160 Works

Data from: Individual correlates of infectivity of influenza A virus infections in households

Tim Tsang, Vicky Fang, Kwok-Hung Chan, Dennis Ip, Gabriel Leung, J. S. Peiris, Benjamin Cowling, Simon Cauchemez, Tim K. Tsang, Vicky J. Fang, Dennis K. M. Ip, Gabriel M. Leung, J. S. Malik Peiris & Benjamin J. Cowling
Background: Identifying individual correlates of infectivity of influenza virus is important for disease control and prevention. Viral shedding is used as a proxy measure of infectivity in many studies. However, the evidence for this is limited. Methods: In a detailed study of influenza virus transmission within households in 2008–12, we recruited index cases with confirmed influenza infection from outpatient clinics, and followed up their household contacts for 7–10 days to identify secondary infections. We used...

Data from: The complex relationship of exposure to new Plasmodium infections and incidence of clinical malaria in Papua New Guinea

Natalie E. Hofmann, Stephan Karl, Rahel Wampfler, Benson Kiniboro, Albina Teliki, Jonah Iga, Andreea Waltmann, Inoni Betuela, Ingrid Felger, Leanne J. Robinson & Ivo Mueller
The molecular force of blood-stage infection (molFOB) is a quantitative surrogate metric for malaria transmission at population level and for exposure at individual level. Relationships between molFOB, parasite prevalence and clinical incidence were assessed in a treatment-to-reinfection cohort, where P.vivax (Pv) hypnozoites were eliminated in half the children by primaquine (PQ). Discounting relapses, children acquired equal numbers of new P. falciparum (Pf) and Pv blood-stage infections/year (Pf-molFOB=0-18, Pv-molFOB=0-23) resulting in comparable spatial and temporal patterns...

Data from: Spontaneous nongenetic variation of group size creates cheater-free groups of social microbes

Michaela Amherd, Gregory J. Velicer & Olaya Rendueles
In social organisms, cheaters that gain a fitness advantage by defecting from the costs of cooperation reduce the average level of cooperation in a population. Such “cheating load” can be severe enough to cause local extinction events when cooperation is necessary for survival, but can also mediate group-level selection against cheaters across spatially structured groups that vary in cheater frequency. In cheater-laden populations, such variation could be generated by the formation of new homogeneous groups...

Data from: Generalized bootstrap supports for phylogenetic analyses of protein sequences incorporating alignment uncertainty

Maria Chatzou, Evan Wade Floden, Paolo Di Tommaso, Olivier Gascuel & Cedric Notredame
Phylogenetic reconstructions are essential in genomics data analyses and depend on accurate multiple sequence alignment (MSA) models. We show that all currently available large-scale progressive multiple alignment methods are numerically unstable when dealing with amino-acid sequences. They produce significantly different output when changing sequence input order. We used the HOMFAM protein sequences dataset to show that on datasets larger than 100 sequences, this instability affects on average 21.5% of the aligned residues. The resulting Maximum...

High anal swab viral load predisposes adverse clinical outcomes in severe COVID-19 patients

Haibo Li, Lili Ren, Lulu Zhang, Yeming Wang, Li Guo, Conghui Wang, Yan Xiao, Ying Wang, Jian Rao, Xinming Wang, Ying Liu, Chaolin Huang, Xiaoying Gu, Guohui Fan, Hui Li, Binghuai Lu, Bin Cao & Jianwei Wang
To identify the association between the kinetics of viral load and clinical outcome in severe coronavirus disease 2019 (COVID-19) patients, a retrospective study was performed by involved 188 hospitalized severe COVID-19 patients in the LOTUS China trial. Among the collected 578 paired throat swab (TS) and anal swab (AS) samples, viral RNA was detected in 193 (33.4%) TS and 121 (20.9%) AS. A higher viral RNA load was found in TS than that of AS,...

Transcriptional adaptation of Mycobacterium ulcerans in an original mouse model: New insights into the regulation of mycolactone

Marie Robbe-Saule, Mélanie Foulon, Isabelle Poncin, Lucille Esnault, Hugo Varet, Rachel Legendre, Alban Besnard, Anna E. Grzegorzewicz, Mary Jackson, Stéphane Canaan, Laurent Marsollier & Estelle Marion
Mycobacterium ulcerans is the causal agent of Buruli ulcer, a chronic infectious disease and the third most common mycobacterial disease worldwide. Without early treatment, M. ulcerans provokes massive skin ulcers, caused by the mycolactone toxin, its main virulence factor. However, spontaneous healing may occur in Buruli ulcer patients several months or years after the disease onset. We have shown, in an original mouse model, that bacterial load remains high and viable in spontaneously healed tissues,...

