Article
Environmental Sciences
Zifang Chi, Lining Hou, Huai Li, Haitao Wu, Baixing Yan
Summary: The study found that PHE pollution affects the soil bacterial community and function, leading to a decrease in bacterial diversity. The structure and function of the bacterial community are influenced by PHE and salinity, with different regions showing different bacterial distribution characteristics.
ENVIRONMENTAL RESEARCH
(2021)
Article
Microbiology
Sumetee Liswadiratanakul, Kosuke Yamamoto, Minenosuke Matsutani, Vatanee Wattanadatsaree, Shunta Kihara, Yuh Shiwa, Hironobu Shiwachi
Summary: Biofertilizers with high-density plant growth-promoting bacteria are being researched as a sustainable solution for environmental issues caused by eutrophication. However, the microorganisms selected often fail to be preferred by the host plant or induce plant growth-promoting effects. In this study, five nitrogen-fixing bacteria from water yam plants were tested as synthetic bacterial inoculants. Although the bacterial communities in the roots were significantly altered by the inoculation, no significant differences in plant growth or nitrogen content were observed between treatments. The dominance of Stenotrophomonas in the inoculated roots declined over time, suggesting a decline in inoculation effects.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Agronomy
Andre May, Luciana Fontes Coelho, Alexandre Pedrinho, Bruna Durante Batista, Lucas William Mendes, Rodrigo Mendes, Marcelo Augusto Boechat Morandi, Gabriel Barth, Ronaldo Silva Viana, Elke Simoni Dias Vilela
Summary: In this study, the bacterial community in the shoot and rhizosphere of healthy soybean plants was characterized. The effects of these communities on seedling development were assessed by transplanting them to seeds. The results showed that the diversity of the bacterial consortium from the rhizosphere was higher than that from the shoot. However, the application of bacterial consortium in seedlings had no influence on diversity. The seedlings inoculated with the bacterial consortium showed an enrichment of plant growth-promoting groups and increased abundance of functions related to plant protection and nutrition.
ARCHIVES OF AGRONOMY AND SOIL SCIENCE
(2023)
Article
Biotechnology & Applied Microbiology
Fulin Sun, Chunzhong Wang, Xuelian Chen
Summary: This study used high-throughput sequencing to investigate the intestinal bacterial communities of Sinonovacula constricta, and found significant differences between the bacterial communities in the intestines, pond water, and sediment. The results showed that the sediment was the main source of potential pathogens in S. constricta intestine. This study provides a theoretical basis for environmental regulation and disease prevention of S. constricta in aquaculture.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2022)
Article
Forestry
Lin Qin, Yufeng Wang, Angang Ming, Shouhong Xi, Zhirou Xiao, Jinqian Teng, Ling Tan
Summary: The soil profile is a significant factor affecting bacterial community structure and function in planted forests, but little is known about this in subtropical China. In this study, we investigated the molecular ecological network structure and bacterial community function at different soil depths within native tree plantations. Our results showed that the bacterial network scale, interaction strength, and key bacterial groups varied with soil depth, and the dominant functional groups were related to soil carbon and nitrogen cycling. Furthermore, the molecular ecological network structure and bacterial functional groups were mainly influenced by soil organic carbon, nitrogen, and phosphorus availability. This study provides valuable insights into bacterial community structure and function within soil profiles of native tree plantations in subtropical regions.
Article
Environmental Sciences
Hanlin Chen, Rui Du, Yongtao Zhang, Pengrui Du, Sujian Zhang, Weishan Ren, Mei Yang
Summary: This study analyzed the evolution of the PM2.5 bacterial community in the Huairou district of Beijing under different pollution conditions. Seasonality had a significant impact on the bacterial diversity and community composition of PM2.5. While the relative abundances of different bacteria changed with pollution levels, there were no statistical differences observed.
