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spp., foodborne pathogens threatening neonates and infants

Qiming CHEN, Yang ZHU, Zhen QIN, Yongjun QIU, Liming ZHAO

《农业科学与工程前沿（英文）》 2018年第5卷第3期页码 330-339 doi: 10.15302/J-FASE-2018208

摘要：

Cronobacter spp. (formerly Enterobacter sakazakii) are special foodborne pathogens. Cronobacter infection can cause necrotizing enterocolitis, sepsis and meningitis in all age groups, especially neonates and infants, with a high fatality of up to 80%, although the infection is rare. Outbreaks of Cronobacter infection are epidemiologically proven to be associated with contaminated powdered infant formula (PIF). Cronobacter spp. can resist dry environments and survive for a long period in food with low water activity. Therefore, Cronobacter spp. have become serious pathogens of neonates and infants, as well as in the dairy industry. In this review, we present the taxonomy, pathogenesis, resistance, detection and control of Cronobacter spp.

关键词： Cronobacter spp. desiccation resistance pathogen control pathogen detection powdered infant formula

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Systems understanding of plant–pathogen interactions through genome-wide protein–protein interaction

Hong LI,Ziding ZHANG

《农业科学与工程前沿（英文）》 2016年第3卷第2期页码 102-112 doi: 10.15302/J-FASE-2016100

摘要： Plants are frequently affected by pathogen infections. To effectively defend against such infections, two major modes of innate immunity have evolved in plants; pathogen-associated molecular pattern-triggered immunity and effector-triggered immunity. Although the molecular components as well as the corresponding pathways involved in these two processes have been identified, many aspects of the molecular mechanisms of the plant immune system remain elusive. Recently, the rapid development of omics techniques (e.g., genomics, proteomics and transcriptomics) has provided a great opportunity to explore plant–pathogen interactions from a systems perspective and studies on protein–protein interactions (PPIs) between plants and pathogens have been carried out and characterized at the network level. In this review, we introduce experimental and computational identification methods of PPIs, popular PPI network analysis approaches, and existing bioinformatics resources/tools related to PPIs. Then, we focus on reviewing the progress in genome-wide PPI networks related to plant–pathogen interactions, including pathogen-centric PPI networks, plant-centric PPI networks and interspecies PPI networks between plants and pathogens. We anticipate genome-wide PPI network analysis will provide a clearer understanding of plant–pathogen interactions and will offer some new opportunities for crop protection and improvement.

关键词： plant–pathogen interactions systems biology omics plant immunity protein–protein interaction network

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Locally enhanced electric field treatment (LEEFT) for water disinfection

Jianfeng Zhou, Ting Wang, Cecilia Yu, Xing Xie

《环境科学与工程前沿（英文）》 2020年第14卷第5期 doi: 10.1007/s11783-020-1253-x

摘要： • Nanowire-assisted LEEFT is applied for water disinfection with low voltages. • LEEFT inactivates bacteria by disrupting cell membrane through electroporation. • Multiple electrodes and device configurations have been developed for LEEFT. • The LEEFT is low-cost, highly efficient, and produces no DBPs. • The LEEFT can potentially be applicable for water disinfection at all scales. Water disinfection is a critical step in water and wastewater treatment. The most widely used chlorination suffers from the formation of carcinogenic disinfection by-products (DBPs) while alternative methods (e.g., UV, O3, and membrane filtration) are limited by microbial regrowth, no residual disinfectant, and high operation cost. Here, a nanowire-enabled disinfection method, locally enhanced electric field treatment (LEEFT), is introduced with advantages of no chemical addition, no DBP formation, low energy consumption, and efficient microbial inactivation. Attributed to the lightning rod effect, the electric field near the tip area of the nanowires on the electrode is significantly enhanced to inactivate microbes, even though a small external voltage (usually<5 V) is applied. In this review, after emphasizing the significance of water disinfection, the theory of the LEEFT is explained. Subsequently, the recent development of the LEEFT technology on electrode materials and device configurations are summarized. The disinfection performance is analyzed, with respect to the operating parameters, universality against different microorganisms, electrode durability, and energy consumption. The studies on the inactivation mechanisms during the LEEFT are also reviewed. Lastly, the challenges and future research of LEEFT disinfection are discussed.

