Article
Agriculture, Multidisciplinary
Jasmine Neupane, Wenxuan Guo, Guofeng Cao, Fangyuan Zhang, Lindsey Slaughter, Sanjit Deb
Summary: Understanding the spatial distribution pattern of soil microbial communities and their influencing factors is crucial for assessing soil health and implementing site-specific management strategies to enhance crop production. This study investigated the spatial variability patterns of soil microbial communities at the field scale and assessed the impacts of soil physico-chemical properties, topography, and management practices on soil microbial biomass distribution. The findings revealed a structured distribution of microbial biomass and diversity, with patches corresponding to soil types and topography. Soil organic carbon and water content were the key factors influencing the distribution of microbial biomass, while soil pH and C:N ratio affected bacterial communities and slope and elevation influenced fungal communities.
PRECISION AGRICULTURE
(2022)
Article
Food Science & Technology
Silvia Juliana Martinez, Ana Paula Pereira Bressani, Joao Batista Pavesi Simao, Victor Satler Pylro, Disney Ribeiro Dias, Rosane Freitas Schwan
Summary: Altitude changes affect the composition of coffee fruits and beans, as well as the microbial community structure and biochemical characteristics associated with them. High altitude coffees are more inclined towards alcohols, aldehydes, and esters, while low altitude coffees are more inclined towards phenolic compounds.
FOOD RESEARCH INTERNATIONAL
(2022)
Article
Food Science & Technology
Isaac R. Vincent, Bodh R. Paudel, Haichao Guo, Erin N. Rosskopf, Francesco Di Gioia, Jason C. Hong, David Jr H. McNear, Nan Xu, Lucas Anrecio, James Colee, Xin Zhao
Summary: Anaerobic soil disinfestation (ASD) has been shown to be an effective alternative to chemical soil fumigation (CSF) for controlling soilborne pathogens, with significant impacts on soil microbial communities. ASD treatments led to increased concentrations of various microbial biomarkers compared to CSF, with different effects observed across soil depths and sampling times. Discriminant analysis confirmed distinct differences in soil microbial community composition between ASD and CSF treatments, with ASD effects diminishing at greater soil depths.
FRONTIERS IN SUSTAINABLE FOOD SYSTEMS
(2022)
Article
Multidisciplinary Sciences
Chang-Yu Chang, Djordje Bajic, Jean C. C. Vila, Sylvie Estrela, Alvaro Sanchez
Summary: Understanding the mechanisms of maintaining microbial biodiversity is crucial in ecology. Past research on microbial coexistence mainly focused on species pairs, leaving unclear whether pairwise coexistence is necessary for coexistence in a multi-species community. Through hundreds of pairwise competition experiments, we found that competitive exclusion was the most common outcome, indicating that multispecies coexistence is an emergent phenomenon that depends on community context rather than pairwise interactions.
Article
Biochemical Research Methods
Manuel Gloeckler, Andreas Draeger, Reihaneh Mostolizadeh
Summary: The human body contains a wide range of microbes that have a significant impact on the host's well-being. However, the role of many microorganisms in human health is still unknown. To investigate their communities, accurate genome-scale metabolic models of the microorganisms are integrated to create a community that mimics the human bacterial flora. Various tools have been developed to model these communities, which involve optimization problems and model compositions. The hierarchical model approach allows for the analysis of the entire community, regardless of changes in individual submodels.
Article
Environmental Sciences
G. Cazaudehore, R. Guyoneaud, A. Lallement, C. Gassie, F. Monlau
Summary: This study evaluated the influence of inoculum-substrate ratio (ISR) on the methane production of biodegradable plastics and found that an ISR between 2.85 and 4 is recommended for reproducible degradation kinetics and optimal methane production.
JOURNAL OF ENVIRONMENTAL MANAGEMENT
(2022)
Article
Microbiology
Jianing Wang, Zhuo Pan, Jianshui Yu, Zheng Zhang, Yue-zhong Li
Summary: This study comprehensively investigated the global assembly mechanisms of microbial communities and effects of community-internal influencing factors using the Earth Microbiome Project (EMP) data set. It was found that deterministic and stochastic processes contribute approximately equally to global microbial community assembly, with deterministic processes generally playing a major role in free-living and plant-associated environments, and stochastic processes being the major contributor in animal-associated environments. The assembly of functional genes is mainly attributed to deterministic processes in all microbial communities.