SCIENCE OF THE TOTAL ENVIRONMENT
(2021)
Article
Environmental Sciences
Yue Cao, Xiawei Yu, Feng Ju, Haicong Zhan, Bei Jiang, Hui Kang, Zhouqing Xie
Summary: The bacterial community in Antarctic bioaerosols is dominated by Proteobacteria, showing low alpha-diversity but significant spatial and temporal variabilities. These bacteria are potentially transported from terrestrial, marine, and Antarctic polar sources through long-range transport and sea-air exchange pathways. The composition of bacterial community is significantly influenced by factors such as wind speed, temperature, and organic carbon, while bacterial richness and diversity do not differ significantly under different weather conditions.
SCIENCE OF THE TOTAL ENVIRONMENT
(2021)
Article
Microbiology
Carlos M. Dos-Santos, Nathalia V. S. Ribeiro, Stefan Schwab, Jose Baldani, Marcia S. Vidal
Summary: The study utilized high-throughput sequencing to investigate the impact of diazotrophic bacteria on the microbial community of sugarcane apoplast fluid. The inoculated bacteria consortium decreased diversity and evenness, altering the structure of the indigenous bacterial community. Differential abundance testing revealed specific ASVs, particularly from the Sphingomonas genus, were more abundant in the inoculated treatment.
CURRENT MICROBIOLOGY
(2021)
Article
Environmental Sciences
Weijiao Liu, Muhammad Nasir, Mengjie Yan, Xiangzhen Zhu, Muhammad Shahid Iqbal, Li Wang, Kaixin Zhang, Dongyang Li, Jichao Ji, Xueke Gao, Junyu Luo, Jinjie Cui
Summary: This study examined the effects of Cry1B protein on the growth and development of non-target natural enemies. The results showed that Cry1B protein had no significant impact on the health indicators of P. astrigera, but it did reduce the number of symbiotic bacteria species and species diversity. The effects of Cry1B protein on symbiotic bacteria varied by growth and development stage and sex.
ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY
(2023)
Article
Multidisciplinary Sciences
Jue Zhao, Ling Jin, Dong Wu, Jia-wen Xie, Jun Li, Xue-wu Fu, Zhi-yuan Cong, Ping-qing Fu, Yang Zhang, Xiao-san Luo, Xin-bin Feng, Gan Zhang, James M. Tiedje, Xiang-dong Li
Summary: This study analyzed the bacterial communities in airborne particulate samples from around the world and found that they have a biogeographic pattern and interact with surface environments. While the total abundance of airborne bacteria is lower than other habitats, the number of bacterial taxa is comparable to the hydrosphere and is highest in midlatitude regions. The structure of the airborne bacterial community is easily perturbed and influenced by surface microbiomes and atmospheric conditions, particularly in urban areas. These findings provide valuable insights for predicting microbial responses and health impacts in different environments.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Environmental Sciences
Li Ma, Wenquan Niu, Guochun Li, Yadan Du, Jun Sun, Qian Zhang, Kadambot H. M. Siddique
Summary: The role of abundant and rare bacterial taxa in maintaining bacterial community stability is controversial. Rare taxa have higher diversity and modularity than abundant taxa. The diversity of rare taxa is negatively correlated with bacterial community differences, while no correlation exists between abundant taxa and community differences. Highlighting the importance of rare species is crucial for maintaining bacterial community stability.
LAND DEGRADATION & DEVELOPMENT
(2023)
Article
Ecology
Nelson Khan, Edward Muge, Francis J. Mulaa, Benson Wamalwa, Martin von Bergen, Nico Jehmlich, Lukas Y. Wick
Summary: Fungi play a crucial role in the biodegradation of soil organochlorine pesticides by facilitating bacterial dispersal and nutrient release. Experimental results indicate that the transfer of nutrients from fungi to bacteria can enhance the degradation of organic pollutants, highlighting the importance of fungal-bacterial interactions.
