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
Environmental Sciences
Emine Gozde Ozbayram, Reyhan Akcaalan, Melek Isinibilir, Meric Albay
Summary: This study explored the bacterial diversity of marine mucilage in the Marmara Sea and the North Aegean Sea using the metabarcoding approach. The results showed a diverse bacterial community dominated by Proteobacteria and Bacteroidetes species. The study also identified correlations between pH levels and the abundances of certain bacterial orders, as well as a positive correlation between total phosphorus and one bacterial order.
ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH
(2022)
Article
Biotechnology & Applied Microbiology
P. K. Patil, V. Baskaran, T. -N. Vinay, S. Avunje, M. Leo-Antony, M. S. Shekhar, S. V. Alavandi, K. K. Vijayan
Summary: The study revealed diverse nitrifying microbial enrichments from low and high saline ecosystems, with ammonia-oxidizing bacteria and nitrite-oxidizing bacteria showing unique lineages in each environment. The enrichments from low saline environments were dominated by specific microbial groups such as Nitrosomonadaceae, while enrichments from high saline environments had different dominant genera like Nitrospira-like AOBs and Nitrosomonas. RecognitionException: this study found that nitrifying microbial enrichments from low and high saline ecosystems have unique and diverse microbial communities, capable of functioning in different salinity environments.
LETTERS IN APPLIED MICROBIOLOGY
(2021)
Article
Environmental Sciences
Xia Zhang, Lijun Cui, Songlin Liu, Jinlong Li, Yunchao Wu, Yuzheng Ren, Xiaoping Huang
Summary: This study investigated the composition and relationships of bacterial and phytoplankton communities in the Pearl River Estuary. It found that bacterial community composition varied with size fractions and salinity gradient across seasons. The study also revealed that the differences between particle-associated and free-living composition were more significant in the wet season. Additionally, positive co-occurrences were observed between phytoplankton species and bacterial populations, indicating mutual cooperation.
MARINE ENVIRONMENTAL RESEARCH
(2023)
Article
Immunology
Zhendong Huang, Peng Wang, Zhanxu Pu, Lianming Lu, Guoqing Chen, Xiurong Hu, Amna Fayyaz, Yunpeng Gai
Summary: The repeated application of fungicide may have detrimental effects on the rhizosphere bacterial community of citrus. However, the usage of mancozeb did not significantly impact the chemical properties and richness and diversity of rhizosphere bacterial community in citrus-cultivated soil.
MICROBIAL PATHOGENESIS
(2021)
Article
Microbiology
Constantinos Xenophontos, Martin Taubert, W. Stanley Harpole, Kirsten Kuesel
Summary: The study revealed that metabolic diversity has less significant impact on community functioning, while phylogenetic diversity strongly influences community functioning with positive and negative effects. Enzyme activities increase with phylogenetic diversity but decrease with metabolic diversity under different substrates.
FEMS MICROBIOLOGY ECOLOGY
(2021)
Article
Microbiology
Carmen Kivistik, Kairi Kairo, Helen Tammert, Inna M. Sokolova, Veljo Kisand, Daniel P. R. Herlemann
Summary: Environmental disturbances, such as changes in salinity, have an influence on the bacterial community within the gastrointestinal tract of the Ampullaceana balthica gastropod. A shift to higher salinity levels caused a disruption in energy homeostasis and a change in the gastrointestinal bacterial community composition. This highlights the importance of salinity thresholds, specifically around salinity 3, which may affect the intestinal microbiome of organisms in the face of sea-level rise and salinization of freshwater bodies.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Environmental Sciences
Yu-Pin Lin, Rainer Ferdinand Wunderlich, Chiao-Ming Lin, Norman Uphoff, Dirk S. Schmeller, Oleg Shipin, Teiji Watanabe, Ngadisih, Hussnain Mukhtar
Summary: The study found that the diversity of archaea and bacteria in soil is influenced by land cover types and environmental zones, with archaeal beta-diversity mainly controlled by environmental zones. These results highlight the importance of land cover types and environmental zones for understanding the contributions of soil microbes to nutrient dynamics and ecosystem resilience.
