Article
Food Science & Technology
Jaegon Kim, Jong Pyo Chae, Gyeong-Hwuii Kim, Jae-Won Kim, Na-Gyeong Lee, Jun-Ok Moon, Sung-Sik Yoon
Summary: Pathogenic Escherichia coli infections are consistently reported annually. The study analyzed the basic characteristics and genome of a new bacteriophage phi CJ20 isolated from swine feces, identifying it as capable of infecting E. coli. Various assays were conducted to determine the structural features and genome of phi CJ20, providing a foundation for the development of treatment strategies for E. coli infections.
FOOD SCIENCE AND BIOTECHNOLOGY
(2021)
Article
Biotechnology & Applied Microbiology
Akiyo Suga, Marina Kawaguchi, Tetsuro Yonesaki, Yuichi Otsuka
Summary: This study identified key amino acid residues important for the interaction between gp37 protein in the distal tip (DT) region of T4 long tail fibers and OmpC of Escherichia coli, shedding light on the mechanism underlying phage host specificity. The results suggest that the shapes of both proteins at the binding interface play crucial roles in their interactions. Multiple phage mutants capable of adsorbing to various E. coli receptors were successfully isolated using a mutant T4 phage library with artificial modifications in the DT region, providing a basis for altering host specificity in phage therapy development.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2021)
Article
Microbiology
Marianne Nicolas, Angelina Trotereau, Antoine Culot, Arshnee Moodley, Robert Atterbury, Jeroen Wagemans, Rob Lavigne, Philippe Velge, Catherine Schouler
Summary: Colibacillosis, the most common bacterial disease affecting poultry, is primarily treated with antibiotics. However, the rise of multidrug-resistant avian-pathogenic Escherichia coli (APEC) necessitates the exploration of alternative treatments, such as phage therapy. This study isolates and characterizes 19 genetically diverse coliphages, and demonstrates their efficacy in controlling APEC infections in ovo.
MICROBIOLOGY SPECTRUM
(2023)
Article
Virology
Maik Wolfram-Schauerte, Nadiia Pozhydaieva, Madita Viering, Timo Glatter, Katharina Hoefer
Summary: This study used transcriptomics and proteomics to investigate the temporal patterns of transcription and protein synthesis during T4 phage infection of E. coli. The research revealed the degradation of E. coli transcripts and the stability of the host proteome during infection. Additionally, the correlation between phage transcriptome and proteome provided insights into post-transcriptional and translational regulation mechanisms.
Article
Virology
Ignacio Vasquez, Julio Retamales, Barbara Parra, Vimbai Machimbirike, James Robeson, Javier Santander
Summary: In this study, we sequenced and described the complete genome of the polyvalent phage fp01, which has 109,515 bp and 158 coding sequences (CDSs). The phage fp01 has genes with high similarity to Escherichia coli, Salmonella enterica, and Shigella sp. phages. The receptor-binding protein gp108 was identified as potentially responsible for fp01 polyvalent characteristics.
Article
Virology
Shuangshuang Wang, Erchao Sun, Yuepeng Liu, Baoqi Yin, Xueqi Zhang, Mengling Li, Qi Huang, Chen Tan, Ping Qian, Venigalla B. B. Rao, Pan Tao
Summary: Many bacteria have evolved defense systems, such as R-M and CRISPR-Cas, to protect themselves from phage infections. However, phages have developed various strategies to modify their genomes and counter these systems. This study focuses on phage T4 and its host E. coli, and reveals the landscape of nuclease-containing systems in E. coli, as well as the roles of T4 genome modifications in countering these defense systems. The findings demonstrate the multidimensional defense strategies of E. coli nuclease-containing systems and the complex interactions between phage genomes and defense mechanisms.
JOURNAL OF VIROLOGY
(2023)
Article
Multidisciplinary Sciences
Chandrasekar Karthika, Nambiraman Malligarjunan, Ravi Jothi, Thirupathi Kasthuri, Rajaiah Alexpandi, Arumugam Veera Ravi, Shunmugiah Karutha Pandian, Shanmugaraj Gowrishankar
Summary: The study explores the potential of phage therapy as an alternative antimicrobial treatment for multidrug-resistant Pseudomonas aeruginosa infection. Two novel virulent phages PSPa and APPa were investigated and shown to have therapeutic potential against P. aeruginosa. Both phages exhibited host specificity and significantly improved the survival rate of bacterial-infected zebrafish in vivo.
