Article
Environmental Sciences
Yu-Pin Lin, Andrianto Ansari, Rainer Ferdinand Wunderlich, Huu-Sheng Lur, Thanh Ngoc-Dan Cao, Hussnain Mukhtar
Summary: Understanding the niche segregation of AOA and AOB in ammonia oxidation and N2O production under different pH and temperature conditions is crucial for predicting N2O dynamics. Results showed that AOA and AOB occupied different niches for PAO, with soil temperature being a major determinant. N2O fluxes were higher in acidic conditions and lower in alkaline conditions, with a significant positive correlation between PAO and N2O fluxes.
Article
Biotechnology & Applied Microbiology
Shanshan Meng, Tao Peng, Hui Wang, Tongwang Huang, Ji-Dong Gu, Zhong Hu
Summary: This study investigated the distribution and abundance of ammonia-oxidizing archaea and ammonia-oxidizing bacteria, complete ammonia oxidizers, and nitrite-oxidizing bacteria in mangrove ecosystems. The results showed that different primers had varying efficiency in detecting and characterizing specific bacterial groups in mangrove sediments. Additionally, diverse and abundant novel nitrifying bacteria were found in the mangrove sediments.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2022)
Article
Soil Science
Ting Lan, Xiaoqian He, Qi Wang, Ouping Deng, Wei Zhou, Ling Luo, Guangdeng Chen, Jian Zeng, Shu Yuan, Min Zeng, Haihua Xiao, Xuesong Gao
Summary: In this study, the synergistic effects of biological nitrification inhibitors (BNIs), urease inhibitors (UIs), and biochar (BC) on nitrogen loss and nitrogen use efficiency were investigated. The results showed that the application of MHPP_NBPT can simultaneously reduce NH3 volatilization and increase NUE.
APPLIED SOIL ECOLOGY
(2022)
Article
Green & Sustainable Science & Technology
Junnan Ding, Bin Li, Minglong Sun, Xin Li
Summary: This study aimed to explore the effects of three different cropping patterns on the abundance of nitrogen-cycling genes in saline-alkali soils. The results showed that rotation and mixture promoted soil nutrients and significantly influenced N-cycling functional genes. Rotation reduced the abundance of nifH, AOA, narG, and nosZ, while increasing the abundance of AOB. Mixture decreased the abundance of AOA, narG, and nosZ, while increasing the abundance of AOB and nxrB. Rotation and mixture not only reduced soil salinity but also improved soil fertility and nitrogen cycling.
Article
Environmental Sciences
Chris Chisholm, Hong J. Di, Keith Cameron, Andriy Podolyan, Anish Shah, Lisa Hsu, Jupei Shen
Summary: This study investigated the abundance and community composition of comammox Nitrospira across different regions of pasture-based dairy farms and different land uses within the same region. The results showed that comammox Nitrospira were most abundant under west coast dairy farm conditions and irrigated dairy farms. The abundance of comammox Nitrospira was also influenced by soil moisture and annual rainfall.
SCIENCE OF THE TOTAL ENVIRONMENT
(2023)
Article
Ecology
Rui Zhao, Jose M. Mogollon, Desiree L. Roerdink, Ingunn H. Thorseth, Ingeborg Okland, Steffen L. Jorgensen
Summary: Research shows that ammonia-oxidizing archaea (AOA) in different sediment cores exhibit similar cell-specific power requirements, even under varying power supply and AOA abundance conditions, indicating a narrow range of power requirements for AOA in the deep biosphere.
Article
Environmental Sciences
Josie van Dorst, Daniel Wilkins, Sally Crane, Kate Montgomery, Eden Zhang, Tim Spedding, Greg Hince, Belinda Ferrari
Summary: Microorganisms play a crucial role in Antarctic terrestrial ecosystems, especially in soil remediation and environmental risk assessments. By studying the shifts in microbial communities, insights into the bioremediation process can be gained for long-term management.
ENVIRONMENTAL POLLUTION
(2021)
Article
Environmental Sciences
Huijun Ye, Changyuan Tang, Yingjie Cao, Xing Li, Pinyi Huang
Summary: This study investigated the effects of AOA and AOB abundance and different environmental conditions on nitrification performance, finding that tea orchard soil had lower pH and higher nitrogen content compared to forest soil, with AOA and AOB abundance being pH-dependent in both soils. The study also observed that AOA and AOB performance was restricted by pH and the environment when pH < 4, especially in long-term fertilized farmlands.
ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH
(2022)
Article
Environmental Sciences
Cheng Chen, Guoyu Yin, Lijun Hou, Min Liu, Yinghui Jiang, Dongsheng Zheng, Dengzhou Gao, Cheng Liu, Yanling Zheng, Ping Han
Summary: This study investigated the effects of sulfamethoxazole (SMX) at near in situ concentration on nitrogen removal processes coupled with nitrification. The results demonstrated that SMX significantly decreased nitrogen removal rates, increased N2O production, and nitrite accumulation. The inhibition of nitrogen transformation functional genes by SMX was more pronounced in heterotrophic denitrification processes.
ENVIRONMENTAL POLLUTION
(2021)
Article
Environmental Sciences
Jiawei Zhao, Xiangyu Guan, Xiaonan Shi, Wei Guo, Ximing Luo
Summary: This study analyzed the microbial communities in sediments from different levels of the Luan River estuary and found that the abundance and diversity of Nitrospira were highest in the low-level zone and lowest in the high-level zone. The distribution of Nitrospira was also influenced by complex environmental factors such as NH4+, Fe, and Cu cation concentrations.
ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH
(2023)
Article
Environmental Sciences
Giulia Filippini, Ana B. Bugnot, Deepa R. Varkey, Nachshon Siboni, Angus Ferguson, Paul E. Gribben, Katherine Erickson, Julia Palmer, Katherine A. Dafforn
Summary: This study investigated nitrogen cycling in oyster reef habitats along the East coast of Australia by assessing the abundances of nitrogen cycling genes in oyster shell biofilms and surrounding sediments. The study found higher abundances of denitrification gene nosZII in oyster shell biofilms, indicating a greater capacity for nitrogen removal. The ratio of (nirS + nirK)/nosZII in oyster shell biofilms was lower, suggesting limited nitrous oxide release compared to sediments. The abundances of nitrogen cycling genes in sediments were influenced by large-scale environmental conditions.
MARINE POLLUTION BULLETIN
(2023)
Article
Engineering, Environmental
Zhaopeng Qu, Jin Li, Zhi Hu, Wenzong Liu, Aijie Wang
Summary: Currently, conventional biological nitrogen removal processes face challenges in removing ammonium from saline wastewater. This study successfully utilized marine anammox bacteria in a microbial electrolytic cell to convert NH4+-N to N2. In addition, the application of voltage increased microbial diversities at the electrode surface and promoted the formation of electrode biofilm.
CHEMICAL ENGINEERING JOURNAL
(2023)
Article
Ecology
Xin Bai, Xiaojing Hu, Junjie Liu, Dan Wei, Ping Zhu, Xi'an Cui, Baoku Zhou, Xueli Chen, Judong Liu, Jian Jin, Xiaobing Liu, Guanghua Wang
Summary: This study investigated the contributions of different ammonia oxidizers and heterotrophic nitrifiers to nitrification potential in arable black soils and found that AOB are the dominant ammonia oxidizers contributing to nitrification.
EUROPEAN JOURNAL OF SOIL BIOLOGY
(2022)
Article
Environmental Sciences
Robinson W. Fulweiler
Summary: Nitrogen fixation is a crucial process that links the atmospheric nitrogen pool to the biosphere. Despite the prevailing belief that nitrogen fixation only occurs to meet nitrogen demands, recent research has shown that sediment nitrogen fixation can take place even in nitrogen-rich coastal environments. This challenges the traditional view of nitrogen fixation as solely a relief mechanism for nitrogen limitation. In this article, the author proposes that coastal sediments are actually ideal environments for nitrogen fixation and presents ideas on why this is the case. The goal is to encourage further research on the dynamics and composition of sediment nitrogen fixation.
GLOBAL BIOGEOCHEMICAL CYCLES
(2023)
Article
Ecology
Anna J. Mueller, Anne Daebeler, Craig W. Herbold, Rasmus H. Kirkegaard, Holger Daims
Summary: Nitrospirales, including the genus Nitrospira, are widespread bacteria that play important roles in nitrogen and carbon cycling. In this study, three new marine Nitrospirales species and one novel genus were discovered. A new organism, named Ca. Nitronereus thalassa, represents the first cultured member of a Nitrospirales lineage that includes both free-living and sponge-associated nitrite oxidizers. This organism exhibits distinct habitat distribution patterns and unique genes involved in carbon fixation and respiration.