SCIENCE OF THE TOTAL ENVIRONMENT
(2021)
Article
Environmental Sciences
Stephanie Birnstiel, Marta Sebastian, Cristina Romera-Castillo
Summary: This study characterized a marine bacterial community from the NW Mediterranean Sea growing on plastic leachates and measured its total activity. The results showed that the irradiated treatments had higher bacterial activity compared to the non-irradiated ones, and the biodegradable plastic leachates had lower activity but a similar bacterial composition to the petro-based plastics.
SCIENCE OF THE TOTAL ENVIRONMENT
(2022)
Article
Microbiology
Priti Gawas, Savita Kerkar
Summary: In Goa's salt pans, diverse halophilic microbes with biotechnological applications were found. Detecting the presence of these microbes is important for harnessing their potential. Using metabarcoding, the bacterial community and function of three salt pans in Goa were examined. It was found that different salt pans have unique microbial communities, and adjacent estuaries play a critical role in determining bacterial diversity.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Ecology
Xin-Feng Zhao, Wen-Sheng Shu, Yi-Qi Hao
Summary: Research suggests that seasonal climate fluctuations play a role in maintaining high alpha-diversity in soil bacterial communities. Soil bacterial alpha-diversity is positively correlated with seasonal variations of temperature and precipitation, with weak but significant positive effects observed in different datasets.
Article
Environmental Sciences
Joyce Alvarez-Barragan, Cristiana Cravo-Laureau, Robert Duran
Summary: This study investigates the co-occurrence of fungi and bacteria in PAH-contaminated sediments, revealing that the presence of PAHs reduces the interactions between fungi and bacteria while promoting fungal-induced anaerobic bacterial metabolism.
ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH
(2022)
Article
Biochemistry & Molecular Biology
Dan-Dan Xi, Lu Gao, Li-Ming Miao, Li-Ao Ge, Ding-Yu Zhang, Zhao-Hui Zhang, Xiao-Feng Li, Yu-Ying Zhu, Hai-Bin Shen, Hong-Fang Zhu
Summary: Plasmodiophora brassicae infection contributes to increased microbial diversity and compositional changes in the rhizosphere soil of susceptible pakchoi cultivars, with more bacteria and fungi observed in the susceptible cultivars compared to resistant ones.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biology
Matt Lloyd Jones, Damian William Rivett, Alberto Pascual-Garcia, Thomas Bell
Summary: This study found that naturally occurring microbial communities with well-growing combinations of bacteria can drive invasion resistance, mirroring results seen in artificial communities grown in the lab. The results suggest that productivity is a key factor underpinning invasion resistance in naturally-occurring microbial communities.
Article
Agronomy
Nan Mei, Xiuzhi Zhang, Xinqi Wang, Chang Peng, Hongjun Gao, Ping Zhu, Yan Gu
Summary: Long-term fertilization significantly impacts soil bacterial communities, with different fertilization methods affecting bacterial diversity and soil properties differently. The use of organic fertilizers can significantly increase maize yield and soil nutrients, as well as enhance bacterial community diversity.
EUROPEAN JOURNAL OF AGRONOMY
(2021)
Review
Geochemistry & Geophysics
Gerhard J. Herndl, Barbara Bayer, Federico Baltar, Thomas Reinthaler
Summary: The deep ocean waters below 200 m depth is the largest habitat in terms of volume, hosting around 70% of the prokaryotic biomass in the oceanic water column. These waters are characterized by low temperature, increasing hydrostatic pressure, and decreasing organic matter supply with depth. Recent advancements in microbial oceanography have provided a refined understanding of the ecology of prokaryotes in the dark ocean.
ANNUAL REVIEW OF MARINE SCIENCE
(2023)
Article
Biochemical Research Methods
Maria Prager, Daniel Lundin, Fredrik Ronquist, Anders F. Andersson
Summary: The ASV portal is a web interface that effectively integrates biodiversity data derived from DNA sequences into the Living Atlas platform.
BMC BIOINFORMATICS
(2023)
Article
Limnology
Daniele De Corte, Marta M. Varela, Angeles M. Louro, Sarah K. Bercovici, Joaquin Valencia-Vila, Eva Sintes, Federico Baltar, Tamara Rodriguez-Ramos, Meinhard Simon, Antonio Bode, Thorsten Dittmar, Jutta Niggemann
Summary: Zooplankton grazing on phytoplankton promotes the release of organic matter into the water column and is consumed by prokaryotes, contributing to its molecular diversification. In a experiment using zooplankton-derived dissolved organic matter (DOM) as substrate, the prokaryotic community demonstrated exponential growth and transformed the DOM over the incubation period. The results suggest that zooplankton-prokaryotic interactions play a significant role in the ocean's carbon cycle.