SCIENTIFIC REPORTS
(2023)
Article
Microbiology
Seung Yeup Lee, Roniya Thapa Magar, Hyo Jeong Kim, Kihyuck Choi, Seon-Woo Lee
Summary: In this study, 72 phages were isolated from various crop cultivated soils in Korea, with phage RpY1 chosen for further investigation due to its specificity for the targeted host. RpY1 was identified as a member of Podoviridae with a head measuring 60-70 nm, a genome size of 43,284 bp, showing no homology to known phages except for DU_RP_II infecting R. solanacearum.
CURRENT MICROBIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Xymena Stachurska, Krzysztof Cendrowski, Kamila Pachnowska, Agnieszka Piegat, Ewa Mijowska, Pawel Nawrotek
Summary: Little is known about the interactions between non-filamentous, complex-structured lytic phages and free, non-ordered nanoparticles. This study investigated the influence of various nanoparticles on a T4-like phage, revealing that the charge of the nanoparticles is crucial for the specific attachment of the phage, and most nanoparticles positively affected the phage lytic performance.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Cell Biology
Zhenyu Wang, Dan Gu, Yaming Hong, Yachen Hu, Jiaojie Gu, Yuanyue Tang, Xiaohui Zhou, Yunzeng Zhang, Xinan Jiao, Qiuchun Li
Summary: This study elucidates the genetic mechanism underlying the generation of Salmonella 4,[5],12:i:- from S. Typhimurium and demonstrates that Salmonella 4,[5],12:i:- exhibits higher colonization and survival abilities in mice.
Article
Biology
Dina El-Sayed, Tarek Elsayed, Nadia Amin, Ahmad Al-Shahaby, Hanan Goda
Summary: Shiga toxin-producing Escherichia coli (STEC) is a significant global public health and food safety concern. This study evaluated the applicability of phages as potential food bio-preservatives. The findings demonstrated that two promising phages exhibited strong lytic competence and varied survival rates in different environmental conditions.
Article
Multidisciplinary Sciences
Stanley Brown, Namiko Mitarai, Kim Sneppen
Summary: Bacteriophage A is a temperate virus that infects Escherichia coli. The protection provided by A lysogen against A-sensitive bacteria is sensitive to the growth state of the mixed culture and is dependent on bacterial energy metabolism. However, a mutant of the A tail protein, AJ, is not affected by these factors and retains its protective function.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Microbiology
Qiu-Yun Zhao, Wan Li, Run-Mao Cai, Yue-Wei Lu, Yan Zhang, Ping Cai, Mark A. Webber, Hong-Xia Jiang
Summary: The study revealed the presence of bla(CTX-M-27) gene in isolates of E. coli and Salmonella from food-producing animals in China. The genetic context and plasmid types of bla(CTX-M-27) were determined, showing a variety of plasmids carrying the gene in both bacteria. Additionally, stability tests indicated CTX-M-27 P1-like bacteriophage was more stable than plasmids in the absence of cefotaxime selective pressure.
VETERINARY MICROBIOLOGY
(2021)
Article
Microbiology
Jieun Choi, Yoonjee Chang
Summary: A newly isolated lytic bacteriophage EO1 has a broad antibacterial spectrum, including activity against Escherichia coli O157:H7 and Shigella. The complete genome sequence of phage EO1 was determined, revealing a length of 166,941 bp and G+C content of 35.46%.
MICROBIOLOGY RESOURCE ANNOUNCEMENTS
(2023)
Article
Biochemistry & Molecular Biology
Grant A. Rybnicky, Nicholas A. Fackler, Ashty S. Karim, Michael Kopke, Michael C. Jewett
Summary: Researchers have developed a software package called Spacer2PAM to predict and guide the experimental determination of functional PAM sequences for CRISPR-Cas systems. This package can generate targeted PAM libraries small enough to screen in difficult-to-transform organisms, thereby facilitating the use of endogenous CRISPR-Cas systems in industrial biotechnology and synthetic biology.
NUCLEIC ACIDS RESEARCH
(2022)
Article
Food Science & Technology
Yali Yu, Shiyao Guan, Xingfang Li, Bingyu Sun, Songyi Lin, Feng Gao
Summary: This study aims to evaluate the effects of different storage conditions on the physicochemical and functional properties of egg white peptide powders (EWPPs). The results showed that storage temperature and relative humidity significantly affected the antioxidant activity, secondary structure, solubility, and functional properties of EWPPs. Lower temperature and humidity storage conditions were beneficial for retaining the functional properties of EWPPs.
