• Animal Systematics, Evolution and Diversity
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• 제8권1호
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• pp.35-56
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• 1992

한국 담수산 윤충류의 분류학적 연구를 위하여 1990년 3月부터 1992년 2월까지 전국 일대에 산재해 있는 댐, 호수, 저수지, 연못, 논, 웅덩이 등을 대상으로 총 205개 지점에서 채집을 실시하여 조사한바, Brachionidae과의 Brachionus속에 9아종 2변종 6형이, 그리고 Platyas속에는 1종이 밝혀졌는데, 그중 Brachionus속의 1아종 4형 : Brachionus urceolaris bennini, B. angularis f. bidens, B. quadridentatus f. rhenanus, B. forficuIa f. minor, B. forficula f. angularis가 한국 미기록으로 판명되어 기재와 함께 도판을 작성하였고, 본 연구에서 확인된 Brachionus와 Platyas속내의 종들에 대해서는 물론, 연차적인 발표를 목적으로 한국산 윤형동물에 대한 전체척언 검색표를 만들었다. 따라서 지금까지 기록된 한국산 윤충류는 총 2강 4목 14과 40속 134종, 15아종, 9변종, 9형이 된다.

• The Plant Pathology Journal
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• 제34권2호
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• pp.150-156
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• 2018

The genome sequences of two novel monopartite RNA viruses were identified in a common eelgrass (Zostera marina) transcriptome dataset. Sequence comparison and phylogenetic analyses revealed that these two novel viruses belong to the genus Amalgavirus in the family Amalgaviridae. They were named Zostera marina amalgavirus 1 (ZmAV1) and Zostera marina amalgavirus 2 (ZmAV2). Genomes of both ZmAV1 and ZmAV2 contain two overlapping open reading frames (ORFs). ORF1 encodes a putative replication factory matrix-like protein, while ORF2 encodes a RNA-dependent RNA polymerase (RdRp) domain. The fusion protein (ORF1+2) of ORF1 and ORF2, which mediates RNA replication, was produced using the +1 programmed ribosomal frameshifting (PRF) mechanism. The +1 PRF motif sequence, UUU_CGN, which is highly conserved among known amalgaviruses, was also found in ZmAV1 and ZmAV2. Multiple sequence alignment of the ORF1+2 fusion proteins from 24 amalgaviruses revealed that +1 PRF occurred only at three different positions within the 13-amino acid-long segment, which was surrounded by highly conserved regions on both sides. This suggested that the +1 PRF may be constrained by the structure of fusion proteins. Genome sequences of ZmAV1 and ZmAV2, which are the first viruses to be identified in common eelgrass, will serve as useful resources for studying evolution and diversity of amalgaviruses.

• The Plant Pathology Journal
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• 제30권2호
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• pp.195-199
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• 2014

Apple stem pitting virus (ASPV), of the Foveavirus genus in the family Betaflexiviridae, is one of the most common viruses of apple and pear trees. To examine variability of the coat protein (CP) gene from ASPV, eight isolates originating from 251 apple trees, which were collected from 22 apple orchards located in intensive apple growing areas of the North Gyeongsang and North Jeolla Provinces in Korea, were sequenced and compared. The nucleotide sequence identity of the CP gene of eight ASPV isolates ranged from 77.0 to 97.0%, while the amino acid sequence identity ranged from 87.7 to 98.5%. The N-terminal region of the viral CP gene was highly variable, whereas the C-terminal region was conserved. Genetic algorithm recombination detection (GARD) and single breakpoint recombination (SBP) analyses identified base substitutions between eight ASPV isolates at positions 54 and 57 and position 771, respectively. GABranch analysis was used to determine whether the eight isolates evolved due to positive selection. All values in the GABranch analysis showed a ratio of substitution rates at non-synonymous and synonymous sites (dNS/dS) below 1, suggestive of strong negative selection forces during ASPV CP history. Although negative selection dominated CP evolution in the eight ASPV isolates, SLAC and FEL tests identified four possible positive selection sites at codons 10, 22, 102, and 158. This is the first study of the ASPV genome in Korea.

