Article
Agronomy
Alexis Durand, Cristina Gonnelli, Severine Lopez, Andrea Coppi, Giovanni Bacci, Emile Benizri
Summary: The study found that Odontarrhena populations share similar endophytic bacterial communities, with plant species having a greater impact on the diversity of SEB communities. However, both site and Odontarrhena species factors also significantly influence the diversity of SEB communities, with the interaction between them being the best explanatory factor.
Article
Microbiology
Yan Deng, Haonan Huang, Fangying Lei, Shaodong Fu, Kai Zou, Shuangfei Zhang, Xueduan Liu, Luhua Jiang, Hongwei Liu, Bo Miao, Yili Liang
Summary: This study used high-throughput gene sequencing to analyze the composition and abundance of bacteria from Ginkgo leaves at different stages of leaf development, revealing variations in bacterial community structure and significant correlations between endophytic bacteria and flavonoids. The findings suggest a potential regulatory role of flavonoids on the abundance of endophytic microorganisms in Ginkgo leaves.
FRONTIERS IN MICROBIOLOGY
(2021)
Article
Environmental Sciences
Jose Marques, Aitana Ares, Joana Costa, M. P. M. Marques, L. A. E. Batista de Carvalho, Filipa Bessa
Summary: Marine plastic contamination is widespread in aquatic environments, promoting microbial colonization and biofilm formation. There is a lack of studies on transitional coastal ecosystems, such as sandy beaches and estuaries. A sampling campaign was conducted in the Mondego estuary and adjacent sandy beaches in Portugal, revealing the presence of diverse plastic particles with unique bacterial communities, including pathogens and those commonly found in wastewater treatment plants. This highlights concerns about the transmission and spread of these bacteria by plastics in transitional coastal ecosystems.
SCIENCE OF THE TOTAL ENVIRONMENT
(2023)
Article
Forestry
Soon Ok Rim, Mehwish Roy, Junhyun Jeon, Jake Adolf V. Montecillo, Soo-Chul Park, Hanhong Bae
Summary: The study showed that roots and needle tissues are more heavily colonized by fungal endophytes compared to stem tissue. Among the four pine species, P. thunbergii exhibited the highest species richness and diversity of fungal endophytes.
Article
Multidisciplinary Sciences
Jialin Hu, Jonathan D. Richwine, Patrick D. Keyser, Lidong Li, Fei Yao, Sindhu Jagadamma, Jennifer M. DeBruyn
Summary: The study found that the nitrogen fertilization rate had a stronger influence on AOB community composition than C4 grass species; elevated nitrogen fertilizer application increased the abundance, activity, and alpha-diversity of AOB communities as well as nitrification potential, nitrous oxide (N2O) emission, and soil acidity; the abundance and species richness of AOB were higher under switchgrass compared to big bluestem.
Article
Microbiology
Rufin Marie Kouipou Toghueo, Beatriz Vazquez R. de Aldana, Inigo Zabalgogeazcoa
Summary: In this study, 22 strains of Diaporthe isolated from the roots of Festuca rubra subsp. pruinosa were characterized and two new species, Diaporthe atlantica and Diaporthe iberica, were identified. Diaporthe atlantica is the most abundant species in its host plant and is closely related to the pathogen Diaporthe sclerotioides, which affects cucurbits. It was found that Diaporthe atlantica can inhibit the growth of cucumber, melon, and watermelon.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Ecology
Mohammad Yaghoubi Khanghahi, Carmine Crecchio, Erik Verbruggen
Summary: The research explores how plant growth-promoting bacterial (PGPB) inoculants and chemical fertilizers affect rhizosphere and root endophytic bacterial communities in durum wheat under environmental stress. Results indicate that endophytic bacterial communities are more sensitive to (bio-) fertilization treatments, particularly influenced by PGPB inoculation, and are associated with improved grain yield and photosynthetic capacity.
Article
Plant Sciences
Fabielle M. Bando, Bruno R. S. Figueiredo, Dieison A. Moi, Sidinei M. Thomaz, Thaisa S. Michelan, Jorge Garcia-Giron, Jani Heino, Janne Alahuhta, Gustavo Q. Romero, Roger P. Mormul
Summary: A growing body of evidence indicates that biological invasions are causing changes in the composition of species in communities over space and time. Previous studies conducted at small scales and short durations may have underestimated the impact of exotic species on native communities.
