Article
Virology
Minhua Qian, Dengfeng Li, Wei Lin, Lingting Pan, Wencai Liu, Qin Zhou, Ruqian Cai, Fei Wang, Junquan Zhu, Yigang Tong
Summary: In this study, a novel freshwater cyanophage Mae-Yong924-1 was isolated, which has unique morphology and genome sequence. It can infect diverse cyanobacteria strains and shows significant differences from known viruses.
Article
Virology
Fei Wang, Dengfeng Li, Ruqian Cai, Lingting Pan, Qin Zhou, Wencai Liu, Minhua Qian, Yigang Tong
Summary: This study isolated a cyanophage named Mae-Yong1326-1 using Microcystis aeruginosa as an indicator host. Mae-Yong1326-1 has a wide host range, stable characteristics, and a large burst size. Genome comparison and protein tree analysis revealed that Mae-Yong1326-1 belongs to an unknown new genus. This study enriched the understanding of freshwater cyanophages.
Article
Virology
Shanshan Zhang, Xiaoqi He, Lei Cao, Yigang Tong, Baohua Zhao, Wenlin An
Summary: MinS1 is a potential biological control agent against cyanobacterial blooms, with a broad host range and tolerance to environmental factors. This study expands the diversity and knowledge of cyanophages, providing useful information for the development of novel prevention and control measures against cyanobacterial blooms.
Article
Biochemistry & Molecular Biology
Jun-Tao Zhang, Feng Yang, Kang Du, Wei-Fang Li, Yuxing Chen, Yong-Liang Jiang, Qiong Li, Cong-Zhao Zhou
Summary: In this study, the structure of a freshwater short-tailed cyanophage, Pam1, was solved using cryo-EM combined with crystallography. The study revealed the precise assembly pattern of Pam1 and identified potential roles in host recognition and DNA ejection.
Article
Biodiversity Conservation
Dong Zhang, Shu Harn Te, Yiliang He, Karina Yew-Hoong Gin
Summary: This study examined the abundance of four ecologically relevant novel cyanophages in a tropical urban lake in Singapore. The results showed that host cell fraction cyanophages were more abundant than free cyanophage particles, indicating high levels of infection and rapid dispersal. The study also revealed that pH and rainfall may be key factors driving shifts in both cyanophage and cyanobacteria populations.
ECOLOGICAL INDICATORS
(2022)
Article
Ecology
Raphael Laurenceau, Nicolas Raho, Mathieu Forget, Aldo A. Arellano, Sallie W. Chisholm
Summary: Researchers examined the propensity of three cyanophages infecting Prochlorococcus to mispackage host DNA and found distinct differences in mispackaging frequencies among myoviruses, podoviruses, and siphoviruses. The mispackaging frequencies varied by orders of magnitude depending on growth light intensity, with myoviruses showing low and seemingly fixed frequencies while podoviruses and siphoviruses varied greatly. Based on their findings, the researchers proposed a model of mispackaging frequency determined by the imbalance between the production of capsids and the number of phage genome copies during infection, leading to an accumulation of empty capsids and more frequent host DNA mispackaging errors.
Article
Engineering, Environmental
Hidetoshi Urakawa, Luka K. Ndungu, Taylor L. Hancock, Jacob H. Steele, Richard D. Bartleson
Summary: The study reveals that during subtropical freshwater cyanobacterial blooms, thin surface water layers can serve as hot spots for hydrogen peroxide production.
ENVIRONMENTAL SCIENCE & TECHNOLOGY LETTERS
(2021)
Article
Microbiology
Dong Zhang, Yiliang He, Karina Yew-Hoong Gin
Summary: This paper presents the characterization of a new cyanophage, S-SRP02, which infects cyanobacteria in a tropical freshwater lake. S-SRP02 is evolutionarily distinct from marine cyanopodoviruses but shares gene similarities with uncultured phages from the Mediterranean Sea. Studying the genomes and ecological importance of these phages aids in understanding the interactions between cyanobacteria and phages.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Microbiology
Elias Broman, Karin Holmfeldt, Stefano Bonaglia, Per O. J. Hall, Francisco J. A. Nascimento
Summary: Our study found different cyanophages in dead zone sediments compared to oxic sediments, suggesting that these viruses can impact cyanobacterial photosystem and phosphate regulation. Cyanobacterial blooms contribute to oxygen depletion in bottom waters, and viral lysis of cyanobacteria may increase the turnover of carbon, phosphorus, and nitrogen in these oxygen-free environments.
Article
Virology
Dong Zhang, Fang You, Yiliang He, Shu Harn Te, Karina Yew-Hoong Gin
Summary: This study presents the isolation of a novel freshwater cyanophage, PA-SR01, that infects Pseudanabaena. It fills an important knowledge gap on freshwater cyanophages and cyanophages infecting Pseudanabaena.