关键词： Water treatment Nanotechnology Pathogen inactivation Electroporation Nanowire Chemical-free

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Clinical manifestations and pathogen characteristics in children admitted for suspected COVID-19

Xiaofang Cai, Hanlan Jiang, Simin Zhang, Shengying Xia, Wenhui Du, Yaoling Ma, Tao Yu, Wenbin Li

《医学前沿（英文）》 2020年第14卷第6期页码 776-785 doi: 10.1007/s11684-020-0820-7

摘要： Coronavirus disease 2019 (COVID-19), which is caused by severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2), has spread around the world. However, approaches to distinguish COVID-19 from pneumonia caused by other pathogens have not yet been reported. We retrospectively analyzed the clinical data of 97 children with probable COVID-19. A total of 13 (13.4%) patients were confirmed positive for SARS-CoV-2 infection by nucleic acid RT-PCR testing, and 41 (42.3%) patients were found to be infected with other pathogens. Notably, no pathogen was detected in 43 (44.3%) patients. Among all patients, 25 (25.8%) had familial cluster exposure history, and 52 (53.6%) had one or more coexisting conditions. Fifteen (15.5%) patients were admitted or transferred to the PICU. In the 11 confirmed COVID-19 cases, 5 (45.5%) and 7 (63.6%) were positive for IgM and IgG against SARS-CoV-2, respectively. In 22 patients with suspected COVID-19, 1 (4.5%) was positive for IgG but negative for IgM. The most frequently detected pathogen was (29, 29.9%). One patient with confirmed COVID 19 died. Our results strongly indicated that the detection of asymptomatic COVID 19 or coexisting conditions must be strengthened in pediatric patients. These cases may be difficult to diagnose as COVID-19 unless etiologic analysis is conducted. A serologic test can be a useful adjunctive diagnostic tool in cases where SARS-CoV-2 infection is highly suspected but the nucleic acid test is negative.

关键词： coronavirus disease 2019 pediatrics emergency retrospective investigation severe acute respiratory syndrome coronavirus 2

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PathogenTrack and Yeskit: tools for identifying intracellular pathogens from single-cell RNA-sequencing datasets as illustrated by application to COVID-19

《医学前沿（英文）》 2022年第16卷第2期页码 251-262 doi: 10.1007/s11684-021-0915-9

摘要： Pathogenic microbes can induce cellular dysfunction, immune response, and cause infectious disease and other diseases including cancers. However, the cellular distributions of pathogens and their impact on host cells remain rarely explored due to the limited methods. Taking advantage of single-cell RNA-sequencing (scRNA-seq) analysis, we can assess the transcriptomic features at the single-cell level. Still, the tools used to interpret pathogens (such as viruses, bacteria, and fungi) at the single-cell level remain to be explored. Here, we introduced PathogenTrack, a python-based computational pipeline that uses unmapped scRNA-seq data to identify intracellular pathogens at the single-cell level. In addition, we established an R package named Yeskit to import, integrate, analyze, and interpret pathogen abundance and transcriptomic features in host cells. Robustness of these tools has been tested on various real and simulated scRNA-seq datasets. PathogenTrack is competitive to the state-of-the-art tools such as Viral-Track, and the first tools for identifying bacteria at the single-cell level. Using the raw data of bronchoalveolar lavage fluid samples (BALF) from COVID-19 patients in the SRA database, we found the SARS-CoV-2 virus exists in multiple cell types including epithelial cells and macrophages. SARS-CoV-2-positive neutrophils showed increased expression of genes related to type I interferon pathway and antigen presenting module. Additionally, we observed the Haemophilus parahaemolyticus in some macrophage and epithelial cells, indicating a co-infection of the bacterium in some severe cases of COVID-19. The PathogenTrack pipeline and the Yeskit package are publicly available at GitHub.