• Molecules and Cells
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• 제28권2호
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• pp.111-117
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• 2009

The CHRM3 gene is a member of the muscarinic acetylcholine receptor family that plays important roles in the regulation of fundamental physiological functions. The evolutionary mechanism of exon-acquisition and alternative splicing of the CHRM3 gene in relation to transposable elements (TEs) were analyzed using experimental approaches and in silico analysis. Five different transcript variants (T1, T2, T3, T3-1, and T4) derived from three distinct promoter regions (T1: L1HS, T2, T4: original, T3, T3-1: THE1C) were identified. A placenta (T1) and testis (T3 and T3-1)-dominated expression pattern appeared to be controlled by different TEs (L1HS and THE1C) that were integrated into the common ancestor genome during primate evolution. Remarkably, the T1 transcript was formed by the integration event of the human specific L1HS element. Among the 12 different brain regions, the brain stem, olfactory region, and cerebellum showed decreased expression patterns. Evolutionary analysis of splicing sites and alternative splicing suggested that the exon-acquisition event was determined by a selection and conservation mechanism. Furthermore, continuous integration events of transposable elements could produce lineage specific alternative transcripts by providing novel promoters and splicing sites. Taken together, exon-acquisition and alternative splicing events of CHRM3 genes were shown to have occurred through the continuous integration of transposable elements following conservation.

• The Plant Pathology Journal
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• 제28권2호
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• pp.123-136
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• 2012

Diseases caused by begomoviruses (family Geminiviridae, genus Begomovirus) constitute a serious constraint to tropical and sub-tropical agro-ecosystems worldwide. In recent years, they have also introduced in temperate regions of the world where they have great impact and are posing a serious threat to a variety of greenhouse crops. Begomoviral diseases can in extreme cases reduce yields to zero leading to catastrophic losses in agriculture. They are still evolving and pose a serious threat to sustainable agriculture across the world, particularly in tropics and sub-tropics. Till recently, there have been no records on the occurrence of begomoviral disease in South Korea, however, the etiology of other plant viral diseases are known since last century. The first begomovirus infected sample was collected from sweet potato plant in 2003 and since then there has been gradual increase in the begomoviral epidemics specially in tomato and sweet potato crops. So far, 48 begomovirus sequences originating from various plant species have been submitted in public sequence data base from different parts of the country. The rapid emergence of begomoviral epidemics might be with some of the factors like evolution of new variants of the viruses, appearance of efficient vectors, changing cropping systems, introduction of susceptible plant varieties, increase in global trade in agricultural products, intercontinental transportation networks, and changes in global climatic conditions. Another concern might be the emergence of a begomovirus complex and satellite DNA molecules. Thorough understanding of the pathosystems is needed for the designing of effective managements. Efforts should also be made towards the integration of the resistant genes for the development of transgenic plants specially tomato and sweet potato as they have been found to be widely infected in South Korea. There should be efficient surveillance for emergence or incursions of other begomoviruses and biotypes of whitefly. This review discusses the general characteristics of begomoviruses, transmission by their vector B. tabaci with an especial emphasis on the occurrence and distribution of begomoviruses in South Korea, and control measures that must be addressed in order to develop more sustainable management strategies.

• The Plant Pathology Journal
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• 제29권3호
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• pp.234-241
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• 2013

Polygalacturonase (PG) gene is a typical gene family present in eukaryotes. Forty-nine PGs were mined from the genomes of Neurospora crassa and five Aspergillus species. The PGs were classified into 3 clades such as clade 1 for rhamno-PGs, clade 2 for exo-PGs and clade 3 for exo- and endo-PGs, which were further grouped into 13 sub-clades based on the polypeptide sequence similarity. In gene structure analysis, a total of 124 introns were present in 44 genes and five genes lacked introns to give an average of 2.5 introns per gene. Intron phase distribution was 64.5% for phase 0, 21.8% for phase 1, and 13.7% for phase 2, respectively. The introns varied in their sequences and their lengths ranged from 20 bp to 424 bp with an average of 65.9 bp, which is approximately half the size of introns in other fungal genes. There were 29 homologous intron blocks and 26 of those were sub-clade specific. Intron losses were counted in 18 introns in which no obvious phase preference for intron loss was observed. Eighteen introns were placed at novel positions, which is considerably higher than those of plant PGs. In an evolutionary sense both intron loss and gain must have taken place for shaping the current PGs in these fungi. Together with the small intron size, low conservation of homologous intron blocks and higher number of novel introns, PGs of fungal species seem to have recently undergone highly dynamic evolution.

• Animal cells and systems
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• 제5권3호
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• pp.243-246
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• 2001

Human endoqenous retroviral long terminal repeats (LTRs) have been found to be coexpressed with sequences of genes closely located nearby. It has been suggested that the LTR elements have contributed to structural changes or genetic variations of human genome connected to various diseases and evolution. Using cDNA library derived from placenta tissue, we performed PCR amplification and identified five new HERV-W LTR elements. Those LTR elements showed a high degree of sequence similarity (98-99%) with HERV-W LTR (AF072500). A phylogenetic tree obtained by the neighbor-joining method revealed that HERV-W LTR elements could be mainly divided into two groups through evolutionary divergence. Five new HERV-W LTR elements (pla-1, 4, 5, 6, 7) belonged to the group I with AX000960, AF072504, and AF072506 from GenBank database. The data suggest that several copy numbers of the HERV-W LTR elements are transcribed in placenta and may contribute to the understanding of biological function such as human placental morphogenesis.

