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Article ; Online: Hypoxia, oxidative stress, and the interplay of HIFs and NRF2 signaling in cancer.

Bae, Taegeun / Hallis, Steffanus Pranoto / Kwak, Mi-Kyoung

2024 Volume 56, Issue 3, Page(s) 501–514

Abstract: Oxygen is crucial for life and acts as the final electron acceptor in mitochondrial energy production. Cells adapt to varying oxygen levels through intricate response systems. Hypoxia-inducible factors (HIFs), including HIF-1α and HIF-2α, orchestrate the ...

Abstract	Oxygen is crucial for life and acts as the final electron acceptor in mitochondrial energy production. Cells adapt to varying oxygen levels through intricate response systems. Hypoxia-inducible factors (HIFs), including HIF-1α and HIF-2α, orchestrate the cellular hypoxic response, activating genes to increase the oxygen supply and reduce expenditure. Under conditions of excess oxygen and resulting oxidative stress, nuclear factor erythroid 2-related factor 2 (NRF2) activates hundreds of genes for oxidant removal and adaptive cell survival. Hypoxia and oxidative stress are core hallmarks of solid tumors and activated HIFs and NRF2 play pivotal roles in tumor growth and progression. The complex interplay between hypoxia and oxidative stress within the tumor microenvironment adds another layer of intricacy to the HIF and NRF2 signaling systems. This review aimed to elucidate the dynamic changes and functions of the HIF and NRF2 signaling pathways in response to conditions of hypoxia and oxidative stress, emphasizing their implications within the tumor milieu. Additionally, this review explored the elaborate interplay between HIFs and NRF2, providing insights into the significance of these interactions for the development of novel cancer treatment strategies.
MeSH term(s)	Humans ; Cell Hypoxia ; Hypoxia ; Hypoxia-Inducible Factor 1, alpha Subunit/metabolism ; Neoplasms/pathology ; NF-E2-Related Factor 2/metabolism ; Oxidative Stress ; Oxygen ; Tumor Microenvironment
Chemical Substances	Hypoxia-Inducible Factor 1, alpha Subunit ; NF-E2-Related Factor 2 ; NFE2L2 protein, human ; Oxygen (S88TT14065)
Language	English
Publishing date	2024-03-01
Publishing country	United States
Document type	Journal Article ; Review
ZDB-ID	1328915-9
ISSN	2092-6413 ; 1226-3613 ; 0378-8512
ISSN (online)	2092-6413
ISSN	1226-3613 ; 0378-8512
DOI	10.1038/s12276-024-01180-8
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Zs.A 4775: Show issues

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Conference proceedings ; Online: A homogeneous approach for IVP estimation via conical model

Bae, T. / Hong, C. / Lim, S.

XXVIII General Assembly of the International Union of Geodesy and Geophysics (IUGG)

2023

Abstract: A new international terrestrial reference frame (ITRF2020) was recently released by combining the solutions from four space geodetic techniques. For this purpose, connecting the sensors based on local tie vectors at collocated sites is crucial. The 3D ... ...

Abstract	A new international terrestrial reference frame (ITRF2020) was recently released by combining the solutions from four space geodetic techniques. For this purpose, connecting the sensors based on local tie vectors at collocated sites is crucial. The 3D circle fitting method has been frequently used, which models the trace of a target attached to the antenna and/or telescope as a 3D circle in space. However, it requires a parameterization for each target, which necessarily causes too many nuisance parameters with only a few observations. We developed a completely homogeneous and robust model (called the “conical model”) to estimate the invariant point (IVP) of very long baseline interferometry (VLBI) or satellite laser ranging (SLR) telescope. The trace of each target in 3D space is modeled as a cone with the apex at the common IVP. Thus, the slant heights, as well as the primary parameters (that is, the IVP), are estimated along with the full variance-covariance information. It provides the estimation model with enormous degrees of freedom, and the tilting of the (ideal) vertical axis and the horizontal offset between two rotational axes can be calculated simultaneously. The mathematical relationship of the target motions is constrained to the Gauss-Markov model to reinforce the estimated parameters. The proposed approach was successfully applied to the collocated site, resulting in a sub-millimeter level accuracy uniformly for the estimated IVPs and other accompanying parameters.
Language	English
Publishing country	de
Document type	Conference proceedings ; Online
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Article: Regulation of Bacterial Two-Component Systems by Cardiolipin.

Yeo, Won-Sik / Dyzenhaus, Sophie / Torres, Victor J / Brinsmade, Shaun R / Bae, Taeok

bioRxiv : the preprint server for biology

2023

Abstract: The composition of phospholipid membranes is critical to regulating the activity of membrane proteins for cellular functions. Cardiolipin is a unique phospholipid present within the bacterial membrane and mitochondria of eukaryotes and plays a role in ... ...

