• 제목/요약/키워드: novel genes

검색결과 941건 처리시간 0.029초

Chromosomal Localization of Korean Cattle (Hanwoo) BAC Clones via BAC end Sequence Analysis

  • Chae, Sung-Hwa;Kim, Jae-Woo;Choi, Jae Min;Larkin, Denis M.;Everts-van der Wind, Annelie;Park, Hong-Seog;Yeo, Jung-Sou;Choi, Inho
    • Asian-Australasian Journal of Animal Sciences
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    • 제20권3호
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    • pp.316-327
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    • 2007
  • In this study, a Korean native cattle strain (Hanwoo) evidencing high performance in terms of both meat quality and quantity was employed in the generation of 150,000 BAC clones with an average insert size of 140 kb, and corresponding to about a 6X coverage of bovine chromosomal DNA. The BAC clones were pooled in a mini-scale via three rounds of a pooling protocol, and the efficiency of this pooling protocol was evaluated by testing the accuracy of accessibility to the positive clones, via a PCR-based screening method. Two sets of primers designed from each of two known genes were tested, and each yielded 2 or 3 positive clones for each gene, thereby indicating that the BAC library pooling system was appropriate with regard to the accession of the target BAC clones. Analyses of $3.3{\times}10^6$ base pairs obtained from the 7,090 BAC end sequence (BES) showed that 34.88% of the DNA sequence harbored the repetition sequence. Analysis of the 7,090 BES to the $1^{st}$ and $2^{nd}$ generation radiation hybrid map of the cattle genome, using the COMPASS program designed for the construction of a cattle-human comparative mapping, resulted in the localization of a total of 1,374 clones proximal to 339 $1^{st}$ generation markers, and 1,721 clones proximal to 664 $2^{nd}$ generation markers. Collectively, the BAC library and pooling system of the BAC clones from the Korean cattle, coupled with the chromosome-localized BAC clones, will provide us with novel tools for the excavation of desired clones for genome mapping and sequencing, and will also furnish us with additional information regarding breed differences in cattle.

Association of leptin, toll-like receptor 4, and chemokine receptor of interleukin 8 C-X-C motif single nucleotide polymorphisms with fertility traits in Czech Fleckvieh cattle

  • Jecminkova, Katerina;Muller, Uwe;Kyselova, Jitka;Sztankoova, Zuzana;Zavadilova, Ludmila;Stipkova, Miloslava;Majzlik, Ivan
    • Asian-Australasian Journal of Animal Sciences
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    • 제31권11호
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    • pp.1721-1728
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    • 2018
  • Objective: The use of genetic markers can help to enhance reproduction in cattle, which is a very important trait for profitability in dairy production systems. This study evaluated the association between genotypes of leptin (LEP), toll-like receptor 4 (TLR4), and chemokine receptor of interleukin 8 C-X-C motif (CXCR1) genes and fertility traits in Czech Fleckvieh cattle. Methods: Phenotypic data from 786 Czech Fleckvieh cows raised on 5 farms in the Czech Republic were used, along with information from the 1st three parities. To determine genotype, the polymerase chain reaction-restriction fragment length polymorphism method was used. Results: Except for LEP g.-963C>T, all studied genotype frequencies of single nucleotide polymorphisms (SNPs) were distributed according to the Hardy-Weinberg equilibrium. Two LEP SNPs (g.-963C>T and c.357C>T) were associated with the age at the 1st calving, days open (DO), pregnancy rate after 1st service (PR), and calving interval (CLI). In LEP g.-963C>T the TT genotype heifers firstly calved 24 days earlier than CC genotype and the CT genotype cow showed a tendency for shorter DO and higher PR. In LEP c.357C>T we observed longer CLI and DO period in TT cows. In general, we can propose the TT genotype of g.-963C>T as favorable and the TT genotype of c.357C>T as unfavorable for a cow's fertility. Heterozygotes in TLR4 c.-226C>G were significantly associated with shorter CLI, and presented a nonsignificant tendency to be associated with higher PR. In CXCR1 c.777 C>G, we did not observe any relationship of this SNP with reproduction. Conclusion: Overall, the results showed that LEP could be an effective marker for improving reproduction in Czech Fleckvieh cattle. This study also provides novel insights into the relationship between TLR4 and CXCR1 SNPs and reproduction in dual-purpose cattle.

