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  1. Article ; Online: XerD-dependent integration of a novel filamentous phage Cf2 into the Xanthomonas citri genome.

    Yeh, Ting-Yu

    Virology

    2020  Volume 548, Page(s) 160–167

    Abstract: Filamentous Inoviridae phages integrate into the chromosome of plant pathogens Xanthomonas as prophages, but their diversity and integrative mechanism are not completely understood. A proviral Cf2 sequence of 6454 bases from Xanthomonas citri genome was ... ...

    Abstract Filamentous Inoviridae phages integrate into the chromosome of plant pathogens Xanthomonas as prophages, but their diversity and integrative mechanism are not completely understood. A proviral Cf2 sequence of 6454 bases from Xanthomonas citri genome was revived as infectious virions able to lysogenize its host. Unlike other Xanthomonas phages (Cf1c, φLf, Xf109, XacF1), Cf2 phage has RstA/RstB replication protein, and its attP has XerD binding arm and dif central region but lacks XerC binding arm. XerC+/Xf109 and XerD+/Cf2 attPs are in the opposite direction in phage genomes. Moreover, XerCD binding and XerD catalysis for strand exchange are necessary for site-specific integration of XerD+/Cf2 and XerC+/Xf109 attPs. Taken together, these results provide a new insight into the mechanism of XerCD-mediated recombination at XerD + attP.
    MeSH term(s) Attachment Sites, Microbiological ; Bacterial Proteins/genetics ; Bacterial Proteins/metabolism ; Bacteriophages/genetics ; Bacteriophages/physiology ; Genome, Bacterial ; Inovirus/genetics ; Inovirus/physiology ; Integrases/genetics ; Integrases/metabolism ; Lysogeny ; Virus Integration ; Xanthomonas/enzymology ; Xanthomonas/genetics ; Xanthomonas/virology
    Chemical Substances Bacterial Proteins ; Integrases (EC 2.7.7.-)
    Language English
    Publishing date 2020-06-23
    Publishing country United States
    Document type Journal Article
    ZDB-ID 200425-2
    ISSN 1096-0341 ; 0042-6822
    ISSN (online) 1096-0341
    ISSN 0042-6822
    DOI 10.1016/j.virol.2020.06.010
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  2. Article ; Online: Viral transmission and evolution dynamics of SARS-CoV-2 in shipboard quarantine.

    Yeh, Ting-Yu / Contreras, Gregory P

    Bulletin of the World Health Organization

    2021  Volume 99, Issue 7, Page(s) 486–495

    Abstract: Objective: To examine transmission and evolution of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) in shipboard quarantine of the Diamond Princess cruise ship.: Methods: We obtained the full SARS-CoV-2 genome sequences of 28 samples ... ...

    Abstract Objective: To examine transmission and evolution of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) in shipboard quarantine of the Diamond Princess cruise ship.
    Methods: We obtained the full SARS-CoV-2 genome sequences of 28 samples from the Global Initiative on Sharing All Influenza Data database. The samples were collected between 10 and 25 February 2020 and came for individuals who had been tested for SARS-CoV-2 during the quarantine on the cruise ship. These samples were later sequenced in either Japan or the United States of America. We analysed evolution dynamics of SARS-CoV-2 using computational tools of phylogenetics, natural selection pressure and genetic linkage.
    Findings: The SARS-CoV-2 outbreak in the cruise most likely originated from either a single person infected with a virus variant identical to the WIV04 isolates, or simultaneously with another primary case infected with a virus containing the 11083G > T mutation. We identified a total of 24 new viral mutations across 64.2% (18/28) of samples, and the virus evolved into at least five subgroups. Increased positive selection of SARS-CoV-2 were statistically significant during the quarantine (Tajima's
    Conclusion: The findings indicate that the 11083G > T mutation of SARS-CoV-2 spread during shipboard quarantine and arose through
    MeSH term(s) COVID-19/epidemiology ; COVID-19/genetics ; COVID-19/prevention & control ; COVID-19/transmission ; Databases, Nucleic Acid ; Disease Outbreaks ; Hong Kong/epidemiology ; Humans ; Mutation/genetics ; Phylogeny ; Quarantine ; RNA/genetics ; SARS-CoV-2/genetics ; SARS-CoV-2/isolation & purification ; Ships
    Chemical Substances RNA, recombinant ; RNA (63231-63-0)
    Language English
    Publishing date 2021-04-30
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 80213-x
    ISSN 1564-0604 ; 0042-9686 ; 0366-4996 ; 0510-8659
    ISSN (online) 1564-0604
    ISSN 0042-9686 ; 0366-4996 ; 0510-8659
    DOI 10.2471/BLT.20.255752
    Database MEDical Literature Analysis and Retrieval System OnLINE

