• Journal of Microbiology
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• 제42권1호
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• pp.56-59
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• 2004

Together with the previous reports, my computer survey revealed that several bacteria contain six copies of the type group II intron IntA. The sequence analysis of IntAs showed the high level of homology in the nucleotide sequence (91.9-99.8%). The consensus sequence, 2,270 base pair long, was derived from the nucleotide sequences of all IntA members. The size of the open reading frame intA was 502 amino acids long, that is homologous to reverse transcriptase-like proteins encoded within the group II introns. It was reported that EPEC.IntA and Sf.IntA were inserted into IS911 and IS629, respectively. The sequence of the flanking region IntA was analyzed here. The data show the insertion of EC.IntA into IS629, the insertion of EHEC.IntA into IS3, the insertion of Yp.IntA into IS904-like sequence, and the insertion of EK12.IntA into IS911. Interestingly, these IS elements nested by IntAs were the members of IS3 family elements. The sequences of the IS3 members correspond to the OrfB with the DDE motif conserved in retroviral integrases. Alignment of the flanking sequences of IntAs revealed that the flanking regions -25 to + 10 of insertion sites, that are generally believed to be required for the retrohoming, were not strongly conserved. The data presented here suggests that the retrohoming pathway of IntA seems to differ from those of other group II introns.

• Journal of Microbiology
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• 제45권3호
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• pp.219-226
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• 2007

Insertion sequence IS1112 is a repetitive element with a relatively high number of copies in Xanthomonas oryzae pv. oryzae (Xoo), the causal agent of bacterial blight of rice (Oryza sativa L.). Three new loci of IS1112 were identified in seven Chinese strains of Xoo using a single oligonucleotide primer J3; 5'-GCTCA GGTCAGGTGGCCTGG-3' by insertion-sequence-based polymerase chain reaction (IS-PCR). Among the three new loci of IS1112, two were located in the open-reading frame region of genes fhuA and cirA, which encode TonB-dependent receptors, and the third in ISXo2, another type of insertion sequence in Xoo genome. Three variants of IS1112 were identified in those three loci based on their sequence similarities: two were identical to IS1112a and IS1112b, reported in strain PXO86 from the Philippines, while the third was a new member of IS1112, defined as IS1112d. Inserting IS1112 in gene fhuA caused three bases, GGT, to be duplicated at the target site, but inserting it in gene cirA did not cause any duplication in the target site. The diversity of IS1112 sequence and insertion loci in Xoo genome and their potential effects are discussed.

• The Plant Pathology Journal
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• 제16권2호
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• pp.105-109
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• 2000

The Pi-b is the rice gene conferring race specific resistance to the blast fungus Magnaporthe grisea race having a corresponding avirulence gene, AVR-Pi-b. All resistant cultivars have two copies of the Pi-b gene, but susceptible cultivars have a single copy of the gene. About 1 Kbp insertion sequence was detected in the open reading frame of the Pi-b gene from the susceptible cv. Nipponbare. The nature of insertion sequence was identified as a solo long terminal repeat (LTR) of new rice Tyl-copia-like retrotransposon. LTR was widely distributed in the rice genome. Various types of different patterns of restriction fragment length polymorphism of LTR were detected in indica cultivars, whereas a single type was detected from japonica cultivars. The insertion of LTR sequence in the Pi-b gene in the susceptible cultivar suggested that retrotransposon-mediated insertional mutation might played an important role in the resistance breakdown as well as evolution of resistance genes in rice.