High-performance visible-light active Sr-doped porous LaFeO3 semiconductor prepared via sol–gel method

Xi-Tao Yin, Hua Huang, Jie-Li Xie, Davoud Dastan, Jing Li, Ying Liu, Xiao-Ming Tan, Xiao-Chun Gao, Wahab Ali Shah & Xiao-Guang Ma
In this work, we have successfully fabricated Sr-doped porous LaFeO3 samples via sol–gel method. The results reveal that Sr2+ cation is effectively doped into LaFeO3 crystal lattice substituting La3+ cation. The visible light catalytic performance of the materials was evaluated by the degradation of 2,4-dichlorophenol (2,4-DCP) and Rhodamine B (RhB). The amount-optimized Sr-doped porous LaFeO3 sample exhibited outstanding visible-light catalytic performance for the degradation of the model pollutants compared to the porous LaFeO3 alone. The...

Additional file 1 of Lipopolysaccharide downregulates the expression of ZO-1 protein through the Akt pathway

Peicen Zou, Fan Yang, Yijun Ding, Di Zhang, Ying Liu, Jinjing Zhang, Dan Wu & Yajuan Wang
Supplementary Material 1

Lipopolysaccharide downregulates the expression of ZO-1 protein through the Akt pathway

Peicen Zou, Fan Yang, Yijun Ding, Di Zhang, Ying Liu, Jinjing Zhang, Dan Wu & Yajuan Wang
Abstract Background Neonatal bacterial meningitis is a common neonatal disease with high morbidity, and can cause serious sequelae when left untreated. Escherichia coli is the common pathogen, and its endotoxin, lipopolysaccharide (LPS) can damage the endothelial cells, increasing the permeability of the blood-brain barrier (BBB), leading to intracranial inflammation. However, the specific mechanism of bacterial meningitis induced by LPS damaging BBB remains unclear. In this study, the mouse brain microvascular endothelial (bEND.3) cells were used...

Synergistic effect of phytohormone-producing ectomycorrhizal fungus Suillus luteus and fertilizer GGR6 on Pinus massoniana growth

Xueyu Pan, Jinhua Zhang, Zhenwen Xue, Junfeng Liang, Yanliu Chen & Ying Liu
Suillus luteus is an edible ectomycorrhizal fungus (EMF). The S. luteus strain LS88 secretes many phytohormones, including salicylic acid (SA) and indole-3-carboxylic acid (ICA). LS88 was inoculated to the tree Pinus massoniana and treated with the amino acid fertilizer GGR6. Plant growth parameters, plant enzyme activities, chlorophyll contents, and element contents were analyzed. Our results show that GGR6 may help the development of S. luteus-P. massoniana ectomycorrhiza. Moreover, LS88 and GGR6 synergistically affect P. massoniana...

Synergistic effect of phytohormone-producing ectomycorrhizal fungus Suillus luteus and fertilizer GGR6 on Pinus massoniana growth

Xueyu Pan, Jinhua Zhang, Zhenwen Xue, Junfeng Liang, Yanliu Chen & Ying Liu
Suillus luteus is an edible ectomycorrhizal fungus (EMF). The S. luteus strain LS88 secretes many phytohormones, including salicylic acid (SA) and indole-3-carboxylic acid (ICA). LS88 was inoculated to the tree Pinus massoniana and treated with the amino acid fertilizer GGR6. Plant growth parameters, plant enzyme activities, chlorophyll contents, and element contents were analyzed. Our results show that GGR6 may help the development of S. luteus-P. massoniana ectomycorrhiza. Moreover, LS88 and GGR6 synergistically affect P. massoniana...

The transfer of maternal antibodies and dynamics of maternal and natural infection-induced antibodies against coxsackievirus A16 in Chinese children 0–13 years of age: a longitudinal cohort study

Jiaxin Zhou, Yonghong Zhou, Kaiwei Luo, Qiaohong Liao, Wen Zheng, Hui Gong, Huilin Shi, Shanlu Zhao, Kai Wang, Qi Qiu, Bingbing Dai, Lingshuang Ren, Lili Wang, Lidong Gao, Meng Xu, Nuolan Liu, Wanying Lu, Nan Zheng, Xinhua Chen, Zhiyuan Chen, Juan Yang, Simon Cauchemez & Hongjie Yu
Abstract Background A major hand-foot-and-mouth disease (HFMD) pathogen, coxsackievirus A16 (CVA16), has predominated in several of the last 10 years and caused the largest number of HFMD outbreaks between 2011 and 2018 in China. We evaluated the efficacy of maternal anti-CVA16 antibody transfer via the placenta and explored the dynamics of maternal and natural infection-induced neutralizing antibodies in children. Methods Two population-based longitudinal cohorts in southern China were studied during 2013–2018. Participants were enrolled in...