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    In stock of ZB MED Cologne/Königswinter

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  3. Article: XerD-dependent integration of a novel filamentous phage Cf2 into the Xanthomonas citri genome

    Yeh, Ting-Yu

    Virology. 2020 Sept., v. 548

    2020  

    Abstract: Filamentous Inoviridae phages integrate into the chromosome of plant pathogens Xanthomonas as prophages, but their diversity and integrative mechanism are not completely understood. A proviral Cf2 sequence of 6454 bases from Xanthomonas citri genome was ... ...

    Abstract Filamentous Inoviridae phages integrate into the chromosome of plant pathogens Xanthomonas as prophages, but their diversity and integrative mechanism are not completely understood. A proviral Cf2 sequence of 6454 bases from Xanthomonas citri genome was revived as infectious virions able to lysogenize its host. Unlike other Xanthomonas phages (Cf1c, φLf, Xf109, XacF1), Cf2 phage has RstA/RstB replication protein, and its attP has XerD binding arm and dif central region but lacks XerC binding arm. XerC+/Xf109 and XerD+/Cf2 attPs are in the opposite direction in phage genomes. Moreover, XerCD binding and XerD catalysis for strand exchange are necessary for site-specific integration of XerD+/Cf2 and XerC+/Xf109 attPs. Taken together, these results provide a new insight into the mechanism of XerCD-mediated recombination at XerD + attP.
    Keywords Xanthomonas citri ; bacteriophages ; catalytic activity ; chromosomes ; genome ; virology
    Language English
    Dates of publication 2020-09
    Size p. 160-167.
    Publishing place Elsevier Inc.
    Document type Article
    Note NAL-AP-2-clean
    ZDB-ID 200425-2
    ISSN 1096-0341 ; 0042-6822
    ISSN (online) 1096-0341
    ISSN 0042-6822
    DOI 10.1016/j.virol.2020.06.010
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  4. Article ; Online: Potential Role of Neutrophil Extracellular Traps in Cardio-Oncology.

    Cheng, Kai-Hung / Contreras, Gregory P / Yeh, Ting-Yu

    International journal of molecular sciences

    2022  Volume 23, Issue 7

    Abstract: Cardiovascular toxicity has emerged as the leading cause of death in patients undergoing cancer treatment. Thus, cardio-oncology (CO) care must also focus on the prevention and management of related cardiovascular (CV) complications caused by cancer ... ...

    Abstract Cardiovascular toxicity has emerged as the leading cause of death in patients undergoing cancer treatment. Thus, cardio-oncology (CO) care must also focus on the prevention and management of related cardiovascular (CV) complications caused by cancer therapy. Neutrophil extracellular traps (NETs)-entities with released DNA, proteases, proinflammatory and prooxidative substances from blasted neutrophils-play an important role in cancer proliferation, propagation metastasis, and incident CV events (acute coronary syndrome, thromboembolic events, and heart failure). Although NETs have been shown to be involved in cancer progression and incident CV events, little is known about their relationship with cardio-oncology, especially on cancer treatment-related cardiovascular toxicity (CTRCT). This review aims to explore the evidence of the impact of NETs on cancer, CV events, and CTRCT, and the possible solutions based on the mechanism of NETs activation and NETs released toxic substances.
    MeSH term(s) DNA ; Extracellular Traps ; Humans ; Neoplasms/pathology ; Neutrophils/pathology
    Chemical Substances DNA (9007-49-2)
    Language English
    Publishing date 2022-03-25
    Publishing country Switzerland
    Document type Journal Article ; Review
    ZDB-ID 2019364-6
    ISSN 1422-0067 ; 1422-0067 ; 1661-6596
    ISSN (online) 1422-0067
    ISSN 1422-0067 ; 1661-6596
    DOI 10.3390/ijms23073573
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  5. Article ; Online: Emerging viral mutants in Australia suggest RNA recombination event in the SARS-CoV-2 genome.

