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잣나무( Pinus koraiensis)의 cDNA library 제작 및 EST 분석
김준기(Joonki Kim),임수빈(Subin Im),최선희(Sun Hee Choi),이종석(Jong-Suk Lee),노승문(Mark S. Roh),임용표(Yong Pyo Lim) 충남대학교 농업과학연구소 2011 농업과학연구 Vol.38 No.1
In this study, we report the generation and analysis of a total of 1,211 expressed sequence tags (ESTs) from Pinus koraiensis. A cDNA library was generated from the young leaf tissue and a total of 1,211 cDNA were partially sequenced. EST and unigene sequence quality were determined by computational filtering, manual review, and BLAST analyses. In all, 857 ESTs were acquired after the removal of the vector sequence and filtering over a minimum length 50 nucleotides. A total of 411 unigene, consisting of 89 contigs and 322 singletons, was identified after assembling. Also, we identified 77 new microsatellite-containing sequences from the unigenes and classified the structure according to their repeat unit. According to homology search with BLASTX against the NCBI database, 63.1% of ESTs were homologous with known function and 22.2% of ESTs were matched with putative or unknown function. The remaining 14.6% of ESTs showed no significant similarity to any protein sequences found in the public database. Gene ontology (GO) classification showed that the most abundant GO terms were transport, nucleotide binding, plastid, in terms biological process, molecular function and cellular component, respectively. The sequence data will be used to characterize potential roles of new genes in Pinus and provided for the useful tools as a genetic resource.
현대 미국영어 코퍼스에 나타난 서법 조동사와 부사연어 분석 연구
김준기(Kim Joonki) 새한영어영문학회 2011 새한영어영문학 Vol.53 No.1
This corpus-based study of collocational trends of modal auxiliary verbs and adverbs in contemporary American English has found that adverbs as collocates impose speaker's subjective attitudes on the proposition of provided contents so that they intensify the meaning of modality of each modal verb according to the interpretation of epistemic or deontic modality. The strength of attraction between modals and adverbs can be provided by the MI-score from the Corpus of Contemporary American English, and the co-occurrence tendencies in association between the two forms can be more or less anticipated according to the degree of strength of the speaker's assessment. However, the prediction cannot always depend on the tendency because the MI-scores themselves cannot be taken as accurate criteria for the modal harmony. This paper argues that these collocations should be interpreted according to contextual cues rather than semantic or syntactic rules.
공간 전치사 around와 about의 의미론적 해석과 코퍼스 기반 분석
김준기(Kim, Joonki) 새한영어영문학회 2012 새한영어영문학 Vol.54 No.1
This corpus-based study of the prepositions around and about investigated semantic differences and similarities between the two prepositions in terms of their collocational relationship with verbs. The study revealed that the prototypical meaning of around and about affects decisions about verb collocation with the proper preposition. The analysis showed that semantic features of around lead it to collocate with verbs having the semantic feature of motion verbs which suggest ‘spatial traces’: turn, walk, gather, crowd, revolve, etc. The study also revealed that most usages of about in the corpus are for the meaning of ‘concerning’ and ‘inexactness’ even though the preposition about has the similar prototypical meaning of around.
국내 육성 벼 243 품종의 형태적 특성에 따른 품종 분류
김미선(Me-Sun Kim),이혜정(Hye-Jung Lee),유달아(Dal-A Yu),송재영(Jae-Young Song),Marjohn Nino,Franz Nogoy,김준기(Joonki Kim),소윤섭(Yoon-Sup So),조용구(Yong-Gu Cho) 한국육종학회 2016 한국육종학회지 Vol.48 No.3
The International Union for the Protection of New Varieties of Plants (UPOV) promotes an effective system of plant variety protection and encourages the development of new varieties of plants. This international convention was initiated to standardize the system efforts and strengthen policy. The establishment of cultivar discrimination system is very important to distinguish varieties between domestic and foreign agricultural products. It is necessary for the protection of breeders’rights. In addition, it will help for more efficient and quality management of plant breeding. This study was conducted to identify and group rice varieties based on agro-morphological characteristics such as plant height, panicle length, number of tillers, culm length, leaf length, leaf width, leaf pigments and flag leaf angles. Using these parameters, statistical analysis classified a total of 243 rice varieties bred in Korea into four groups. Most rice varieties did not exhibit anthocyanin pigments on the leaves particularly on the first leaf, leaf blade, leaf sheath and auricle, except for varieties classified as black rice. Results of phylogenetic and principal component analysis (PCA) indicated that these varieties formed three largely distinct clusters according to their ecotype and morphological differentiation. This result would be useful in rice varietal identification for the protection of breeders’variety rights.