• Advances in Traditional Medicine
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• 제3권3호
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• pp.111-122
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• 2003

Plants of the genus Hypericum (Family - Hypericaceae) are herbs, shrubs or small trees and are distributed chiefly in the temperate regions of the world. About 400 different species of Hypericum are available throughout the globe and 20 species occur in India, including a few cultivated in gardens. Almost all plants of the genus Hypericum are widely used in folk medicine. Several potent phytoconstituents from different Hypericum species have led to the isolation of antibacterial, antifungal and cytotoxic compounds. With the development of resistance and cross resistance with different microorganisms and the evolution of so many deadly diseases the screening and evaluation of the phytoconstituents so much so the development of varied phytoconstituents for the drug development for these deadly diseases is utmost essential in every aspects. The present review on the antimicrobial use of different Hypericum reports the findings from and extensive literature search on the Hypericum species around the globe that have been assessed for antimicrobial and antiviral activity. An attempt has been made through this review to summarize the information in this aspect in order to highlight the promising species of this genus which are worthy for further investigation as leads for drug development. Over 31 different Hypericum species have been reported to possess such activities with their varied number of phytoconstituents. Sixteen different constituents of six different classes of phytoconstituents have been reported to be present in different varieties of Hypericum, which may be considered responsible for this activity.

• 한국미생물·생명공학회지
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• 제31권4호
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• pp.311-321
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• 2003

세균은 지방을 분해할 수 있는 다양한 리파제를 생산한다. 리파제는 반응조건에 따라서 지방의 합성도 수행할 수 있는데 , 이러한 효소반응과정에서 고도의 기질특이성과 위치특이성 및 입체특이성을 보이기 때문에 제약산업과 정밀화학산업에서 효소촉매로서 널리 사용되고 있다. 지금가지 200종류 이상의 리파제효소가 보고되었으며, 이것들은 효소생산기원과 아미노산 상동성을 기준으로 6개의 family로 분류된다. 지난 10년 간 세균 리파제 6종에 대한 3D구조가 밝혀졌다. 이것들은 모두 중심부분에$\alpha/\beta$폴딩구조와 세린, 히스티딘, 아스팔틴산으로 구성된 활성부위를 공통적으로 갖고 있다. 활성부위를 양친성 $\alpha$나선구조가 뚜껑처럼 덮고 있으며, 물과 오일의 경계면을 만나면, 이 뚜껑이 열리고 효소활성이 크게 증가하는 '계면활성화' 현상을 보인다. P. cepacia 리파제 구조에는 기질과 결합하는 4개의 포켓이 있는데 이중 하나는 옥시음이온 구멍이고, 다른 세 개는 기질의 sn-1, sn-2, sn-3 지방산과 결합하는 부위이다. 이 포켓의 크기와 방향 및 소수성정도에 의해서 효소의 기질특이성과 입체특이성이 결정된다. 현재 이러한 구조연구를 기반으로 사용목적에 따른 맞춤 효소를 생산하기 위한 효소 개량연구가 활발히 진행되고 있다.

• Animal Systematics, Evolution and Diversity
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• 제25권3호
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• pp.325-329
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• 2009

Lepomis macrochirus from the family Centrarchidae, commonly known as Bluegill sunfish, is an introduced freshwater fish in Korea that thrives in lakes, ponds, reservoirs and rivers. Since its introduction into Korea in 1969, Lepomis macrochirus has rapidly dispersed out and increased in number almost all over the freshwater ecosystems in Korea. Consequently this species causes a severe ecological problem, threatening native fishes due to its omnivorous foraging behaviors upon fish juveniles and many freshwater invertebrates. To address population genetic structure of L. macrochirus, 74 fish samples from 10 populations were collected and compared for their mitochondrial D-loop control region. As the result we found that the genetic diversity of L. macrochirus is extremely low such as resulting only four haplotypes with a few nucleotide differences among them. Analysis of molecular variance (AMOVA) revealed that the source of population genetic variation is largely retained in the comparisons among individuals within populations, while it is relatively low with slight significance at the highest hierarchical group. This distribution pattern differs from what is expected when biogeography is under the influence of natural geographic barriers such as mountain ranges in Korea. Instead the result is accord with the influential role of random spreading events facilitated by local people for aquaculture and fishing, and subsequent dispersals since its single point of introduction into Korea.