Article
Multidisciplinary Sciences
Behzad D. Karkaria, Alex J. H. Fedorec, Chris P. Barnes
Summary: In naturally occurring microbial systems, there is a positive relationship between species diversity and community productivity; researchers performed model selection to discover potential amensal interactions that lead to robust stable synthetic microbial consortia.
NATURE COMMUNICATIONS
(2021)
Article
Multidisciplinary Sciences
Shuang Li, Nafi'u Abdulkadir, Florian Schattenberg, Ulisses Nunes da Rocha, Volker Grimm, Susann Mueller, Zishu Liu
Summary: Building and maintaining a stable microbiome has been challenging, but a looped mass transfer design proposed in this study has shown promise in stabilizing microbiomes over long periods of time. By increasing mass transfer rates, the variation in microbiome assembly was reduced and the microbiomes exhibited higher stability and resistance. The loop in mass transfer also synchronized the structures of different microbiomes and protected cells that would otherwise go extinct.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Multidisciplinary Sciences
Luis Miguel de Jesus Astacio, Kaumudi H. Prabhakara, Zeqian Li, Harry Mickalide, Seppe Kuehn
Summary: Nutrient and resource cycling are crucial features of ecosystems, playing a key role in determining ecosystem structure. Closed microbial ecosystems provide a model to study how ecosystems self-organize to maintain robust cycles. Despite taxonomic differences, self-organized microbial communities exhibit a conserved set of metabolic capabilities.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Biochemical Research Methods
Behzad D. Karkaria, Angelika Manhart, Alex J. H. Fedorec, Chris P. Barnes
Summary: This study developed a methodology to explore the potential for chaotic dynamics in small microbial communities and showed that chaotic states can exist in synthetic microbial systems. This has important implications for the fields of biotechnology, bioprocessing, and synthetic biology.
PLOS COMPUTATIONAL BIOLOGY
(2022)
Review
Biochemical Research Methods
Karthik Nagarajan, Congjian Ni, Ting Lu
Summary: This review provides a comprehensive overview of recent advances in agent-based modeling of microbial communities, including algorithms for simulating intracellular events, single-cell behaviors, intercellular interactions, and interactions between cells and their environments, as well as applications of agent-based modeling. It also discusses challenges and potential mitigation strategies.
ACS SYNTHETIC BIOLOGY
(2022)
Article
Biotechnology & Applied Microbiology
Martin Vargas-Suarez, Alba Savin-Gamez, Lilianha Dominguez-Malfavon, Ayixon Sanchez-Reyes, Maricarmen Quirasco-Baruch, Herminia Loza-Tavera
Summary: This study explored the impact of microenvironmental conditions on the biodegradative capacity and taxonomic composition of microbial communities in a landfill. Results showed that the composition of microbial communities was influenced by microenvironmental conditions, impacting their ability to degrade polyurethane waste and other xenobiotics. This research provides valuable insights into the potential use of microbial communities for the treatment of PU waste and other pollutants.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Karna Gowda, Derek Ping, Madhav Mani, Seppe Kuehn
Summary: The metabolic activities of microbial communities are crucial for the evolution and persistence of life on Earth. This study shows that the dynamics of metabolites in a community can be predicted based on the genes possessed by each member of the community, providing insights into how genome evolution impacts metabolism.
Review
Microbiology
Iiana Lauren Brito
Summary: The Review discusses the impact of horizontal gene transfer on natural microbial communities and explores the application of new technologies in studying the ecology of HGT, as well as deepening our understanding of gene transfer.
