium which added $1\%$ maltose. Hydroxyl radical activity of the supernatant of Exiguobacterium sp. SC2-1 was $73\%$. The SOD activity of the culture supernatant was estimated about $35\%$.

Analysis of Genes Expressed during Pepper-Phytophthora capsici Interaction using EST Technology

Dongyoung Kim(김동영),Jong-Hwan Lee(이종환),Woobong Choi(최우봉) 한국생명과학회 2014 생명과학회지 Vol.24 No.11

고추는 한국, 중국, 멕시코를 포함한 온대 및 아열대 지역을 중심으로 전세계적으로 전형적인 향신료로 식용되고 있으며 그 생산량 및 사용량은 해마다 증가하는 추세에 있다. 고추역병균인 Phytophthora capsici는 고추의 생산에 있어, 질적, 양적으로 많은 피해를 야기하는 식물병원균으로 알려져 있다. 난균강에 속하는 이 병원균은 기주식물의 뿌리, 줄기, 잎과 함께 과실에 이르기까지 식물체 전체를 가해한다. 고추역병의 발병을 분자수중에서 이해하기 위해서는, 발병과정에서 발현되는 유전자에 대한 연구분석이 필수적이며, 이를 위해 최근 개발되어 응용되고 있는 발현서열표지(expressed sequence tags, ESTs)의 분석을 시도하였다. 고추역병균을 접종한후 3일째 발병초기의 고추잎으로부터 추출한 total RNA를 이용하여 고추-고추역병균 발병초기 cDNA library를 구축하였다. 이 cDNA library에서 무작위로 선발된 5,760 clone에 대하여 말단 염기서열 분석을 수행하여 5,148개의 양질의 염기서열을 확보하고 contig assembly에 적용한 결과, 2,990개의 unigenes을 확보하였다. 이들 2,990개의 unigenes에 대한 BLASTX를 이용한 상동성 분석결과, 2,409개가 기존에 알려진 서열과 matching을 보였으며, 이중 606개가 기능적으로 구분되었다. Pepper, consumed as a typical spice food around world, is mainly cultivated in warm countries, including Korea, China, and Mexico. Phytophthora capsici is a pathogen on several economically important crops, including pepper. The oomycete attacks the roots, stems, leaves, and fruit of the host plants. To understand the molecular mechanisms underlying development of the disease, the genes expressed during pepper-P. capsici interaction were explored by analyzing expressed sequence tags (ESTs). A cDNA library was constructed from total RNA extracted from pepper leaves challenged with P. capsici for three days, resulting in an early stage of symptom development for comparable interaction. A comprehensive analysis of single-pass sequencing of 5,760 randomly selected cDNA clones extracted 5,148 high-quality entries for contig assembly, which generated 2,990 unigenes. A homology search of the unigenes with BLASTX resulted in 2,409 matches, of which 606 showed classified functional catalogs.

Identification of Genes Expressed during Conidial Germination of the Pepper Anthracnose Pathogen, Colletotrichum acutatum

Jeong-Hwan Kim(김정환),Jong-Hwan Lee(이종환),Woobong Choi(최우봉) 한국생명과학회 2013 생명과학회지 Vol.23 No.1

고추 탄저병균의 포자 발아 단계에서 발현되는 유전자를 파악하기 위해 포자 발아단계cDNA library를 제작하고, 임의로 선택된 cDNA clone들에 대한 EST sequencing을 실시하였다. 총 983개 EST를 확보하여 contig assembly를 실시한 결과, 197개 contigs와 267개 singletons으로 조합되어, 최종적으로 464개의 유전자를 동정하였다. 464개 유전자 서열에서 유추한 아미노산 서열을 이용한 상동유전자 검색을 통해 절반의 유전자가 GenBank에 기존 등록된 유전자와 유의성 있는 유사성을 보였다. 가장 높은 빈도로 발현된 유전자는 elongation factor, histone protein, ATP synthease, 14-3-3 protein, clock controlled protein을 암호화하는 유전자들이었다. 그리고 고추 탄저병균의 세포 발달과정에 관여 하는것으로 추정되는 GTP-binding protein, MAP kinase, transaldolase, ABC transporter 유전자들도 검출되었다. 또한 고추 탄저병균의 병원성에 영향을 미치는 것으로 파악되는 ATP citrate lyase, CAP20, manganese-superoxide dismutase 유전자들도 검출되어, EST sequencing 을 통한 세포 발달 단계 발현 유전자 탐색이 효과적임을 알 수 있었다. Genes expressed during conidial germination of the pepper anthracnose fungus Colletotrichum acutatum were identified by sequencing the 5’ end of unidirectional cDNA clones prepared from the conidial germination stage. A total of 983 expressed sequence tags (ESTs) corresponding to 464 genes, 197 contigs and 267 singletons, were generated. The deduced protein sequences from half of the 464 genes showed significant matches (e value less than 10-5) to proteins in public databases. The genes with known homologs were assigned to known functional categories. The most abundantly expressed genes belonged to those encoding the elongation factor, histone protein, ATP synthease, 14-3-3 protein, and clock controlled protein. A number of genes encoding proteins such as the GTP-binding protein, MAP kinase, transaldolase, and ABC transporter were detected. These genes are thought to be involved in the development of fungal cells. A putative pathogenicity function could be assigned for the genes of ATP citrate lyase, CAP20 and manganese-superoxide dismutase.