JOURNAL OF VIROLOGY
(2023)
Article
Environmental Sciences
Yifan Fan, Tong Liu, Xin Qian, Ligang Deng, Wenxin Rao, Qiji Zhang, Jinglan Zheng, Xiang Gao
Summary: This study investigated the metabolic impact of polystyrene microbeads microplastics (PS-MPs) on a common freshwater microalga using metabolomics analysis. The results showed that while PS-MPs had limited effects on microalgal growth and photosynthesis, oxidative stress and microcystin production were slightly increased. Metabolomics analysis revealed that PS-MPs disrupted multiple metabolic pathways in the microalga, particularly those related to arginine.
SCIENCE OF THE TOTAL ENVIRONMENT
(2022)
Article
Engineering, Environmental
Xiaoling Xu, Nanyan Weng, Hanxiao Zhang, Sebastiaan J. van de Velde, Martijn Hermans, Fengchang Wu, Shouliang Huo
Summary: Previous studies have shown that e-SOx can regulate the release of phosphorus (P) in brackish and marine sediments. Cable bacteria have also been found in freshwater sediments, and they may play a role in the regulation of P availability in eutrophied freshwater streams. The activity of cable bacteria can lead to the dissolution of metal oxide layers and the release of Fe2+ and Mn2+. Overall, cable bacteria may have a significant impact on countering eutrophication in freshwater systems.
Article
Biology
Audrey A. Burnim, Matthew A. Spence, Da Xu, Colin J. Jackson, Nozomi Ando
Summary: Ribonucleotide reductases (RNRs) are essential enzymes used by all free-living organisms and viruses for DNA precursor synthesis. Researchers identified a novel and distinct clade in the RNR family through structural alignment and phylogenetic analysis, and reported the most minimal RNR architecture to-date. The findings provide insights into the evolution of the RNR family and serve as a roadmap for future targeted studies.
Article
Environmental Sciences
Lei Li, Xuechu Chen, Yingying Huang, Yingshi Shen, Silu Liu, Jinzhong Lu, Jun Hu, Wenhui You
Summary: This study found that low nitrogen availability can enhance the salt tolerance of Microcystis by inducing carbohydrate accumulation to alleviate cell damage caused by salt stress.
SCIENCE OF THE TOTAL ENVIRONMENT
(2021)
Article
Environmental Sciences
Lingshi Yin, Xiaofeng Wen, Danlian Huang, Guangming Zeng, Rui Deng, Ruyi Liu, Zhenyu Zhou, Jiaxi Tao, Ruihao Xiao, Heming Pan
Summary: This study reveals the accumulation of microplastics in freshwater reeds, with varying levels of abundance in different areas. Lake water and fisheries are identified as significant sources of microplastics.
SCIENCE OF THE TOTAL ENVIRONMENT
(2021)
Article
Environmental Sciences
Branko Rihtman, Sabine Bowman-Grahl, Andrew Millard, Rebecca M. Corrigan, Martha R. J. Clokie, David J. Scanlan
ENVIRONMENTAL MICROBIOLOGY REPORTS
(2019)
Article
Virology
Franziska Hufsky, Bashar Ibrahim, Sejal Modha, Martha R. J. Clokie, Stefanie Deinhardt-Emmer, Bas E. Dutilh, Samantha Lycett, Peter Simmonds, Volker Thiel, Aare Abroi, Evelien M. Adriaenssens, Marina Escalera-Zamudio, Jenna Nicole Kelly, Kevin Lamkiewicz, Lu Lu, Julian Susat, Thomas Sicheritz, David L. Robertson, Manja Marz
Article
Microbiology
Leonardo Furi, Liam A. Crawford, Guillermo Rangel-Pineros, Ana S. Manso, Megan De Ste Croix, Richard D. Haigh, Min J. Kwun, Kristine Engelsen Fjelland, Gregor D. Gilfillan, Stephen D. Bentley, Nicholas J. Croucher, Martha R. Clokie, Marco R. Oggioni
JOURNAL OF BACTERIOLOGY
(2019)
Article
Genetics & Heredity
Nitin Kumar, Hilary P. Browne, Elisa Viciani, Samuel C. Forster, Simon Clare, Katherine Harcourt, Mark D. Stares, Gordon Dougan, Derek J. Fairley, Paul Roberts, Munir Pirmohamed, Martha R. J. Clokie, Mie Birgitte Frid Jensen, Katherine R. Hargreaves, Margaret Ip, Lothar H. Wieler, Christian Seyboldt, Torbjorn Noren, Thomas V. Riley, Ed J. Kuijper, Brendan W. Wren, Trevor D. Lawley
Editorial Material
Multidisciplinary Sciences
Martha R. J. Clokie
Article
Microbiology