NATURE REVIEWS MICROBIOLOGY
(2021)
Article
Multidisciplinary Sciences
Carmelina Flavia Massaro, Jack Bruce Simpson, Daniel Powell, Peter Brooks
Article
Marine & Freshwater Biology
Nicole G. Ertl, Wayne A. O'Connor, Peter Brooks, Michael Keats, Abigail Elizur
AQUATIC TOXICOLOGY
(2016)
Article
Pharmacology & Pharmacy
Corinna S. Buergin-Maunder, Maria Nataatmadja, Rebecca K. Vella, Andrew S. Fenning, Peter R. Brooks, Fraser D. Russell
CLINICAL AND EXPERIMENTAL PHARMACOLOGY AND PHYSIOLOGY
(2016)
Review
Microbiology
Dee A. Carter, Shona E. Blair, Nural N. Cokcetin, Daniel Bouzo, Peter Brooks, Ralf Schothauer, Elizabeth J. Harry
FRONTIERS IN MICROBIOLOGY
(2016)
Article
Chemistry, Multidisciplinary
Zachary Woodward, Peter Brooks, Bernadette Morris-Smith, Marianne Wallis, Steven M. Ogbourne
PHARMACEUTICAL RESEARCH
(2018)
Article
Forestry
Ivar Wendling, Peter R. Brooks, Stephen J. Trueman
Article
Multidisciplinary Sciences
Matthew Pappalardo, Linda Pappalardo, Peter Brooks
Article
Multidisciplinary Sciences
Nural N. Cokcetin, Matthew Pappalardo, Leona T. Campbell, Peter Brooks, Dee A. Carter, Shona E. Blair, Elizabeth J. Harry
Article
Multidisciplinary Sciences
Shahla Hosseini Bai, Ian Darby, Tio Nevenimo, Godfrey Hannet, Dalsie Hannet, Matthew Poienou, Elektra Grant, Peter Brooks, David Walton, Bruce Randall, Helen M. Wallace
Article
Agriculture, Multidisciplinary
Simon D. Williams, Linda Pappalardo, Josiah Bishop, Peter R. Brooks
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
(2018)
Article
Food Science & Technology
Shahla Hosseini Bai, Peter Brooks, Repson Gama, Tio Nevenimo, Godfrey Hannet, Dalsie Hannet, Bruce Randall, David Walton, Elektra Grant, Helen M. Wallace
JOURNAL OF FOOD SCIENCE AND TECHNOLOGY-MYSORE
(2019)
Article
Plant Sciences
Motahareh Nobakht, Stephen J. Trueman, Helen M. Wallace, Peter R. Brooks, Klrissa J. Streeter, Mohammad Katouli
Article
Biotechnology & Applied Microbiology
Jodi Anne Jonns, Peter Richard Brooks, Paul Exley, Sue Poole, D. Ipek Kurtboeke
SYNTHETIC AND SYSTEMS BIOTECHNOLOGY
(2017)
Article
Integrative & Complementary Medicine
Karina D. Hamilton, Peter R. Brooks, Steven M. Ogbourne, Fraser D. Russell
BMC COMPLEMENTARY AND ALTERNATIVE MEDICINE
(2017)
Proceedings Paper
Plant Sciences
M. Nobakht, S. J. Trueman, H. M. Wallace, P. R. Brooks, M. Katouli
XXIX INTERNATIONAL HORTICULTURAL CONGRESS ON HORTICULTURE:SUSTAINING LIVES,LIVELIHOODS AND LANDSCAPES:V WORLD CONGRESS ON MEDICINAL AND AROMATIC PLANTS AND INTERNATIONAL SYMPOSIUM ON PLANTS AS FACTORIES OF NATURAL SUBSTANCES,EDIBLE AND ESSENTIAL OILS
(2016)
Review
Environmental Sciences
Attila Csaba Kondor, Anna Viktoria Vancsik, Laszlo Bauer, Lili Szabo, Zoltan Szalai, Gergely Jakab, Gabor Maasz, Marta Pedrosa, Maria Jose Sampaio, Ana Rita Lado Ribeiro
Summary: This review provides a critical overview of research on the removal efficiency of priority substances and compounds of emerging concern through bank filtration, discussing influencing factors and future challenges. The findings show that the efficiency of bank filtration is influenced by multiple factors and varies for different substances.
ENVIRONMENTAL POLLUTION
(2024)
Article
Environmental Sciences
Xinyan Wang, Shuai Zhang, Huihui Yan, Zhao Ma, Yunshan Zhang, Haining Luo, Xueli Yang
Summary: This study investigated the association between ambient PM2.5, O3 pollution, and ovarian reserve in reproductive-aged Chinese women. The results showed that increased exposure to PM2.5 and O3 was associated with decreased AMH levels, indicating reduced ovarian reserve. Notably, the effects of O3 exposure on ovarian reserve were different from those of PM2.5 exposure.