Article
Microbiology
Boxue Si, Kaizhen Liu, Guoxin Huang, Meiqing Chen, Jiyong Yang, Xufang Wu, Ning Li, Wenhao Tang, Shengguo Zhao, Nan Zheng, Yangdong Zhang, Jiaqi Wang
Summary: The variation of milk fat is closely related to rumen bacteria, and certain rumen bacteria have a potential impact on the deposition of specific fatty acids in raw milk.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Environmental Sciences
Bing Yang, Mi Zhou, Yuan Meng, Keming Chen, Jie Xu, Xiangfu Huang, Yucheng Liu, Lingli Li, Lili Ma, Mingyan Chen
Summary: Chemical oxidation as a pretreatment for petroleum-contaminated soil, coupled with bioremediation, can have serious impacts on indigenous microorganisms and available nutrients. This study found that hydrogen peroxide treatments significantly promoted the removal of total petroleum hydrocarbons (TPH), especially in the initial days, and also affected the levels of dissolved nutrients. Both chemical oxidation and nutrients contribute to changes in microbial community structure and diversity. However, the long-term effects of H2O2 as a pretreatment had little impact on the soil indigenous microbial community structure and actually facilitated the continuous removal of TPH by indigenous microorganisms.
ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH
(2023)
Article
Environmental Sciences
Guannan Mao, Yingying Wang, Frederik Hammes
Summary: The efficiency of chlorine in bacterial inactivation varies with organisms and environmental conditions. A novel 96-well plate FCM method was tested to monitor the effects of different chlorine concentrations and exposure times on bacterial communities and pure cultures, enabling efficient comparison of data under the same experimental conditions. Higher chlorine concentration with shorter contact time was found to be more effective in inactivating bacteria.
ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY
(2021)
Article
Ecology
Asa Frostegard, Silas H. W. Vick, Natalie Y. N. Lim, Lars R. Bakken, James P. Shapleigh
Summary: The study found that the maturation of NosZ gene is generally inhibited post-transcriptionally under low pH conditions. Additionally, the low concentrations of NO2- in acidic soils are primarily due to biological activity, and the dominance of NirK in some soils does not necessarily reflect the actual environmental conditions.
Article
Ecology
Kjell Rune Jonassen, Live H. Hagen, Silas H. W. Vick, Magnus O. Arntzen, Vincent G. H. Eijsink, Asa Frostegard, Pawel Lycus, Lars Molstad, Phillip B. Pope, Lars R. Bakken
Summary: Inoculating agricultural soils with nitrous oxide respiring bacteria (NRB) through digestates obtained after biogas production can effectively reduce N2O emissions. This low-cost and large-scale approach using digestates as carriers for NRB demonstrates potential for future applications in engineering the soil microbiome, with benefits for plant growth, bioremediation, and other functions.
Article
Environmental Sciences
Xuanji Li, Christopher Rensing, Gisle Vestergaard, Manimozhiyan Arumugam, Joseph Nesme, Shashank Gupta, Asker Daniel Brejnrod, Soren Johannes Sorensen
Summary: This study investigates the co-selection of metals and biocides on antibiotic resistance genes in pig farming environments. The results suggest that regardless of current antibiotic usage, these factors exert strong selective pressure on ARGs.
ENVIRONMENT INTERNATIONAL
(2022)
Article
Microbiology
Clara Duffner, Susanne Kublik, Barbel Fosel, Asa Frostegard, Michael Schloter, Lars Bakken, Stefanie Schulz
Summary: Stimulating litho-autotrophic denitrification with hydrogen is a promising strategy to remove excess NO3-, but it often leads to the accumulation of cytotoxic intermediate NO2- and greenhouse gas N2O. This study investigated if the genomic composition, gene transcription regulation, or kinetics of reductases contribute to the high concentrations of NO2- and N2O. The findings suggest that the kinetics of reductases and the expression of N2O reductase play a role in the accumulation of NO2- and N2O during denitrification.