    Yeh, Ting-Yu / Contreras, Gregory P

    The Medical journal of Australia

    2020  Volume 213, Issue 1, Page(s) 44–44.e1

    MeSH term(s) Australia ; Betacoronavirus/genetics ; COVID-19 ; COVID-19 Testing ; Clinical Laboratory Techniques/methods ; Coronavirus Infections/diagnosis ; Coronavirus Infections/genetics ; Genome, Viral/genetics ; Humans ; Pandemics ; Pneumonia, Viral/genetics ; Recombination, Genetic ; SARS-CoV-2 ; Whole Genome Sequencing
    Keywords covid19
    Language English
    Publishing date 2020-06-07
    Publishing country Australia
    Document type Letter
    ZDB-ID 186082-3
    ISSN 1326-5377 ; 0025-729X
    ISSN (online) 1326-5377
    ISSN 0025-729X
    DOI 10.5694/mja2.50657
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    In stock of ZB MED Cologne/Königswinter

    Ua VI Zs.398: Show issues Location:
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  6. Article ; Online: Comparisons of creativity performance and learning effects through digital game-based creativity learning between elementary school children in rural and urban areas.

    Yeh, Yu-Chu / Ting, Yu-Shan

    The British journal of educational psychology

    2023  Volume 93, Issue 3, Page(s) 790–805

    Abstract: Background: Creativity is an important ability for problem-solving in both personal life and academic learning. Few creativity studies have investigated the development of children's creativity in disadvantaged rural areas or compared the rural-urban ... ...

    Abstract Background: Creativity is an important ability for problem-solving in both personal life and academic learning. Few creativity studies have investigated the development of children's creativity in disadvantaged rural areas or compared the rural-urban differences through digital game-based creativity learning. Understanding such differences can help provide resources for promoting learning equality in creativity.
    Aims: This study aimed to compare the rural-urban difference in elementary school children's creativity performance and their learning effect through digital game-based creativity learning.
    Sample: Participants were 261 3rd and 4th graders and 194 5th and 6th graders from 6 elementary schools.
    Method: Two digital game-based creativity learning systems were employed to conduct a five-class experimental instruction. A creativity test and a questionnaire were also used.
    Results and conclusions: The results indicate that the urban middle graders, but not the upper graders, outperformed their rural counterparts in the creativity test before game-based learning. Nevertheless, all children got a higher score on the creativity test after the game-based learning, suggesting the employed creativity learning systems could be vehicles for improving elementary school children's creativity. However, the rural children gained less from the learning than the urban children, which may be due to weaker competencies in self-regulated learning. Further studies can employ an inventory to verify this and also consider providing more scaffolding of self-regulated learning to more disadvantaged students during digital game-based creativity learning. Additionally, the results of this study reflect the importance of self-determination and rewards in learning motivation. Appropriate rewards may encourage persistence in taking on challenges.
    MeSH term(s) Humans ; Child ; Schools ; Creativity ; Learning ; Students ; Rural Population
    Language English
    Publishing date 2023-03-01
    Publishing country England
    Document type Journal Article
    ZDB-ID 1501130-6
    ISSN 2044-8279 ; 0007-0998
    ISSN (online) 2044-8279
    ISSN 0007-0998
    DOI 10.1111/bjep.12594
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article ; Online: New insights into three trajectories of omicron-related all-cause death reduced by COVID-19 booster vaccination.