关键词： scRNA-seq intracellular pathogen microbe COVID-19 SARS-CoV-2

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Composition, dispersion, and health risks of bioaerosols in wastewater treatment plants: A review

Yunping Han, Lin Li, Ying Wang, Jiawei Ma, Pengyu Li, Chao Han, Junxin Liu

《环境科学与工程前沿（英文）》 2021年第15卷第3期 doi: 10.1007/s11783-020-1330-1

摘要： Abstract • Bioaerosols are produced in the process of wastewater biological treatment. • The concentration of bioaerosol indoor is higher than outdoor. • Bioaerosols contain large amounts of potentially pathogenic biomass and chemicals. • Inhalation is the main route of exposure of bioaerosol. • Both the workers and the surrounding residents will be affected by the bioaerosol. Bioaerosols are defined as airborne particles (0.05–100 mm in size) of biological origin. They are considered potentially harmful to human health as they can contain pathogens such as bacteria, fungi, and viruses. This review summarizes the most recent research on the health risks of bioaerosols emitted from wastewater treatment plants (WWTPs) in order to improve the control of such bioaerosols. The concentration and size distribution of WWTP bioaerosols; their major emission sources, composition, and health risks; and considerations for future research are discussed. The major themes and findings in the literature are as follows: the major emission sources of WWTP bioaerosols include screen rooms, sludge-dewatering rooms, and aeration tanks; the bioaerosol concentrations in screen and sludge-dewatering rooms are higher than those outdoors. WWTP bioaerosols contain a variety of potentially pathogenic bacteria, fungi, antibiotic resistance genes, viruses, endotoxins, and toxic metal(loid)s. These potentially pathogenic substances spread with the bioaerosols, thereby posing health risks to workers and residents in and around the WWTP. Inhalation has been identified as the main exposure route, and children are at a higher risk of this than adults. Future studies should identify emerging contaminants, establish health risk assessments, and develop prevention and control systems.

关键词： Wastewater treatment plant Bioaerosols Pathogen Dispersion Risk assessment

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Effect of the ultraviolet/chlorine process on microbial community structure, typical pathogens, and antibiotic resistance genes in reclaimed water

《环境科学与工程前沿（英文）》 2022年第16卷第8期 doi: 10.1007/s11783-022-1521-z

摘要：

• UV/chlorine can effectively remove VBNC pathogens, ARGs and MGEs in reclaimed water.

关键词： UV/chlorine process Pathogen Antibiotic resistance genes High-throughput qPCR Reclaimed water

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海水养殖细菌性病害检测方法研究进展

肖婧凡,王玥,张元兴,雷霁霖

《中国工程科学》 2014年第16卷第9期页码 10-15

摘要：

随着我国水产养殖业的不断发展，各种病害问题日益突出。细菌性病害在所有病害中占到相当大的比例，因此其检测方法的开发在水产养殖病害发现、防治、无公害水产品生产及卫生质量检验中均具有重要意义。本文对近年来国内外主要海水养殖细菌性病害检测方法的研究情况进行综述，介绍了主要细菌性病害的各种检测方法的原理、应用及其研究进展，为我国今后建立水产养殖细菌性病害检测方法标准及推动相应检测产品的商品化提供参考。