ENVIRONMENTAL POLLUTION
(2024)
Article
Environmental Sciences
Tingting Ma, Yanjuan Ding, Fengjiao Xu, Chen Zhang, Min Zhou, Ya Tang, Yanrong Chen, Yating Wen, Rufei Chen, Bin Tang, Shigui Wang
Summary: The dragonfly species Orthetrum albistylum can accumulate heavy metals, and its heat shock protein genes have the potential to serve as biomarkers for monitoring environmental pollutants.
ENVIRONMENTAL POLLUTION
(2024)
Article
Environmental Sciences
Naoto Ishiwaka, Koya Hashimoto, Masayoshi K. Hiraiwa, Francisco Sanchez-Bayo, Taku Kadoya, Daisuke Hayasaka
Summary: Systemic insecticides and rising temperatures have combined effects on the abundance of Odonata nymphs in paddy fields. The standalone effect of insecticide exposure decreased the Odonata community, while nymphs decreased synergistically with temperature rise in paddy water. However, the impacts of each stressor alone varied among species.
ENVIRONMENTAL POLLUTION
(2024)
Article
Environmental Sciences
Marco Vecchiato, Carlo Barbante, Elena Barbaro, Francois Burgay, Warren R. L. Cairns, Alice Callegaro, David Cappelletti, Federico Dallo, Marianna D'Amico, Matteo Feltracco, Jean-Charles Gallet, Andrea Gambaro, Catherine Larose, Niccolo Maffezzoli, Mauro Mazzola, Ivan Sartorato, Federico Scoto, Clara Turetta, Massimiliano Varde, Zhiyong Xie, Andrea Spolaor
Summary: The Arctic region is facing contamination from long-range pollution and local human activities. Polycyclic Aromatic Hydrocarbons (PAHs) are used as environmental indicators for emission, transport, and deposition processes. Research conducted in the Arctic surface snow in Ny-Ålesund, Svalbard from October 2018 to May 2019 shows that long-range inputs of PAHs mainly occur in winter, while the most abundant analyte retene exhibits opposite seasonal trends.
ENVIRONMENTAL POLLUTION
(2024)
Review
Environmental Sciences
Maoshui Zhuo, Zhijie Chen, Xiaoqing Liu, Wei Wei, Yansong Shen, Bing-Jie Ni
Summary: This paper discusses the application of three catalytic processes (photocatalysis, electrocatalysis, and biocatalysis) in the management of microplastic pollution, and introduces the efficiency and catalytic mechanisms of different catalysts. It also proposes the development prospects for sustainable management of microplastic pollution.
ENVIRONMENTAL POLLUTION
(2024)
Article
Environmental Sciences
Shiyu Chen, Zhenzhen Shi, Qiang Zhang
Summary: In this study, a human physiologically based pharmacokinetic (PBPK) model of diethyl phthalate (DEP) was developed to assess its toxicity. The model considers the distribution and metabolism of DEP and its active metabolite monoethyl phthalate (MEP) in different tissue compartments. Sensitivity analysis and Bayesian Markov chain Monte Carlo (MCMC) simulations were performed to evaluate the uncertainty and variability of the model parameters. The results suggest that dermal absorption is an important route of exposure to DEP in the environment.
ENVIRONMENTAL POLLUTION
(2024)
Article
Environmental Sciences
Bangguo Wang, Lijing Wang, Wenxi Cen, Tao Lyu, Peter Jarvis, Yang Zhang, Yuanxun Zhang, Yinghui Han, Lei Wang, Gang Pan, Kaili Zhang, Wei Fan
Summary: This study investigates the feasibility and mechanisms of a chemical-free nanobubble-based AOP for treating organic micropollutants in water. The results show that the oxygen nanobubble AOP has a significantly higher removal efficiency compared to air and nitrogen nanobubbles. The treatment performance is not affected by pH and the presence of ions. Higher initial concentrations of the micropollutant lead to slower treatment processes, but similar removal performance is achieved in the end. The presence of organic matter reduces the removal rate of the micropollutant. The results have practical feasibility for water and wastewater treatment.