Mad1p, a Component of the Spindle Assembly Checkpoint in Fission Yeast, Suppresses a Novel Septation-defective Mutant, sun1, in a Cell Division Cycle

  • Kim In G.;Rhee Dong K.;Jeong Jae W.;Kim Seong C.;Won Mi S.;Song Ki W.;Kim Hyong B.
    • 한국미생물학회:학술대회논문집
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    • 한국미생물학회 2002년도 추계학술대회
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    • pp.162-172
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    • 2002
  • Schizosaccharomyces pombe is suited for the study of cytokinesis as it divides by forming a septum in the middle of the cell at the end of mitosis. To enhance our understanding of the cytokinesis, we have carried out a genetic screen for temperature-sensitive S. pombe mutants that show defects in septum formation and cell division. Here we present the isolation and characterization of a new temperature-sensitive mutant, sun1(septum uncontrolled), which undergoes uncontrolled septation during cell division cycle at restrictive temperature $(37^{\circ}C)$. In sun1 mutant, actin ring and septum are positioned at random locations and angles, and nuclear division cycle continues. These observations suggest that the sun] gene product is required for the proper placement of the actin ring as well as precise septation. The sun] mutant is monogenic recessive mutation unlinked to previously known various cdc genes of S. pombe. In a screen for $sunl^+$ gene to complement the sun] mutant, we have cloned a gene, $susl^+$(suppressor of sun1 mutant), that encodes a protein of 689 amino acids. The predicted amino acid sequence of $susl^+$ gene is similar to the human hMadlp and Saccharomyces cerevisiae Mad1p, a component of the spindle checkpoint in eukaryotic cells. The null mutant of $susl^+$ gene grows normally at various temperatures and has the increased sensitivity to anti-microtubule drug, while $susl^+$ mutant shows no sensitivity to microtubule destabilizing drugs. The putative S. pombe Sus1p directly interacts with S. pombe Mad2p in yeast two-hybrid assays. These data suggest that the newly isolated susr gene encodes S. pombe Mad1p and suppresses sun] mutant defective in controlled septation in a cell division cycle.

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CNVDAT : 차세대 시퀀싱 데이터를 위한 유전체 단위 반복 변이 검출 및 분석 도구 (CNVDAT: A Copy Number Variation Detection and Analysis Tool for Next-generation Sequencing Data)

  • 강인호;공진화;신재문;이은주;윤지희
    • 한국정보과학회논문지:데이타베이스
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    • 제41권4호
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    • pp.249-255
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    • 2014
  • 유전체 단위 반복 변이(CNV)는 유전적 구조변이의 하나로서, 암을 포함하는 인간의 질병과 밀접한 연관성이 있는 것으로 알려져 있다. 암 유전자를 규명하기 위하여, 연구자는 특정 암 환자의 대규모 유전체 데이터를 분석하여 CNV를 찾아내야하며, 동시에 대규모 유전/임상 데이터를 연계 분석하여야 한다. 본 연구는 NGS 데이터로부터 CNV를 추출하고, 추출된 CNV와 관련된 유전/임상 정보를 체계적으로 연계 분석하는 기능을 제공하는 새로운 분석 툴 CNVDAT를 제안한다. CNV 추출 모듈은 스케일 스페이스 필터링 기법을 이용하여 CNV를 추출하며, 리드 데이터에 잡음이 포함된 경우에도 CNV의 타입/위치를 정확히 추출해낸다. 또한 시퀀스 분석 모듈은 변이 영역의 브라우징 및 상호 비교를 지원하는 사용자 친화적 프로그램으로서, 암/정상 샘플의 변이 영역의 동시 분석 기능과 refGene, OMIM DB를 기반으로 하는 CNV-유전자-표현형 매핑의 연관성 분석 기능을 제공한다. 본 프로그램의 소스 코드와 샘플프로그램은 http://dblab.hallym.ac.kr/CNVDAT/에서 다운 받을 수 있다.