关键词：水产养殖细菌性病害检测方法

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鲆鲽类主要病原菌抗血清的制备及应用

甘玲玲,王蔚芳,高淳仁,雷霁霖

《中国工程科学》 2014年第16卷第9期页码 21-25

摘要：

用甲醛灭活8 种鲆鲽类主要病原菌，鳗弧菌(Vibrio anguillarum)、创伤弧菌(Vibrio vulnificus)、哈维弧菌(Vibrio harveyi)、溶藻弧菌(Vibrio alginolyticus)、嗜水气单胞菌(Aeromonas hydrophila)、豚鼠气单胞菌(Aeromonas caviae)、迟缓爱德华菌(Edwardsiella tarda)、鮰爱德华菌(Edwardsiella ictaluri)，制备成灭活疫苗后肌肉注射大菱鲆获得各病原菌抗血清。结果显示，抗鳗弧菌血清、抗哈维弧菌血清、抗豚鼠气单胞菌血清、抗鮰爱德华菌效价为1:6 400，抗创伤弧菌血清、抗溶藻弧菌血清、抗嗜水气单胞菌血清效价为1:12 800，抗迟缓爱德华菌血清效价为1:102 400。应用ELISA分析各抗血清与8 种病原菌及迟缓爱德华菌蛋白的免疫交叉反应，结果显示，各病原菌与其本身的抗血清反应最为强烈，而与其他抗血清间有程度不等的交叉反应；菌蛋白与其相应的菌抗血清反应最为强烈，与其他病原菌抗血清反应较弱。本研究所制备的病原菌抗血清效价较高，且具有特异性，可应用于鲆鲽类病原菌的检测。

关键词：鲆鲽类疫苗抗血清病原菌

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New insights in the battle between wheat and

Chunlei TANG,Xiaojie WANG,Yulin CHENG,Minjie LIU,Mengxin ZHAO,Jinping WEI,Zhensheng KANG

《农业科学与工程前沿（英文）》 2015年第2卷第2期页码 101-114 doi: 10.15302/J-FASE-2015068

摘要： Wheat stripe rust caused by f. sp. ( ) poses a great threat to wheat production worldwide. The rapid change in virulence of leads to a loss of resistance in currently resistant wheat cultivars, which results in frequent disease epidemics. Therefore, a major focus is currently placed on investigating the molecular mechanisms underlying this rapid variation of pathogenicity and coevolving wheat resistance. Limited by the lack of a system for stable transformation of and the difficulties in wheat transformation, it is not easy to generate deeper insights into the wheat- interaction using established genetic methods. Nevertheless, considerable effort has been made to unravel the wheat- interaction and significant progress is being made. Histology and cytology have revealed basic details of infection strategies and defense responses during wheat- interactions, identified cellular components involved in wheat- interactions, and have helped to elucidate their role in the infection process or in plant defense responses. Transcriptome and genome sequencing has revealed the molecular features and dynamics of the wheat- pathosystem. Extensive molecular analyses have led to the identification of major components in the wheat resistance response and in virulence. Studies of wheat- interactions have now entered a new phase in which cellular and molecular approaches are being used. This review focuses on the cellular biology of wheat- interactions and integrates the emerging data from molecular analyses with the histocytological observations.

关键词： wheat strip rust Puccinia striiformis f. sp. tritici host defense pathogen virulence biotrophic fungus

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WHEAT STRIPE RUST AND INTEGRATION OF SUSTAINABLE CONTROL STRATEGIES IN CHINA

《农业科学与工程前沿（英文）》 2022年第9卷第1期页码 37-51 doi: 10.15302/J-FASE-2021405

摘要：

Stripe (yellow) rust caused by Puccinia striiformis f. sp. tritici occurs in almost all wheat-producing regions of the world. Severe countrywide epidemics in China have caused substantial yield losses. Growing resistant cultivars is the best strategy to control this disease but the pathogen can overcome resistance in wheat cultivars. The high variation in the virulence of the pathogen combined with the large areas of susceptible wheat cultivars enables the pathogen population to increase rapidly and disperse over long distances under favorable environmental conditions, resulting in severe pandemics within cropping seasons. Current stripe rust control measures are based on many years of research including the underlying epidemiology regarding year-to-year survival of the pathogen, pathways of pathogen dispersal within seasons and years, the role of P. striiformis sexual hybridization, the use of resistance sources in breeding programs, and year-round surveillance of national wheat crops that are present in different parts of the country throughout the year. All these strategies depend on accurate prediction of epidemics, more precise use of fungicides to meet national requirements and better deployment of resistance genes. New ideas with potential application in sustainable protection of stripe rust include negative regulatory gene editing, resistance gene overexpression and biological control based on microbiomes.