    Yeh, Yen-Po / Lin, Ting-Yu / Yao, Yu-Ching / Hsu, Chen-Yang / Yen, Amy Ming-Fang / Chen, Sam Li-Sheng / Chen, Tony Hsiu-Hsi

    Journal of infection and public health

    2024  Volume 17, Issue 5, Page(s) 735–740

    Abstract: Background: The trajectories of all-cause deaths linked to omicron infections are rarely studied, especially in relation to the efficacy of booster shots. For assessing three epidemiological death trajectories, including dying from COVID-19, dying with ... ...

    Abstract Background: The trajectories of all-cause deaths linked to omicron infections are rarely studied, especially in relation to the efficacy of booster shots. For assessing three epidemiological death trajectories, including dying from COVID-19, dying with COVID-19, and non-COVID-19 death, we offer a new COVID-19-and-death competing risk model that deals with the primary pathway (e.g., dying from COVID-19) competing with two other pathways.
    Methods: We applied this model to track three trajectories: deaths directly from COVID-19, deaths with COVID-19 as a contributing factor, and indirect non-COVID-19 deaths. The study used data from a Taiwanese cohort, covering periods of Omicron subvariants BA.2, BA.5, and BA.2.75. It focused on the effectiveness of monovalent and bivalent booster vaccines against these death trajectories.
    Results: The highest mortality was observed during the BA.2 phase, which decreased in the BA.5 period and increased again in the BA.2.75 period. Analyzing each trajectory, we noted similar trends in deaths directly from and with COVID-19, while non-COVID-19 deaths remained stable across subvariants. Booster vaccines reduced all-cause mortality by 58% (52%-62%) for BA.2, 70% (65%-75%) for BA.5%, and 75% (70%-80%) for BA.2.75, compared to incomplete vaccination. The reduction in deaths directly from COVID-19 was 66% (61%-72%) for BA.2, 78% (72%-84%) for BA.5%, and 85% (76%-93%) for BA.2.75. For deaths with COVID-19, the figures were 46% (36%-55%), 76% (68%-84%), and 90% (86%-95%). Additionally, the booster shots decreased non-COVID-19 deaths by 64% (63%-66%) for BA.2, 38% (36%-40%) for BA.5, and 19% (17%-21%) for BA.2.75.
    Conclusion: Our competing risk analysis is effective for monitoring all-cause death trajectories amidst various Omicron infections. It provides insights into the impact of booster vaccines, especially bivalent ones, and highlights the consequences of inadequate healthcare for vulnerable groups.
    MeSH term(s) Humans ; COVID-19/prevention & control ; Asian People ; Vaccination ; Vaccines
    Chemical Substances Vaccines
    Language English
    Publishing date 2024-03-06
    Publishing country England
    Document type Journal Article
    ZDB-ID 2467587-8
    ISSN 1876-035X ; 1876-0341
    ISSN (online) 1876-035X
    ISSN 1876-0341
    DOI 10.1016/j.jiph.2024.03.006
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  8. Journal ; Article ; Online: Viral transmission and evolution dynamics of SARS-CoV-2 in shipboard quarantine

    Yeh, Ting-Yu / Contreras, Gregory P

    2021  

    Abstract: ... 486 ... ...

    Abstract 486

    495
    Keywords Research
    Language English
    Publisher World Health Organization
    Document type Journal ; Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  9. Article ; Online: HemU and TonB1 contribute to hemin acquisition in

    Liao, Chun-Hsing / Lu, Hsu-Feng / Yang, Ching-Wei / Yeh, Ting-Yu / Lin, Yi-Tsung / Yang, Tsuey-Ching

    Frontiers in cellular and infection microbiology

    2024  Volume 14, Page(s) 1380976

    Abstract: Introduction: The hemin acquisition system is composed of an outer membrane TonB-dependent transporter that internalizes hemin into the periplasm, periplasmic hemin-binding proteins to shuttle hemin, an inner membrane transporter that transports hemin ... ...

