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카드뮴이 백서의 배양섬유모세포에 미치는 세포독성에 관한 연구
유태환,반승일,김형주,김양일,정연태 원광대학교 환경과학연구소 1992 環境科學硏究誌 Vol.1 No.1
Present study was carried out to investigate the cytotoxicity of cadmium on cultured rat fibroblasts. The colorimetric assays of neutral red(NR) and tetrazolium MTT, the measurements of total contents of protein, the rated of DNA synthesis, light and electron microscopic studies were performed on the fibroblasts cultured in the media containing various concentrations of cadmium. The results are as follows : 1. The NR and MTT values were increased dose-dependent of cadmium. 2. The MR_90, MR_50, MTT_90 and MTT_50 values of cadmium were 0.2μM, 19.5μM, 1.0μM and 60.0μM, respectively. 3. The total contents of protein at concentrations of cadmium, 0.2μM, 24.5μM were 90% and 50% of the control, respectively. The aspects which decrease the total contents of protein agreed to NR uptake ability. 4. The rates of DNA synthesis at concentrations of cadmium, 5.0μM, 70.0μM were 90% and 50% of the control, and those were 65%, 60% at concentration of NR_50, MTT_50 values, respectively. 5. In light microscopic study, cadmium induced dose-dependent reduction of cell number and decrease in cell size, and election microscopy of cultured fibroblasts treated with cadmium showed dilatation of cisternae of granular endoplasmic reticulum. 6. Cadmium induced the toxic effects on the lysosome and mitochondria at lower concentration than does which didn't affect the rated of DNA synthesis.From the above results, it suggests that the cytotoxic target of cadmium may be cell organelles such as granular endoplasmic reticulum.
Discovery of Gene Sources for Economic Traits in Hanwoo by Whole-genome Resequencing
Shin, Younhee,Jung, Ho-jin,Jung, Myunghee,Yoo, Seungil,Subramaniyam, Sathiyamoorthy,Markkandan, Kesavan,Kang, Jun-Mo,Rai, Rajani,Park, Junhyung,Kim, Jong-Joo Asian Australasian Association of Animal Productio 2016 Animal Bioscience Vol.29 No.9
Hanwoo, a Korean native cattle (Bos taurus coreana), has great economic value due to high meat quality. Also, the breed has genetic variations that are associated with production traits such as health, disease resistance, reproduction, growth as well as carcass quality. In this study, next generation sequencing technologies and the availability of an appropriate reference genome were applied to discover a large amount of single nucleotide polymorphisms (SNPs) in ten Hanwoo bulls. Analysis of whole-genome resequencing generated a total of 26.5 Gb data, of which 594,716,859 and 592,990,750 reads covered 98.73% and 93.79% of the bovine reference genomes of UMD 3.1 and Btau 4.6.1, respectively. In total, 2,473,884 and 2,402,997 putative SNPs were discovered, of which 1,095,922 (44.3%) and 982,674 (40.9%) novel SNPs were discovered against UMD3.1 and Btau 4.6.1, respectively. Among the SNPs, the 46,301 (UMD 3.1) and 28,613 SNPs (Btau 4.6.1) that were identified as Hanwoo-specific SNPs were included in the functional genes that may be involved in the mechanisms of milk production, tenderness, juiciness, marbling of Hanwoo beef and yellow hair. Most of the Hanwoo-specific SNPs were identified in the promoter region, suggesting that the SNPs influence differential expression of the regulated genes relative to the relevant traits. In particular, the non-synonymous (ns) SNPs found in CORIN, which is a negative regulator of Agouti, might be a causal variant to determine yellow hair of Hanwoo. Our results will provide abundant genetic sources of variation to characterize Hanwoo genetics and for subsequent breeding.