关键词： sustainable disease control / integrated control Puccinia striiformis / Triticum aestivum

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A systematic review of current and emergent manipulator control approaches

Syed Ali AJWAD,Jamshed IQBAL,Muhammad Imran ULLAH,Adeel MEHMOOD

《机械工程前沿（英文）》 2015年第10卷第2期页码 198-210 doi: 10.1007/s11465-015-0335-0

摘要：

Pressing demands of productivity and accuracy in today’s robotic applications have highlighted an urge to replace classical control strategies with their modern control counterparts. This recent trend is further justified by the fact that the robotic manipulators have complex nonlinear dynamic structure with uncertain parameters. Highlighting the authors’ research achievements in the domain of manipulator design and control, this paper presents a systematic and comprehensive review of the state-of-the-art control techniques that find enormous potential in controlling manipulators to execute cutting-edge applications. In particular, three kinds of strategies, i.e., intelligent proportional-integral-derivative (PID) scheme, robust control and adaptation based approaches, are reviewed. Future trend in the subject area is commented. Open-source simulators to facilitate controller design are also tabulated. With a comprehensive list of references, it is anticipated that the review will act as a first-hand reference for researchers, engineers and industrial-interns to realize the control laws for multi-degree of freedom (DOF) manipulators.

关键词： robot control robust and nonlinear control adaptive control intelligent control industrial manipulators robotic arm

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An integrated approach for machine-learning-based system identification of dynamical systems under control: application towards the model predictive control of a highly nonlinear reactor system

《化学科学与工程前沿（英文）》 2022年第16卷第2期页码 237-250 doi: 10.1007/s11705-021-2058-6

摘要： Advanced model-based control strategies, e.g., model predictive control, can offer superior control of key process variables for multiple-input multiple-output systems. The quality of the system model is critical to controller performance and should adequately describe the process dynamics across its operating range while remaining amenable to fast optimization. This work articulates an integrated system identification procedure for deriving black-box nonlinear continuous-time multiple-input multiple-output system models for nonlinear model predictive control. To showcase this approach, five candidate models for polynomial and interaction features of both output and manipulated variables were trained on simulated data and integrated into a nonlinear model predictive controller for a highly nonlinear continuous stirred tank reactor system. This procedure successfully identified system models that enabled effective control in both servo and regulator problems across wider operating ranges. These controllers also had reasonable per-iteration times of ca. 0.1 s. This demonstration of how such system models could be identified for nonlinear model predictive control without prior knowledge of system dynamics opens further possibilities for direct data-driven methodologies for model-based control which, in the face of process uncertainties or modelling limitations, allow rapid and stable control over wider operating ranges.

关键词： nonlinear model predictive control black-box modeling continuous-time system identification machine learning industrial applications of process control

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Emerging contaminant control: From science to action

《环境科学与工程前沿（英文）》 2022年第16卷第6期 doi: 10.1007/s11783-022-1559-y

摘要： Since the concept of emerging contaminants (ECs) was first proposed in 2001, the global scientific research of ECs has developed rapidly. In the past decades, great progress has been achieved in the scientific research of ECs in China, including the establishment of EC analysis method system, the evaluation of the pollution status, pollution characteristics and environmental risk of ECs in typical regions of China, and establishment of EC control technology system. Continuous progress in scientific research of ECs promoted China’s action on EC control. It is planned that the environmental risk of ECs will be generally controlled by 2035 in China. Priority ECs should be screened for environmental management. Although great efforts have been made, the EC control in China still faces tremendous challenges. It is necessary to bridge the gap between scientific research and decision-making management. Based on the science and technology study, various measures such as engineering, policy management and public participation should be combinedly adopted for EC control.