Abstract	The composition of phospholipid membranes is critical to regulating the activity of membrane proteins for cellular functions. Cardiolipin is a unique phospholipid present within the bacterial membrane and mitochondria of eukaryotes and plays a role in maintaining the function and stabilization of membrane proteins. Here, we report that, in the human pathogen Staphylococcus aureus, cardiolipin is required for full activity of the SaeRS two-component system (TCS). Deletion of the cardiolipin synthase genes,
Language	English
Publishing date	2023-02-02
Publishing country	United States
Document type	Preprint
DOI	10.1101/2023.02.01.526740
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Article ; Online: Identification of an antivirulence agent targeting the master regulator of virulence genes in

Arya, Rekha / Kim, Truc / Youn, Joo Won / Bae, Taeok / Kim, Kyeong Kyu

Frontiers in cellular and infection microbiology

2023 Volume 13, Page(s) 1268044

Abstract: The emergence of bactericidal antibiotic-resistant strains has increased the demand for alternative therapeutic agents, such as antivirulence agents targeting the virulence regulators of pathogens. ...

Abstract	The emergence of bactericidal antibiotic-resistant strains has increased the demand for alternative therapeutic agents, such as antivirulence agents targeting the virulence regulators of pathogens.
MeSH term(s)	Animals ; Mice ; Virulence/genetics ; Staphylococcus aureus ; Methicillin-Resistant Staphylococcus aureus ; Hemolysin Proteins/genetics ; Hemolysin Proteins/metabolism ; Molecular Docking Simulation ; Virulence Factors/metabolism ; Anti-Bacterial Agents/therapeutic use ; Staphylococcal Infections/microbiology ; Bacterial Proteins/genetics ; Bacterial Proteins/metabolism
Chemical Substances	Hemolysin Proteins ; Virulence Factors ; Anti-Bacterial Agents ; Bacterial Proteins
Language	English
Publishing date	2023-10-31
Publishing country	Switzerland
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2619676-1
ISSN	2235-2988 ; 2235-2988
ISSN (online)	2235-2988
ISSN	2235-2988
DOI	10.3389/fcimb.2023.1268044
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Article ; Online: Unravelling the physiological roles of mazEF toxin-antitoxin system on clinical MRSA strain by CRISPR RNA-guided cytidine deaminase.

Jain, Sonia / Bhowmick, Arghya / Jeong, Bohyun / Bae, Taeok / Ghosh, Abhrajyoti

Journal of biomedical science

2022 Volume 29, Issue 1, Page(s) 28

Abstract: Background: Curiosity on toxin-antitoxin modules has increased intensely over recent years as it is ubiquitously present in many bacterial genomes, including pathogens like Methicillin-resistant Staphylococcus aureus (MRSA). Several cellular functions ... ...

Abstract	Background: Curiosity on toxin-antitoxin modules has increased intensely over recent years as it is ubiquitously present in many bacterial genomes, including pathogens like Methicillin-resistant Staphylococcus aureus (MRSA). Several cellular functions of TA systems have been proposed however, their exact role in cellular physiology remains unresolved. Methods: This study aims to find out the impact of the mazEF toxin-antitoxin module on biofilm formation, pathogenesis, and antibiotic resistance in an isolated clinical ST239 MRSA strain, by constructing mazE and mazF mutants using CRISPR-cas9 base-editing plasmid (pnCasSA-BEC). Transcriptome analysis (RNA-seq) was performed for the mazE antitoxin mutant in order to identify the differentially regulated genes. The biofilm formation was also assessed for the mutant strains. Antibiogram profiling was carried out for both the generated mutants followed by murine experiment to determine the pathogenicity of the constructed strains. Results: For the first time our work showed, that MazF promotes cidA mediated cell death and lysis for biofilm formation without playing any significant role in host virulence as suggested by the murine experiment. Interestingly, the susceptibility to oxacillin, daptomycin and vancomycin was reduced significantly by the activated MazF toxin in the mazE mutant strain. Conclusions: Our study reveals that activated MazF toxin leads to resistance to antibiotics like oxacillin, daptomycin and vancomycin. Therefore, in the future, any potential antibacterial drug can be designed to target MazF toxin against the problematic multi-drug resistant bug.
MeSH term(s)	Animals ; Anti-Bacterial Agents/pharmacology ; Bacterial Proteins/genetics ; Bacterial Proteins/metabolism ; Cytidine Deaminase ; Daptomycin ; Methicillin-Resistant Staphylococcus aureus/genetics ; Mice ; Oxacillin ; RNA ; Toxin-Antitoxin Systems/genetics ; Vancomycin
Chemical Substances	Anti-Bacterial Agents ; Bacterial Proteins ; RNA (63231-63-0) ; Vancomycin (6Q205EH1VU) ; Cytidine Deaminase (EC 3.5.4.5) ; Daptomycin (NWQ5N31VKK) ; Oxacillin (UH95VD7V76)
Language	English
Publishing date	2022-05-07
Publishing country	England
Document type	Journal Article
ZDB-ID	1193378-1
ISSN	1423-0127 ; 1021-7770
ISSN (online)	1423-0127
ISSN	1021-7770
DOI	10.1186/s12929-022-00810-5
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Zs.A 4037: Show issues

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Article ; Online: Regulation of Bacterial Two-Component Systems by Cardiolipin.