한국영아에서 분리된 로타바이러스의 VP7 유전자형 및 염기서열 분석 (Typing and Sequence Analysis of the VP7 Gene of Rotavirus Isolated from Infants in Korea)

  • 송미옥;윤여란;정상인;최철순;임인석;강신영;안창남;김원용
    • 대한바이러스학회지
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    • 제30권2호
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    • pp.101-112
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    • 2000
  • Rotaviruses are the most common cause of severe vomiting and diarrhea in children worldwide and classified as a genus in the family Reoviridae. Rotavirus has eleven segmented dsRNAs and the virion consists of three shells. Outer capsid VP7 and VP4 induce neutralizing antibodies and are classified into G types (glycoprotein VP7) and P types (protease-sensitive VP4). Characterization of VP7 gene of Korean isolates of human rotavirus was performed using multiplex PCR and nucleotide sequence analysis. After RT-PCR amplification of full length (1,062 bp) of VP7 genes, the amplified PCR products were G typed by multiplex PCR and the nucleotide sequences were compared with those of reference rotavirus from GenBank. The G type analysis revealed that 25% (2/8) belong to G1, whereas 37.5% (3/8) benong to G2 and G4, respectively. The Korean isolates within the same serotypes showed high homology of nucleotide sequences and could be discriminated from foreign isolates exception with two strains (CAU009 and CAU022). But Korean isolates CAU009 and CAU022 were close related into japanease isolates 417 (99.2%) and indian isolates (97.6%) than Korean isolatese. Our results showed that these two strains were supposed to be originated from abroad. As a results, The G typing and nucleotide sequence analysis of VP7 gene of rotavirus isolated from infants in Korea could be used for identification, serotying and determination of novel or unusual strains of rotaviruses.

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Brassinosteroid의 대사공학 (Metabolic Engineering of the Brassinosteroid Biosynthetic Pathways)

  • 이미옥;송기홍;이현경;정지윤;최빛나리;최성화
    • Journal of Plant Biotechnology
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    • 제29권2호
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    • pp.139-144
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    • 2002
  • Sterols play two major roles in plants: a bulk component in biological membranes and precursors of plant steroid hormones. Physiological effects of plant steroids, brassinosteroids (BRs), include cell elongation, cell division, stress tolerance, and senescence acceleration. Arabidopsis mutants that carry genetic defects in BR biosynthesis or its signaling display characteristic phenotypes, such as short robust inflorescences, dark-green round leaves, and sterility. Currently there are more than 100 dwarf mutants representing 7 genetic loci in Arabidopsis. Mutants of 6 loci, dwf1/dim1/cbb1, cpd/dwf3, dwf4, dwf5, det2/dwf6, dwf7 are rescued by exogenous application of BRs, whereas bri1/dwf2 shares phenotypes with the above 6 loci but are resistant to BRs. These suggest that the 6 loci are defective in BR biosynthesis, and the one locus is in BR signaling. Biochemical analyses, such as intermediate feeding tests, examining the levels of endogenous BR, and molecular cloning of the genes revealed that dwf7, dwf5, and dwf1 are defective in the three consecutive steps of sterol biosynthesis, from episterol to campesterol via 5-dehydroepisterol. Similarly, det2/dwf6, dwf4, and cpd /dwf3 were shown to be blocked in D$^4$reduction, 22a-hydroxylation, and 23 a-hydroxylation, respectively. A signaling mutant bril/dwf2 carries mutations in a Leucine-rich repeat receptor kinase. Interestingly, the bri1 mutant was shown to accumulate significant amount of BRs, suggesting that signaling and biosynthesis are dynamically coupled in Arabidopsis. Thus it is likely that transgenic plants over-expressing the rate-limiting step enzyme DWF4 as well as blocking its use by BRIl could dramatically increase the biosynthetic yield of BRs. When applied industrially, BRs will boost new sector of plant biotechnology because of its potential use as a precursor of human steroid hormones, a novel lead compound for cholesterol-lowering effects, and a various application in plant protection.