JOURNAL OF FOOD SCIENCE AND TECHNOLOGY-MYSORE
(2023)
Article
Pathology
Chen Chen, Xin He, Min Chen, Tianhai Du, Weiji Qin, Wenyi Jing, Hongying Zhang
Summary: The diagnostic value of MDM2 RNA in situ hybridization (RNA-ISH) was evaluated in distinguishing low-grade osteosarcoma (LGOS) and compared with MDM2 FISH and IHC. MDM2 RNA-ISH showed high sensitivity and specificity, with higher sensitivity than IHC.
Article
Engineering, Mechanical
Bingjie Dong, Guangxiong Chen, Qifeng Song, Xiaohang Feng, Juncai Zhang, Guiming Mei
Summary: Rail corrugation is a common form of damage in subway tracks. This study analyzed track wear at two sites on the Chengdu Metro and found corrugation on a 350 m radius track, but not on a 610 m radius curved track. A finite element model was used to predict corrugation and results showed that adjusting the material parameters of rail pads could reduce corrugation frequency.
Article
Crystallography
Ren-Song Chen, Jiang-Hai Ye, Yu-Ling Luo, Chuan-Yan Xu, Juan Zou, Jing-Jie Zhang
Summary: The substance is C24H30O7, with an orthorhombic crystal structure and space group P2(1)2(1)2(1). The cell parameters are a = 11.4194(5) angstrom, b = 13.4657(6) angstrom, c = 14.7549(7) angstrom, and the cell volume is 2268.86(18) angstrom(3) containing 4 molecules. The R-gt(F) value is 0.0535, the wR(ref)(F-2) value is 0.1239, and the temperature is 273(2) K.
ZEITSCHRIFT FUR KRISTALLOGRAPHIE-NEW CRYSTAL STRUCTURES
(2023)
Article
Engineering, Geological
Wenkun Yang, Jian Zhao, Jianchun Li, Zuyu Chen
Summary: This study proposes a new approach that combines a Bayesian boosting probabilistic model with two parallel machine learning methods for classifying the quality of rock masses. The results show that by using the binary classifier and Bayes boosting model, most of the predictions achieve a probability level greater than 0.9.
Article
Microbiology
Sajeet Haridas, Jennifer B. Gonzalez, Robert Riley, Maxim Koriabine, Mi Yan, Vivian Ng, Adriana Rightmyer, Igor V. Grigoriev, Scott E. Baker, B. Gillian Turgeon
Summary: In 1970, a devastating epidemic of Southern Corn Leaf Blight caused significant economic losses in the United States. The outbreak was caused by a highly virulent strain of the fungus Cochliobolus heterostrophus. This study used PacBio long-read sequencing to reveal the structure of the unique DNA responsible for the virulence of the pathogen and identified specific genetic elements involved in the integration of virulence-causing genes. These findings provide a foundation for future research on mechanisms of DNA acquisition from foreign sources.
Article
Multidisciplinary Sciences
Yuhe Shen, Rongxin Su, Dongzhao Hao, Xiaojian Xu, Meital Reches, Jiwei Min, Heng Chang, Tao Yu, Qing Li, Xiaoyu Zhang, Yuefei Wang, Yuefei Wang, Wei Qi
Summary: The authors investigated the effect of the molecular chirality of (L)-3,4-dihydroxyphenylalanine on the improved structural and thermal stability of self-assembled films by tyrosinase-induced oxidative polymerization. The pure enantiomers showed altered kinetics and morphology upon co-assembly, allowing the fabrication of layer-to-layer stacked nanostructures and films with enhanced properties. The (L+D)-racemic mixtures exhibited different molecular arrangements and self-assembly mechanisms, resulting in stronger intermolecular forces and increased elastic modulus.
NATURE COMMUNICATIONS
(2023)
Article
Computer Science, Information Systems
Wanyue Xu, Zhongzhi Zhang
Summary: This article investigates the impact of cover time in random walks on network applications, showing that the minimum cover time in complete graphs is N log N. However, complete graphs cannot simulate real-world networks with small average degree and scale-free small-world properties, and therefore the behavior of cover time in these networks is not well understood. By conducting experiments and studying model networks, it is found that sparse networks with scale-free small-world structure also exhibit N log N cover time behavior. This finding deepens the understanding of cover time in real-world networks and has potential implications in algorithm design.
ACM TRANSACTIONS ON KNOWLEDGE DISCOVERY FROM DATA
(2023)
Article
Chemistry, Multidisciplinary
Xiao-Zheng Wu, Wen-Jian Zhu, Li Lu, Chun-Mei Hu, Ying-Ying Zheng, Xin Zhang, Jing Lin, Jing-Ying Wu, Zhuang Xiong, Kun Zhang, Xue-Tao Xu
Summary: A series of betulinic acid derivatives were synthesized and evaluated for their anti alpha-glucosidase activities. All derivatives exhibited stronger activities than betulinic acid and acarbose. Compound 3q showed outstanding inhibitory activity, comparable to 1100 times stronger than acarbose. It functioned as a reversible and noncompetitive a-glucosidase inhibitor. The interaction of compound 3q with a-glucosidase caused conformational and secondary structure changes. Molecular docking simulation and physicochemical parameter assessment were also conducted.
