Article
Soil Science
Melinda Megyes, Andrea K. Borsodi, Tamas Arendas, Karoly Marialigeti
Summary: Understanding the impact of different agricultural practices on soil microbiome is crucial, especially in terms of fertilizer type and application frequency. In this study, fallow land was found to be richer in certain specific taxa, while exclusive use of inorganic fertilizer and combined fertilizer treatments resulted in significant differences in bacterial and archaeal community structure and abundance.
APPLIED SOIL ECOLOGY
(2021)
Article
Plant Sciences
Qichun Huang, Nina Wang, Jimin Liu, Huihong Liao, Zhikang Zeng, Chengxiao Hu, Chizhang Wei, Songyue Tan, Fuping Liu, Guoguo Li, Hongming Huang, Dongkui Chen, Shaolong Wei, Zelin Qin
Summary: This study compared the agronomic traits and microbiomes of normal and marbled fruit in Citrus reticulata Blanco 'Orah'. The results showed no significant differences in microbiome diversity between the two groups, but the normal fruit group had higher fruit yields and better quality. The most abundant microbial populations in marbled fruit were Burkholderiaceae and Acidobacteria, while Bacteroidetes, Firmicutes, and Proteobacteria were dominant in normal fruit. Additionally, there were significant differences in metabolic pathways between the two groups according to Kyoto Encyclopedia of Genes and Genomes analysis.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Forestry
Dandan Gao, Ning Zhang, Shuguang Liu, Chen Ning, Xinyue Wang, Shuailong Feng
Summary: Urbanization alters soil bacterial diversity and community composition, with higher diversity in urban areas compared to suburban and rural areas in forests and grasslands. The dominant soil bacterial community shifts from Acidobacteria to Proteobacteria in forestland with increasing urbanization intensity. In contrast, Proteobacteria consistently dominate the soil bacterial community in grassland along the rural-suburban-urban gradient, with significant changes in Nitrospirae and Latescibacteria induced by urbanization. Factors such as urbanization, total nitrogen, total organic carbon, ratio of carbon and nitrogen, and soil water content are found to be related to the bacterial community in forest and grassland soils.
Article
Soil Science
Dominique Serrani, Ilario Ferrocino, Cristiana Garofalo, Andrea Osimani, Maria Rita Corvaglia, Vesna Milanovic, Lucia Aquilanti, Stefania Cocco, Valeria Cardelli, Rogerio Borguete Alves Rafael, Elena Franciosi, Kieran Tuohy, Francesca Clementi, Giuseppe Corti
Summary: This study elucidated the soil bacterial diversity in Central Mozambique where slash-and-burn farming has been practiced for different durations of forest fallow period. The results showed that spatial, temporal, and vertical variations influenced the bacterial community structure and its relationship with soil physicochemical properties. The uncommon application of the pedological approach for microbial evaluation facilitated the detection of horizontal and vertical heterogeneities in bacterial composition along the soil profile.
Article
Microbiology
Phil Colgan, Elizabeth L. Rieke, Khurram Nadeem, Thomas B. Moorman, Michelle L. Soupir, Adina Howe, Nicole Ricker
Summary: Evaluating the environmental and clinical impacts of industrial antibiotic use is crucial for preventing the spread of antimicrobial resistance. Using soil columns and a qPCR-based approach, researchers studied the transport and enrichment of resistance genes in soil and water after applying swine or cattle manure. They found differences in resistance gene profiles and distribution between manure sources, as well as different dynamics of gene distribution in soil and effluent water. This information can be used to develop future mitigation strategies.
Article
Ecology
Hongmao Jiang, Youchao Chen, Yang Hu, Ziwei Wang, Xuyang Lu
Summary: The study investigated the soil bacterial composition and diversity in five different alpine grassland ecosystems on the Tibetan Plateau. While the taxonomic compositions of soil bacteria were similar, the community structures differed among the grassland types. Environmental conditions such as soil organic matter, total nitrogen, total phosphorus, pH, and soil water content were found to influence the soil bacterial communities in the region.
