Article
Biology
Afef Najjari, Panagiota Stathopoulou, Khaled Elmnasri, Faten Hasnaoui, Ines Zidi, Haitham Sghaier, Hadda Imene Ouzari, Ameur Cherif, George Tsiamis
Summary: This study comprehensively evaluated the archaeal diversity in three different halite-crystal salts from two separate saline systems in Southern Tunisia, revealing unexpected diversity profiles and demonstrating that the Miseq approach can detect more diversity compared to other methods.
Article
Microbiology
Alexander Meene, Laurin Gierse, Theresa Schwaiger, Claudia Karte, Charlotte Schroeder, Dirk Hoeper, Haitao Wang, Verena Gross, Christine Wuensche, Pierre Muecke, Bernd Kreikemeyer, Martin Beer, Doerte Becher, Thomas C. Mettenleiter, Katharina Riedel, Tim Urich
Summary: This study investigates the structure and function of the archaeome in the porcine intestinal tract during a non-lethal Influenza A virus infection. It reveals significant changes in the abundance and composition of archaea along the ileum and colon, dominated by Methanobrevibacter and Methanosphaera genera. The study also explores the major methanogenesis pathways of these archaea and identifies some effects of the H1N1 infection on the central metabolism of gut archaea.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Engineering, Environmental
Qiong Liu, Marco Romani, Jiajia Wang, Britta Planer-Friedrich, Johanna Pausch, Maxim Dorodnikov
Summary: The study found that alternate wet-drying method was more effective in reducing CH4 production in rice straw-amended paddy soils compared to sulfate fertilization. Under alternate wet-drying conditions, oxidation of CH4 was indicated by C-13 enrichment, while the absence of a decrease in CH4 concentrations in sulfate treatments was explained by reduced competition between sulfate-reducing bacteria and methanogenic archaea.
ENVIRONMENTAL SCIENCE & TECHNOLOGY
(2021)
Article
Biotechnology & Applied Microbiology
Araceli de Sousa Pires, Graciela Maria Dias, Danielly Chagas de Oliveira Mariano, Rubens Nobumoto Akamine, Ana Carla Cruz de Albuquerque, Claudia Groposo, Claudia Maria Soares Ribeiro, Leonardo de Figueiredo Vilela, Bianca Cruz Neves
Summary: Petroleum microbiology is crucial for the fossil oil industry and environmental research, with difficulties in sampling and extraction. Assessment of microbial communities in a Brazilian offshore oil reservoir revealed a dominance of bacteria over archaea, with Desulfobacterota and Nanoarchaeota phyla being predominant. Knowledge of microbial communities in the Campos Basin oil field food chain is limited, and the study expanded understanding of the environment's complexity.
INTERNATIONAL BIODETERIORATION & BIODEGRADATION
(2021)
Review
Microbiology
Wyatt Arnold, Meghan Taylor, Mark Bradford, Peter Raymond, Jordan Peccia
Summary: The spatial heterogeneity of methane emissions from wetlands may be largely influenced by the variance in microbial communities.
MICROBIOLOGY SPECTRUM
(2023)
Article
Microbiology
Wyatt Arnold, Meghan Taylor, Mark Bradford, Peter Raymond, Jordan Peccia
Summary: Emission of methane from wetlands exhibits spatial heterogeneity, but the drivers of within-site variations remain unclear. This study investigates the spatial variability of microbial communities in a peat bog, finding that microbial community differences contribute significantly to methane flux variance.
MICROBIOLOGY SPECTRUM
(2023)
Article
Ecology
Zivile Buivydaite, Mille Anna Lilja, Rumakanta Sapkota, Benni Winding Hansen, Lea Ellegaard-Jensen, Niels Bohse Hendriksen, Paul Henning Krogh, Anne Winding
Summary: Earthworms play an important role in soil ecosystem functioning and are used as indicators of ecosystem health. This study investigates the interactions between earthworms and soil microorganisms by comparing soil with and without earthworms in microcosms. The results show that earthworms increase microbial activity, decrease species richness, and shape soil prokaryotes community structure. Certain bacterial phyla were enriched, while the relative abundance of the archaeal phylum Thaumarchaeota decreased in the presence of earthworms. The study highlights the influence of earthworms on soil microbial communities and their activity, suggesting the need to incorporate earthworm-prokaryote interactions in future soil microbiome studies.
