Article
Engineering, Environmental
Shu-Hui Liu, Hsin-Hui Lin, Chi-Wen Lin
Summary: The development of a deoxidizing packing material with an encapsulated deoxidizing agent for TB-MFC showed improved voltage output and power density, effectively maintaining low levels of dissolved oxygen and achieving efficient isopropanol removal.
JOURNAL OF HAZARDOUS MATERIALS
(2022)
Article
Engineering, Environmental
Lloyd D. Potts, Alex Douglas, Luis J. Perez Calderon, James A. Anderson, Ursula Witte, James Prosser, Cecile Gubry-Rangin
Summary: Acute environmental perturbations cause changes in microbial community composition and selection of different phylotypes, while chronic perturbations maintain community stability and can lead to the establishment of alternative stable states. This study also demonstrates the functional resilience of ecosystem following environmental perturbations.
ENVIRONMENTAL SCIENCE & TECHNOLOGY
(2022)
Article
Environmental Sciences
Nirali M. M. Raiyani, Satya P. P. Singh
Summary: In this investigation, a comprehensive and comparative analysis of bacterial communities and their functional potential in pristine and polluted marine sediments was conducted using MiSeq. Proteobacteria was the dominant phylum in all study sites, with other phyla including Actinobacteria, Bacteroidetes, Planctomycetes, Acidobacteria, Chloroflexi, Nitrospirae, Cyanobacteria, Verrucomicrobia, Tenericutes, and Chlorobi. The key genera identified were Acinetobacter, Bacillus, Pseudomona, Idiomarina, Thalassospira, Marinobacter, Halomonas, Planctomyces, Psychrobacter, and Vogesella. Major functions associated with metabolism, including amino acids, carbohydrates, energy generation, xenobiotics degradation, nitrogen, sulfate, and methane, were observed. This study significantly adds to our understanding of the microbiome and its functional attributes of marine sediments.
ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH
(2023)
Article
Microbiology
Philips O. Akinwole, Jinjun Kan, Louis A. Kaplan, Robert H. Findlay
Summary: Spatial and temporal variability are key attributes of sedimentary microbial communities, with larger distances having more dominant spatial effects on beta-diversity. Microeukaryotic photoautotrophs play a key role in structuring bacterial communities on streambed sediments. The study confirmed distinct microbial biogeography for headwater stream communities and highlighted the influence of environmental heterogeneity and geographical distance on microbial composition and spatial distribution.
MICROBIOLOGY SPECTRUM
(2021)
Article
Multidisciplinary Sciences
Kie Kumaishi, Erika Usui, Kenta Suzuki, Shungo Kobori, Takumi Sato, Yusuke Toda, Hideki Takanashi, Satoshi Shinozaki, Munehiro Noda, Akiko Takakura, Kayoko Matsumoto, Yuji Yamasaki, Hisashi Tsujimoto, Hiroyoshi Iwata, Yasunori Ichihashi
Summary: Microbiota play a significant role in agroecosystems, especially the root microbiota in plant growth and health. We have improved the sample handling efficiency of 16S rRNA gene sequencing for plant root microbiota by optimizing DNA extraction and PCR purification steps. Our method enables the capture of microbial diversity comparable to manual methods and generates comparable microbiome profile data as commonly used DNA extraction kits. It provides a simple and high-throughput option for maintaining the quality of plant root microbial community profiling.
SCIENTIFIC REPORTS
(2022)
Article
Microbiology
Shaomin Liu, Jiating Wu, Ziyan Hu, Mengyu Jiang
Summary: This study investigates the effects of different enzymes on sludge hydrolysis efficiency and microbial community. It finds that lysozyme has the best hydrolysis effect and has the greatest impact on effluent quality. The introduction of enzymes has some influence on the microbial diversity of sludge.
FRONTIERS IN MICROBIOLOGY
(2023)
Review
Environmental Sciences
Tatiana C. Guarin, Krishna R. Pagilla
Summary: The combination of ozonation and biofiltration processes has become practical for advanced water reclamation, but microbial community characterization in biofilters for water reuse applications has not been as well studied as in drinking water biofilters. Understanding the microbial community characteristics is crucial for addressing potential risks and mechanisms affecting public health and the environment. There are significant gaps in relating biodegradation performance and metabolic processes in the biofilter, highlighting the need for future research in this area.