JOURNAL OF ECOLOGY
(2023)
Article
Multidisciplinary Sciences
Laramy Enders, Thorsten Hansen, Kirsten Brichler, John Couture, Elizabeth French
Summary: The host plant range plays a crucial role in shaping microbial communities associated with insect herbivores, but it does not necessarily limit microbial diversity or result in similar microbiomes among herbivores sharing a common host plant. In this study, the bacterial diversity in three milkweed aphid species feeding on the same host plant was compared, revealing both overlapping taxa and structural differences within communities. Although some differences in symbiotic partnerships were observed across the aphid species, host plant specialization did not significantly impact bacterial community diversity.
SCIENTIFIC REPORTS
(2022)
Article
Microbiology
Inaki Odriozola, Nerea Abrego, Vojtech Tlaskal, Petra Zrustova, Daniel Morais, Tomas Vetrovsky, Otso Ovaskainen, Petr Baldrian
Summary: Understanding the interactive dynamics between fungal and bacterial communities is essential for predictive knowledge on ecosystem functioning. This study found evidence of nonrandom fungal-bacterial associations in deadwood, suggesting that fungal communities may mainly affect bacteria. The results provide insight into the directionality of interactions between different components of the microbiome.
Article
Ecology
Michael J. Bottery, Jessica L. Matthews, A. Jamie Wood, Helle Krogh Johansen, Jon W. Pitchford, Ville-Petri Friman
Summary: The study found that multidrug-resistant Stenotrophomonas maltophilia can provide high levels of antibiotic protection to Pseudomonas aeruginosa, but is ineffective against another antibiotic. The level of exposure protection against different carbapenems is determined by differences in antibiotic efficacy and inactivation rate.
Article
Biotechnology & Applied Microbiology
Leena Malayil, Suhana Chattopadhyay, Emmanuel F. Mongodin, Amy R. Sapkota
Summary: Young adults are increasingly using non-cigarette products, such as hookahs, which are seen as healthier alternatives to cigarette smoking. However, the bacterial communities associated with hookah tobacco differ across brands and flavors, and may have important implications for the exposure to specific bacteria among hookah users.
APPLIED MICROBIOLOGY AND BIOTECHNOLOGY
(2022)
Article
Ecology
Madelon Lohbeck, Ben DeVries, Frans Bongers, Miguel Martinez-Ramos, Armando Navarrete-Segueda, Sergio Nicasio-Arzeta, Christina Siebe, Aline Pingarroni, German Wies, Mathieu Decuyper
Summary: Forest regrowth is crucial for achieving restoration commitments, but a lack of understanding about its occurrence and persistence hampers effective upscaling. This study in southern Mexico examined the spatiotemporal dynamics of forest in a recently colonized agricultural frontier, and investigated the factors influencing forest disturbance, regrowth, and secondary forest persistence. The results showed widespread forest loss and relatively constant secondary forest cover, indicating a shift away from shifting cultivation. Climate variation and land ownership were found to be important drivers of disturbance, while soil quality influenced forest characteristics. The findings highlight the importance of considering community-specific dynamics and promoting equitable conservation initiatives to ensure successful forest restoration.
REMOTE SENSING IN ECOLOGY AND CONSERVATION
(2022)
Article
Plant Sciences
Xian Yang, Pandeng Wang, Bowen Xiao, Qianna Xu, Qiang Guo, Shao-peng Li, Lulu Guo, Meifeng Deng, Jianbo Lu, Lingli Liu, Keping Ma, Bernhard Schmid, Lin Jiang
Summary: Plant microbiomes, including leaf epiphytic and endophytic bacterial communities, are influenced by host tree diversity. The diversity of both epiphytic and endophytic bacteria increases with host tree diversity, but the mechanisms differ. The increased epiphytic diversity is driven by greater alpha-diversity on individual trees, while the increased endophytic diversity is driven by greater beta-diversity among trees. Epiphytes respond to changes in host diversity through mass effects, while endophytes respond through species sorting.
JOURNAL OF ECOLOGY
(2023)
Article
Plant Sciences
Ling Zhang, Junhong Bai, Yujia Zhai, Kegang Zhang, Yaqi Wang, Rong Xiao, Milko A. Jorquera
Summary: This study investigated the differences in endophyte and phyllosphere bacteria in Lotus samples from regions with low and high total antibiotic levels. The results showed significant differences in Shannon diversity between endophyte and phyllosphere bacteria, with higher values for phyllosphere bacteria. Proteobacteria and Cyanobacteria were the dominant phyla in phyllosphere and endophyte samples respectively. The study suggests that antibiotics may have a substantial effect on the community of endophyte and phyllosphere bacteria.
PLANT PHYSIOLOGY AND BIOCHEMISTRY
(2023)
Article
Microbiology
Ines Friedrich, Alisa Kuritsyn, Robert Hertel, Rolf Daniel
Summary: The present study describes a novel species within the genus Luteibacter (EIF3(T)). The strain was analyzed genomically, morphologically and physiologically and identified as a new species of Luteibacter. In silico analysis indicated the presence of two putative prophages. The bacterial strain exhibits an elliptical morphotype with multiple flagella at one end and is resistant to certain antibiotics.