FRONTIERS IN ECOLOGY AND EVOLUTION
(2021)
Article
Soil Science
Iliana Ruiz-Leyva, Francisco Paraguay-Delgado, Dayana E. Salas-Leiva, Antonia Luna-Velasco, Nicolaza Pariona, Erasmo Orrantia-Borunda, Joan S. Salas-Leiva
Summary: This study evaluated the impact of zinc peroxide nanoparticles (nZnO(2)) on taxonomic and functional diversity of bacterial communities in agricultural soil. The findings showed that exposure to low concentrations of nZnO(2) (10-100 mg/kg soil) increased the molecular diversity of bacterial communities, while high concentrations (1000 mg/kg soil) reduced both taxonomic and functional diversity.
APPLIED SOIL ECOLOGY
(2023)
Article
Biology
Modhi O. Alotaibi, Afrah E. Mohammed, Kamal H. Eltom
Summary: The current study aimed to assess possible changes in bacterial communities of the water at Wadi Namar Lake. The results showed variations in bacterial species and abundance between different locations, which were related to surrounding environmental factors. These findings are important for planning environmental protection and future restoration of affected ecosystems.
SAUDI JOURNAL OF BIOLOGICAL SCIENCES
(2022)
Article
Environmental Sciences
Veronika Prepilkova, Zuzana Perhacova, Marian Schwarz, Katarina Trnkova
Summary: There are multiple sources of mine drainage in the Central Slovakian neovolcanites, which are characterized by neutral pH and high concentrations of sulphates and potentially hazardous elements. The bacterial populations in the mine drainage were characterized using various methods such as microscopy, cultivation, mass spectrometry, and gene sequencing. Bacillus spp. and Pseudomonas spp. were found to be abundant in the mine water samples and may have potential in bioremediation.
Article
Environmental Sciences
Adithya Govindarajan, Mary Crum, Jay Adolacion, Amin Kiaghadi, Edgar Acuna-Gonzalez, Hanadi S. Rifai, Richard C. Willson
Summary: This study provides a description of sediment microbial communities in the Houston Ship Channel-Galveston Bay estuary after Hurricane Harvey. The presence and abundance of specific bacterial and archaeal taxa indicate pollutant inputs and the study also observed microorganisms involved in the biodegradation of xenobiotics. The spatial occurrence of a specific degrader of persistent polychlorinated compounds is explained by sediment properties and contaminant concentrations.
MARINE POLLUTION BULLETIN
(2022)
Article
Agronomy
Chunqiao Zhao, Xiaona Li, Yuesen Yue, Xincun Hou, Qiang Guo, Jinku Song, Cui Li, Weiwei Zhang, Chao Wang, Yanhui Hou, Ranran Fan, Ruishuang Shi, Xifeng Fan, Juying Wu
Summary: The conversion to Miscanthus cultivation leads to decreases in nitrate nitrogen and available phosphorus, while increasing soil organic carbon content, significantly impacting the soil microbiome and nitrogen cycling.
GLOBAL CHANGE BIOLOGY BIOENERGY
(2021)
Article
Microbiology
Shu Li, Bao Qi, Wan Wang, Xueyan Peng, Andrey A. Gontcharov, Bao Liu, Qi Wang, Yu Li
Summary: The study identified the bacterial communities associated with the plasmodia of six myxomycetes species and found that while the bacterial composition varied among species, there was a high similarity in the functional composition of the bacterial communities. The enrichment for gram-negative and aerobic bacteria in plasmodia suggests that myxomycetes may selectively recruit certain bacteria from the environment.
Article
Biotechnology & Applied Microbiology
Sina Moghadam, Arash Jafarzadeh, Kiran Kumar Vadde, Akanksha Matta, Samer Dessouky, Jeffrey Hutchinson, Vikram Kapoor
Summary: This study examined and compared the soil bacterial communities in two stormwater detention basins in Texas, USA, and evaluated the impact of soil physiochemical properties on these communities. The results showed that the basins had distinct microbial communities, and soil particle size, phosphorus, and ammonia were significantly correlated with some dominant phyla. The study also predicted the relative abundance of nitrogen cycling genes, indicating shared functional traits within the microbial communities. These findings have implications for understanding the role of microbial communities in nitrogen cycling processes and developing sustainable stormwater management strategies.
JOURNAL OF APPLIED MICROBIOLOGY
(2023)
Article
Microbiology
Emily C. Fowler, Ryan S. Samuel, Benoit St-Pierre
Summary: For commercial swine producers, the natural variation in body weight amongst pigs in a herd presents a challenge in meeting the standards of meat processors who incentivize target carcass weights by offering more favorable purchase prices. The gut microbiome has emerged as an important factor that can affect growth performance and efficiency in swine, as it contributes to vital functions such as providing assimilable nutrients and resistance to infection. This study compared the fecal microbiomes of light and heavy barrows and identified two bacterial species in higher abundance in the light barrows group, which may play roles in promoting beneficial microorganisms and utilizing starch in the swine gut.