    Abstract Introduction: The hemin acquisition system is composed of an outer membrane TonB-dependent transporter that internalizes hemin into the periplasm, periplasmic hemin-binding proteins to shuttle hemin, an inner membrane transporter that transports hemin into the cytoplasm, and cytoplasmic heme oxygenase to release iron. Fur and HemP are two known regulators involved in the regulation of hemin acquisition. The hemin acquisition system of
    Methods: Putative candidates responsible for hemin acquisition were selected via a homolog search and a whole-genome survey of
    Results: Smlt3896-hemU-exbB2-exbD2-tonB2
    Conclusion: HemA, HemU, and TonB1 contribute to hemin acquisition in
    MeSH term(s) Hemin ; Stenotrophomonas maltophilia/genetics ; Stenotrophomonas maltophilia/metabolism ; Bacterial Proteins/metabolism ; Membrane Proteins/genetics ; Membrane Proteins/metabolism ; Iron/metabolism
    Chemical Substances Hemin (743LRP9S7N) ; Bacterial Proteins ; Membrane Proteins ; Iron (E1UOL152H7)
    Language English
    Publishing date 2024-03-26
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2619676-1
    ISSN 2235-2988 ; 2235-2988
    ISSN (online) 2235-2988
    ISSN 2235-2988
    DOI 10.3389/fcimb.2024.1380976
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  10. Article: Effect of the COVID-19 Pandemic on Emergency Department Visits of Patients with an Emergent or Urgent Diagnosis.

    Yeh, Chung-Cheng / Chien, Cheng-Yu / Lee, Ting-Yu / Liu, Chun-Hao

    International journal of general medicine

    2022  Volume 15, Page(s) 4657–4664

    Abstract: Purpose: During the coronavirus disease 2019 (COVID-19) pandemic, visits to emergency department (ED) have significantly declined worldwide. The purpose of this study was to identify the trend of visits to ED for different diseases at the peak and slack ...

    Abstract Purpose: During the coronavirus disease 2019 (COVID-19) pandemic, visits to emergency department (ED) have significantly declined worldwide. The purpose of this study was to identify the trend of visits to ED for different diseases at the peak and slack stages of the epidemic.
    Patients and methods: This was a retrospective observational study conducted in a tertiary referral medical center in northern Taiwan. We recorded weekly ED visits for myocardial infarction with or without ST-elevation (STEMI or NSTEMI), out-of-hospital cardiac arrest (OHCA), acute stroke, and congestive heart failure from 2016 to 2021. We compared the local epidemic peak periods (calendar weeks 4-18, 2020 and calendar weeks 21-31, 2021) and its corresponding slack periods (calendar weeks 4-18, 2021 and calendar weeks 21-31, 2020) with the baseline period (2016-2019) using Mann-Whitney test to identify the difference.
    Results: We observed a significant decline in ED visits (median [Q1, Q3]) during the epidemic for OHCA (6 [5, 7] and 5 [4, 6], p = 0.046, for baseline and peak period, respectively, in week 4-18), acute stroke (41.5 [38, 47] and 35 [28, 39], p < 0.001, in week 4-18, 40 [35, 45] and 35 [28, 40], p = 0.039, in week 21-31) and CHF (28 [24.25, 33] and 19 [12, 23], p < 0.001, in week 4-18, 18 [16, 23] and 13 [11, 16], p = 0.001, in week 21-31). Significant difference was not observed in patients with NSTEMI and STEMI in both week 4-18 and 21-31, and cardiac arrest in week 21-31. There was a rebound in ED visits in the slack period.
    Conclusion: This study revealed that ED visits significantly declined during the COVID-19 epidemic and rebounded in the slack period. The trend was significant for acute stroke and heart failure but was relatively less prominent effect for emergent events such as cardiac arrest or myocardial infarction.
    Language English
    Publishing date 2022-05-04
    Publishing country New Zealand
    Document type Journal Article
    ZDB-ID 2452220-X
    ISSN 1178-7074
    ISSN 1178-7074
    DOI 10.2147/IJGM.S362615
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