EUROPEAN JOURNAL OF SOIL BIOLOGY
(2023)
Article
Biotechnology & Applied Microbiology
Aaron Zipperle, Barbara Reischl, Tilman Schmider, Michael Stadlbauer, Ivan Kushkevych, Christian Pruckner, Monika Vitezova, Simon K. -M. R. Rittmann
Summary: The conversion of industrial waste gases containing high levels of synthetic carbon monoxide to methane through biomethanation can achieve efficient methane production, which is of great significance for climate-neutral and sustainable energy production.
FERMENTATION-BASEL
(2021)
Article
Microbiology
Alba Regueira-Iglesias, Lara Vazquez-Gonzalez, Carlos Balsa-Castro, Nicolas Vila-Blanco, Triana Blanco-Pintos, Javier Tamames, Maria Jose Carreira, Inmaculada Tomas
Summary: This study analyzed the coverage of 16S rRNA gene primers used in oral microbiome studies and identified the best primers. The findings showed that the optimal primers can be utilized for detecting both oral bacteria and archaea, with a wide coverage range.
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
Environmental Sciences
Blaire M. Padayhag, Michael Angelou L. Nada, Jake Ivan P. Baquiran, Marilou P. Sison-Mangus, Maria Lourdes San Diego-McGlone, Patrick C. Cabaitan, Cecilia Conaco
Summary: This study found that the microbial biofilm communities near mariculture areas can affect the settlement of coral larvae. The biofilm farthest from the mariculture area had a higher effectiveness in inducing the settlement of Acropora tenuis larvae. These biofilms were characterized by a greater proportion of crustose coralline algae and gammaproteobacterial taxa, while biofilms closer to the mariculture zone had a higher proportion of cyanobacteria and no crustose coralline algae. These findings suggest that nutrient enrichment from mariculture activities can alter the composition of biofilm-associated microbiome and indirectly affect coral larval settlement.
MARINE POLLUTION BULLETIN
(2023)
Article
Biochemistry & Molecular Biology
Magdalena Nagler, Sabine Marie Podmirseg, Markus Mayr, Judith Ascher-Jenull, Heribert Insam
Summary: Microbiome studies using next generation sequencing are commonly performed on the total DNA pool, which includes extracellular- and intracellular DNA fractions. Results show that total DNA has lower species richness and unique reads compared to intracellular DNA when tracking microbial community changes over time. The extracellular DNA fraction may qualitatively bias microbiome studies due to abundant sequences masking overall results, while intracellular DNA provides more reliable genetic information about potentially alive microbes.
Article
Environmental Sciences
Zhen Wu, Wai Hin Lee, Zijian Liu, Senjie Lin, Paul K. S. Lam
Summary: This study investigated the bacterial community associated with the benthic dinoflagellate Gambierdiscus balechii using 16S rRNA gene meta-barcoding. The results showed that the microbiome of G. balechii changes with nitrogen nutrient conditions and toxin-producing growth stages, and specific bacterial groups respond to these changes.
FRONTIERS IN MARINE SCIENCE
(2022)
Article
Environmental Sciences
Olivier Laroche, Sonnich Meier, Svein A. Mjos, Nigel Keeley
Summary: This study examined the impact of salmon farming on several epibenthic suspension-feeders and identified potential molecular indicators of this impact. The results showed species-specific effects and differences in fatty acid profiles and host microbiome communities.
FRONTIERS IN MARINE SCIENCE
(2022)
Article
Environmental Sciences
Ademir Sergio Ferreira Araujo, Ana Roberta Lima Miranda, Arthur Prudencio de Araujo Pereira, Wanderley Jose de Melo, Vania Maria Maciel Melo, Sabrina Hermelindo Ventura, Eudemio Sousa Brito Jr, Erika Valente de Medeiros, Fabio Fernando Araujo, Lucas William Mendes
Summary: This study assessed the microbial community in the rhizosphere of maize and cowpea grown in Cr-contaminated soils using amplicon sequencing. The results showed that the microbial community in the maize rhizosphere clustered together, while the microbial community in the cowpea rhizosphere did not present clear clustering. Furthermore, Cr contamination had different effects on specific bacterial groups in the rhizospheres of maize and cowpea.