• 한국전자파학회논문지
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• 제14권12호
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• pp.1239-1247
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• 2003

OFDM(orthogonal frequency division multiplexing) 통신 방식은 무선 고속 데이터 전송에 적합한 방식이다. 하지만 높은 PAPR(peak-to-average power ratio)의 발생으로 HPA(high power amplifier)에서 비선형 왜곡된다. 따라서 본 논문에서는 일정량의 부반송파를 PAPR 저감을 위해 사용하지만 별도의 부가정보 전송이 필요하지 않는 DSI(dummy sequence insertion) OFDM을 제안한다. DSI 방식은 기존 PTS(partial transmit sequence)나 SLM(selected mapping) 방식에서의 부가 정보와 달리 단지 PAPR 감소에만 사용되는 특정한 더미 데이터 시퀀스(dummy data sequence)를 전송한다. 더미 시퀀스로 상보 시퀀스(complementary sequence)와 상관 시퀀스(correlation sequence)를 사용하고 좀더 효과적 인 PAPR 저감을 위해 플리핑(flipping) 방법을 사용한다. 또한 DSI 방식은 기존의 블록코딩 방식보다 나은 전송 효율(spectral efficiency)을 갖는다. 그리고 DSI 방식은 처리시간 및 계산량을 줄이기 위해 threshold 기법을 적용한다. 하지만 PAPR 저감 성능은 기존 방식보다 떨어진다. 하지만 제안한 DSI 방식의 중요한 장점은 더미 데이터 시퀀스의 손상에 의해 BER특성이 영향을 받지 않는다는 것이다. 결론적으로 DSI 방식은 OFDM 보다 낮은 PAPR을 갖고 기존의 PIS나 SLM에 비해 처리시간을 감소시키고 BER성능 개선이 이루어진다.

• Journal of Communications and Networks
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• 제16권1호
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• pp.92-97
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• 2014

A novel method for extracting frequency slippage signal from radar full pulse sequence is presented. For the radar full pulse sequence received by radar interception receiver, radio frequency (RF) and time of arrival (TOA) of all pulses constitute a two-dimensional information sequence. In a complex and intensive electromagnetic environment, the TOA of pulses is distributed unevenly, randomly, and in a nonstationary manner, preventing existing methods from directly analyzing such time series and effectively extracting certain signal features. This work applies Gaussian noise insertion and structure function to the TOA-RF information sequence respectively such that the equalization of time intervals and correlation processing are accomplished. The components with different frequencies in structure function series are separated using empirical mode decomposition. Additionally, a chaos detection model based on the Duffing equation is introduced to determine the useful component and extract the changing features of RF. Experimental results indicate that the proposed methodology can successfully extract the slippage signal effectively in the case that multiple radar pulse sequences overlap.

• 한국통신학회논문지
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• 제33권1C호
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• pp.6-11
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• 2008

주기 수열에서 각 주기의 임의의 위치에 r개의 심볼을 추가하는 경우, 더 긴 주기를 가지는 수열을 얻을 수 있다. 본 논문에서는 주기 수열에 r개의 심볼을 추가한 수열의 선형복잡도에 대한 기존 결과들을 정리하고 GF(p)상에서 정의된 최대주기 수열에 1개의 심볼을 추가함으로써 얻어지는 수열들의 선형복잡도의 분포를 분석한다. 그리고 이진 최대주기 수열들의 1-심볼 추가 k-오류 선형복잡도에 대한 새로운 사실들을 유도함으로써 수열의 안정성을 평가한다.

• Plant Breeding and Biotechnology
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• 제5권4호
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• pp.269-281
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• 2017

With the continual development of genetically modified (GM) crops, it has become necessary to develop detailed and effective molecular characterization methods to select candidate events from a large pool of transformation events. Relative to traditional molecular analysis methods such as the polymerase chain reaction (PCR) and Southern blot hybridization, next generation sequencing (NGS) technology for whole-genome sequencing of complex crop genomes had proven comparatively useful for in-depth molecular characterization. In this study, four transformation events, including one in Bacillus thuringiensis (Bt)-resistant rice, one in resveratrol-producing rice, and two in beta-carotene-enhanced soybeans, were selected for molecular characterization. To merge NGS analysis and Southern blot-hybridization results, we confirmed the transgene insertion sites, insertion construction, and insertion numbers of these four transformation events. In addition, the read-coverage depth assessed by NGS analysis for inserted genes might provide consistent results in terms of inserted T-DNA numbers in case of complex insertion structures and highly duplicated donor genomes; however, PCR-based methods can produce incorrect conclusions. Our combined method provides an effective and complete analytical approach for whole-genome visual inspection of transformation events that require biosafety assessment.