Alteration of Stress Fiber in Fibroblastic Reticular Cells via Lymphotoxin β Receptor Stimulation is Associated with Myosin

Min Hwan Kim(김민환),Yeon Hee Kim(김연희),Woobong Choi(최우봉),Jong-Hwan Lee(이종환) 한국생명과학회 2015 생명과학회지 Vol.25 No.5

Stress fiber (SF) 변화는 세포외부의 결합인자와 세포 수용체와 결합후 리모델링을 위해 액틴골격에 신호를 전달하며 일어난다. 이 연관은 결합장소에서 기계적 활동과 신호전달활동을 조절하는 다양한 스케폴드들과 신호전달자에 의해 매게된다. Heterotrimeric transmembrane lymphotoxin α1β2 (LTα1β2)는 용해성 homotrimeric LTα를 포함하는 tumor necrosis factor (TNF) 계로 림프조직을 구성하는데 중요한 역할을 한다. LTα1β2와 LTβR의 결합은 fibroblastic reticular cell (FRC)에서 신호전달을 촉발한다. Agonistic anti-LTβR antibody 단독 혹은 LTα 그리고 TNFα의 조합으로 LTβR 자극은 세포의 액틴과 형태적 변화를 보았다. Agonistic anti-LTβR antibody의 FRC에서 작용을 통한 세포골격 재배열이 myosin과의 관련성을 확인하기위해 myosin light chain kinase (MLCK)의 저해제인 ML-7과 myosin light chains (MLC)와 myosin phosphatase target subunit 1 (MYPT1)의 인산화에 대한 효과를 확인하였다. MLCK 저해는 액틴 세포골격 재배열과 세포형태 변화를 유도하였다. 또한, MLC와 MYPT1인산화가 LTβR 자극에 의해 줄어드는 것을 확인하였다. DNA chip 분석은 myosin and actin 구성선분이 전사체 수준에서도 줄어드는 것을 보였다. 결론적으로 LTβR 자극은 FRC에서 SF변화는 myosin과 관련되어 있다는 것을 제시한다. Stress fiber (SF) alteration is mediated by cellular receptors, which, upon interaction with the extracellular counterpart, signal to the actin cytoskeleton for remodeling. This association is mediated by a variety of scaffold and signaling factors, which control the mechanical and signaling activities of the interaction site. The heterotrimeric transmembrane lymphotoxin α1β2 (LTα1β2), a member of the tumor necrosis factor (TNF) family of cytokines, including soluble homotrimeric lymphotoxin (LTα), plays an important role in lymphoid tissue architecture. Ligation between LTα1β2 and the lymphotoxin β receptor (LTβR) activates signal-cascade in fibroblastic reticular cells (FRCs). We found LTβR stimulation using an agonistic anti-LTβR antibody alone or combined with LTα or TNFα induced changes in the actin and plasticity of cells. To clarify the involvement of myosin underlying the alteration, we analyzed the effect of myosin light chain kinase (MLCK) with an MLCK inhibitor (ML7), the phosphorylation level of myosin light chains (MLC), and the level of phospho-myosin phosphatase target subunit 1 (MYPT1) after treatment with an agonistic anti-LTβR antibody for cytoskeleton reorganization in FRCs. The inhibition of MLCK activity induced changes in the actin cytoskeleton organization and cell morphology in FRC. In addition, we showed the phosphorylation of MLC and MYPT1 was reduced by LTβR stimulation in cells. A DNA chip revealed the LTβR stimulation of FRC down-regulated transcripts of myosin and actin components. Collectively, these results suggest LTβR stimulation is linked to myosin regarding SF alteration in FRC.