SCIENCE OF THE TOTAL ENVIRONMENT
(2021)
Article
Soil Science
Yang Ouyang, Danmei Chen, Ying Fu, Weiling Shi, Tony Provin, Arum Han, Erin van Shaik, James E. Samuel, Paul de Figueiredo, Aifen Zhou, Jizhong Zhou
Summary: In this study, an optimized cell extraction protocol was developed, including physical blending, Tween 20 treatment, and centrifugation with 80% Nycodenz, which showed the highest cell viability and yield among the extraction methods tested. The effect of soil storage conditions on the yield, viability, and community composition of soil extractable cells was assessed, with 4 degrees C short-term storage found to be suitable for highly efficient viable cell extraction.
SOIL BIOLOGY & BIOCHEMISTRY
(2021)
Article
Microbiology
Eleni Kamilari, Marina Efthymiou, Dimitrios A. Anagnostopoulos, Dimitrios Tsaltas
Summary: The research utilized high-throughput sequencing to analyze the bacterial diversity of traditional Cyprus sausages from the Troodos mountainous region of Pitsilia and industrially produced sausages. The findings showed that Pitsilia sausages had significantly higher bacterial diversity, suggesting that microbial communities could serve as an additional tool for identifying the authenticity of Cypriot sausages.
FRONTIERS IN MICROBIOLOGY
(2021)
Article
Soil Science
Jonathan Donhauser, Maria J. I. Briones, Juha Mikola, Davey L. Jones, Reinhard Eder, Juliane Filser, Aline Frossard, Paul Henning Krogh, Jose Paulo Sousa, Jerome Cortet, Ellen Desie, Xavier Domene, Simoneda Djuric, Davorka Hackenberger, Juan J. Jimenez, Maria Iamandei, Cornelia Rissmann, Olaf Schmidt, Merrit Shanskiy, Tarja Silfver, Karen Vancampenhout, Martina Vasutova, Emiliya Velizarova, Beat Frey
Summary: Nematodes are abundant in soils and play a crucial role in soil food-webs. DNA metabarcoding is an efficient method for assessing nematode diversity, but the choice of DNA extraction method may affect community analysis. This study found that different DNA sources can lead to differences in nematode diversity, community structure, and feeding type abundances.
SOIL BIOLOGY & BIOCHEMISTRY
(2023)
Article
Biotechnology & Applied Microbiology
Eliane Bou Orm, Stephane Sauvagere, Janick Rocher, Jean-Charles Benezet, Sandrine Bayle, Christian Siatka, Anne Bergeret, Luc Malhautier
Summary: The industrial hemp plant Cannabis sativa is a valuable source of vegetable fiber for textiles and biocomposites. The methodological aspects of nucleic acid extraction from hemp stems have been poorly studied, despite their crucial importance for studying microbial communities. A comparative analysis of three extraction protocols revealed that the Genosol procedure showed the highest yields in terms of DNA quantity and quality, making it suitable for studying bacterial and fungal populations in retted hemp stems.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2023)
Article
Multidisciplinary Sciences
John K. Pearman, Georgia Thomson-Laing, Jamie D. Howarth, Marcus J. Vandergoes, Lucy Thompson, Andrew Rees, Susanna A. Wood
Summary: This study investigated bacterial community heterogeneity within sediment cores using 16S rRNA metabarcoding. Results showed that three replicate samples were insufficient to characterize the entire bacterial diversity except for the deepest slices, with shared Amplicon Sequence Variants (ASVs) making up the majority of reads in each depth slice. Replicates within a depth slice generally clustered together, indicating high community dissimilarity in older sediment in one core.
Article
Multidisciplinary Sciences
Alan R. Pacheco, Melisa L. Osborne, Daniel Segre
Summary: The study investigates how microbial community properties change with increasing complexity of resource combinations. Results show that environmental composition plays a major role in determining microbiome dynamics, and growth yield may not increase additively with environmental complexity. Factors like species similarity, degree of specialization, and metabolic interactions influence the non-additive behavior of communities in response to combinations of resource pools.