Article
Microbiology
Juan Guzman, Miyoung Won, Anja Poehlein, Atena Sadat Sombolestani, Daniela Mayorga-Ch, David Laureys, Jessika De Clippeleer, Peter Kaempfer, Rolf Daniel, Andreas Vilcinskas, Peter Vandamme, Soon- Wo Kwon
Summary: In this study, two strains of bacteria were isolated from wasps in Germany and Korea. Molecular and phenotypic analysis showed that these strains are closely related to known species but also have distinct characteristics. Therefore, it is proposed to name these strains Aristophania vespae.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2023)
Article
Microbiology
Juan Guzman, Anja Poehlein, Rolf Daniel, Peter Kaempfer, Andreas Vilcinskas
Summary: Strain G314FT, isolated from Lucilia sericata in Germany, belongs to the genus Vagococcus. It shows high sequence identity with Vagococcus bubulae, Vagococcus martis, and Vagococcus teuberi, indicating that it represents a new species of the genus. The genome of G314FT is the smallest among the closely related species and has differences in amino acid biosynthesis and carbohydrate metabolism.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2023)
Article
Environmental Sciences
Jimyung Moon, Anja Schubert, Anja Poehlein, Rolf Daniel, Volker Mueller
Summary: To inactivate the Wood-Ljungdahl pathway in Acetobacterium woodii, two subunits of the methylene-tetrahydrofolate reductase were genetically deleted. The mutant was unable to grow on C1 compounds, lactate, ethanol, or butanediol, but could grow on fructose with lower rates and yields compared to the wild-type. Growth on fructose was restored by the addition of an external electron sink, such as glycine betaine + CO2 or caffeate. Transcriptome analyses revealed enzymes potentially involved in mixed acid fermentation (MAF) from fructose in A. woodii.
ENVIRONMENTAL MICROBIOLOGY REPORTS
(2023)
Article
Microbiology
Ines Friedrich, Hannes Neubauer, Alisa Kuritsyn, Bernhard Bodenberger, Faina Tskhay, Sara Hartmann, Anja Poehlein, Mechthild Boemeke, Michael Hoppert, Dominik Schneider, Robert Hertel, Rolf Daniel
Summary: By investigating host-associated metaviromes, we found that the classical isolation technique may miss the diversity of non-plaque forming phages. Through direct plaque-based isolation using new hosts, we discovered a higher phage diversity in Brevundimonas and Serratia. This study demonstrates the potential of combining metavirome analysis with traditional isolation techniques to reveal further phage diversity.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Green & Sustainable Science & Technology
Najeeb Al-Amin Iddris, Greta Formaglio, Carola Paul, Volker von Gross, Guantao Chen, Andres Angulo-Rubiano, Dirk Berkelmann, Fabian Brambach, Kevin F. A. Darras, Valentyna Krashevska, Anton Potapov, Arne Wenzel, Bambang Irawan, Muhammad Damris, Rolf Daniel, Ingo Grass, Holger Kreft, Stefan Scheu, Teja Tscharntke, Aiyen Tjoa, Edzo Veldkamp, Marife D. Corre
Summary: This full factorial experiment conducted in an Indonesian state-owned industrial oil palm plantation evaluated the effects of reduced management practices on ecosystem functions and biodiversity. The results showed that mechanical weeding exhibited higher multifunctionality and increased plant species diversity compared to herbicide treatment. Furthermore, reduced fertilization and mechanical weeding increased profit and gross margin while achieving similar yields.
NATURE SUSTAINABILITY
(2023)
Article
Microbiology
Dominik Schneider, Aygun Ganbarzade, Sina Post, Daniela Zuehlke, Tjorven Hinzke, Jacqueline Hollensteiner, Anja Poehlein, Katharina Riedel, Rolf Daniel
Summary: The imipenem-resistant Citrobacter braakii strain GW-Imi-1b1 was found in a hospital wastewater sample in Greifswald, Germany. Its genome consists of one chromosome (5.09 Mb), one prophage (41.9 kb), and 13 plasmids (2 to 140.9 kb). The genome contains 5,322 coding sequences, shows high potential for genomic mobility, and includes genes encoding proteins for multiple drug resistances.