ENVIRONMENTAL POLLUTION
(2024)
Article
Environmental Sciences
Yingmei Huang, Jicai Yi, Yao Huang, Songxiong Zhong, Bin Zhao, Jing Zhou, Yuxuan Wang, Yiwen Zhu, Yanhong Du, Fangbai Li
Summary: This study investigates the impact of biochar on methylmercury (MeHg) accumulation in rice. The results show that biochar reduces MeHg levels in paddy soils by decreasing bioavailable Hg and microbial Hg methylation. Additionally, biochar decreases the uptake and translocation of MeHg in rice plants, resulting in a reduction of MeHg accumulation in rice grains.
ENVIRONMENTAL POLLUTION
(2024)
Article
Environmental Sciences
Nengde Zeng, Fei Huang, Jiani Du, Chenghao Huang, Qian Yang, Xinhua Zhan, Baoshan Xing
Summary: This study investigates the protein targets and protein-ligand interactions related to PAH contamination in crop xylem sap using computational tools. The results show that phenanthrene has a more pronounced effect on the xylem sap proteins of maize and wheat, with maize DEPs associated with lipid biosynthesis and wheat DEPs exhibiting an increase in ABC transporters. This study provides insights into the regulation and movement of PAHs within plant xylem.
ENVIRONMENTAL POLLUTION
(2024)
Article
Environmental Sciences
Xinwei Chen, Hao Ma, Run Wang, Man Wang, Binbin Zhu, Yanqing Cong, Xiayue Zhu, Guoqin Wang, Yi Zhang
Summary: Co3O4/TiO2-NRs electrodes with excellent photoresponse were prepared via plasma-assisted modification of Co3O4 on TiO2. The combination of Co3O4 and TiO2 improved the light utilization efficiency and showed potential for degradation of pollutants.
ENVIRONMENTAL POLLUTION
(2024)
Article
Environmental Sciences
Wenjing Ji, Liying Song, Jing Wang, Hongqing Song
Summary: This study conducted a life-cycle assessment to examine the correlation between natural gas consumption and carbon emissions in different end uses in China. The results showed that both natural gas consumption and life-cycle carbon emissions have been increasing since 2017. Significant variations in NG life-cycle carbon emissions were found across different provinces and sectors, highlighting the need for targeted efforts to reduce carbon emissions.
ENVIRONMENTAL POLLUTION
(2024)
Article
Environmental Sciences
Youyi Chen, Boxuan Zhang, Pojun Zhang, Guogui Shi, Hao Liang, Wu Cai, Jingyu Gao, Sumin Zhuang, Kaiyin Luo, Jiaqi Zhu, Chaoxiang Chen, Kunyu Ma, Jinrong Chen, Chun Hu, Xueci Xing
Summary: The synergistic effects of trace sulfadiazine and cast-iron corrosion scales on the formation of disinfection by-products in drinking water distribution systems were investigated. The presence of magnetite resulted in increased concentrations of DBPs due to the higher microbial activity and enhanced microbial extracellular electron transport pathway. The study highlights the importance of considering trace antibiotics pollution and corrosion scales in water sources for DBP control.
ENVIRONMENTAL POLLUTION
(2024)
Review
Environmental Sciences
Bishwa Raj Pokharel, Vijay Sheri, Manoj Kumar, Zhiyong Zhang, Baohong Zhang
Summary: This review summarizes the interactions, uptake, and transport of aluminum nanoparticles (Al-NPs) in plants, highlighting their negative effects on plant growth and development, as well as their potential to alter plant defense systems and gene expression.
ENVIRONMENTAL POLLUTION
(2024)
Article
Environmental Sciences
Yonglu Wang, Fengsong Zhang, Xiaoyong Liao, Xiao Yang, Guixiang Zhang, Liyun Zhang, Chaojun Wei, Pengge Shi, Jiongxin Wen, Xiaorong Ju, Can Xu, Yang Liu, Ying Lan
Summary: This study aims to explore the effects of thiencarbazone-methyl center dot isoxaflutole on soil microflora and the potential mitigation mechanisms to bacterial communities. It was found that increasing the application of thiencarbazone-methyl center dot isoxaflutole resulted in increased stress on soil bacterial community structure and diversity. Increasing soil pH was recognized as a key factor in improving the diversity and structure of soil microflora. Supplemental use of nitrapyrin or modified attapulgite can increase soil pH and improve bacterial diversity.
ENVIRONMENTAL POLLUTION
(2024)