ENVIRONMENTAL MICROBIOLOGY
(2022)
Article
Microbiology
Birgit Wolters, Kristin Hauschild, Khald Blau, Ines Mulder, Benjamin Justus Heyde, Soren J. Sorensen, Jan Siemens, Sven Jechalke, Kornelia Smalla, Joseph Nesme
Summary: This study found that soil fertilization with wastewater treatment plant (WWTP) biosolids can introduce resistance genes, mobile genetic elements, and pollutants such as antibiotics, heavy metals, and disinfectants. The study also revealed strong correlations between certain target genes and the concentrations of copper, zinc, triclosan, several antibiotics, and quaternary ammonium compounds. Interestingly, the size of the sewage treatment plant had a negative correlation with antibiotic concentrations, resistance gene and mobile genetic element abundances, but had little impact on the load of metals and quaternary ammonium compounds or the microbial community composition. Biosolids from WWTPs with anaerobic treatment and hospitals in their catchment area had higher abundance of potential opportunistic pathogens and higher concentrations of quaternary ammonium compounds.
ENVIRONMENTAL MICROBIOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Emilio Bueno, Daniel Mania, Socorro Mesa, Eulogio J. Bedmar, Asa Frostegard, Lars R. Bakken, Maria J. Delgado
Summary: The paper investigates the nitrogen-fixing ability of Bradyrhizobium diazoefficiens, a symbiotic bacterium found in soybeans. It explores the regulatory mechanisms and factors affecting nitrogen fixation.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemistry & Molecular Biology
Asmus Olesen, Rafel Pinilla-Redondo, Mads Hansen, Jakob Russel, Arnaud Dechesne, Barth F. Smets, Jonas Madsen, Joseph Nesme, Soren Sorensen
Summary: Horizontal gene transfer plays a crucial role in spreading antibiotic resistance genes among pathogens. Plasmids, such as IncHI1A, are believed to facilitate the dissemination of resistance genes. The microbial community in urban wastewater treatment plants is highly permissive for the transfer of plasmids. Our study shows that both pB10 and R27 plasmids readily transfer within these communities, including to members of different bacterial families and even phyla. This suggests that HI1A plasmids facilitate gene transfer not only within Enterobacteriaceae, but also between different families of Gammaproteobacteria.
Article
Biochemistry & Molecular Biology
Rafael Pinilla-Redondo, Jakob Russel, David Mayo-Munoz, Shiraz A. Shah, Roger A. Garrett, Joseph Nesme, Jonas S. Madsen, Peter C. Fineran, Soren J. Sorensen
Summary: Research shows that CRISPR-Cas systems are common accessory components of many plasmids, with plasmid CRISPRs displaying a strong targeting bias towards other plasmids, while chromosomal arrays are enriched with virus-targeting spacers, highlighting the genetic independence of plasmids and suggesting a major role in mediating plasmid-plasmid conflicts.
NUCLEIC ACIDS RESEARCH
(2022)
Article
Ecology
Qiaoyu Wu, Mengmeng Ji, Siyu Yu, Ji Li, Xiaogang Wu, Xiaotang Ju, Binbin Liu, Xiaojun Zhang
Summary: This study investigates the microbial mechanisms of differential N2O emissions in agricultural soils. Results show that N2O accumulation in black soil is significantly higher than in fluvo-aquic soil, regardless of nitrogen and carbon conditions. The abundance of denitrifying genes is higher in fluvo-aquic soil, but the gene ratios responsible for N2O production to reduction do not differ significantly between the two soils. However, the bacterial communities in the soils exhibit obvious discrepancies, with N2O-generating bacteria more abundant in black soil and N2O-reducing bacteria more abundant in fluvo-aquic soil. This knowledge can aid in developing strategies for mitigating N2O emissions in agricultural soils by regulating N2O metabolism phenotypes.
Article
Biotechnology & Applied Microbiology
Yuan Gao, Magnus overlie Arntzen, Morten Kjos, Lars R. Bakken, Asa Frostegard
Summary: Rhizobia living as microsymbionts inside nodules have stable access to carbon substrates, while surviving as free-living bacteria in soil. Many rhizobia can denitrify and switch to anaerobic respiration under low oxygen tension. The cellular machinery regulating this transition is relatively well known, but more information is needed about the regulation in starved organisms. Rating: 8 out of 10.
