Article
Environmental Sciences
Raoqiong Che, Meng Bai, Wei Xiao, Shiying Zhang, Yongxia Wang, Xiaolong Cui
Summary: Viruses are abundant in aquatic environments, but little is known about the differences and driving factors of viral communities in freshwater lakes. This study found that nutritional differences and prokaryotic communities may play an important role in shaping viral communities in plateau lakes.
SCIENCE OF THE TOTAL ENVIRONMENT
(2022)
Article
Biochemistry & Molecular Biology
Fengxia Zhou, Xiaorong Yu, Rui Gan, Kuan Ren, Chuangeng Chen, Chunyan Ren, Meng Cui, Yuchen Liu, Yiyang Gao, Shouyu Wang, Mingyu Yin, Tengjin Huang, Zhiwei Huang, Fan Zhang
Summary: CRISPRimmunity is a new web server for Acr prediction, identification of novel class 2 CRISPR-Cas loci, and dissection of key CRISPR-associated molecular events. It provides a comprehensive co-evolutionary perspective of the CRISPR-Cas and anti-CRISPR systems using a suite of CRISPR-oriented databases. The platform achieves high prediction accuracy and has been validated experimentally for cleavage activity.
NUCLEIC ACIDS RESEARCH
(2023)
Article
Ecology
Roth E. Conrad, Tomeu Viver, Juan F. Gago, Janet K. Hatt, Stephanus N. Venter, Ramon Rossello-Mora, Konstantinos T. Konstantinidis
Summary: Metagenomic surveys have shown that Salinibacter ruber population maintains immense intrapopulation gene diversity with an open pangenome, similar in size to randomly sampled Escherichia coli genomes. While most accessory genes became abundant under changing salinity conditions, the ecological advantage was not strong enough to eliminate diversity within the population.
Article
Plant Sciences
Xuejin Cui, Kehong Liu, Jie Huang, Shimin Fu, Qingdong Chen, Xu Liu, Changyong Zhou, Xuefeng Wang
Summary: This study evaluated the transmission route of citrus huanglongbing (HLB) in newly invaded regions of Sichuan, China and proposed strategies for preventing its spread. The results showed higher molecular variability of HLB in the newly invaded area compared to the endemic areas, as well as diversity in the mitochondrial genomes of the Asian citrus psyllid (ACP).
Article
Oncology
Marco Y. W. Zaki, Ahmed M. Fathi, Samara Samir, Nardeen Eldafashi, Kerolis Y. William, Maiiada Hassan Nazmy, Moustafa Fathy, Upkar S. Gill, Shishir Shetty
Summary: HBV and HCV infections are the most common risk factors for hepatocellular carcinoma (HCC), and their distribution affects the global prevalence of this type of liver cancer. Hepatitis infections elicit immune responses within the liver microenvironment, and persistent viral infection leads to chronic liver inflammation and carcinogenesis.
Article
Multidisciplinary Sciences
Hai-Jian Huang, Yi-Yuan Li, Zhuang-Xin Ye, Li-Li Li, Qing-Ling Hu, Yu-Juan He, Yu-Hua Qi, Yan Zhang, Ting Li, Gang Lu, Qian-Zhuo Mao, Ji-Chong Zhuo, Jia-Bao Lu, Zhong-Tian Xu, Zong-Tao Sun, Fei Yan, Jian-Ping Chen, Chuan-Xi Zhang, Jun-Min Li
Summary: Non-retroviral endogenous viral elements (nrEVEs) are widely dispersed in eukaryotic genomes, with their functions largely unknown. In this study, researchers discovered that a ToEVE in planthoppers has been domesticated and plays essential roles in their development and reproduction. Analysis of arthropod genomes suggests that nrEVEs may contribute to the functional diversity of arthropod genes.
NATURE COMMUNICATIONS
(2023)
Article
Biology
Jake L. Weissman, Ellinor O. Alseth, Sean Meaden, Edze R. Westra, Jed A. Fuhrman
Summary: A study has found that immune lag is extremely costly during viral outbreaks, even to completely immune hosts. This phenomenon of immune lag is only revealed by examining the early, transient dynamics of a host-virus system occurring immediately after viral challenge, and it is a basic parameter of microbial defense relevant to all post-infection antiviral defense systems.
PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
(2021)
Review
Immunology
Trevor Ung, Nakisha S. Rutledge, Adam M. Weiss, Aaron P. Esser-Kahn, Peter Deak
Summary: This article summarizes the recent advancements in immunology and chemistry in targeted vaccine technology, including cellular targets, methods of targeting, and their effects on immune responses. The relationships between vaccine targets and subsequent adaptive immune responses are crucial for effective vaccine design, potentially leading to more effective, disease-specific vaccines.
FRONTIERS IN IMMUNOLOGY
(2023)
Article
Immunology
Hyeong Won Kim, Mi-Kyeong Ko, So Hui Park, Seong Yun Hwang, Dong Hyeon Kim, Sun Young Park, Young-Joon Ko, Su-Mi Kim, Jong-Hyeon Park, Min Ja Lee
Summary: This study presents a novel foot-and-mouth disease (FMD) vaccine containing an immunomodulatory adjuvant, beta-D-glucan, to overcome the limitations of conventional vaccines. In vitro and in vivo experiments demonstrated that beta-D-glucan promoted innate and adaptive immune responses in mice and pigs. The vaccine induced a robust cellular immune response and provided early, mid-, and long-term immunity.
FRONTIERS IN IMMUNOLOGY
(2023)
Article
Immunology
Anthony Bosco
Summary: Respiratory syncytial virus (RSV) and Rhinovirus (RV) infections are major triggers of severe lower respiratory illnesses (sLRI) in infants and children and are strongly associated with the subsequent development of asthma. Recent findings highlight novel aspects of the interferon response in sLRI pathogenesis and provide new directions for mechanistic studies and drug development.
FRONTIERS IN IMMUNOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Fengqiang Cao, Sha Peng, Yaling An, Kun Xu, Tianyi Zheng, Lianpan Dai, Kenji Ogino, To Ngai, Yufei Xia, Guanghui Ma
Summary: Current vaccine delivery systems aim to replicate the natural dissemination of live pathogens, but fail to consider that pathogens evolve to evade the immune system. A new multi-layered aluminum hydroxide-stabilized emulsion (MASE) has been developed to dictate the delivery sequence of antigens, resulting in enhanced immune responses and decreased viral loads in H1N1 influenza and SARS-CoV-2 vaccines. By reversing the delivery sequence of surface antigen and core antigen, the inside-out strategy may offer major implications for enhanced vaccinations against enveloped RNA viruses.
SIGNAL TRANSDUCTION AND TARGETED THERAPY
(2023)
Review
Biochemistry & Molecular Biology
Minfei Xue, Tingting Feng, Zhiqiang Chen, Yongdong Yan, Zhengrong Chen, Jianfeng Dai
Summary: Protein acetylation is an important post-translational modification during viral infection, influencing viral replication, pathogenesis, and host antiviral responses. Improved methods for studying protein acetylation have opened up new opportunities for investigating its role in viral infection.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Plant Sciences
Chien-Jui Huang, Ting-Li Wu, Po-Xing Zheng, Jheng-Yang Ou, Chao-Ling Ting, Yao-Cheng Lin
Summary: Pectobacterium colocasium is a narrow-host-range phytopathogenic bacterium that causes soft rot of taro. It is found on the Chinese mainland and the island of Taiwan. Taro is a domesticated crop with a long history of cultivation in Taiwan and the Pacific islands. However, not much is known about Pectobacterium spp. from taro, especially from the Pacific islands.
Article
Biochemistry & Molecular Biology
Zhiwei Sui, Xinhua Dai, Qingbin Lu, Yulan Zhang, Min Huang, Shufen Li, Tao Peng, Jie Xie, Yongzhuo Zhang, Chunchen Wu, Jianbo Xia, Lianhua Dong, Jiayi Yang, Wenfeng Huang, Siyuan Liu, Ziquan Wang, Ke Li, Qingfang Yang, Xi Zhou, Ying Wu, Wei Liu, Xiang Fang, Ke Peng
Summary: More than 40% of COVID-19 patients are asymptomatic carriers, with low viral load and short-lived antibody responses. Their immune responses may not be strong enough to prevent SARS-CoV-2 reinfection, casting doubt on the efficacy of achieving herd immunity through natural infection.
SIGNAL TRANSDUCTION AND TARGETED THERAPY
(2021)
Review
Chemistry, Multidisciplinary
Yao Fan, Xiang Li, Lei Zhang, Zhi Zong, Fangwei Wang, Jun Huang, Linghui Zeng, Chong Zhang, Haiyan Yan, Long Zhang, Fangfang Zhou
Summary: SUMOylation, a post-translational modification, plays a crucial role in regulating viral protein function and host antiviral immune response. The review summarizes the regulatory mechanisms of SUMOylation in viral replication and infection, and discusses its potential therapeutic applications in virus-induced diseases.