Yeo, Won-Sik / Dyzenhaus, Sophie / Torres, Victor J / Brinsmade, Shaun R / Bae, Taeok

Infection and immunity

2023 Volume 91, Issue 4, Page(s) e0004623

Abstract: The regulation of membrane protein activity for cellular functions is critically dependent on the composition of phospholipid membranes. Cardiolipin, a unique phospholipid found in bacterial membranes and mitochondrial membranes of eukaryotes, plays a ... ...

Abstract	The regulation of membrane protein activity for cellular functions is critically dependent on the composition of phospholipid membranes. Cardiolipin, a unique phospholipid found in bacterial membranes and mitochondrial membranes of eukaryotes, plays a crucial role in stabilizing membrane proteins and maintaining their function. In the human pathogen Staphylococcus aureus, the SaeRS two-component system (TCS) controls the expression of key virulence factors essential for the bacterium's virulence. The SaeS sensor kinase activates the SaeR response regulator via phosphoryl transfer to bind its gene target promoters. In this study, we report that cardiolipin is critical for sustaining the full activity of SaeRS and other TCSs in S. aureus. The sensor kinase protein SaeS binds directly to cardiolipin and phosphatidylglycerol, enabling SaeS activity. Elimination of cardiolipin from the membrane reduces SaeS kinase activity, indicating that bacterial cardiolipin is necessary for modulating the kinase activities of SaeS and other sensor kinases during infection. Moreover, the deletion of cardiolipin synthase genes
MeSH term(s)	Animals ; Mice ; Humans ; Cardiolipins/metabolism ; Transcription Factors/genetics ; Staphylococcus aureus ; Bacterial Proteins/genetics ; Bacterial Proteins/metabolism ; Protein Kinases/metabolism ; Membrane Proteins/genetics ; Membrane Proteins/metabolism ; Gene Expression Regulation, Bacterial
Chemical Substances	Cardiolipins ; Transcription Factors ; Bacterial Proteins ; Protein Kinases (EC 2.7.-) ; Membrane Proteins
Language	English
Publishing date	2023-03-28
Publishing country	United States
Document type	Journal Article ; Research Support, N.I.H., Extramural
ZDB-ID	218698-6
ISSN	1098-5522 ; 0019-9567
ISSN (online)	1098-5522
ISSN	0019-9567
DOI	10.1128/iai.00046-23
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Zs.A 684: Show issues

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Article ; Online: Creating a social media strategy for an international cardiothoracic research network: a scoping review.

Fredericks, Suzanne / Bae, Tammy / Sochaniwskyj, Mark / Sanders, Julie / Martorella, Geraldine / Wynne, Rochelle

European journal of cardiovascular nursing

2023 Volume 22, Issue 8, Page(s) 751–757

Abstract: Aims: A cardiac surgery international nursing and allied professional research network titled CONNECT was created to strengthen collaborative cardiac surgery research through shared initiatives including supervision, mentorship, workplace exchange ... ...

Abstract	Aims: A cardiac surgery international nursing and allied professional research network titled CONNECT was created to strengthen collaborative cardiac surgery research through shared initiatives including supervision, mentorship, workplace exchange programs, and multi-site clinical research. As with any new initiative, there is a need to build brand awareness to enhance user familiarity, grow membership, and promote various opportunities offered. Social media has been used across various surgical disciplines; however, their effectiveness in promoting scholarly and academic-based initiatives has not been examined. The aim of this scoping review was to examine the different types of social media platforms and strategies used to promote cardiac research initiatives for CONNECT. Methods and results: A scoping review was undertaken in which a comprehensive and thorough review of the literature was performed. Fifteen articles were included in the review. Twitter appeared to be the most common form of social media used to promote cardiac initiatives, with daily posts being the most frequent type of engagement. Frequency of views, number of impressions and engagement, link clicks, and content analysis were the most common types of evaluation metrics that were identified. Conclusion: Findings from this review will inform the design and evaluation of a targeted Twitter campaign aimed at increasing brand awareness of CONNECT, which will include the use of @CONNECTcardiac Twitter handle, hashtags, and CONNECT-driven journal clubs. In addition, the use of Twitter to disseminate information and brand initiatives related to CONNECT will be evaluated using the Twitter Analytics function. Registration: Open Science Framework: osf.io/q54es.
MeSH term(s)	Humans ; Social Media ; Cardiology
Language	English
Publishing date	2023-02-15
Publishing country	England
Document type	Review ; Journal Article
ZDB-ID	2151245-0
ISSN	1873-1953 ; 1474-5151
ISSN (online)	1873-1953
ISSN	1474-5151
DOI	10.1093/eurjcn/zvad029
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Zs.A 5938: Show issues

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Article ; Online: Somatic genomic mosaicism in the brain during aging: Scratching the surface.