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2023)
Article
Engineering, Environmental
Zhiming He, Boris Parra, Joseph Nesme, Barth F. Smets, Arnaud Dechesne
Summary: This study provides an experimental platform to quantify the abundance of plasmid-specific phages applicable to several different conjugal plasmid classes, and describes their distribution in wastewater systems. The comparison between influent and effluent of wastewater treatment plants revealed a reduction in phage concentration, which has important implications for water quality monitoring and ecological management of mobile resistance genes.
Article
Biochemical Research Methods
Danesh Moradigaravand, Liguan Li, Arnaud Dechesne, Joseph Nesme, Roberto de la Cruz, Huda Ahmad, Manuel Banzhaf, Soren J. Sorensen, Barth F. Smets, Jan-Ulrich Kreft
Summary: Wastewater treatment plants (WWTPs) contain diverse microbial communities that receive antimicrobial residues and resistant strains, allowing for horizontal gene transfer (HGT) of antimicrobial resistance (AMR) determinants. This study used machine learning models to predict plasmid permissiveness in water cycle microbial communities, which is the ability of cells to receive a plasmid through conjugation. The results showed a moderate-to-strong correlation between predicted and experimental permissiveness, indicating the potential for assessing the risk of AMR pollution in wastewater systems.
Article
Plant Sciences
Yongming Duan, Min Han, Maja Grimm, Jasper Schierstaedt, Jafargholi Imani, Massimiliano Cardinale, Marie Le Jean, Joseph Nesme, Soren J. Sorensen, Adam Schikora
Summary: This study investigated the response of barley to three different beneficial bacteria, as well as the influence of soil-borne Ensifer meliloti on seed microbiome. The results showed distinct colonization patterns of the bacteria in the rhizosphere and induction of systemic resistance against foliar fungal pathogens. Transcriptome analysis revealed the regulation of ion- and stress-related genes in plants upon bacterial encounter. The study also found an effect of bacterial inoculation on the composition of seed endophytes. These findings contribute to the understanding of the interaction between ISR-triggering bacteria and crop plants, which is crucial for sustainable agriculture.
Article
Engineering, Environmental
Xiaokun Liu, Lian Zhang, Rui Shen, Qihong Lu, Qinglu Zeng, Xiaojun Zhang, Zhili He, Simona Rossetti, Shanquan Wang
Summary: This study identified FeS as a major catalyzing matter for the abiotic dechlorination of chloroethenes (CEs) in soil. Acetylene was found to be an indicator of FeS-mediated abiotic CE dechlorination. Organohalide-respiring bacteria (OHRB)-mediated dechlorination enhanced the conversion of CEs to acetylene, while FeS inhibited OHRB-mediated dechlorination and its inhibition could be alleviated by the addition of soil humic substances. Sulfate-reducing bacteria and fermenting microorganisms affected FeS-mediated abiotic dechlorination by re-generating FeS and providing short chain fatty acids, respectively. These findings provide insights into the interactions between abiotic and biotic dechlorination processes in soil and can guide the sustainable management of CE-contaminated sites.
ENVIRONMENTAL SCIENCE & TECHNOLOGY
(2023)
Article
Microbiology
Lorrie Maccario, Ana F. Silva, Joseph Nesme, Cristina I. Amador, Soren J. Sorensen, Vaughn S. Cooper, Henriette L. Roder
Summary: We present the draft genomes of seven bacterial strains from two wastewater facilities in Denmark, two of which potentially belong to new groups within the Pseudomonas and Pseudochrobactrum genera. These genomes serve as valuable references for studying bacterial interactions and horizontal gene transfer in bacterial communities.
MICROBIOLOGY RESOURCE ANNOUNCEMENTS
(2023)