NATURE COMMUNICATIONS
(2021)
Article
Biochemistry & Molecular Biology
Feilun Wu, Yuanchi Ha, Andrea Weiss, Meidi Wang, Jeffrey Letourneau, Shangying Wang, Nan Luo, Shuquan Huang, Charlotte T. Lee, Lawrence A. David, Lingchong You
Summary: Spatial partitioning modulates the dynamics of microbial communities, promoting the persistence of populations with negative interactions and suppressing those with positive interactions. An intermediate level of partitioning maximizes the overall diversity of the community.
NATURE CHEMICAL BIOLOGY
(2022)
Article
Environmental Sciences
Shamali De Silva, Andrew S. Ball, Esmaeil Shahsavari, Demidu Indrapala, Suzie M. Reichman
Summary: This study examined the impact of motor vehicle emissions on soil and microbial diversity, finding that bacterial diversity was higher than control sites while fungal diversity decreased with exposure time. Bacterial diversity increased across all road types, while fungal diversity decreased, potentially affecting the ecosystem functionality and health of roadside soils.
ENVIRONMENTAL POLLUTION
(2021)
Article
Microbiology
Linwei Wu, Daliang Ning, Bing Zhang, Yong Li, Ping Zhang, Xiaoyu Shan, Qiuting Zhang, Mathew Brown, Zhenxin Li, Joy D. Van Nostrand, Fangqiong Ling, Naijia Xiao, Ya Zhang, Julia Vierheilig, George F. Wells, Yunfeng Yang, Ye Deng, Qichao Tu, Aijie Wang, Tong Zhang, Zhili He, Jurg Keller, Per H. Nielsen, Pedro J. J. Alvarez, Craig S. Criddle, Michael Wagner, James M. Tiedje, Qiang He, Thomas P. Curtis, David A. Stahl, Lisa Alvarez-Cohen, Bruce E. Rittmann, Xianghua Wen, Jizhong Zhou, Dany Acevedo, Miriam Agullo-Barcelo, Gary L. Andersen, Juliana Calabria de Araujo, Kevin Boehnke, Philip Bond, Charles B. Bott, Patricia Bovio, Rebecca K. Brewster, Faizal Bux, Angela Cabezas, Lea Cabrol, Si Chen, Claudia Etchebehere, Amanda Ford, Dominic Frigon, Janeth Sanabria Gomez, James S. Griffin, April Z. Gu, Moshe Habagil, Lauren Hale, Steven D. Hardeman, Marc Harmon, Harald Horn, Zhiqiang Hu, Shameem Jauffur, David R. Johnson, Alexander Keucken, Sheena Kumari, Cintia Dutra Leal, Laura A. Lebrun, Jangho Lee, Minjoo Lee, Zarraz M. P. Lee, Mengyan Li, Xu Li, Yu Liu, Richard G. Luthy, Leda C. Mendonca-Hagler, Francisca Gleire Rodriguez de Menezes, Arthur J. Meyers, Amin Mohebbi, Adrian Oehmen, Andrew Palmer, Prathap Parameswaran, Joonhong Park, Deborah Patsch, Valeria Reginatto, Francis L. de los Reyes, Adalberto Noyola Robles, Simona Rossetti, Jatinder Sidhu, William T. Sloan, Kylie Smith, Oscarina Viana de Sousa, Kyle Stephens, Renmao Tian, Nicholas B. Tooker, Daniel De los Cobos Vasconcelos, Steve Wakelin, Bei Wang, Joseph E. Weaver, Stephanie West, Paul Wilmes, Sung-Geun Woo, Jer-Horng Wu, Liyou Wu, Chuanwu Xi, Meiying Xu, Tao Yan, Min Yang, Michelle Young, Haowei Yue, Qian Zhang, Wen Zhang, Yu Zhang, Hongde Zhou, Matthew Brown
NATURE MICROBIOLOGY
(2019)
Article
Chemistry, Physical
Javiera Toledo-Alarcon, Lea Cabrol, David Jeison, Eric Trably, Jean-Philippe Steyer, Estela Tapia-Venegas
INTERNATIONAL JOURNAL OF HYDROGEN ENERGY
(2020)
Article
Biotechnology & Applied Microbiology
Oscar Franchi, Lea Cabrol, Rolando Chamy, Francisca Rosenkranz
JOURNAL OF BIOTECHNOLOGY
(2020)
Article
Environmental Sciences
Emilie Villar, Lea Cabrol, Lars-Eric Heimburger-Boavida
ENVIRONMENTAL MICROBIOLOGY REPORTS
