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Urease Characteristics and Phylogenetic Status of Bacillus paralicheniformis

Do-Won Jeong, Byunghoon Lee, Hyundong Lee, Keuncheol Jeong, Mihyun Jang, Jong-Hoon Lee
2018 Journal of Microbiology and Biotechnology  
In 2015, Bacillus paralicheniformis was separated from B. licheniformis on the basis of phylogenomic and phylogenetic studies, and urease activity was reported as a phenotypic property that differentiates between the two species. Subsequently, we have found that the urease activity of B. paralicheniformis is strain-specific, and does not reliably discriminate between species, as strains having the same urease gene cluster were identified in B. licheniformis and B. sonorensis, the closest
more » ... es of B. paralicheniformis. We developed a multilocus sequence typing scheme using eight housekeeping genes, adk, ccpA, glpF, gmk, ilvD, pur, spo0A, and tpi to clearly identify B. paralicheniformis from closely related Bacillus species and to find a molecular marker for the rapid identification of B. paralicheniformis. The scheme differentiated 33 B. paralicheniformis strains from 90 strains formerly identified as B. licheniformis. Among the eight housekeeping genes, spo0A possesses appropriate polymorphic sites for the design of a B. paralichenofomis-specific PCR primer set. The primer set designed in this study perfectly separated B. paralicheniformis from B. licheniformis and B. sonorensis.
doi:10.4014/jmb.1809.09030 fatcat:4rxlwxqtirgllglfeqtyuedneu

Two genes involved in clindamycin resistance of Bacillus licheniformis and Bacillus paralicheniformis identified by comparative genomic analysis

Do-Won Jeong, Byunghoon Lee, Sojeong Heo, Yeongmin Oh, Ganghun Heo, Jong-Hoon Lee, Young Hoon Jung
2020 PLoS ONE  
We evaluated the minimum inhibitory concentrations of clindamycin and erythromycin toward 98 Bacillus licheniformis strains isolated from several types of fermented soybean foods manufactured in several districts of Korea. First, based on recent taxonomic standards for bacteria, the 98 strains were separated into 74 B. licheniformis strains and 24 B. paralicheniformis strains. Both species exhibited profiles of erythromycin resistance as an acquired characteristic. B. licheniformis strains
more » ... ited acquired clindamycin resistance, while B. paralicheniformis strains showed unimodal clindamycin resistance, indicating an intrinsic characteristic. Comparative genomic analysis of five strains showing three different patterns of clindamycin and erythromycin resistance identified 23S rRNA (adenine 2058-N6)-dimethyltransferase gene ermC and spermidine acetyltransferase gene speG as candidates potentially involved in clindamycin resistance. Functional analysis of these genes using B. subtilis as a host showed that ermC contributes to cross-resistance to clindamycin and erythromycin, and speG confers resistance to clindamycin. ermC is located in the chromosomes of strains showing clindamycin and erythromycin resistance and no transposable element was identified in its flanking regions. The acquisition of ermC might be attributable to a homologous recombination. speG was identified in not only the five genome-analyzed strains but also eight strains randomly selected from the 98 test strains, and deletions in the structural gene or putative promoter region caused clindamycin sensitivity, which supports the finding that the clindamycin resistance of Bacillus species is an intrinsic property.
doi:10.1371/journal.pone.0231274 pmid:32271828 fatcat:2ey2ucnuwzekxgglf323shjkla

Traditional Korean Medicine-Based Forest Therapy Programs Providing Electrophysiological Benefits for Elderly Individuals