Article
Environmental Sciences
Ademir Sergio Ferreira Araujo, Arthur Prudencio de Araujo de Pereira, Jadson Emanuel Lopes Antunes, Louise Melo de Souza Oliveira, Wanderley Jose de Melo, Sandra Mara Barbosa Rocha, Marineide Rodrigues do Amorim, Fabio Fernando Araujo, Vania Maria Maciel Melo, Lucas William Mendes
Summary: The use of composting as a biological alternative to improve tannery sludge quality by microbial action has been proposed. This study assessed the responses of bacterial and archaeal communities during composting using 16S rRNA sequencing, revealing specific microbial community structures and dynamics at different stages of the composting process.
ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH
(2021)
Article
Computer Science, Interdisciplinary Applications
Brady A. Nahkala, Amy L. Kaleita, Michelle L. Soupir
Summary: Watershed models and machine learning models are both important tools for providing information to decision makers, but watershed models are often neglected due to constraints. Machine learning models, particularly the random forest algorithm, offer interpretable predictive tools that provide decision makers with more intuitive references.
ENVIRONMENTAL MODELLING & SOFTWARE
(2022)
Article
Environmental Sciences
Ji Yeow Law, Leigh Ann Long, Amy Kaleita, Matthew Helmers, Conrad Brendel, Katherine van der Woude, Michelle Soupir
Summary: It is necessary to use combinations of BMPs in the MARB to achieve nutrient reduction goals. Results from a study in paired catchments show that higher coverage of BMPs can effectively reduce nitrate and total nitrogen loads. Precipitation patterns and seasonality also play a role in nitrogen export.
JOURNAL OF ENVIRONMENTAL MANAGEMENT
(2022)
Article
Environmental Sciences
Abby Schaefer, Jaejin Lee, Michelle L. Soupir, Thomas B. Moorman, Adina Howe
Summary: This study used quantitative PCR and sequencing techniques to analyze microbial communities in woodchip bioreactors. The results showed dynamic microbial communities with persistent taxa between different sampling years and hydraulic retention times. The similarities in functional gene copy numbers suggest that the potential for denitrification is conserved across different microbial communities. The study recommends focusing on woodchip bioreactor microbial community membership in future research.
JOURNAL OF ENVIRONMENTAL QUALITY
(2022)
Article
Environmental Sciences
Jared S. Flater, Laura M. Alt, Michelle Soupir, Thomas B. Moorman, Adina Howe
Summary: Poultry litter is a valuable nutrient resource for agriculture but can introduce antibiotic resistance genes and bacteria to the environment. Prairie strips have been shown to improve environmental quality in agricultural systems. This research investigates the potential of prairie strips to reduce the transport of bacteria and resistance genes in runoff after litter application. The results vary, suggesting the need for further understanding of soil properties and other factors.
JOURNAL OF ENVIRONMENTAL QUALITY
(2022)
Review
Environmental Sciences
Lindsey M. Hartfiel, Abby Schaefer, Adina C. Howe, Michelle L. Soupir
Summary: Denitrifying woodchip bioreactors are efficient in reducing nitrate-nitrogen loading to surface waters, although performance indicators vary. Besides denitrification, other microbial processes exist in these systems, highlighting the importance of considering microbial metabolism in bioreactor studies. Further research should draw from soil and wetland ecology to understand and manage bioreactor microbiomes effectively.
JOURNAL OF ENVIRONMENTAL QUALITY
(2022)
Article
Chemistry, Analytical
Robert G. Hjort, Raquel R. A. Soares, Jingzhe Li, Dapeng Jing, Lindsey Hartfiel, Bolin Chen, Bryan Van Belle, Michelle Soupir, Emily Smith, Eric McLamore, Jonathan C. Claussen, Carmen L. Gomes
Summary: In this study, a hydrophobic laser-induced graphene-based nitrate ion-selective electrode is developed to address the current issues in solid-contact ion-selective electrodes. The electrode shows comparable performance to a US Environmental Protection Agency-accepted analytical method for water quality analysis.