Identification and Molecular Characterization of Methionine Sulfoxide Reductase B Gene in Rice Blast Fungus, Magnaporthe oryzae

Jeong-Hwan Kim(김정환),Jinsoo Kim(김진수),Miyeon Jeong(정미연),Woobong Choi(최우봉) 한국생명과학회 2009 생명과학회지 Vol.19 No.3

벼도열병균은 벼의 주요 병해인 벼도열병의 원인균이다. 식물병원균의 침입 시 식물체로부터 발생하는 ROS는 식물의 방어기작으로 중요하며, 특히 아미노산의 하나인 methionine은 ROS에 의해 산화되어 methionine sulfoxide로 변화될 수 있다. 식물병원균은 식물체로 부터의 ROS에 의한 산화반응을 회피하기 위해 methionine sulfoxide reductase B (MSRB)와 같은 항산화 효소를 가지는데 본 연구에서는 벼도열병균에서의 MSRB 유전자를 동정하고 분자적 특성을 살펴보았다. MSRB 유전자는 벼도열병균의 게놈 상에 단일 유전자로 존재하며 과산화수소 처리에 의해 유전자발현이 다소 증가하는 경향을 보였다. 이러한 결과로 MSRB 유전자는 벼도열병균의 항산화 기작에 관여할 가능성이 높다고 판단된다. Magnaporthe oryzae, a major cause of rice blast, is one of the most destructive plant fungal pathogens. Secretion of reactive oxygen species (ROS) during the infection phase of plant pathogenic fungus plays a key role in the defense mechanism of a plant. ROS causes oxidative damage and functional modification to the proteins in a pathogenic fungus. Methionine, especially, is a major target of ROS, which oxidizes it to methionine sulfoxide. To survive from the attack of ROS, plant pathogenic fungus has antioxidative systems - one example would be methionine sulfoxide reductase B (MSRB), which reverses the oxidative alteration of methionine to methionine sulfoxide. In the present study, identification and molecular characterization of the MSRB gene in M. oryzae KJ201 were investigated. The MSRB gene was amplified by PCR from the M. oryzae KJ201 genomic DNA. The copy number of MSRB in the genome of M. oryzae KJ201 was identified by Southern blot analysis, which revealed that the gene exists as a single copy. To study the molecular function of an MSRB gene, the expression level of the MSRB gene was assayed with hydrogen peroxide treatment by Northern blot analysis and RT-PCR. The expression of the MSRB gene was increased by treatment of hydrogen peroxide, without significant correlation to hydrogen peroxide concentrations. These results indicate that the MSRB gene in M. oryzae KJ201 could contribute to protection against plant defense compounds such as ROS and offer a novel strategy for the control of rice blast.

Prediction and Annotation of ABC Transporter Genes from Magnaporthe oryzae Genome Sequence

Yongnam Kim(김용남),Jinsoo Kim(김진수),Suyoung Kim(김수영),Jeong-Hwan Kim(김정환),Jong-Hwan Lee(이종환),Woobong Choi(최우봉) 한국생명과학회 2010 생명과학회지 Vol.20 No.2

벼의 생산에 있어 가장 큰 문제 요인 중 하나인 벼도열병의 발생 원인균인 벼도열병균은 다양한 기작에 의해 방제 약제에 대한 내성을 가지는 것으로 알려져 있다. 막 운반단백질인 ABC transporter의 경우 환경으로부터의 다양한 독성 물질들을 배출하는 것으로 알려져 있다. 이미 알려진 벼도열병균의 게놈 서열로부터 생물정보학적 분석을 통하여 ABC transporter 단백질의 도메인 특성을 보이는 33개의 유전자군 서열을 예측하였다. 이중 3개의 경우는 이미 알려진 유전자로 판명되었다. Southern Hybridization 분석에 적용한 20개의 유전자들이 모두 게놈상에 단일 copy로 존재함을 확인하였다. 새로 예측된 30개의 유전자중 11개는 RT-PCR을 통하여 전사단계에서의 유전자 발현이 확인되었다. Magnaporthe oryzae is destructive plant-pathogenic fungus and causes rice blast. The pathogen uses several mechanisms to circumvent the inhibitory actions of fungicides. ATP-binding cassette (ABC) transporters are known to provide protection against toxic compounds in the environment. PC facilitated bioinformatic analysis, particularly with respect to accessing and extracting database information and domain identification. We predicted ABC transporter genes from the M. oryzae genome sequence with computation and bioinformatics tools. A total of thirty three genes were predicted to encode ABC transporters. Three of thirty three putative genes corresponded to three known ABC transporter genes (ABC1, ABC2 and ABC3). Copy numbers of the ABC transporter genes were proven by Southern blot analysis, which revealed that twenty genes tested exist as a single copy. We amplified the DNA complementary to RNA corresponding to eleven of these by reverse transcriptase polymerase chain reaction.