Bae, Taejeong / Wang, Yifan / Vaccarino, Flora M / Abyzov, Alexej

Clinical and translational medicine

2022 Volume 12, Issue 12, Page(s) e1138

MeSH term(s)	Brain ; Genomics ; Mosaicism
Language	English
Publishing date	2022-11-28
Publishing country	United States
Document type	Journal Article
ZDB-ID	2697013-2
ISSN	2001-1326 ; 2001-1326
ISSN (online)	2001-1326
ISSN	2001-1326
DOI	10.1002/ctm2.1138
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Article ; Online: Turbulence Intensity as an Indicator for Ischemic Stroke in the Carotid Web.

Bae, Taewoong / Ko, Jung Ho / Chung, Jaewoo

World neurosurgery

2021 Volume 154, Page(s) e443–e457

Abstract: Objective: Carotid web (CaW) is reported as one of the causes of cryptogenic strokes. However, its pathophysiology is not known, which makes clinicians debate CaW treatment. The current study presents the mechanism of ischemic stroke in CaW and finds a ... ...

Abstract	Objective: Carotid web (CaW) is reported as one of the causes of cryptogenic strokes. However, its pathophysiology is not known, which makes clinicians debate CaW treatment. The current study presents the mechanism of ischemic stroke in CaW and finds a potential indicator for ischemic stroke in CaW. Methods: Computational fluid dynamics (CFD) was applied to computer-aided artificial human CaW models to investigate the correlation between stenosis rate and CaW angle. The CFD results were compared with stroke or symptomatic CaW including adequate reported images for anatomic analysis of the stenosis rate and CaW angle. Results: The CFD result of the CaW models shows that the velocity decreases and the turbulence generation of blood flow increases in the area under CaW (AuCaW). In AuCaW, turbulence intensity (TI) is high in the high stenosis rate and small angle conditions. Moreover, TI remained high in the AuCaW throughout the cardiac cycles. The analysis of 67 anatomic figures appeared in 36 articles merged with CFD results, and a CaW scoring system was introduced for clinicians to determine patients with CaW with a high risk of ischemic stroke. Conclusions: This study is believed to be the first to apply TI to CaW. Because most ischemic strokes in CaW occurred at a high stenosis rate and small angle, TI may be used as a potential indicator of ischemic stroke in CaW. Furthermore, TI is easily used in the daily clinical field by applying CaW scores.
MeSH term(s)	Algorithms ; Atherosclerosis/diagnosis ; Atherosclerosis/diagnostic imaging ; Carotid Arteries/diagnostic imaging ; Carotid Artery Diseases/diagnosis ; Carotid Artery Diseases/diagnostic imaging ; Carotid Stenosis/diagnostic imaging ; Carotid Stenosis/surgery ; Computer Simulation ; Fluid Shifts ; Humans ; Ischemic Stroke/diagnosis ; Ischemic Stroke/diagnostic imaging ; Risk Factors
Language	English
Publishing date	2021-07-26
Publishing country	United States
Document type	Journal Article
ZDB-ID	2534351-8
ISSN	1878-8769 ; 1878-8750
ISSN (online)	1878-8769
ISSN	1878-8750
DOI	10.1016/j.wneu.2021.07.049
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Zs.A 1159: Show issues

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Article ; Online: Analytical Performance of the Sysmex HISCL HBsAg Assay and Comparison with the Roche Elecsys HBsAg II Quant Assay in the Quantification of Hepatitis B Surface Antigen.

Park, Joonhong / Bae, Taewon / Cho, Yonggon / Kim, Dalsik / Lee, Jaehyeon

Medicina (Kaunas, Lithuania)

2021 Volume 57, Issue 12

Abstract: Background and ... ...

Abstract	Background and Objectives
MeSH term(s)	Hepatitis B Surface Antigens ; Hepatitis B virus ; Hepatitis B, Chronic ; Humans
Chemical Substances	Hepatitis B Surface Antigens
Language	English
Publishing date	2021-11-29
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2188113-3
ISSN	1648-9144 ; 1010-660X
ISSN (online)	1648-9144
ISSN	1010-660X
DOI	10.3390/medicina57121307
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