Article
Soil Science
Daniel Liptzin, Charlotte E. Norris, Shannon B. Cappellazzi, G. Mac Bean, Michael Cope, Kelsey L. H. Greub, Elizabeth L. Rieke, Paul W. Tracy, Ezra Aberle, Amanda Ashworth, Oscar Banuelos Tavarez, Andy Bary, R. L. Baumhardt, Alberto Borbon Gracia, Daniel C. Brainard, Jameson R. Brennan, Dolores Briones Reyes, Darren Bruhjell, Cameron N. Carlyle, James J. W. Crawford, Cody F. Creech, Steve W. Culman, Bill Deen, Curtis J. Dell, Justin D. Derner, Thomas F. Ducey, Sjoerd W. Duiker, Miles F. Dyck, Benjamin H. Ellert, Martin H. Entz, Avelino Espinosa Solorio, Steven J. Fonte, Simon Fonteyne, Ann-Marie Fortuna, Jamie L. Foster, Lisa M. Fultz, Audrey Gamble, Charles M. Geddes, Deirdre Griffin-LaHue, John H. Grove, Stephen K. Hamilton, Xiying Hao, Zachary D. Hayden, Nora Honsdorf, Julie A. Howe, James A. Ippolito, Gregg A. Johnson, Mark A. Kautz, Newell R. Kitchen, Sandeep Kumar, Kirsten S. M. Kurtz, Francis J. Larney, Katie L. Lewis, Matt Liebman, Antonio Lopez Ramirez, Stephen Machado, Bijesh Maharjan, Miguel Angel Martinez Gamino, William E. May, Mitchel P. McClaran, Marshall D. McDaniel, Neville Millar, Jeffrey P. Mitchell, Amber D. Moore, Philip A. Moore, Manuel Mora Gutierrez, Kelly A. Nelson, Emmanuel C. Omondi, Shannon L. Osborne, Leodegario Osorio Alcala, Philip Owens, Eugenia M. Pena-Yewtukhiw, Hanna J. Poffenbarger, Brenda Ponce Lira, Jennifer R. Reeve, Timothy M. Reinbott, Mark S. Reiter, Edwin L. Ritchey, Kraig L. Roozeboom, Yichao Rui, Amir Sadeghpour, Upendra M. Sainju, Gregg R. Sanford, William F. Schillinger, Robert R. Schindelbeck, Meagan E. Schipanski, Alan J. Schlegel, Kate M. Scow, Lucretia A. Sherrod, Amy L. Shober, Sudeep S. Sidhu, Ernesto Solis Moya, Mervin St Luce, Jeffrey S. Strock, Andrew E. Suyker, Virginia R. Sykes, Haiying Tao, Alberto Trujillo Campos, Laura L. Van Eerd, Harold van Es, Nele Verhulst, Tony J. Vyn, Yutao Wang, Dexter B. Watts, David L. Wright, Tiequan Zhang, Cristine L. S. Morgan, C. Wayne Honeycutt
Summary: Soil organic carbon (SOC) is an important indicator of soil health. In addition to SOC, other biological indicators can also provide information about soil carbon dynamics and microbial activity. This study examined the drivers of these indicators, their relationships, and the effects of soil health practices on indicator values. The results showed that the indicators were influenced by temperature, precipitation, and clay content. There were strong correlations among the indicators, especially between SOC and permanganate oxidizable C. Soil health practices such as reduced tillage and cover crop inclusion had positive effects on indicator values. The response to these practices was more pronounced in areas with higher precipitation. Based on cost, sensitivity, interpretability, and availability, a 24-hour potential C mineralization assay was identified as the most beneficial measurement to be conducted with SOC.
SOIL BIOLOGY & BIOCHEMISTRY
(2022)
Article
Microbiology
Linsey Donner, Zachery R. Staley, Jonathan Petali, Jodi Sangster, Xu Li, Wayne Mathews, Daniel Snow, Adina Howe, Michelle Soupir, Shannon Bartelt-Hunt
Summary: One Health field-based approaches are needed to study the linkage between antibiotics and bacterial antibiotic resistance genes (ARGs) in the environment. Water samples from two Nebraska watersheds influenced by wastewater effluent and agricultural runoff were tested, and ARGs associated with the presence of antibiotics were detected in Gram-negative bacteria through whole-genome sequencing and antimicrobial susceptibility testing.