• 방사선산업학회지
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• 제11권3호
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• pp.145-149
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• 2017

The cel7A sequence variation was analyzed between the wild type (Lentinula edodes KACC42378) and its cellulase activity enhanced mutant LER277. LER277 was induced by using gamma ray radiation ($^{60}Co$) at the $LD_{99}$ dose (0.94 kGy). Cloning and sequencing results showed that the cel7A coding DNA sequence (CDS) of LER277 had five nucleotide substitutions ($T{\rightarrow}C$, 201, 285 and 744 nt; $A{\rightarrow}G$, 525 nt; $C{\rightarrow}T$, 540 nt) and one hexanucleotide repeat insertion (GGCACC, within 1375-1392 nt) compared to that of the wild type. The Five nucleotide substitutions did not change the deduced amino acids and the hexanucleotide insertion elongated the GT repeat in a serine/threonine/glycine-rich linker. These results suggest that the enhancement of the cellulase activity in LER277 partly stemmed from cel7A changes by which the GT repeat of the linker is elongated.

• Journal of Animal Science and Technology
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• 제63권4호
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• pp.751-758
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• 2021

The recessive white (locus c) phenotype observed in chickens is associated with three alleles (recessive white c, albino c^a, and red-eyed white c^re) and causative mutations in the tyrosinase (TYR) gene. The recessive white mutation (c) inhibits the transcription of TYR exon 5 due to a retroviral sequence insertion in intron 4. In this study, we genotyped and sequenced the insertion in TYR intron 4 to identify the mutation causing the unusual white plumage of Yeonsan Ogye chickens, which normally have black plumage. The white chickens had a homozygous recessive white genotype that matched the sequence of the recessive white type, and the inserted sequence exhibited 98% identity with the avian leukosis virus ev-1 sequence. In comparison, brindle and normal chickens had the homozygous color genotype, and their sequences were the same as the wild-type sequence, indicating that this phenotype is derived from other mutation(s). In conclusion, white chickens have a recessive white mutation allele. Since the size of the sample used in this study was limited, further research through securing additional samples to perform validation studies is necessary. Therefore, after validation studies, a selection system for conserving the phenotypic characteristics and genetic diversity of the population could be established if additional studies to elucidate specific phenotype-related genes in Yeonsan Ogye are performed.

• 한국전자파학회논문지
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• 제15권4호
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• pp.379-386
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• 2004

OFDM(orthogonal frequency division multiplexing) 통신 방식은 무선 고속 데이터 전송에 적합한 방식이다. 하지만 높은 PAPR(peak-to-average power ratio)의 발생으로 HPA(high power amplifier)에서 비선형 왜곡된다. 따라서 본 논문에서는 이 문제점을 개선시키기 위한 PAPR 저감 방법으로 dummy sequence를 삽입하는 새로운 방식의 SLM 기법(dummy sequence insertion - selected mapping: DSI-SLM)을 제안한다. 이 DSI-SLM 기법은 각각의 브렌치에 서로 다른 위상 factor를 곱하는 대신 각각에 일정비율의 부반송파에 dummy 시퀀스를 삽입하여 IFFT 후 가장 낮은 PAPR을 갖는 브렌치의 데이터를 전송한다. 이 방식들에 사용된 dummy 시퀀스는 송신단의 PAPR 저감만을 위해 사용하며 위상 회전 부가 정보 전송 및 복원 과정이 필요치 않아 기존 SLM에 비해 계산량 및 복잡도를 감소시킬 수 있다. 또한 PTS 방식에서 최적의 rotation factor를 찾기 위한 peak value optimization에 의한 계산량 증가 및 송신기의 시간 지연 문제 등을 해결할 수 있다.