Analysis of chigger mite genome and its application
Sathiyamoorthy Subramaniyam,Kesavan Markkandan,Myunghee Jung,Seungil Yoo,Junhyung Park,JongYul Roh,E-hyun Shin,Mi-Yeoun Park,Young Ran Ju,Ju Hyeon Kim,Deok Ho Kwon,Kyungjae A. Yoo,Si Hyeock Lee 한국응용곤충학회 2015 한국응용곤충학회 학술대회논문집 Vol.2015 No.10
Leptotrombidium pallidum is the major vector mites for Orientia tsutsugamushi, the causative agent of scrub typhus. To understand the molecular mechanism of L. pallidum, we sequenced the whole genome using Illumina sequencing technology. Totally four genomic libraries with different insert sizes ranging from 280 bp to 8 kb were used to generate 45.1 Gb of genome in the combination of paired-end and mate-pairs sequencing reads. Quality filtering and correction of paired-end reads for very small and/or bad-quality sequences yielded 26.9 Gb of high-quality sequences, which are used to estimate the genome size as 175 Mbusing kmer methods and assembled into a 193.7 Mb genomic sequence scaffolds with N50 length of 92,945 bp. Furthermore, 94% of CEGMA completeness score were obtained from genome scaffold assembly. To facilitate gene annotation, we used a combination of de novo and homology based tools to predict gene models in the chigger mite genome. A combination of evidence-based and de novo approaches predicted 15,842 high-confidence protein-coding genes with an average transcript length of 1,511 bp and 2.4 exons per gene which corresponds to about 12.4% total gene length. Bacterial endosymbiosis are very common in mite species and can range from mutualistic to pathogenic associations. Henceforth, the endosymbionts in L. pallidum were predicted using the NCBI microbial draft genomes and mitochondrial genome. Besides, this L. pallidum draft genome can be used as a significant reference for comparative genomic studies across mite species.
Current trends and future prospects in insect genomics
Junhyung Park,Kesavan Markkandan,Seong-Eui Hong,Sathiyamoorthy Subramaniyam,Seungil Yoo,Hyung Wook Kwon 한국응용곤충학회 2016 한국응용곤충학회 학술대회논문집 Vol.2016 No.04
In recent years, high-throughput next-generation sequencing (NGS) techniques have provided fascinating opportunities to understand the biology of non-model organisms, especially insect species. The decrease in sequencing costs and extensive sequencing services from NGS providers has brought many entomologists to be involved in genome sequencing. However, poor planning can lead to extremely fragmented genome assemblies which prevents high quality gene annotation and other desired analyses. Insect genomes can be problematic to assemble, due to combinations of high polymorphism, inability to breed for genome homozygosity, and small physical sizes limiting the quantity of DNA able to be isolated from a single individual. Given to the rapid development of host resistance to multiple classes of insecticides, it is indispensable to study the comprehensive genomic information of insects. Recent advances in sequencing technology and assembly strategies can able to fetch breakthroughs in deciphering the genetic information of insects. Here, we present the cost effective high throughput genome sequencing and assembly strategies for insect species in respects to taxonomy, evolutionary history, immune response, drug development, insect host-virus interactions and pest management etc.
( In-woo Kim ),( Kesavan Markkandan ),( Joon Ha Lee ),( Sathiyamoorthy Subramaniyam ),( Seungil Yoo ),( Junhyung Park ),( Jae Sam Hwang ) 한국미생물 · 생명공학회 2016 Journal of microbiology and biotechnology Vol.26 No.11
Antimicrobial peptides/proteins (AMPs) are present in all types of organisms, from microbes and plants to vertebrates and invertebrates such as insects. The grasshopper Oxya chinensis sinuosa is an insect species that is widely consumed around the world for its broad medicinal value. However, the lack of available genetic information for this species is an obstacle to understanding the full potential of its AMPs. Analysis of the O. chinensis sinuosa transcriptome and expression profile is essential for extending the available genetic information resources. In this study, we determined the whole-body transcriptome of O. chinensis sinuosa and analyzed the potential AMPs induced by bacterial immunization. A high-throughput RNA-Seq approach generated 94,348 contigs and 66,555 unigenes. Of these unigenes, 36,032 (54.14%) matched known proteins in the NCBI database in a BLAST search. Functional analysis demonstrated that 38,219 unigenes were clustered into 5,499 gene ontology terms. In addition, 26 cDNAs encoding novel AMPs were identified by an in silico approach using public databases. Our transcriptome dataset and AMP profile greatly improve our understanding of O. chinensis sinuosa genetics and provide a huge number of gene sequences for further study, including genes of known importance and genes of unknown function.