The transfer of maternal antibodies and dynamics of maternal and natural infection-induced antibodies against coxsackievirus A16 in Chinese children 0–13 years of age: a longitudinal cohort study

Jiaxin Zhou, Yonghong Zhou, Kaiwei Luo, Qiaohong Liao, Wen Zheng, Hui Gong, Huilin Shi, Shanlu Zhao, Kai Wang, Qi Qiu, Bingbing Dai, Lingshuang Ren, Lili Wang, Lidong Gao, Meng Xu, Nuolan Liu, Wanying Lu, Nan Zheng, Xinhua Chen, Zhiyuan Chen, Juan Yang, Simon Cauchemez & Hongjie Yu
Abstract Background A major hand-foot-and-mouth disease (HFMD) pathogen, coxsackievirus A16 (CVA16), has predominated in several of the last 10 years and caused the largest number of HFMD outbreaks between 2011 and 2018 in China. We evaluated the efficacy of maternal anti-CVA16 antibody transfer via the placenta and explored the dynamics of maternal and natural infection-induced neutralizing antibodies in children. Methods Two population-based longitudinal cohorts in southern China were studied during 2013–2018. Participants were enrolled in...

RegFus: A toolbox for distributed multi-view image registration and fusion

Marvin Albert, Arthur Michaut, Max Brambach, Francesca Peri, Darren Gilmour & Jean-Yves Tinevez
Multi-view and multi-tile light (sheet) microscopy techniques produce large image datasets that are unaligned in space, time and channels. We present a collection of algorithm implementations and scripts to register and fuse such datasets in 2-5d, including e.g. group registration and multi-view deconvolution. Based on the scientific python stack and leveraging dask for chunked and distributed image processing, RegFus enables the efficient reconstruction of large multi-view datasets with low memory requirements, allowing to make use...

A Facile machine learning multi-classification model for Streptococcus agalactiae clonal complexes

Jingxian Liu, Jing Zhao, Chencui Huang, Jingxu Xu, Wei Liu, Jiajia Yu, Hongyan Guan, Ying Liu & Lisong Shen
Abstract Background The clinical significance of group B streptococcus (GBS) was different among different clonal complexes (CCs), accurate strain typing of GBS would facilitate clinical prognostic evaluation, epidemiological investigation and infection control. The aim of this study was to construct a practical and facile CCs prediction model for S. agalactiae. Methods A total of 325 non-duplicated GBS strains were collected from clinical samples in Xinhua Hospital, Shanghai, China. Multilocus sequence typing (MLST) method was used...

Retrospective analysis of SARS-CoV-2 omicron invasion over delta in French regions in 2021–22: a status-based multi-variant model

Thomas Haschka, Elisabeta Vergu, Benjamin Roche, Chiara Poletto & Lulla Opatowski
Abstract Background SARS-CoV-2 is a rapidly spreading disease affecting human life and the economy on a global scale. The disease has caused so far more then 5.5 million deaths. The omicron outbreak that emerged in Botswana in the south of Africa spread around the globe at further increased rates, and caused unprecedented SARS-CoV-2 infection incidences in several countries. At the start of December 2021 the first omicron cases were reported in France. Methods In this...

Additional file 1 of Effects of physiotherapeutic scoliosis-specific exercise in patients with mild juvenile scoliosis

Wangshu Yuan, Hai Wang, Keyi Yu, Jianxiong Shen, Lixia Chen, Ying Liu & Youxi Lin
Additional file 1: Supplementary table 1. Data of the subjects in the observation group

Effects of physiotherapeutic scoliosis-specific exercise in patients with mild juvenile scoliosis

Wangshu Yuan, Hai Wang, Keyi Yu, Jianxiong Shen, Lixia Chen, Ying Liu & Youxi Lin
Abstract Study design A combined retrospective and prospective analysis on the therapeutic effect of physiotherapeutic scoliosis-specific exercise (PSSE) in mild juvenile idiopathic scoliosis (JIS) patients. Background At present, patients with mild JIS are generally treated by observation without any interventional treatment. This study analyzed the effects of PSSE on mild JIS, which provided a new approach for the treatment of JIS. Method A total of 52 patients with mild JIS (Cobb angle 10–19°), aged 4–9...

Additional file 2 of Enterovirus detection in different regions of Madagascar reveals a higher abundance of enteroviruses of species C in areas where several outbreaks of vaccine-derived polioviruses occurred

Richter Razafindratsimandresy, Marie-Line Joffret, Soa Fy Andriamandimby, Seta Andriamamonjy, Sendraharimanana Rabemanantsoa, Vincent Richard, Francis Delpeyroux, Jean-Michel Heraud & Maël Bessaud
Additional file 2: Figure S1. Detection of NPEVs on RD and HEp-2c cells.