(2020)
Article
Multidisciplinary Sciences
Frederic Thalasso, Armando Sepulveda-Jauregui, Laure Gandois, Karla Martinez-Cruz, Oscar Gerardo-Nieto, Maria S. Astorga-Espana, Roman Teisserenc, Celine Lavergne, Nikita Tananaev, Maialen Barret, Lea Cabrol
SCIENTIFIC REPORTS
(2020)
Article
Microbiology
Guillaume Schwob, Lea Cabrol, Elie Poulin, Julieta Orlando
FRONTIERS IN MICROBIOLOGY
(2020)
Article
Environmental Sciences
Lea Cabrol, Frederic Thalasso, Laure Gandois, Armando Sepulveda-Jauregui, Karla Martinez-Cruz, Roman Teisserenc, Nikita Tananaev, Alexander Tveit, Mette M. Svenning, Maialen Barret
SCIENCE OF THE TOTAL ENVIRONMENT
(2020)
Article
Environmental Sciences
Fanny Colas, Jean-Marc Baudoin, Patricia Bonin, Lea Cabrol, Martin Daufresne, Remy Lassus, Julien Cucherousset
Summary: The study found that as artificial lakes mature, their metabolism shifts from heterotrophic to autotrophic, making them CO2 sinks but increasing CH4 emissions. Eutrophication may reverse lakes' contribution to climate carbon budgets, but also raises CH4 emissions, enhancing their climate impact. Mitigation strategies to maintain intermediate maturity levels are needed to limit artificial waterbodies' climate impacts.
SCIENCE OF THE TOTAL ENVIRONMENT
(2021)
Article
Environmental Sciences
Celine Lavergne, Polette Aguilar-Munoz, Natalia Calle, Frederic Thalasso, Maria Soledad Astorga-Espana, Armando Sepulveda-Jauregui, Karla Martinez-Cruz, Laure Gandois, Andres Mansilla, Rolando Chamy, Maialen Barret, Lea Cabrol
Summary: Freshwater ecosystems play a significant role in methane emissions and this study investigated the effects of temperature on microbial community structure and methane production pathways in sub-Antarctic lake sediments. The research found that temperature had a significant impact on methane production rates, particularly when methanogenic precursors such as acetate and H-2/CO2 were introduced.
ENVIRONMENT INTERNATIONAL
(2021)
Article
Microbiology
Guillaume Schwob, Nicolas Segovia, Claudio Gonzalez-Wevar, Lea Cabrol, Julieta Orlando, Elie Poulin
Summary: This study presents a new approach to unravel bacterial phylogeographic patterns in the oceans, combining community-wide survey by 16S rRNA gene metabarcoding and intra-species resolution through the oligotyping method. The research focused on the bacterial genus Spirochaeta in the Southern Ocean, revealing genetic differentiation and phylogeographic structure among distant biogeographic provinces. The findings suggest the Antarctic Polar Front as a barrier to bacterial dispersal and the Antarctic Circumpolar Current as the main driver of gene flow, with historical processes governing spatial turnover among Spirochaeta populations.
FRONTIERS IN MICROBIOLOGY
(2021)
Article
Microbiology
Julie Hardy, Patricia Bonin, Adele Lazuka, Estelle Gonidec, Sophie Guasco, Corinne Valette, Sebastien Lacroix, Lea Cabrol
Summary: This study compared two different strategies for acclimating the anaerobic digestion microbiome to increasing ammonium concentration. Results suggest that long-term cumulative exposure to ammonia disrupted the microbiome more strongly than direct (independent) ammonium additions. Different bioindicators with varying NH4+ tolerance capacity were identified among VFA producers and syntrophic VFA oxidizers.