노각나무(Stewartia koreana Nakai)의 cDNA library 제작 및 EST 분석
임수빈(Subin Im),김준기(Joonki Kim),최영인(Young In Choi),최선희(Sun Hee Choi),권혜진(Hyejin Kwon),송호경(Hokyung Song),임용표(Yong Pyo Lim) 한국원예학회 2011 원예과학기술지 Vol.29 No.2
본 연구에서는 지리산에서 자생하는 한국 특산종인 노각나무(Stewartia koreana Nakai)의 EST library를 제작하고 서열을 분석하였다. 노각나무의 유엽을 재료로 cDNA library 만들었고 1,392개의 cDNA에 대한 부분 서열 분석을 진행하였다. EST와 unigene 서열의 분석은 컴퓨터를 기반으로한 filtering과 수작업 그리고 NCBI의 BLAST 분석을 통해 수행하였다. 벡터 서열과 100bp 이하의 서열을 제거한 후 1,301개의 EST를 분석하였다. 전체 150개의 contig와 743개의 singleton을 분리하여 총 893개의 unigene을 분리해냈으며 서열 분석을 통해 95개의 microsatellite를 확인하였다. NCBI 데이터베이스의 BLASTX로 상동성을 검색한 결과 EST의 65%는 기능을 알고 있는 유전자와 11.6%의 EST는 아직까지 기능이 보고되지 않은 유전자와 높은 상동성을 보였다. 남아 있는 23.2%의 EST는 기존에 데이터베이스에 보고된 유전자와 상동성을 보이지 않는 유전자로 밝혀졌다. 다양한 데이터베이스를 기반으로 한 유사성 기반 기능 분석은 노각나무의 EST가 포도나무와 포플러와 높은 유사성을 보인 것을 확인하였다. 기능에 따른 분류에 있어 molecular function은 nucleotide binding, biological process는 transport, cellular component는 plastid가 가장 높은 비율로 나왔다. 본 연구를 통해 얻어진 EST 자료는 노각나무의 새로운 유전자원에 대한 연구의 기본 자료로 유용하게 활용될 것이다. In this study, we report the generation and analysis of 1,392 expressed sequence tags (ESTs) from Korean Stewartia (Stewartia koreana Nakai). A cDNA library was generated from the young leaf tissue and a total of 1,392 cDNA were partially sequenced. EST and unigene sequence quality were determined by computational filtering, manual review, and BLAST analyses. Finally, 1,301 ESTs were acquired after the removal of the vector sequence and filtering over a minimum length 100 nucleotides. A total of 893 unigene, consisting of 150 contigs and 743 singletons, was identified after assembling. Also, we identified 95 new microsatellite-containing sequences from the unigenes and classified the structure according to their repeat unit. According to homology search with BLASTX against the NCBI database, 65% of ESTs were homologous with known function and 11.6% of ESTs were matched with putative or unknown function. The remaining 23.2% of ESTs showed no significant similarity to any protein sequences found in the public database. Annotation based searches against multiple databases including wine grape and populus sequences helped to identify putative functions of ESTs and unigenes. Gene ontology (GO) classification showed that the most abundant GO terms were transport, nucleotide binding, plastid, in terms biological process, molecular function and cellular component, respectively. The sequence data will be used to characterize potential roles of new genes in Stewartia and provided for the useful tools as a genetic resource.