Article
Soil Science
C. F. Drury, A. L. Woodley, W. D. Reynolds, X. M. Yang, L. A. Phillips, L. Rehmann, W. Calder
Summary: This study evaluated the impacts of removing corn stover on soil-borne CO2 and N2O emissions, finding that stover removal may decrease CO2 emissions but increase N2O emissions, with different effects observed under different tillage practices.
SOIL SCIENCE SOCIETY OF AMERICA JOURNAL
(2021)
Article
Soil Science
Helen L. Hayden, Lori A. Phillips, Alexis J. Marshall, Jason R. Condon, Gregory S. Doran, Gregory S. Wells, Pauline M. Mele
Summary: The study found that nitrapyrin co-applied with urea ammonium nitrate can inhibit nitrification in soils by reducing nitrate accumulation and inhibiting the growth of ammonia oxidising bacteria. Additionally, the study discovered increased abundance of archaeal amoA gene in response to the co-application of nitrapyrin and UAN, possibly due to reduced competition from ammonia oxidising bacteria. Nevertheless, conclusive effects on downstream N transformations could not be discerned for the four soils.
APPLIED SOIL ECOLOGY
(2021)
Article
Ecology
Alexis J. Marshall, Andrew Longmore, Lori Phillips, Caixian Tang, Helen L. Hayden, Karla B. Heidelberg, Pauline Mele
Summary: The study found that in the semi-enclosed Port Phillip Bay (PPB) in Australia, there are seasonal shifts in sediment microbial communities near estuary inputs, with decreases in activity profiles of key N-cycling genes during spring and summer. In sediments isolated from inputs, however, although no seasonal structuring of the microbial community was observed, there was higher variability in the activity profiles of key N-cycling genes.
AQUATIC MICROBIAL ECOLOGY
(2021)
Article
Soil Science
Ikechukwu V. Agomoh, Craig F. Drury, Xueming Yang, Lori A. Phillips, W. Daniel Reynolds
Summary: A long-term field study found that soybean grown in 3-year rotations with corn and winter wheat produced the largest soybean yields and positive impacts on soil health indicators, likely due to cereal crops enhancing carbon inputs into soil.
SOIL SCIENCE SOCIETY OF AMERICA JOURNAL
(2021)
Article
Soil Science
Craig F. Drury, W. Daniel Reynolds, Xueming Yang, Neil B. McLaughlin, Wayne Calder, Lori A. Phillips
Summary: Research shows that crop rotation leads to lower N2O emissions compared to continuous cropping, and the microbial activity in different stages of rotation affects N2O emissions.
SOIL SCIENCE SOCIETY OF AMERICA JOURNAL
(2021)
Article
Multidisciplinary Sciences
Kay Vopel, Alexis Marshall, Shelly Brandt, Adam Hartland, Charles K. Lee, S. Craig Cary, Conrad A. Pilditch
Summary: Research suggests that increasing CO2 concentration in seawater affects biogeochemical processes and pH oscillations in sediment. Dissolution of calcite can reverse the H+ flux between seawater and sediment, decreasing the amplitude of pH oscillations.
SCIENTIFIC REPORTS
(2021)
Article
Microbiology
Maria R. Monteiro, Alexis J. Marshall, Ian Hawes, Charles K. Lee, Ian R. McDonald, Stephen Craig Cary
Summary: The space-for-time substitution approach has been validated in microbial ecology studies, allowing predictions of ecosystem response to climate change based on the impact of moisture variation on microbial community structure and diversity.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Microbiology
Ashleigh A. Currie, Alexis J. Marshall, Andrew M. Lohrer, Vonda J. Cummings, Sarah Seabrook, S. Craig Cary
Summary: This study compared benthic microbial communities under first-year sea ice (FYI) and multi-year sea ice (MYI) in two coastal habitats in McMurdo Sound, Antarctica. The results showed that legacy sea ice conditions influence the structure and composition of benthic microbial communities, reflecting changes in sea ice productivity and seafloor deposition. Under current climate-warming scenarios, major shifts in benthic microbial communities are likely to occur, with heterotrophic organic matter degradation processes becoming increasingly important.
FRONTIERS IN MICROBIOLOGY
(2021)
Article
Soil Science
Michelle Quach, Pauline M. Mele, Helen L. Hayden, Alexis J. Marshall, Liz Mann, Hang-Wei Hu, Ji-Zheng He
Summary: The study found that the soil microbial community near the SDI emitter is significantly affected, with changes in bacterial and fungal diversity and structure. Bacterial community in soil is more affected by SDI system, while fungal diversity is not influenced by emitter proximity, but is lower in fields with established SDI systems.
