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Whole-genome resequencing analysis of 20 Micro-pigs
Da‑Hye Son,Nam‑Hyun Hwang,Won‑Hyong Chung,Ha‑Seung Seong,Hyungbum Lim,Eun‑Seok Cho,Jung‑Woo Choi,Kyung‑Soo Kang,Yong‑Min Kim 한국유전학회 2020 Genes & Genomics Vol.42 No.3
Background Miniature pigs have been increasingly used as mammalian model animals for biomedical research because of their similarity to human beings in terms of their metabolic features and proportional organ sizes. However, despite their importance, there is a severe lack of genome-wide studies on miniature pigs. Objective In this study, we performed whole-genome sequencing analysis of 20 Micro-pigs obtained from Medi Kinetics to elucidate their genomic characteristics. Results Approximately 595 gigabase pairs (Gb) of sequence reads were generated to be mapped to the swine reference genome assembly (Sus scrofa 10.2); on average, the sequence reads covered 99.15% of the reference genome at an average of 9.6-fold coverage. We detected a total of 19,518,548 SNPs, of which 8.7% were found to be novel. With further annotation of all of the SNPs, we retrieved 144,507 nonsynonymous SNPs (nsSNPs); of these, 5968 were found in all 20 individuals used in this study. SIFT prediction for these SNPs identified that 812 nsSNPs in 402 genes were deleterious. Among these 402 genes, we identified some genes that could potentially affect traits of interest in Micro-pigs, such as RHEB and FRAS1. Furthermore, we performed runs of homozygosity analysis to locate potential selection signatures in the genome, detecting several loci that might be involved in phenotypic characteristics in Micro-pigs, such as MSTN, GDF5, and GDF11. Conclusion In this study, we identified numerous nsSNPs that could be used as candidate genetic markers with involvement in traits of interest. Furthermore, we detected putative selection footprints that might be associated with recent selection applied to miniature pigs.
Da Young Lee,Seung Yun Lee,Ji Hyeop Kang,Jae Hyeon Kim,Hyun Woo Kim,Dong Hoon Oh,Jae Won Jeong,Sun Jin Hur 한국식품영양과학회 2021 한국식품영양과학회 학술대회발표집 Vol.2021 No.10
Three types of representative processed meat products (ham, sausage, bacon) and five types of traditional Korean fermented foods (kimchi, red pepper paste, soybean paste, soy sauce, salted shrimp) were feed to confirm the occurrence of colon cancer and changes of the gut microbiota through animal experiments. The genus Alisipes and Bacteroides, which are highly correlated with the occurrence of colonic inflammation and colorectal cancer, showed similar or lower levels in the treatment group fed with processed meat products and fermented foods compared to the treatment group with processed meat products. Prolonged feeding of traditional fermented foods as well as processed meat products did not cause cancer in the animal group. The results of this study can provide an adequate intake of processed meat products and fermented foods that can reduce the production of carcinogenic inflammation. Furthermore, the results the change of intestinal microbes by ingestion of fermented foods can be applied to the development of technologies that can suppress the mechanism of carcinogen formation in the body in the future.
Kang, Dae-Won,Kim, Hyuck-Soo,Kunhikrishnan, Anitha,Kim, Da-In,Lee, Seul,Park, Sang-Won,Yoo, Ji-Hyock,Kim, Won-Il 한국토양비료학회 2016 한국토양비료학회지 Vol.49 No.6
A number of accidents relating to highly toxic hydrogen fluoride (HF) or hydrofluoric acid (HA) release have occurred over fast few decades in Korea. Thus, this study was conducted to investigate the fluoride (F) concentrations in paddy soil and brown rice from 2 different areas where the soils were exposed to HF and HA. In the first case, the HF leakage accident that occurred in 2012 affected the surrounding soils and crops and consequently, crops (rice) affected by HF were unavailable for forage even though F did not accumulate in the soil. For example, at the time of accident, F concentrations in brown rice samples were $33.0-1,395mg\;kg^{-1}$, while F concentrations in soil samples were $155-295mg\;kg^{-1}$ which were less than the Korean standard guideline values of $400mg\;kg^{-1}$. However, after a year, F concentrations in brown rice were observed below the detection limit ($1mg\;kg^{-1}$), although F concentrations in soils were similar with those in 2012. Also, large amounts of wastewater discharges containing HA occurred in 2013 and some agricultural soils exceeded the Korean standard guideline values for F ($400mg\;kg^{-1}$), but soil-plant F transfer was not observed. In conclusion, it was observed that soil to plant transfer of F is unlikely although HF and HA as gas or liquid form can cause direct damage to plants.
Kang, Eun-Sil,Hong, Yeon-Woo,Chae, Da Won,Kim, Bora,Kim, Baekjin,Kim, Yong Jin,Cho, Jin Ku,Kim, Young Gyu Wiley-VCH 2015 ChemSusChem Vol.8 No.7
<P>A facile pathway to furan derivatives from lignocellulosic biomass via 5-acetoxymethylfurfural (AMF) was developed. AMF possesses advantageous properties due to its less-hydrophilic acetoxymethyl group relative to the hydroxymethyl group of 5-hydroxymethylfurfural (HMF). The hydrophobicity and chemical stability of AMF allowed practical isolation and purification to afford a highly pure product of up to 99.9%. AMF was produced in good to excellent yields under mild conditions from 5-chloromethylfurfural (CMF) and alkylammonium acetates, both of which could be obtained directly from lignocellulosic biomass. Heterogeneous reactions with polymer-supported alkylammonium acetates were also established; this showed the feasibility of a continuous process for this pathway. AMF could be transformed into various promising furanic compounds, such as 2,5-furandicarboxylic acid (FDCA), 2,5-furandimethanol (FDM), and 5-hydroxymethyl-2-furanoic acid (HFA), in high yields.</P>