ARABIAN JOURNAL OF CHEMISTRY
(2023)
Article
Cell Biology
Tao Chen, Xijie Fan, Guibin Li, Yuhuan Meng
Summary: As a tumor suppressor gene, IQGAP2 can affect cell proliferation in multiple tumor cell lines. However, the regulation network of cell proliferation caused by the deficiency of IQGAP2 in cells is still unclear. In this study, we used transcriptome, proteome, and phosphoproteome analyses to investigate the regulatory network of cell proliferation in IQGAP2 knockdown HaCaT and HEK293 cells. Our findings suggest that the dysregulation of the IQGAP2-mTOR molecular network leads to increased cell proliferation. We also demonstrated that IQGAP2 knockdown enhances the phosphorylation levels of AKT and S6K, resulting in increased cell proliferation. Additionally, inhibition of AKT and mTOR partially rescues abnormal cell proliferation by reducing hyperphosphorylation. These results indicate a potential connection between the mTOR signaling pathway and aberrant cell proliferation in IQGAP2 knockdown cells, providing a new therapeutic strategy for patients with IQGAP2 deficiency.
Article
Dentistry, Oral Surgery & Medicine
Jiacheng Wu, Jiakang Zhu, Xin Yang, Jing Gao, Haiyang Yu
Summary: This clinical report introduces a digital protocol for achieving symmetrical restoration of two central incisors using a custom-designed, two-in-one template, which provides a solution to the challenges of freehand direct composite resin restoration for highly skilled dentists.
JOURNAL OF PROSTHODONTICS-IMPLANT ESTHETIC AND RECONSTRUCTIVE DENTISTRY
(2023)
Article
Multidisciplinary Sciences
Letonia Copeland-Hardin, Tatjana Paunesku, Jeffrey S. Murley, Jasson Crentsil, Olga Antipova, LuXi Li, Evan Maxey, Qiaoling Jin, David Hooper, Barry Lai, Si Chen, Gayle E. Woloschak
Summary: Biobanks containing FFPE tissues from animals and atomic-bomb survivors are important for understanding radiation exposure effects. Optical imaging is often the only option for these old samples, but it provides no information about radioactive microparticles. This study demonstrates the use of XFM to generate elemental maps and identify radioactive micro-particulates in 35-year-old FFPE canine specimens.
SCIENTIFIC REPORTS
(2023)
Article
Engineering, Biomedical
Xinjie Chen, Miaoliang Ruan, Jinpei Wu, Tianci Zhu, Yaoqi Wen, Xiaodi Li, Caiqi Yang, Xiaoqing Zong, Pengfei Yuan, Yuchao Li, Xiaodie Yan, Wei Xue, Jian Dai
Summary: Magnetoferritin (M-HFn) and glucose oxidase (GOD) can form nanocomplexes, inhibiting enzyme activity. Red blood cell (RBC) nanovesicles are fabricated to inhibit the enzyme cascade during blood circulation and reactivate the cascade activity in the tumor site, providing a new approach for precise cancer therapy.
ADVANCED HEALTHCARE MATERIALS
(2023)
Article
Dentistry, Oral Surgery & Medicine
Ting Ma, Yan-hai Wang, Chun-xi Zhang, Dong-xu Liu
Summary: This study proposed a new diagnostic method for maxillary transverse deficiency and evaluated skeletal Class I and mild skeletal Class III groups. Pre-treatment data from 30 mild skeletal Class III and 30 skeletal Class I patients were collected and uploaded to the Emeiqi Case Management System to design ideal teeth positions. By measuring the width differences at these positions, it was found that there was a significant difference in the molar area between the two groups, which was mainly caused by the difference in mandible width.
Article
Public, Environmental & Occupational Health
Jiwei Xu, Ying Jing, Xinkun Xu, Xinyi Zhang, Yanfang Liu, Huagui He, Fei Chen, Yaolin Liu
Summary: This study employed multiscale geographically weighted regression to examine the relationship between 18 variables and cardiovascular disease. The results showed that multiscale geographically weighted regression was a better fit for the association analysis between the built environment and cardiovascular diseases. The built environment variables related to cardiovascular diseases can be divided into global variables and local variables, and at specific spatial scales, global variables had trivial spatial variation while local variables showed significant gradients.
