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Kim, Hye Ryeong,Park, Sunmi,Jung, Changhoon,Kim, Jandee,Rhee, Choong Kyun,Hyun, Moon Seop Royal Society of Chemistry 2010 Chemical communications Vol.46 No.35
<P>Dithiolate-modified multi-wall carbon nanotubes (MWCNTs) adsorb selectively on the self-assembled monolayers (SAMs) of alkanethiols on a Au surface: the long dithiolates attached to the MWCNTs anchor the massive MWCNTs onto the Au surface by replacing the shorter thiolates of SAMs.</P> <P>Graphic Abstract</P><P>The differences in the alkyl chain lengths of the thiolates of SAMs and the dithiolates of MWCNT-S-C<SUB><I>n</I></SUB>-SHs lead to a selective adsorption. <IMG SRC='http://pubs.rsc.org/services/images/RSCpubs.ePlatform.Service.FreeContent.ImageService.svc/ImageService/image/GA?id=c0cc01148g'> </P>
Digenome-seq: genome-wide profiling of CRISPR-Cas9 off-target effects in human cells
Kim, Daesik,Bae, Sangsu,Park, Jeongbin,Kim, Eunji,Kim, Seokjoong,Yu, Hye Ryeong,Hwang, Jinha,Kim, Jong-Il,Kim, Jin-Soo Nature Publishing Group, a division of Macmillan P 2015 NATURE METHODS Vol.12 No.3
Although RNA-guided genome editing via the CRISPR-Cas9 system is now widely used in biomedical research, genome-wide target specificities of Cas9 nucleases remain controversial. Here we present Digenome-seq, in vitro Cas9-digested whole-genome sequencing, to profile genome-wide Cas9 off-target effects in human cells. This in vitro digest yields sequence reads with the same 5′ ends at cleavage sites that can be computationally identified. We validated off-target sites at which insertions or deletions were induced with frequencies below 0.1%, near the detection limit of targeted deep sequencing. We also showed that Cas9 nucleases can be highly specific, inducing off-target mutations at merely several, rather than thousands of, sites in the entire genome and that Cas9 off-target effects can be avoided by replacing 'promiscuous' single guide RNAs (sgRNAs) with modified sgRNAs. Digenome-seq is a robust, sensitive, unbiased and cost-effective method for profiling genome-wide off-target effects of programmable nucleases including Cas9.
Kim Jeong-Min,Kim Heui Man,Lee Eun Jung,Jo Hye Jun,Yoon Youngsil,Lee Nam-Joo,Son Junseock,Lee Ye-Ji,Kim Mi Seon,Lee Yong-Pyo,Chae Su-Jin,Park Kye Ryeong,Cho Seung-Rye,Park Sehee,Kim Su Jin,Wang Eunbye 질병관리본부 2020 Osong Public Health and Research Persptectives Vol.11 No.3
Objectives Coronavirus Disease-19 (COVID-19) is a respiratory infection characterized by the main symptoms of pneumonia and fever. It is caused by the novel coronavirus severe acute respiratory syndrome Coronavirus-2 (SARS-CoV-2), which is known to spread via respiratory droplets. We aimed to determine the rate and likelihood of SARS-CoV-2 transmission from COVID-19 patients through non-respiratory routes. Methods Serum, urine, and stool samples were collected from 74 hospitalized patients diagnosed with COVID-19 based on the detection of SARS-CoV-2 in respiratory samples. The SARS-CoV-2 RNA genome was extracted from each specimen and real-time reverse transcription polymerase chain reaction performed. CaCo-2 cells were inoculated with the specimens containing the SARS-COV-2 genome, and subcultured for virus isolation. After culturing, viral replication in the cell supernatant was assessed. Results Of the samples collected from 74 COVID-19 patients, SARS-CoV-2 was detected in 15 serum, urine, or stool samples. The virus detection rate in the serum, urine, and stool samples were 2.8% (9/323), 0.8% (2/247), and 10.1% (13/129), and the mean viral load was 1,210 ± 1,861, 79 ± 30, and 3,176 ± 7,208 copy/µL, respectively. However, the SARS-CoV-2 was not isolated by the culture method from the samples that tested positive for the SARS-CoV-2 gene. Conclusion While the virus remained detectable in the respiratory samples of COVID-19 patients for several days after hospitalization, its detection in the serum, urine, and stool samples was intermittent. Since the virus could not be isolated from the SARS-COV-2-positive samples, the risk of viral transmission via stool and urine is expected to be low.
Hye Ryeong Kim,Jonghwan Kim,Jae Sik Yu,Bum Soo Lee,Ki Hyun Kim,Chung Sub Kim 대한약학회 2023 Archives of Pharmacal Research Vol.46 No.1
Dermabacter vaginalis is a human-derived bacterium isolated from vaginal fluid of a Korean female in 2016. Although several human-related species in Dermabacter genus have been reported there are few studies on their bioactive metabolites. Dermazolium A (1), a rare imidazolium metabolite, was isolated from D. vaginalis along with five known metabolites (2–6) and their chemical structures were determined by NMR, HRMS, and MS/MS data analysis. Feeding experiments using predicted precursors and biomimetic total synthesis of 1 corroborated its structure and led to suggestion of biosynthetic pathway of 1. Antibacterial tests on the isolated compounds showed that 1 is a mild antibacterial agent with MIC values of 41 µg/mL against methicillin-resistant Staphylococcus aureus (MRSA) USA300, Lacticaseibacillus paracasei subsp. paracasei KCTC 3510 and Brevibacterium epidermidis KCTC 3090.
( Hye Ryeong Kim ),( Hyeongrok Choi ),( Soon Yong Park ),( Young-chul Song ),( Jae-ho Kim ),( Sangin Shim ),( Woojin Jun ),( Kyung-jin Kim ),( Jin Han ),( Seung-wook Chi ),( Sun-hee Leem ),( Jin Woong 생화학분자생물학회 2022 BMB Reports Vol.55 No.5
It is well-known that some species of lizard have an exceptional ability known as caudal autotomy (voluntary self-amputation of the tail) as an anti-predation mechanism. After amputation occurs, they can regenerate their new tails in a few days. The new tail section is generally shorter than the original one and is composed of cartilage rather than vertebrae bone. In addition, the skin of the regenerated tail distinctly differs from its original appearance. We performed a proteomics analysis for extracts derived from regenerating lizard tail tissues after amputation and found that endoplasmin (ENPL) was the main factor among proteins up-regulated in expression during regeneration. Thus, we performed further experiments to determine whether ENPL could induce chondrogenesis of tonsil-derived mesenchymal stem cells (T-MSCs). In this study, we found that chondrogenic differentiation was associated with an increase of ENPL expression by ER stress. We also found that ENPL was involved in chondrogenic differentiation of T-MSCs by suppressing extracellular signal-regulated kinase (ERK) phosphorylation. [BMB Reports 2022; 55(5): 226-231]