Autoimmune Regulator Gene (Aire) is Expressed in Lymph Node Fibroblastic Reticular Cell, BLS4

Kyoung Mi Moon(문경미),Hee Ju Seo(서희주),Ji Youn Oh(오지윤),Jae Seol Lee(이재설),Hae Young Kim(김해영),Jeong-Hwan Kim(김정환),Woobong Choi(최우봉),Byung-Woo Kim(김병우),Kwang-Hyeon Kim(김광현),Jong-Hwan Lee(이종환) 한국생명과학회 2010 생명과학회지 Vol.20 No.5

Autoimmune regulator gene (Aire)는 흉선에서 발현되며 promiscuous genes으로 알려진 흉선에서 자가항원 발현을 조절한다. Aire 와 promiscuous genes은 흉선에서 T세포 tolerance와 자가면역에 관여한다. 말초 조직 즉 림프절에서 Aire의 역할을 알아보고자 림프절 구성 세포중 하나인 fibroblastic reticular cell (FRC)을 분리 확립하였다. 마우스 림프절로부터 분리된 FRC에서 Aire의 발현을 확인하였고 또한 promiscuous antigen인 insulin의 발현도 확인하였다. Aire 과발현 플라스미드로 형질전환 후 배양 FRC에서 Insulin의 발현이 증가하였다. 이것은 Aire가 FRC에서 promiscuous gene의 발현을 조절한다는 것을 보여주며 peripheral selection과 연관되어 있을 수 있다는 것을 제시한다. Autoimmune regulator gene (Aire) is expressed in the thymus and controls the expression of peripheral self-antigens, known as promiscuous genes. Aire and promiscuous genes are involved in T cell tolerance and autoimmunity in the thymus. Here, we identified Aire-expressing fibroblastic reticular cell (FRC), which was derived from mouse lymph node and also expressed in insulin promiscuous antigen. The expression of insulin was increased in cultured FRC over-expressed with Aire. These data suggest that Aire regulates promiscuous gene expression in FRC, and that this function might be under peripheral selection control.

단백질 어레이의 발달과 응용 그리고 전망

최우봉 동의대학교 산업기술개발연구소 2005 産業技術硏究誌 Vol.19 No.-

The early applications of microarrays and detection technologies have been centered on DNA-based applications. The application of array technologies to proteomics is now occurring at a rapid rate. Numerous researchers have begun to develop technologies for the creation of microarrays of protein-based screening tools. The stability of antibody molecules when bound to surfaces has made antibody arrays a starting point for proteomic microarray technology. To minimize disadvantages due to size and availability, some researchers have instead opted for antibody fragments, antibody mimics or phage display technology to create libraries for protein chips. Even further removed from antibodies are libraries of aptamers, which are single-stranded oligonucleotides that express high affinity for protein molecules. A variation on the theme of protein chips arrayed with antibody mimics or other protein capture ligand is that of affinity MS where the protein chips are directly placed in a mass spectrometer for detection. Other approaches include the creation of intact protein microarrays directly on glass slides or chips. Although many of the proteins may likely be denatured, successful screening has been demonstrated. The investigation of protein-protein interactions has formed the basis of a technique called yeast two-hybrid. In this method, yeast "bait" proteins can be probed with other yeast "prey" proteins fused to DNA binding domains. Although the current interpretation of protein arrays emphasizes microarray grids of proteins or ligands on glass slides or chips, 2-D gels are technically macroarrays of authentic proteins. In an innovative departure from the traditional concept of proteinchips, some researchers are implementing microfluidic printing of arrayed chemistries on individual protein spots blotted onto membranes. Other researchers are using in-jet printing technology to create protein microarrays on chips. The rapid growth of proteomics and the active climate for new technology is driving a new generation of companies and academic efforts that are developing novel protein microarray techniques for the future.