MICROBIOLOGY SPECTRUM
(2021)
Article
Biotechnology & Applied Microbiology
P. Aguilar-Munoz, C. Lavergne, R. Chamy, L. Cabrol
Summary: Anaerobic digestion is an attractive bioprocess for waste treatment and energy recovery. This study investigates the potential of microbial inoculum from Antarctic soils and sediments to operate anaerobic digestion at low temperatures. The results show that the Antarctic inoculum has a higher methane production rate than the mesophilic sludge at low temperatures.
JOURNAL OF BIOTECHNOLOGY
(2022)
Article
Environmental Sciences
Frederic Thalasso, Armando Sepulveda-Jauregui, Lea Cabrol, Celine Lavergne, Nazli Olgun, Karla Martinez-Cruz, Polette Aguilar-Munoz, Natalia Calle, Andres Mansilla, Maria Soledad Astorga-Espana
Summary: A comprehensive assessment of freshwater ecosystems in the maritime Antarctica reveals their important role in the global greenhouse gas budget, with low-level atmospheric methane emissions but acting as greenhouse gas sinks.
SCIENCE OF THE TOTAL ENVIRONMENT
(2022)
Article
Microbiology
Christophe V. W. Seppey, Lea Cabrol, Frederic Thalasso, Laure Gandois, Celine Lavergne, Karla Martinez-Cruz, Armando Sepulveda-Jauregui, Polette Aguilar-Munoz, Maria Soledad Astorga-Espana, Rolando Chamy, Bruna Martins Dellagnezze, Claudia Etchebehere, Gilberto J. Fochesatto, Oscar Gerardo-Nieto, Andres Mansilla, Alison Murray, Maxime Sweetlove, Nikita Tananaev, Roman Teisserenc, Alexander T. Tveit, Anton Van de Putte, Mette M. Svenning, Maialen Barret
Summary: As global warming increases the availability of permafrost organic carbon, methane-cycling becomes increasingly important in high-latitude ecosystems. This study examined samples from three high-latitude regions and found that physicochemical properties, especially pH, played a significant role in shaping the microbial communities involved in methane production and consumption. Geographic distance also influenced the diversity of these microorganisms, with dispersal limitation playing a role. Indicator species were identified to characterize different ecological niches. This research provides insight into the distribution of methane-cycling microbes in high latitudes under climate change predictions.
ENVIRONMENTAL MICROBIOLOGY
(2023)
Article
Geosciences, Multidisciplinary
Marco Pfeiffer, Jose Padarian, Rodrigo Osorio, Nelson Bustamante, Guillermo Federico Olmedo, Mario Guevara, Felipe Aburto, Francisco Albornoz, Monica Antilen, Elias Araya, Eduardo Arellano, Maialen Barret, Juan Barrera, Pascal Boeckx, Margarita Briceno, Sally Bunning, Lea Cabrol, Manuel Casanova, Pablo Cornejo, Fabio Corradini, Gustavo Curaqueo, Sebastian Doetterl, Paola Duran, Mauricio Escudey, Angelina Espinoza, Samuel Francke, Juan Pablo Fuentes, Marcel Fuentes, Gonzalo Gajardo, Rafael Garcia, Audrey Gallaud, Mauricio Galleguillos, Andres Gomez, Marcela Hidalgo, Jorge Ivelic-Saez, Lwando Mashalaba, Francisco Matus, Francisco Meza, Maria de la Luz Mora, Jorge Mora, Cristina Munoz, Pablo Norambuena, Carolina Olivera, Carlos Ovalle, Marcelo Panichini, Anibal Pauchard, Jorge F. Perez-Quezada, Sergio Radic, Jose Ramirez, Nicolas Riveras, German Ruiz, Osvaldo Salazar, Ivan Salgado, Oscar Seguel, Maria Sepulveda, Carlos Sierra, Yasna Tapia, Francisco Tapia, Balfredo Toledo, Jose Miguel Torrico, Susana Valle, Ronald Vargas, Michael Wolff, Erick Zagal
EARTH SYSTEM SCIENCE DATA
(2020)