MICROBIOLOGY SPECTRUM
(2022)
Article
Engineering, Environmental
Andrew J. Craig, Chris R. Rehmann, Laura M. Alt, Lisa A. Schulte, Michelle L. Soupir
Summary: Vegetative filter strips (VFS) have been proven effective in reducing the downstream transport of agroecosystem contaminants. Prairie strips, a newly developed type of VFS, not only reduce sediment, nitrogen, and phosphorus losses, but also lower the concentration of pathogens.
JOURNAL OF THE AMERICAN WATER RESOURCES ASSOCIATION
(2022)
Article
Microbiology
Phil Colgan, Elizabeth L. Rieke, Khurram Nadeem, Thomas B. Moorman, Michelle L. Soupir, Adina Howe, Nicole Ricker
Summary: Evaluating the environmental and clinical impacts of industrial antibiotic use is crucial for preventing the spread of antimicrobial resistance. Using soil columns and a qPCR-based approach, researchers studied the transport and enrichment of resistance genes in soil and water after applying swine or cattle manure. They found differences in resistance gene profiles and distribution between manure sources, as well as different dynamics of gene distribution in soil and effluent water. This information can be used to develop future mitigation strategies.
Article
Environmental Sciences
Jena L. Congilosi, Joshua S. Wallace, Timothy P. Neher, Adina Howe, Michelle L. Soupir, Diana S. Aga
Summary: The application of animal manures to cropland is an important nutrient recycling strategy. This study analyzed the presence of antimicrobials, metals, and antimicrobial resistance genes (ARGs) in swine manure samples from Iowa, United States. The results showed high levels of tetracyclines and other chemicals, indicating the potential risk of antimicrobial resistance development and proliferation.
FRONTIERS IN ENVIRONMENTAL SCIENCE
(2022)
Article
Environmental Sciences
Ji Yeow Law, Alexis Slade, Natasha Hoover, Gary Feyereisen, Michelle Soupir
Summary: Woodchip denitrification bioreactors are effective in reducing nitrogen export from subsurface drainage, but limited woodchip supplies and rising prices pose challenges. Lab studies suggest corncobs as a promising alternative, giving higher removal rates and cost efficiency. This field study compares the performance and cost of denitrification bioreactors using woodchip-corncob treatments, finding CC75 to be the most cost-efficient treatment. However, further studies are needed to explore long-term opportunities and challenges of using corncobs as a bioreactor medium.
JOURNAL OF ENVIRONMENTAL MANAGEMENT
(2023)
Article
Environmental Sciences
Lindsey M. Hartfiel, Natasha L. Hoover, Steven J. Hall, Thomas M. Isenhart, Carmen L. Gomes, Michelle L. Soupir
Summary: Denitrification bioreactors are effective in reducing nitrate from subsurface drainage, but they may also produce other pollutants and greenhouse gases. A woodchip bioreactor system showed near complete removal of nitrate in both chambers during the first two years of monitoring. In the third year, significant nitrate reduction was observed in chamber A, alongside production of dissolved methane and nitrous oxide in both chambers. The overall impact on the landscape-scale was small, but pollution swapping can be reduced in woodchip bioreactors under low-flow conditions.
SCIENCE OF THE TOTAL ENVIRONMENT
(2023)
Article
Agronomy
Brady A. Nahkala, Amy L. Kaleita, Michelle L. Soupir, Andy VanLoocke
Summary: The Prairie Pothole Management Support Tool (PPMST) is an open-source web application that provides educational and informational evaluations of flood risk in farmed prairie potholes. It uses a predictive model and simple field characteristics to offer a comparative numeric assessment and assist landowners and consultants in selecting suitable tillage and drainage options.
AGROSYSTEMS GEOSCIENCES & ENVIRONMENT
(2022)
Article
Agronomy
Alyssa N. Iverson, Thomas B. Moorman, Michelle L. Soupir, Amy J. Morrow
Summary: The livestock industry in the United States heavily relies on antibiotics for disease prevention and treatment, leading to frequent application of antibiotic-laden manure in farmland. This study found that prairie buffer strips in farmland do not consistently enhance antibiotic degradation, but antibiotics are unlikely to persist in soil under strip or crop management.
AGROSYSTEMS GEOSCIENCES & ENVIRONMENT
(2022)