코쿠리아 광안리엔시스의 제라닐제라닐 피로인산염 합성 효소의 클로닝과 대장균에서 공발현을 통한 효소 활성에 관한 연구 (Cloning of Geranylgeranyl Pyrophosphate Synthase (CrtE) Gene from Kocuria gwangalliensis and Its Functional Co-expression in Escherichia coli)

  • 서용배;김군도;이재형
    • 생명과학회지
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    • 제22권8호
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    • pp.1024-1033
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    • 2012
  • Kocuria gwangalliensis로부터 카로티노이드 생합성 경로의 첫 번째 단계 기질인 geranylgeranyl pyrophosphate (GGPP)를 생합성하는 GGPP synthase (CrtE)를 암호화하고 있는 crtE를 클로닝 하여 이를 KgGGPP로 명명하였다. 기존 세균에서 밝혀진 GGPP synthase의 아미노산 서열을 NCBI에서 검색하여 KgGGPP synthase의 아미노산 서열과 비교한 결과 Kocuria rhizophila와 59.6%의 상동성을 가지는 것을 확인하였다. crtE 유전자를 대장균에서 발현 시키기 위하여 pCcrtE 재조합 DNA를 구축하였고, 이를 대장균에서 발현시킨 결과 약 41 kDa의 재조합 단백질이 과발현 됨을 확인 할 수 있었으며, 이 단백질은 기존 세균에서 밝혀진 GGPP synthase와 유사한 분자량을 가지고 있다는 것을 알 수 있었다. CrtE 재조합 단백질의 활성을 분석하기 위하여 대장균 내에서 라이코펜의 생합성을 유도 하였다. 대장균의 경우 메발론산 경로를 통하여 FPP와 IPP를 생합성 하지만 crtE, crtB, crtI 유전자가 없기 때문에 라이코펜을 생합성 하지는 못한다. 대장균 내에서 라이코펜의 생합성을 위해서는 crtE, crtB, crtI 유전자의 발현이 필수적으로 요구되기 때문에 crtB, crtI 유전자의 경우는 P. haeundaensis에서 유래한 유전자를 이용하여 pRScrtBI 재조합 DNA를 구축하여 그 발현을 유도하였다. 상기 두 재조합 DNA를 대장균에서 공발현 시켰으며, HPLC 분석법을 이용하여 대장균 내에서 라이코펜의 생산 유무에 따른 KgGGPP synthase의 활성을 분석하였다.

정족수 제어효소와 biofouling 제어 (Quorum Quenching Enzymes and Biofouling Control)

  • 전용재;정원겸;허혜숙
    • 생명과학회지
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    • 제26권12호
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    • pp.1487-1497
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    • 2016
  • 정족수 인식 체계라 불리는 세균들의 세포간 의사교환 전략은 다양한 유전자의 발현조절을 통해, 생물막 성숙, 세포 외 고분자물질의 생산, 병원성 발현 및 항생제 생산 등과 같은 다양한 표현형을 조절하는 세균의 다세포성 행동 양식을 제어한다. 다수의 연구에 의하면 많은 종류의 그람 (Gram)음성 세균들이 정족수 인식체계에 필요한 신호전달 물질로 acyl-homoserine lactones (AHLs)를 사용하고 있으며, 이들은 생물막 형성에 중요한 인자로 작용함을 시사하였다. 이러한 정족수 인식체계에 의한 생물막의 형성은 물이 존재하는 모든 표면환경에서 불필요한 바오매스 축적이라는 심각한 기술적, 경제적 문제를 초래하고 있다. 최근 정족수 인체 체계를 교란하는 다수의 물질들이 다양한 미생물로부터 발견되어, 그들의 정족수 인식 체계와 관련된 주요 기능과 기작들이 밝혀지고 있다. 이러한 정족수 제어 물질들은 최근 다양한 산업에서 발생하는 생물 부착현상들을 제어할 수 있는, 환경 친화적이며 세균의 항생제 다재 내성을 완화 시킬 수 있는 새로운 방법으로 대두되고 있다. 따라서 본 논문은 세균의 정족수 인식 체계와 관련된 최근 정보, 정족수 인식 신호를 제어할 수 있는 정족수 제어 효소와 이러한 기술을 이용한 생물 부착 저해 방법 등을 논의하고자 한다.