Mohammed Imam, Bandar Alrashid, Faizal Patel, Ahmed S. A. Dowah, Nathan Brown, Andrew Millard, Martha R. J. Clokie, Edouard E. Galyov
FRONTIERS IN MICROBIOLOGY
(2019)
Article
Microbiology
Mahmuda Akter, Nathan Brown, Martha Clokie, Mahmuda Yeasmin, Tokee M. Tareq, Ramani Baddam, Muhammad A. K. Azado, Amar N. Ghosh, Niyaz Ahmed, Kaisar A. Talukder
FRONTIERS IN MICROBIOLOGY
(2019)
Article
Virology
Evelien M. Adriaenssens, Matthew B. Sullivan, Petar Knezevic, Leonardo J. van Zyl, B. L. Sarkar, Bas E. Dutilh, Poliane Alfenas-Zerbini, Malgorzata Lobocka, Yigang Tong, James Rodney Brister, Andrea I. Switt, Jochen Klumpp, Ramy Karam Aziz, Jakub Barylski, Jumpei Uchiyama, Rob A. Edwards, Andrew M. Kropinski, Nicola K. Petty, Martha R. J. Clokie, Alla I. Kushkina, Vera V. Morozova, Siobain Duffy, Annika Gillis, Janis Rumnieks, Ipek Kurtboke, Nina Chanishvili, Lawrence Goodridge, Johannes Wittmann, Rob Lavigne, Ho Bin Jang, David Prangishvili, Francois Enault, Dann Turner, Minna M. Poranen, Hanna M. Oksanen, Mart Krupovic
ARCHIVES OF VIROLOGY
(2020)
Article
Microbiology
Mohammad A. Tariq, Fiona Newberry, Rik Haagmans, Catherine Booth, Tom Wileman, Lesley Hoyles, Martha R. J. Clokie, James Ebdon, Simon R. Carding
FRONTIERS IN MICROBIOLOGY
(2020)
Article
Microbiology
Janet Y. Nale, Mahananda Chutia, Jeffrey K. J. Cheng, Martha R. J. Clokie
Article
Microbiology
Janet Y. Nale, Gurinder K. Vinner, Viviana C. Lopez, Anisha M. Thanki, Preeda Phothaworn, Parameth Thiennimitr, Angela Garcia, Manal AbuOun, Muna F. Anjum, Sunee Korbsrisate, Edouard E. Galyov, Danish J. Malik, Martha R. J. Clokie
Summary: The study found that phages can be used to control Salmonella infection in animals, and specific application methods were investigated. Prophylactic regimen was more effective than remedial regimen, showing promising potential for treating infections in pigs and poultry.
FRONTIERS IN MICROBIOLOGY
(2021)
Article
Biochemical Research Methods
Ahmed A. Zayed, Dominik Luecking, Mohamed Mohssen, Dylan Cronin, Ben Bolduc, Ann C. Gregory, Katherine R. Hargreaves, Paul D. Piehowski, Richard A. I. I. I. I. I. I. White, Eric L. Huang, Joshua N. Adkins, Simon Roux, Cristina Moraru, Matthew B. Sullivan
Summary: The study established an expanded collection of Hidden Markov Model profiles representing viral protein families from the Global Ocean Virome dataset. Integrating this resource into viral discovery software led to increased virus discovery from less-studied marine habitats and improved annotation of viral protein functions, which will be updated bi-annually to enhance viral sequence discovery and study across ecosystems.
Article
Genetics & Heredity
Kimmo Siren, Andrew Millard, Bent Petersen, M. Thomas P. Gilbert, Martha R. J. Clokie, Thomas Sicheritz-Ponten
Summary: Prophages are phages integrated into bacterial genomes, crucial for understanding bacterial biology, yet their diversity makes them challenging to detect using traditional methods. Researchers propose a machine learning method based on feature space, which, when applied to public data, significantly improves the speed and accuracy of phage detection, providing a new starting point for exploring novel biologies.
NAR GENOMICS AND BIOINFORMATICS
(2021)
Article
Microbiology
Rebecca L. Mickol, Artemis S. Louyakis, H. Lynn Kee, Lisa K. Johnson, Scott C. Dawson, Katherine R. Hargreaves, Grayson L. Chadwick, Dianne K. Newman, Jared R. Leadbetter, C. Titus Brown
Summary: The genome sequence of Tenacibaculum mesophilum strain ECR, isolated from Trunk River at Falmouth, Massachusetts, was reported in this study. The isolation and sequencing were carried out as part of the 2016 and 2018 Microbial Diversity courses at the Marine Biological Laboratory in Woods Hole, Massachusetts.
MICROBIOLOGY RESOURCE ANNOUNCEMENTS
(2021)
Review
Biology
Marianne Ellegaard, Martha R. J. Clokie, Till Czypionka, Dagmar Frisch, Anna Godhe, Anke Kremp, Andrey Letarov, Terry J. McGenity, Sofia Ribeiro, N. John Anderson
COMMUNICATIONS BIOLOGY
(2020)