LIMNOLOGY AND OCEANOGRAPHY
(2023)
Article
Multidisciplinary Sciences
Moira Decima, Michael R. Stukel, Scott D. Nodder, Andres Gutierrez-Rodriguez, Karen E. Selph, Adriana Lopes dos Santos, Karl Safi, Thomas B. Kelly, Fenella Deans, Sergio E. Morales, Federico Baltar, Mikel Latasa, Maxim Y. Gorbunov, Matt Pinkerton
Summary: Salp blooms in the Southern Ocean have significant impacts on microbial dynamics and the global biological carbon pump (BCP). Their grazing activities reduce primary production and increase particle export, resulting in higher BCP efficiency compared to non-salp locations.
NATURE COMMUNICATIONS
(2023)
Article
Microbiology
Anabella Aguilera, Javier Alegria Zufia, Laura Bas Conn, Leandra Gurlit, Sylwia Sliwinska-Wilczewska, Gracjana Budzalek, Daniel Lundin, Jarone Pinhassi, Catherine Legrand, Hanna Farnelid
Summary: Cluster 5 picocyanobacteria play a significant role in primary productivity in aquatic ecosystems. This study characterized 17 novel estuarine picocyanobacterial strains and found that they exhibit different growth adaptability and tolerance under various environmental conditions. This new knowledge is important for understanding and evaluating productivity in current and future ecosystems.
ENVIRONMENTAL MICROBIOLOGY
(2023)
Article
Fisheries
Clare I. M. Adams, Gert-Jan Jeunen, Hugh Cross, Helen R. Taylor, Antoine Bagnaro, Kim Currie, Chris Hepburn, Neil J. Gemmell, Lara Urban, Federico Baltar, Michael Stat, Michael Bunce, Michael Knapp
Summary: In response to climate change, efficient monitoring methods are needed for rapidly shifting biodiversity patterns in the oceans. Environmental DNA (eDNA) metabarcoding has emerged as a cost-effective solution. Using eDNA, we detected four community types across a transect in the Southern Hemisphere and found that diversity patterns were mainly driven by planktonic organisms. This technique lays the foundations for multi-trophic environmental monitoring efforts.
ICES JOURNAL OF MARINE SCIENCE
(2023)
Review
Ecology
Eva Breyer, Federico Baltar
Summary: Previous investigations on ocean ecology and biogeochemistry have focused mainly on bacteria, archaea, and protists, neglecting pelagic fungi (mycoplankton) which were thought to only exist in association with solid substrates on the seafloor. However, recent studies have shown that pelagic fungi are found ubiquitously throughout the water column in all ocean basins and play an active role in organic matter degradation and nutrient cycling. This review highlights the current knowledge on mycoplankton ecology, identifies knowledge gaps and challenges, and emphasizes the need to recognize pelagic fungi as significant contributors to oceanic organic matter cycling and ecology.
TRENDS IN ECOLOGY & EVOLUTION
(2023)
Article
Engineering, Environmental
Quyen Nham, Lina Mattsson, Catherine Legrand, Elin Lindehoff
Summary: Microalgal cultivation for biodiesel and feed can use whey permeate as a sustainable source of nutrients. Green algae strains and polyculture showed an ability to use organic phosphorus from whey permeate and had similar or higher growth rates and nutrient removal rates compared to chemical phosphate treatments. This study demonstrated that raw whey permeate can replace mineral phosphorus fertilizer for algal cultivation.
WATER ENVIRONMENT RESEARCH
(2023)
Article
Microbiology
Federico Baltar, Clara Martinez-Perez, Chie Amano, Marion Vial, Semidan Robaina-Estevez, Thomas Reinthaler, Gerhard J. Herndl, Zihao Zhao, Ramiro Logares, Sergio E. Morales, Jose M. Gonzalez
Summary: Through studying the samples collected beneath the Ross Ice Shelf in Antarctica using single-cell genomics, community metagenomics, metatranscriptomics, and single-cell activity measurements, we identified a ubiquitous mixotrophic bacterial group (UBA868) that plays a dominant role in the expression of sulfur oxidation and dissolved inorganic carbon fixation genes, thus highlighting its global distribution and importance in the mesopelagic ocean.