Additional file 3 of Enterovirus detection in different regions of Madagascar reveals a higher abundance of enteroviruses of species C in areas where several outbreaks of vaccine-derived polioviruses occurred

Richter Razafindratsimandresy, Marie-Line Joffret, Soa Fy Andriamandimby, Seta Andriamamonjy, Sendraharimanana Rabemanantsoa, Vincent Richard, Francis Delpeyroux, Jean-Michel Heraud & Maël Bessaud
Additional file 3: Figure S2. Phylogenetic trees of Madagascan EV-Cs based on the 5′UTR, the VP1- and the 3D-encoding sequences. The isolates are colour-coded according to their respective type; triangles indicate isolates from this study, circles isolates from previous works.

Additional file 1 of Anxiety, depression, and sleep disturbances among people on long-term efavirenz-based treatment for HIV: a cross-sectional study in Beijing, China

Jing Xiao, Ying Liu, Bei Li, Leidan Zhang, Junyan Han & Hongxin Zhao
Additional file 1: Table S1. Correlation between age, CD4+ T cells counts and score of questionnaires. Table S2. Sensitivity analysis restricted to 10 and 8 years on ART for the correlation analysis.

Gravidity and malaria trends interact to modify P. falciparum densities and detectability in pregnancy: a 3-year prospective multi-site observational study

Glória Matambisso, Nanna Brokhattingen, Sónia Maculuve, Pau Cisteró, Henriques Mbeve, Anna Escoda, Judice Miguel, Elena Buetas, Ianthe de Jong, Boaventura Cuna, Cardoso Melembe, Nelo Ndimande, Gemma Porras, Haily Chen, Kevin K. A. Tetteh, Chris Drakeley, Benoit Gamain, Chetan Chitnis, Virander Chauhan, Llorenç Quintó, Beatriz Galatas, Eusébio Macete & Alfredo Mayor
Abstract Background Low-density Plasmodium falciparum infections prevail in low transmission settings, where immunity is expected to be minimal, suggesting an immune-independent effect on parasite densities. We aimed to describe parasite densities in pregnancy, and determine how gravidity and antibody-mediated immunity affect these, during a period of declining malaria transmission in southern Mozambique. Methods We documented P. falciparum infections at first antenatal care visits (n = 6471) between November 2016 and October 2019 in Ilha Josina...

Additional file 1 of A Facile machine learning multi-classification model for Streptococcus agalactiae clonal complexes

Jingxian Liu, Jing Zhao, Chencui Huang, Jingxu Xu, Wei Liu, Jiajia Yu, Hongyan Guan, Ying Liu & Lisong Shen
Additional file 1: Figure S1. The distribution of feature weights in S&A model. The S&A model was constructed based on antibiotic resistance and serotypes of S. agalactiae for clonal complexes prediction. Characteristics with higher weight having a greater effect on the model. Table S1. Comparison of models based on different combination of features in three categories in predicting each CCs of S. agalactiae.

Autoimmune diseases and cancers overlapping with myelin oligodendrocyte glycoprotein antibody-associated disease (MOGAD): A systematic review

Negar Molazadeh, Gauruv Bose, Itay Lotan & Michael Levy
BackgroundMyelin oligodendrocyte glycoprotein antibody-associated disease (MOGAD) has various similarities with AQP4-IgG-seropositive Neuromyelitis Optica Spectrum Disorder (AQP4-IgG + NMOSD) in terms of clinical presentations, magnetic resonance imaging (MRI) findings, and response to treatment. But unlike AQP4-IgG + NMOSD, which is known to coexist with various autoimmune diseases and cancers, an association of MOGAD with these conditions is less clear.MethodsWe conducted a systematic search in PubMed, Scopus, Web of Science, and Embase based on the preferred reporting...

Additional file 1 of Birth weight is associated with obesity and T2DM in adulthood among Chinese women

Pu Song, Hui Hui, Manqing Yang, Peng Lai, Yan Ye, Ying Liu & Xuekui Liu
Additional file 1. Questionnaire.

Registration Year

  • 2023
    12
  • 2022
    106
  • 2021
    11
  • 2020
    5
  • 2019
    1
  • 2018
    3
  • 2017
    6
  • 2016
    5
  • 2015
    2
  • 2014
    6

Resource Types

  • Text
    56
  • Dataset
    55
  • Collection
    25
  • Image
    22
  • Other
    2

Affiliations

  • Institut Pasteur
    160
  • Fudan University
    56
  • Tianjin Medical University
    56
  • Tongji University
    56
  • Henan University
    52
  • Third Hospital of Hebei Medical University
    52
  • Air Force Medical University
    52
  • Peking University Cancer Hospital
    52
  • Second Hospital of Hebei Medical University
    52
  • Affiliated Hospital of North Sichuan Medical College
    52