APPLIED SOIL ECOLOGY
(2022)
Article
Environmental Sciences
Alexis J. Marshall, Lori Phillips, Andrew Longmore, Helen L. Hayden, Karla B. Heidelberg, Caixian Tang, Pauline Mele
Summary: This study explores the potential of sediment microbial nitrogen-cycling gene and activity abundances to spatially resolve coastal areas impacted by seasonal variability in external nutrient inputs. The results demonstrate that the abundance of nitrogen-cycling genes and activity can be used to monitor and predict nitrogen inputs in coastal zones.
SCIENCE OF THE TOTAL ENVIRONMENT
(2023)
Article
Environmental Sciences
Alexis J. Marshall, Lori Phillips, Andrew Longmore, Helen L. Hayden, Caixian Tang, Karla B. Heidelberg, Pauline Mele
Summary: This study assesses the capability of untargeted metatranscriptomics to identify spatiotemporal differences in microbial contribution to benthic nitrogen cycling in Port Phillip Bay, Australia. The most abundant sediment transcripts are associated with the archaeal nitrifier Nitrosopumilus. Transcripts of Nitrosopumilus nitric oxide nitrite reduction dominate in sediments close to organic nitrogen inputs. However, coordinated transcription of coupled community-level nitrification-denitrification is not well supported.
ENVIRONMENTAL MICROBIOLOGY REPORTS
(2023)
Article
Education & Educational Research
Benjamin J. Tully, Joy Buongiorno, Ashley B. Cohen, Jacob A. Cram, Arkadiy Garber, Sarah K. Hu, Arianna Krinos, Philip T. Leftwich, Alexis J. Marshall, Ella T. Sieradzki, Daan R. Speth, Elizabeth A. Suter, Christopher B. Trivedi, Luis E. Valentin-Alvarado, Jake L. Weissman
Summary: The COVID-19 pandemic had a significant impact on research progress and career development globally, especially for graduate students and early career researchers. The Bioinformatics Virtual Coordination Network (BVCN) was established to help research biologists learn new skills and conduct computational projects. BVCN provided hands-on tutorials covering various bioinformatic topics through cloud-based platforms to maximize accessibility.
FRONTIERS IN EDUCATION
(2021)
Article
Agronomy
Lumarie Perez-Guzman, Lori A. Phillips, Brent J. Seuradge, Ikechukwu Agomoh, Craig F. Drury, Veronica Acosta-Martinez
Summary: The soil microbial community (SMC) and soil organic matter (SOM) are closely related and sensitive to land-use changes. Grass systems showed better soil health indicators compared to monocultures of corn and soybean in a long-term study, highlighting the importance of implementing sustainable agricultural practices to maintain soil health.
AGROSYSTEMS GEOSCIENCES & ENVIRONMENT
(2021)
Article
Environmental Sciences
Emily Curren, Sandric Chee Yew Leong
Summary: Microplastics in marine ecosystems serve as microhabitats for diverse toxic plankton species, including viable resting cysts of dinoflagellates. The diversity of plankton communities on the plastisphere is influenced by anthropogenic factors. This study highlights the importance of plastics as vectors for the transport of harmful opportunistic species in the marine environment.
MARINE ENVIRONMENTAL RESEARCH
(2024)
Article
Environmental Sciences
Vladimir G. Dvoretsky, Alexander G. Dvoretsky
Summary: The Barents Sea, as the largest Arctic shelf region, plays a vital role in supporting commercial fisheries. The ecosystem of this region is significantly influenced by both warm Atlantic Water (AW) and cold Arctic Water (ARW), resulting in distinct frontal zones. This study found that copepod populations, particularly herbivorous copepods, were most abundant and productive in the Polar Front, as well as in the eastern frontal zones. The geographic positions of sampling stations, depth, and chlorophyll a concentration were identified as the main factors influencing copepod biomass and production.
MARINE ENVIRONMENTAL RESEARCH
(2024)
Article
Environmental Sciences
Alberto Rovellini, Charlotte L. Mortimer, Matthew R. Dunn, Elizabeth A. Fulton, Jamaluddin Jompa, Abdul Haris, James J. Bell
Summary: This study compared the structural complexity of coral- and sponge-dominated areas of an Indonesian coral reef using 3D photogrammetry. The results showed that smaller-scale refugia were reduced in sponge-dominated reefs, potentially impacting smaller reef fauna.
MARINE ENVIRONMENTAL RESEARCH
(2024)