关键词： Emerging contaminants Priority pollutants PPCPs POPs Control policy

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A hybrid LQR-PID control design for seismic control of buildings equipped with ATMD

Amir Hossein HEIDARI, Sadegh ETEDALI, Mohamad Reza JAVAHERI-TAFTI

《结构与土木工程前沿（英文）》 2018年第12卷第1期页码 44-57 doi: 10.1007/s11709-016-0382-6

摘要： This paper presents an efficient hybrid control approach through combining the idea of proportional-integral-derivative (PID) controller and linear quadratic regulator (LQR) control algorithm. The proposed LQR-PID controller, while having the advantage of the classical PID controller, is easy to implement in seismic-excited structures. Using an optimization procedure based on a cuckoo search (CS) algorithm, the LQR-PID controller is designed for a seismic- excited structure equipped with an active tuned mass damper (ATMD). Considering four earthquakes, the performance of the proposed LQR-PID controller is evaluated. Then, the results are compared with those given by a LQR controller. The simulation results indicate that the LQR-PID performs better than the LQR controller in reduction of seismic responses of the structure in the terms of displacement and acceleration of stories of the structure.

关键词： seismic control tuned mass dampers cuckoo search PID controller LQR controller

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标题作者时间类型操作

spp., foodborne pathogens threatening neonates and infants

Qiming CHEN, Yang ZHU, Zhen QIN, Yongjun QIU, Liming ZHAO

期刊论文

Systems understanding of plant–pathogen interactions through genome-wide protein–protein interaction

Hong LI,Ziding ZHANG

期刊论文

Locally enhanced electric field treatment (LEEFT) for water disinfection

Jianfeng Zhou, Ting Wang, Cecilia Yu, Xing Xie

期刊论文

Clinical manifestations and pathogen characteristics in children admitted for suspected COVID-19

Xiaofang Cai, Hanlan Jiang, Simin Zhang, Shengying Xia, Wenhui Du, Yaoling Ma, Tao Yu, Wenbin Li

期刊论文

PathogenTrack and Yeskit: tools for identifying intracellular pathogens from single-cell RNA-sequencing datasets as illustrated by application to COVID-19

期刊论文

Composition, dispersion, and health risks of bioaerosols in wastewater treatment plants: A review

Yunping Han, Lin Li, Ying Wang, Jiawei Ma, Pengyu Li, Chao Han, Junxin Liu

期刊论文

Effect of the ultraviolet/chlorine process on microbial community structure, typical pathogens, and antibiotic resistance genes in reclaimed water

期刊论文

海水养殖细菌性病害检测方法研究进展

肖婧凡,王玥,张元兴,雷霁霖

期刊论文

鲆鲽类主要病原菌抗血清的制备及应用

甘玲玲,王蔚芳,高淳仁,雷霁霖

期刊论文

New insights in the battle between wheat and

Chunlei TANG,Xiaojie WANG,Yulin CHENG,Minjie LIU,Mengxin ZHAO,Jinping WEI,Zhensheng KANG

期刊论文

WHEAT STRIPE RUST AND INTEGRATION OF SUSTAINABLE CONTROL STRATEGIES IN CHINA

期刊论文

A systematic review of current and emergent manipulator control approaches

Syed Ali AJWAD,Jamshed IQBAL,Muhammad Imran ULLAH,Adeel MEHMOOD

期刊论文

An integrated approach for machine-learning-based system identification of dynamical systems under control: application towards the model predictive control of a highly nonlinear reactor system

期刊论文

Emerging contaminant control: From science to action

期刊论文

A hybrid LQR-PID control design for seismic control of buildings equipped with ATMD

Amir Hossein HEIDARI, Sadegh ETEDALI, Mohamad Reza JAVAHERI-TAFTI

期刊论文