Multi-locus sequence typing을 이용한 한국에서 분리한 Candida glabrata 임상균주의 유전자 유형 분석 (Genetic Variations of Candida glabrata Clinical Isolates from Korea using Multi-locus Sequence Typing)

  • 강민지;이경은;진현우
    • 생명과학회지
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    • 제30권2호
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    • pp.122-128
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    • 2020
  • Candida albicans가 칸디다 혈증의 주요 원인 균으로 알려져 있지만, 최근에는 non-albicans Candida (NAC)에 의한 심각한 감염이 증가하고 있다. NAC 중에서 C. glabrata는 두 번째로 병원성을 나타내는 원인 균이지만 C. glabrata의 구조, 역학 등의 기본적인 연구는 거의 없는 실정이다. 따라서 본 연구에서는 다양한 유형의 임상 표본으로부터 분리된 총 102개의 C. glabrata균주로 multi-locus sequence typing (MLST)을 수행하였다. FKS, LEU2, NMT1, TRP1, UGP1 및 URA3을 포함한 6개의 하우스키핑 유전자를 증폭하여 염기서열을 분석하였다. 총 3,345개의 DNA 염기서열 중 49개의 가변 염기서열 부위가 발견되었으며, 그 결과 102개의 균주에서 총 12개의 상이한 서열 유형을 확인하였고, 알려지지 않은 서열 유형(USTs) 중 UST1이 가장 많이 나타났다. 이 연구의 결과는 국내 C. glabrata 항생제 처방에 도움이 될 것으로 사료되며, 한국에서 유행하는 C. glabrata에 대한 추가 연구를 위한 기본 역학자료로 사용될 것으로 기대한다.

Isolation of CONSTANS as a TGA4/OBF4 Interacting Protein

  • Song, Young Hun;Song, Na Young;Shin, Su Young;Kim, Hye Jin;Yun, Dae-Jin;Lim, Chae Oh;Lee, Sang Yeol;Kang, Kyu Young;Hong, Jong Chan
    • Molecules and Cells
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    • 제25권4호
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    • pp.559-565
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    • 2008
  • Members of the TGA family of basic domain/leucine zipper transcription factors regulate defense genes through physical interaction with NON-EXPRESSOR OF PR1 (NPR1). Of the seven TGA family members, TGA4/octopine synthase (ocs)-element-binding factor 4 (OBF4) is the least understood. Here we present evidence for a novel function of OBF4 as a regulator of flowering. We identified CONSTANS (CO), a positive regulator of floral induction, as an OBF4-interacting protein, in a yeast two-hybrid library screen. OBF4 interacts with the B-box region of CO. The abundance of OBF4 mRNA cycles with a 24 h rhythm under both long-day (LD) and short-day (SD) conditions, with significantly higher levels during the night than during the day. Electrophoretic mobility shift assays revealed that OBF4 binds to the promoter of the FLOWERING LOCUS T (FT) gene, a direct target of CO. We also found that, like CO and FT, an OBF4:GUS construct was prominently expressed in the vascular tissues of leaf, indicating that OBF4 can regulate FT expression through the formation of a protein complex with CO. Taken together, our results suggest that OBF4 may act as a link between defense responses and flowering.