NATURE MICROBIOLOGY
(2023)
Article
Microbiology
Pavla Debeljak, Federico Baltar
Summary: Fungi have played a significant role in shaping the biosphere since the origin of life on Earth. However, research on fungal communities has been mainly focused on soils, leaving the role and composition of fungi in aquatic environments largely unexplored. In this study, we used a dataset of 18S rRNA sequences from various ecosystems to conduct a global assessment of fungal diversity. Our findings reveal different patterns of fungal diversity and community composition in terrestrial, freshwater, and marine environments, with the highest diversity found in terrestrial ecosystems. Additionally, we identified the most abundant fungi in each ecosystem, highlighting the dominant presence of Ascomycota and Basidiomycota in most environments, except for freshwater rivers where Chytridiomycota were dominant. This study fills an important knowledge gap in understanding the Earth's mycobiome.
Article
Microbiology
Marilena Heitger, Federico Baltar
Summary: This study measured the respiration and biomass production of three marine fungi under different temperature and nutrient concentration conditions. The results showed that fungal respiration and production rates varied among species, temperature, and nutrient concentration. Higher temperatures enhanced fungal respiration and production, while lower temperatures improved fungal growth efficiencies. Nutrient concentration influenced fungal respiration, production, and growth efficiency, but the effects differed among species. This study provides valuable insights into the role of pelagic fungi in the marine carbon cycle as a source/sink of carbon during organic matter remineralization.
Article
Ecology
Hanna M. Bensch, Daniel Lundin, Conny Tolf, Jonas Waldenstrom, Markus Zottl
Summary: In social species, gut microbiome similarity among group members is mainly explained by shared environmental effects rather than host relatedness. This was shown through a cross-foster experiment conducted on Damaraland mole-rats under controlled laboratory conditions, using 16S amplicon sequencing to analyze gut microbiome composition. These findings, in conjunction with studies in wild animal populations, suggest that environmental factors have a stronger influence on gut microbiome composition similarity than host genetics among conspecifics.
JOURNAL OF EVOLUTIONARY BIOLOGY
(2023)
Article
Multidisciplinary Sciences
Hugo Lebrette, Vivek Srinivas, Juliane John, Oskar Aurelius, Rohit Kumar, Daniel Lundin, Aaron S. Brewster, Asmit Bhowmick, Abhishek Sirohiwal, In-Sik Kim, Sheraz Gul, Cindy Pham, Kyle D. Sutherlin, Philipp Simon, Agata Butryn, Pierre Aller, Allen M. Orville, Franklin D. Fuller, Roberto Alonso-Mori, Alexander Batyuk, Nicholas K. Sauter, Vittal K. Yachandra, Junko Yano, Ville R. I. Kaila, Britt-Marie Sjoberg, Jan Kern, Katarina Roos, Martin Hogbom
Summary: This study presents a high-resolution room temperature structure of the class Ie R2 protein radical in RNR, revealing conformational reorganization and restructuring of the hydrogen bond network. These findings help explain radical handling and transfer mechanisms in RNR and have implications for radical transfer in proteins more generally.
Article
Microbiology
Hanna M. M. Bensch, Conny Tolf, Jonas Waldenstrom, Daniel Lundin, Markus Zottl
Summary: In mammals, the gut microbiota plays a vital role in their health. Recent research has shown that captive animal populations often have different gut microbiota diversity and composition compared to wild populations. This study compares the gut bacterial microbiota of wild and captive Damaraland mole-rats and reveals significant changes in the gut microbiota composition between the two groups.
Article
Mycology
Katherine Salazar-Alekseyeva, Gerhard J. Herndl, Federico Baltar
Summary: Marine fungi have been found to release cell-free enzymes, which are potential contributors to the oceanic enzymatic pool. Salinity changes may affect the enzymatic activities of marine fungi and their potential contribution to oceanic biogeochemical cycles.
FRONTIERS IN FUNGAL BIOLOGY
(2023)