Article
Microbiology
Tamara N. Nazina, Salimat K. Bidzhieva, Denis S. Grouzdev, Diyana S. Sokolova, Tatyana P. Tourova, Sofiya N. Parshina, Alexander N. Avtukh, Andrey B. Poltaraus, Azhdar K. Talybly
Article
Microbiology
T. P. Tourova, D. Sh. Sokolova, T. N. Nazina, A. B. Laptev
Summary: This work aimed to detect potential degraders of PET, PS, and steel based on comparison of biofilm communities formed on different materials in various aqueous environments. Results showed that industrial recirculated water was more aggressive towards polymer materials, while sulfur- and iron-oxidizing bacteria were likely involved in steel biocorrosion in seawater.
Article
Microbiology
N. A. Manucharova, M. A. Bolshakova, T. L. Babich, T. P. Tourova, E. M. Semenova, A. S. Yanovich, A. B. Poltaraus, A. L. Stepanov, T. N. Nazina
Summary: This paper investigates the phylogenetic and functional microbial diversity in soils contaminated and uncontaminated with hydrocarbons. It identifies specific bacterial genera with potential functional activity in conversion of nitrogen compounds and degradation of hydrocarbons, and suggests the enrichment of soil with specific degraders as a potential strategy for polluted soils in northern regions.
Article
Microbiology
Ekaterina M. Semenova, Denis S. Grouzdev, Diyana S. Sokolova, Tatiyana P. Tourova, Andrey B. Poltaraus, Natalia Potekhina, Polina N. Shishina, Maria A. Bolshakova, Alexander N. Avtukh, Elena A. Ianutsevich, Vera M. Tereshina, Tamara N. Nazina
Summary: This study aimed to determine the diversity of prokaryotes involved in anaerobic oil degradation in oil fields. A new species Actinotalea subterranea was isolated and characterized, and taxonomic revision of the genera Actinotalea and Pseudactinotalea was proposed based on phylogenomic analysis of Actinobacteria.
Correction
Microbiology
Ekaterina M. Semenova, Denis S. Grouzdev, Diyana S. Sokolova, Tatiyana P. Tourova, Andrey B. Poltaraus, Natalia V. Potekhina, Polina N. Shishina, Maria A. Bolshakova, Alexander N. Avtukh, Elena A. Ianutsevich, Vera M. Tereshina, Tamara N. Nazina
Article
Biochemistry & Molecular Biology
Andrei V. Perepelov, Diyana S. Sokolova, Tatiana P. Tourova, Alexander S. Shashkov, Anastasiya A. Kasimova, Tamara N. Nazina
Summary: In this study, a halotolerant hydrocarbon-oxidizing bacterium Halomonas titanicae TAT1 strain was isolated from a petroleum reservoir, and the O-polysaccharide structure and gene cluster were successfully identified. The O-antigen structure was found to be consistent with the genes in the O-antigen gene cluster of the H. titanicae TAT1 genome.
CARBOHYDRATE RESEARCH
(2022)
Article
Microbiology
T. P. Tourova, D. S. Sokolova, E. M. Semenova, A. P. Ershov, D. S. Grouzdev, T. N. Nazina
Summary: Two halophilic hydrocarbon-oxidizing bacteria strains, Halomonas titanicae TAT1 and Marinobacter lutaoensis KAZ22, isolated from oil fields with mineralized formation water, showed adaptability to different temperatures and salinity levels for growth on oil and degradation of n-alkanes. Genome analysis revealed genes related to osmoprotectant synthesis and reduced surface tension in both strains. The injection of nitrate and H. titanicae TAT1 strain can enhance oil reservoir bioaugmentation, suppress corrosion, and decrease sulfide content, while the injection of M. lutaoensis KAZ22 strain can remediate oil pollution and increase oil recovery from reservoirs.