Jiyune Yi, Boncho Ku, Seul Gee Kim, Taegyu Khil, Youngsuwn Lim, Minja Shin, Sookja Jeon, Jingun Kim, Byunghoon Kang, Jongyeon Shin, Kahye Kim, Ah Young Jeong (+6 others)
2019 International Journal of Environmental Research and Public Health  
We aimed to develop forest therapy programs (FTPs) to prevent dementia and related health problems in the elderly population, with the assumption that health benefits are FTP-type specific and depend on the participant's psychophysiological traits. For this purpose, we developed two distinct FTPs, namely, a guided-breathing meditation program (BP) and a walking program (WP); we adopted the approach of Sasang constitutional (SC) medicine, which categorizes individuals into one of three SC types
more » ... SC1, SC2, or SC3) for medical care. The FTPs ran 11 sessions over 11 weeks. We recruited 29/31/28 participants who were 65 years of age or older for the BP/WP/control groups, respectively; obtained electrophysiological measurements via electroencephalogram (EEG), heart rate variability (HRV), and bioimpedance; and analyzed the intervention effects with analysis of covariance. Compared with the control, the BP and WP resulted in benefits for neural activity and parasympathetic nervous activity (PNA), respectively, and both FTPs yielded distinct beneficial effects on bioimpedance. Constitution-specific effects were also present. The SC1- and SC2-type participants gained positive effects in neural activity from the BP and WP, respectively. The SC3-type participants showed improvements in PNA from the WP. In conclusion, for older individuals, both programs conferred health benefits that would help prevent dementia, and the benefits were program-specific and constitution-specific.
doi:10.3390/ijerph16224325 pmid:31698811 pmcid:PMC6888007 fatcat:2e36ovyeuze2rcaslix7fjcjji

Psycho-Electrophysiological Benefits of Forest Therapies Focused on Qigong and Walking with Elderly Individuals

Jiyune Yi, Seul Gee Kim, Taegyu Khil, Minja Shin, Jin-Hee You, Sookja Jeon, Gue Hong Park, Ah Young Jeong, Youngsuwn Lim, Kahye Kim, Jingun Kim, Byunghoon Kang (+9 others)
2021 International Journal of Environmental Research and Public Health  
(Byunghoon Kang), J.L., J.H.P., H.  ...  (Byunghoon Kang), J.L., J.C.; analysis, S.G.K., B.K. (Boncho Ku), J.U.K.; investigation (field work), J.Y., T.K., M.S., S.J., J.-H.Y., J.K., G.H.P., A.Y.J., Y.L., K.K., J.K., B.K.  ... 
doi:10.3390/ijerph18063004 pmid:33804164 fatcat:6m2ham2oufanfnpx3xt6jm2hwy

Towards complete node enumeration in a peer-to-peer botnet

Brent ByungHoon Kang, David Dagon, Yongdae Kim, Eric Chan-Tin, Christopher P. Lee, James Tyra, Hun Jeong Kang, Chris Nunnery, Zachariah Wadler, Greg Sinclair, Nicholas Hopper
2009 Proceedings of the 4th International Symposium on Information, Computer, and Communications Security - ASIACCS '09  
Modern advanced botnets may employ a decentralized peer-to-peer overlay network to bootstrap and maintain their command and control channels, making them more resilient to traditional mitigation efforts such as server incapacitation. As an alternative strategy, the malware defense community has been trying to identify the bot-infected hosts and enumerate the IP addresses of the participating nodes so that the list can be used by system administrators to identify local infections, block spam
more » ... ls sent from bots, and configure firewalls to protect local users. Enumerating the infected hosts, however, has presented challenges. One cannot identify infected hosts behind firewalls or NAT devices by employing crawlers, a commonly used enumeration technique where recursive get-peerlist lookup requests are sent newly discovered IP addresses of infected hosts. As many bot-infected machines in homes or offices are behind firewall or NAT devices, these crawler-based enumeration methods would miss a large portions of botnet infections. In this paper, we present the Passive P2P Monitor (PPM), which can enumerate the infected hosts regardless whether or not they are behind a firewall or NAT. As an empirical study, we examined the Storm botnet and enumerated its infected hosts using the PPM. We also improve our PPM design by incorporating a FireWall Checker (FWC) to identify nodes behind a firewall. Our experiment with the peer-to-peer Storm botnet shows that more than 40% of bots that contact the PPM are behind firewall or NAT devices, implying that crawler-based enumeration techniques would miss out a significant portion of the botnet population. Finally, we show that the PPM's coverage is based on a probability-based coverage model that we derived from the empirical observation of the Storm botnet.
doi:10.1145/1533057.1533064 dblp:conf/ccs/KangCLTKNWSHDK09 fatcat:vmjvojjq35cudm4lhrihyvmmjy

Static Analysis and Experimentation on Obstacle-overcoming for a Novel Field Robotic Platform using Flip Motion
Flip 모션을 이용한 신개념 필드 로봇 플랫폼의 큰 장애물 등반 정적 해석 및 실험