Article
Virology
J. Brian Kimble, Delphine C. Malherbe, Michelle Meyer, Bronwyn M. Gunn, Marcus M. Karim, Philipp A. Ilinykh, Mathieu Iampietro, Khaled S. Mohamed, Surendra Negi, Pavlo Gilchuk, Kai Huang, Yuri I. Wolf, Werner Braun, James E. Crowe, Galit Alter, Alexander Bukreyev
JOURNAL OF VIROLOGY
(2019)
Article
Multidisciplinary Sciences
Lijia Yu, Deepak Kumar Tanwar, Emanuel Diego S. Penha, Yuri I. Wolf, Eugene V. Koonin, Malay Kumar Basu
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2019)
Article
Microbiology
Disa Backstrom, Natalya Yutin, Steffen L. Jorgensen, Jennah Dharamshi, Felix Homa, Katarzyna Zaremba-Niedwiedzka, Anja Spang, Yuri I. Wolf, Eugene V. Koonin, Thijs J. G. Ettema
Letter
Microbiology
Dimitry Y. Sorokin, Kira S. Makarova, Ben Abbas, Manuel Ferrer, Peter N. Golyshin, Erwin A. Galinski, Sergio Ciorda, Maria Carmen Mena, Alexander Y. Merkel, Yuri I. Wolf, Mark C. M. van Loosdrecht, Eugene V. Koonin
NATURE MICROBIOLOGY
(2019)
Article
Multidisciplinary Sciences
Noam Auslander, Yuri I. Wolf, Eugene V. Koonin
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2019)
Review
Genetics & Heredity
Eugene V. Koonin, Kira S. Makarova, Yuri I. Wolf, Mart Krupovic
NATURE REVIEWS GENETICS
(2020)
Letter
Multidisciplinary Sciences
Yoram Louzoun, Alexander E. Lobkovsky, Lee Levi, Yuri I. Wolf, Martin Maiers, Loren Gragert, Idan Alter, Eugene V. Koonin
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2019)
Article
Multidisciplinary Sciences
Madeleine Huber, Guilhem Faure, Sebastian Laass, Esther Kolbe, Kristina Seitz, Christina Wehrheim, Yuri I. Wolf, Eugene V. Koonin, Joerg Soppa
NATURE COMMUNICATIONS
(2019)
Article
Multidisciplinary Sciences
Jaime Iranzo, Yuri Wolf, Eugene Koonin, Itamar Sela
NATURE COMMUNICATIONS
(2019)
Review
Microbiology
Eugene V. Koonin, Valerian V. Dolja, Mart Krupovic, Arvind Varsani, Yuri I. Wolf, Natalya Yutin, F. Murilo Zerbini, Jens H. Kuhn
MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS
(2020)
Review
Microbiology
Kira S. Makarova, Yuri Wolf, Jaime Iranzo, Sergey A. Shmakov, Omer S. Alkhnbashi, Stan J. J. Brouns, Emmanuelle Charpentier, David Cheng, Daniel H. Haft, Philippe Horvath, Sylvain Moineau, Francisco J. M. Mojica, David Scott, Shiraz A. Shah, Virginijus Siksnys, Michael P. Terns, Ceslovas Venclovas, Malcolm F. White, Alexander F. Yakunin, Winston Yan, Feng Zhang, Roger A. Garrett, Rolf Backofen, John van der Oost, Rodolphe Barrangou, Eugene Koonin
NATURE REVIEWS MICROBIOLOGY
(2020)
Article
Multidisciplinary Sciences
Noam Auslander, Yuri Wolf, Eugene Koonin
NATURE COMMUNICATIONS
(2020)
Article
Microbiology
Eldar Yagmurov, Darya Tsibulskaya, Alexey Livenskyi, Marina Serebryakova, Yury Wolf, Sergei Borukhov, Konstantin Severinov, Svetlana Dubiley
Article
Microbiology
Jaime Iranzo, Guilhem Faure, Yuri Wolf, Eugene Koonin
FRONTIERS IN MICROBIOLOGY
(2020)
Article
Biochemical Research Methods
Michael Y. Galperin, David M. Kristensen, Kira S. Makarova, Yuri I. Wolf, Eugene V. Koonin
BRIEFINGS IN BIOINFORMATICS
(2019)