Article
Microbiology
Ekaterina M. Semenova, Tamara L. Babich, Diyana S. Sokolova, Alexey P. Ershov, Yeva Raievska, Salimat K. Bidzhieva, Alexey L. Stepanov, Maria Korneykova, Vladimir A. Myazin, Tamara N. Nazina
Summary: The development of Arctic regions leads to pollution of marine and coastal environments with oil and petroleum products. This study focused on determining the microbial diversity in seawater, littoral and coastal soil, and isolating oil-degrading bacteria. High-throughput sequencing revealed that bacteria dominated polar communities, while archaea made up less than 2% of the total sequences. The potential functional characteristics of the prokaryotic communities were predicted, indicating their involvement in nitrogen and sulfur cycles as well as the degradation of various hydrocarbons. Furthermore, several bacterial strains capable of growing in seawater and degrading crude oil were isolated.
Article
Microbiology
Tamara L. Babich, Denis S. Grouzdev, Diyana S. Sokolova, Tatyana P. Tourova, Andrey B. Poltaraus, Tamara N. Nazina
Summary: Two bacterial strains, JR1/69-2-13(T) and JR1/69-3-13(T), were isolated from nitrate- and radionuclide-contaminated groundwater in Ozyorsk town, South Urals, Russia. They were identified as new species within the genus Pollutimonas and their genomic analysis revealed molecular mechanisms of adaptation to the polluted environment.
ANTONIE VAN LEEUWENHOEK INTERNATIONAL JOURNAL OF GENERAL AND MOLECULAR MICROBIOLOGY
(2023)
Editorial Material
Microbiology
Bo-Zhong Mu, Tamara N. Nazina
Article
Microbiology
T. P. Tourova, D. Sh. Sokolova, E. M. Semenova, D. M. Kireev, A. B. Laptev, T. N. Nazina
Summary: The study aimed to investigate the composition of microbial communities on the surface of PET, PS, and ST materials exposed in a pond near a landfill. The dominant bacteria were found to be capable of degrading polymers and corroding metals. The fungal communities were dominated by saprotrophic species. The effect of the aquatic environment on the fungal community was less significant compared to bacteria.
Article
Green & Sustainable Science & Technology
Tamara N. Nazina, Leyla A. Abukova, Tatiana P. Tourova, Tamara L. Babich, Salimat K. Bidzhieva, Nataliya G. Loiko, Dina S. Filippova, Elisaveta A. Safarova
Summary: The share of molecular hydrogen as green energy is increasing, and the use of existing underground natural gas storage facilities for hydrogen storage is proposed. Microbial diversity in depleted oil and gas fields and deep aquifers were studied, and the effect of hydrogen on microorganisms in underground gas storage was investigated. The findings show that microbial communities in the formation water of depleted oil and gas reservoirs are diverse and include hydrogen-utilizing microorganisms. Microbial communities in aquifers and gas storage facilities are less diverse. Microorganisms in the water of gas storage facilities can affect the water and gas composition, as well as the host rocks and equipment.
Article
Microbiology
T. L. Babich, E. M. Semenova, D. Sh Sokolova, T. P. Tourova, S. Kh Bidzhieva, N. G. Loiko, G. Avdonin, N. Lutsenko, T. N. Nazina
Summary: The study revealed the microbial communities in the subsurface horizons of an uranium deposit in Russia, showing a diverse range of bacteria and fungi that play roles in carbon, nitrogen, sulfur, and metal transformations. Additionally, the presence of fungi with resistance to heavy metals and complex organic substrate utilization capabilities was observed in the rock and reservoir water samples.
Article
Microbiology
T. N. Nazina, L. A. Abukova, T. P. Tourova, T. L. Babich, S. Kh Bidzhieva, D. S. Filippova, E. A. Safarova
Summary: This study focuses on the microbial diversity in samples of reservoir water from underground horizons of Shchelkovo, Kasimov, and Kaluga UGS, revealing a low abundance of cultivated aerobic and anaerobic bacteria. High-throughput sequencing identified a diverse microbial community with potential metabolic abilities in using various substrates.
Article
Microbiology
Diyana S. Sokolova, Ekaterina M. Semenova, Denis S. Grouzdev, Salimat K. Bidzhieva, Tamara L. Babich, Nataliya G. Loiko, Alexey P. Ershov, Vitaly V. Kadnikov, Alexey V. Beletsky, Andrey V. Mardanov, Nurlan S. Zhaparov, Tamara N. Nazina
Summary: The study found that seawater injection and environmental temperature determine the composition and functional activity of prokaryotes in the Uzen oil field.