ByungHoon Seo, Myeongseok Shin, Kyungmin Jeong, TaeWon Seo
2014 Journal of Institute of Control Robotics and Systems  
(b) Internal view. 1 2 F l τ πη = (8) ByungHoon Seo, Myeongseok Shin, Kyungmin Jeong, and TaeWon Seo  ... 
doi:10.5302/j.icros.2014.14.8013 fatcat:u7tgwoyly5hhvacprxfp4j2xli

Structure-Activity Relationships of Baicalein and its Analogs as Novel TSLP Inhibitors

Bernie Byunghoon Park, Jae Wan Choi, Dawon Park, Doyoung Choi, Jiwon Paek, Hyun Jung Kim, Se-Young Son, Ameeq Ul Mushtaq, Hyeji Shin, Sang Hoon Kim, Yuanyuan Zhou, Taehyeong Lim (+13 others)
2019 Scientific Reports  
Thymic stromal lymphopoietin (TSLP) plays an important role in the differentiation and proliferation of Th2 cells, resulting in eosinophilic inflammation and numerous allergic diseases. Baicalein (1), a major component of Scutellaria baicalensis, was found to be the first small molecule to block TSLP signaling pathways. It inhibited effectively eosinophil infiltration in house dust mite-induced and ovalbumin-challenged mouse models. Structure-activity relationship studies identified compound
more » ... , a biphenyl flavanone analog, as a novel human TSLP inhibitor for the discovery and development of new anti-allergic drugs.
doi:10.1038/s41598-019-44853-5 pmid:31217492 pmcid:PMC6584507 fatcat:ilhvscdkc5hkzi2z4vbnwqvvxe

DSG2 Is a Functional Cell Surface Marker for Identification and Isolation of Human Pluripotent Stem Cells

Jongjin Park, Yeonsung Son, Na Geum Lee, Kyungmin Lee, Dong Gwang Lee, Jinhoi Song, Jaemin Lee, Seokho Kim, Min Ji Cho, Ju-Hong Jang, Jangwook Lee, Jong-Gil Park (+13 others)
2018 Stem Cell Reports  
Pluripotent stem cells (PSCs) represent the most promising clinical source for regenerative medicine. However, given the cellular heterogeneity within cultivation and safety concerns, the development of specific and efficient tools to isolate a pure population and eliminate all residual undifferentiated PSCs from differentiated derivatives is a prerequisite for clinical applications. In this study, we raised a monoclonal antibody and identified its target antigen as desmoglein-2 (DSG2). DSG2
more » ... localized with human PSC (hPSC)-specific cell surface markers, and its expression was rapidly downregulated upon differentiation. The depletion of DSG2 markedly decreased hPSC proliferation and pluripotency marker expression. In addition, DSG2-negative population in hPSCs exhibited a notable suppression in embryonic body and teratoma formation. The actions of DSG2 in regulating the self-renewal and pluripotency of hPSCs were predominantly exerted through the regulation of b-catenin/Slug-mediated epithelial-to-mesenchymal transition. Our results demonstrate that DSG2 is a valuable PSC surface marker that is essential for the maintenance of PSC self-renewal.
doi:10.1016/j.stemcr.2018.05.009 pmid:29910125 pmcid:PMC6117473 fatcat:lq24tisqe5ez3lsnvzdnqb6q7a

Blind Estimation of Frame Synchronization Patterns in Telemetry Signal

Byunghoon Oh, Jinwoo Jeong, Yeonsoo Jang, Dongweon Yoon
unpublished
Telemetry signals are widely used in order to control electric equipment, collect information for launching satellites and for testing aircraft and guided weapons. In non-cooperative contexts, a blind estimation algorithm is essential to acquire data from telemetry signals. Generally, telemetry signals have a frame structure which consists of data words and a unique frame synchronization pattern. To obtain the telemetry signals blindly, we have to estimate the synchronization patterns in the
more » ... me structure first. In this paper, we propose a new algorithm for the estimation of frame synchronization patterns for the blind detection of telemetry signals and verify the proposed algorithm through computer simulations. By exploiting this algorithm, structures of unknown telemetry signals can be reconstructed.
fatcat:5oob7mukrbcefpr5sn7y4b4pim