MICROBIOLOGY RESOURCE ANNOUNCEMENTS
(2023)
Article
Environmental Sciences
Vannesa Montoya-Sanchez, Holger Kreft, Isabelle Arimond, Johannes Ballauff, Dirk Berkelmann, Fabian Brambach, Rolf Daniel, Ingo Grass, Jes Hines, Dirk Hoelscher, Bambang Irawan, Alena Krause, Andrea Polle, Anton Potapov, Lena Sachsenmaier, Stefan Scheu, Leti Sundawati, Teja Tscharntke, Delphine Clara Zemp, Nathaly Guerrero-Ramirez
Summary: Increasing landscape heterogeneity through establishing tree islands in oil-palm plantations can enhance multi-taxa diversity, particularly due to the increased presence of soil fauna and habitat diversity. Soil fauna, bacteria, and fungi have a stronger association with the overall community than aboveground taxa, emphasizing the importance of considering soil biota in strategies to enhance multi-taxa diversity.
COMMUNICATIONS EARTH & ENVIRONMENT
(2023)
Article
Microbiology
Raphael Trischler, A. Poehlein, R. Daniel, Volker Mueller
Summary: The human gut harbours a variety of microorganisms which play important roles in digestion, health and well-being. The genus Blautia, commonly found in the gut, has been shown to grow on glycerol and produce acetate and ethanol. This finding not only contributes to our understanding of microbial activity in the gut, but also has potential implications for bioindustrial production of bioethanol from waste glycerol.
ENVIRONMENTAL MICROBIOLOGY
(2023)
Article
Microbiology
Lydia Alberti, Patricia Koenig, Sabine Zeidler, Anja Poehlein, Rolf Daniel, Beate Averhoff, Volker Mueller
Summary: Acinetobacter baumannii, a nosocomial pathogen, exhibits significant metabolic diversity. Growth on L-arabinose was found, and transcriptome analyses identified two gene clusters responsible for the oxidation of pentonates to a-ketoglutarate. These clusters also encode an uptake system and a regulator for specific pentonate oxidation pathways. Despite a cross-talk between these pathways, growth on pentoses was observed in pathogenic Acinetobacter species, while growth on L-arabinose provided benefits for long-term survival and desiccation resistance in A. baumannii ATCC 19606.
ENVIRONMENTAL MICROBIOLOGY
(2023)
Article
Multidisciplinary Sciences
Tim Boeer, Frank R. Bengelsdorf, Mechthild Boemeke, Rolf Daniel, Anja Poehlein
Summary: This study reports the complete genome sequences of acetogenic strains from the genus Terrisporobacter, along with functional annotation and pathway reconstruction analysis. The study also identifies species-specific nutrient requirements and constructs a model for acetogenesis in Terrisporobacter.
Article
Microbiology
Simone Anza, Dominik Schneider, Rolf Daniel, Michael Heistermann, Somboon Sangmaneedet, Julia Ostner, Oliver Schuelke
Summary: Maternal glucocorticoids (GCs) can have detrimental effects on offspring development, particularly during early gestation. This study found that high maternal GC levels during early gestation were associated with reduced bacterial richness in the offspring's gut microbiota. The effect of maternal GCs on the gut microbiota worsened with offspring age and was 10 times stronger than the effect of exposure during late prenatal or postnatal periods.
Article
Microbiology
Miriam Antonia Schueler, Rolf Daniel, Anja Poehlein
Summary: This study presents the complete genome of a non-toxigenic Clostridioides difficile strain isolated from horse feces. The genome consists of one chromosome and one plasmid, and encodes 3,798 putative genes. The strain represents a sub-cluster in the cryptic clade C-III.
MICROBIOLOGY RESOURCE ANNOUNCEMENTS
(2023)
Article
Ecology
Benjamin Zeldes, Anja Poehlein, Surbhi Jain, Christoph Baum, Rolf Daniel, Volker Mueller, Mirko Basen
Summary: DNA uptake is a common mechanism in microorganisms for rapid adaptation to new environments. This study found that a thermophilic bacterium, Thermoanaerobacter kivui, adapted to high concentrations of carbon monoxide through a horizontal gene transfer event with another thermophile, Thermoanaerobacter sp. strain X514, within the laboratory. This transfer also led to the deletion of a native operon for thiamine biosynthesis, explaining why the adapted strain required added vitamins for growth.
ISME COMMUNICATIONS
(2023)
Article
Microbiology
Jacqueline Hollensteiner, Dominik Schneider, Anja Poehlein, Axel Himmelbach, Rolf Daniel
Summary: This study reports 10 particle-associated metagenome-assembled genomes (MAGs) from the mesopelagic zone of Pacific Ocean seawaters. Functional annotation suggests that these genomes are involved in central particulate organic carbon conversion, nitrogen cycling, and phosphorus cycling.
MICROBIOLOGY RESOURCE ANNOUNCEMENTS
(2023)