Keynotes: Vision and issues for network softwarization

Dongmyun Lee
2016 2016 IEEE NetSoft Conference and Workshops (NetSoft)  
30AM -11:00AM & 3:30PM -4:00PM (Gayageum Hallway) # Title Names & Affiliations 1 Self-adaptive SW Framework for Smart IoT Environments Young-Joo Kim (ETRI, Korea) Sunghan Kim (ETRI, Korea) Jeong-Si  ...  Reynaud, Hsu-Chun Hsiao 12:30- 2:00PM Lunch 2:00- 3:30PM Keynote Speakers Security Issues in Openstack Cloud Souhwan Jung -Soongsil University, Korea Trusted platform security for SDN Brent Byunghoon  ... 
doi:10.1109/netsoft.2016.7502398 dblp:conf/netsoft/Lee16 fatcat:ai326ebcsregllpdvwk5obdt5m

Dopant-Free Twinning Superlattice Formation in InSb and InP Nanowires

Xiaoming Yuan, Yanan Guo, Philippe Caroff, Jun He, Hark Hoe Tan, Chennupati Jagadish
2017 Physica Status Solidi. Rapid Research Letters  
.; Byunghoon, L.; Jaehyun, Y.; Hyoungsub, K.; Hoo-Jeong, L. Nanotechnology 2013, 24, (6), 065703. (35) Li, Q.; Gong, X.; Wang, C.; Wang, J.; Ip, K.; Hark, S.  ... 
doi:10.1002/pssr.201700310 fatcat:2aqvxrjcrzds7jekd3klzmmphq

New Mechanism for Fast System Calls [article]

Till Miemietz
2021 arXiv   pre-print
ACM, 2018. [27] Eun Young Jeong, Shinae Woo, Muhammad Jamshed, doi:10.1145/3243734.3243748. URL https://doi.  ...  Arrakis: The operating system [34] Hojoon Lee, Chihyun Song, and Brent ByungHoon is the control plane. 33(4):11:1–11:30. ISSN 0734- Kang.  ... 
arXiv:2112.10106v1 fatcat:bhlcttdkwbclhgbohhubi3viwy

Acknowledgment to Reviewers of Cancers in 2020

Cancers Editorial Office Cancers Editorial Office
2021 Cancers  
Leich, Ellen Lee, Jeong-Hoon Leichtle, Alexander Benedikt Lee, Jeong-yeon Leiphrakpam, Premila Lee, Ji Min Lejeune, Fabrice Lee, Jie Lejman, Monika Lee, Jih-Chin Lejniece, Sandra Lee, Jiyun  ...  Lee, Byung Il Larion, Mioara Lee, ByungHoon Larionova, Irina Lee, Chang Hoon Larive, Romain Maxime Lee, Chang Lung Larsen, Anders Christian Lee, Che-Hsin Lascialfari, Alessandro Lee, Cheng-I.  ... 
doi:10.3390/cancers13030382 pmid:33494206 fatcat:tzwc2ixoozd6va3etjrcsk3d2e

Microbial Communities and Physicochemical Characteristics of Traditional Dajiang and Sufu in North China Revealed by High-Throughput Sequencing of 16S rRNA

Tingting Liang, Xinqiang Xie, Jun Ma, Lei Wu, Yu Xi, Hui Zhao, Longyan Li, Haixin Li, Ying Feng, Liang Xue, Moutong Chen, Xuefeng Chen (+3 others)
2021 Frontiers in Microbiology  
., Jeong, S. E., Park, D., and Jeon, C. O. (2019). Genomic and metabolic features of Tetragenococcus halophilus as revealed by pan-genome and transcriptome analyses.  ...  Microbiol. 43, 237–242. doi: 10.1111/j.1472-765x.2006.01966.x PubMed Abstract | CrossRef Full Text | Google Scholar Jong-Hoon, L., Sojeong, H., Keuncheol, J., Byunghoon, L., and Do-Won, J. (2017).  ... 
doi:10.3389/fmicb.2021.665243 pmid:34526973 pmcid:PMC8435802 fatcat:dc2ns2dvtrguhm7s36ots6cdna

Advanced spatial data mining methodology and its applications to semiconductor manufacturing processes

Byunghoon Kim
2015
For the testing the spatial independence of , we use the probability distribution of ( ) 2 (Jeong et al., 2008) .  ...  The spatial correlogram produces the unique shape for each spatial pattern of the binarized FBT map (Jeong et al., 2008) .  ... 
doi:10.7282/t3fq9zf6 fatcat:hbgqaphrrzbbtfqnn7jy5pzxza
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