Article
Biochemistry & Molecular Biology
Gwendoline M. David, Purificacion Lopez-Garcia, David Moreira, Benjamin Alric, Philippe Deschamps, Paola Bertolino, Gwendal Restoux, Emma Rochelle-Newall, Elisa Thebault, Marianne Simon, Ludwig Jardillier
Summary: Microbial communities in small freshwater ecosystems are mainly driven by environmental conditions, showing diversity and uniqueness in composition and structure. Despite geographical proximity, microbial communities in different ecosystems exhibit marked differences, with seasonal patterns observed in archaea, bacteria, and microbial eukaryotes. Interannual community assembly is influenced by biotic associations despite relatively stable environmental parameters over a 2-year period.
Article
Microbiology
Hye Won Kim, Na Kyung Kim, Alex P. R. Phillips, David A. Parker, Ping Liu, Rachel J. Whitaker, Christopher V. Rao, Roderick I. Mackie
Summary: Alicyclobacillus isolates can tolerate extreme temperatures and acidity. Genomic analysis reveals specific genes and pathways that are lacking in methanotrophs, and a complementary relationship exists between Alicyclobacillus and Methylacidiphilum. Alicyclobacillus isolates play an important role in sulfur metabolism and complement Methylacidiphilum in vitamin metabolism.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Multidisciplinary Sciences
Erin A. Mckenney, Lauren M. Nichols, Samuel Alvarado, Shannon Hardy, Kristen Kemp, Rachael Polmanteer, April Shoemaker, Robert R. Dunn
Summary: The study analyzed the bacterial community structure and performance during the microbial fermentation of sourdough bread. It identified six distinct stages of succession and found correlations between bacterial taxa and bread quality factors such as pH, rise, and aroma. The study highlighted predictable patterns of bacterial constraints and dynamics in sourdough fermentation, regardless of flour type. The research has important implications for understanding the relationship between community structure and starter performance, and for guiding bakers in selecting specific sourdough starter and bread characteristics.
Article
Ecology
J. Boone Kauffman, Dian Lyn Cummings, Cimarron Kauffman, Robert L. L. Beschta, Jeremy Brooks, Keeley MacNeill, William J. J. Ripple
Summary: Bison in Yellowstone National Park have negative impacts on plant species composition and diversity, as well as exacerbating climate change effects. However, the resilience of native riparian vegetation suggests potential for recovery with reduced bison pressure.
Article
Entomology
Hao Wang, Xiaoqing Xian, Yujuan Gu, Cristina Castane, Judit Arno, Suran Wu, Fanghao Wan, Wanxue Liu, Guifen Zhang, Yibo Zhang
Summary: Tuta absoluta, as an invasive pest in China, poses a serious threat to the tomato industry. The study found that the gut microbial diversity among different geographical populations was similar, with Proteobacteria and Firmicutes being the dominant bacteria. The gut microbial structures of T. absoluta from different regions were similar, indicating microbial composition plays a role in enhancing adaptability.
Article
Microbiology
A. Meziti, E. Nikouli, J. K. Hatt, K. T. Konstantinidis, K. A. Kormas
Summary: The study showed that functions of microbial communities in a moderately hot terrestrial spring remain stable even over the long term, presumably driving the corresponding stability in community structure.
ENVIRONMENTAL MICROBIOLOGY
(2021)
Article
Astronomy & Astrophysics
Sandra Siljestrom, Xiang Li, William Brinckerhoff, Friso van Amerom, Sherry L. Cady
Summary: The MOMA instrument detected a variety of organic compounds in analog samples collected from Yellowstone National Park, demonstrating the benefit of using mass isolation to reveal complex organics and potential biomarkers in natural samples.
Article
Physiology
Igor B. Mekjavic, Ola Eiken, Polona Jaki Mekjavic, Adam C. McDonnell
Summary: The study found that during 10-day hypoxic and normoxic bed rest, females showed less decrease in muscle cross-sectional area and mass compared to males, with only males exhibiting a significant decrement in strength.
EXPERIMENTAL PHYSIOLOGY
(2021)
Article
Geochemistry & Geophysics
Jeffrey W. Hedenquist, Antonio Arribas
Summary: This article examines the formation environments of advanced argillic minerals and their significance in the exploration and assessment of hydrothermal ore deposits. Five different geological environments are identified as the sources of these minerals, which play a crucial role in the formation of hydrothermal ore deposits at depths below 500 meters.
Correction
Biotechnology & Applied Microbiology
Stephen Nayfach, Simon Roux, Rekha Seshadri, Daniel Udwary, Neha Varghese, Frederik Schulz, Dongying Wu, David Paez-Espino, I- Min Chen, Marcel Huntemann, Krishna Palaniappan, Joshua Ladau, Supratim Mukherjee, T. B. K. Reddy, Torben Nielsen, Edward Kirton, Jose P. Faria, Janaka N. Edirisinghe, Christopher S. Henry, Sean P. Jungbluth, Dylan Chivian, Paramvir Dehal, Elisha M. Wood-Charlson, Adam P. Arkin, Susannah G. Tringe, Axel Visel, Tanja Woyke, Nigel J. Mouncey, Natalia N. Ivanova, Nikos C. Kyrpides, Emiley A. Eloe-Fadrosh
NATURE BIOTECHNOLOGY
(2021)
Article
Microbiology
Davide Albanese, Claudia Coleine, Omar Rota-Stabelli, Silvano Onofri, Susannah G. Tringe, Jason E. Stajich, Laura Selbmann, Claudio Donati
Summary: The study generated the first bacterial genomes from rocks collected in Continental Antarctica, clustering 269 candidate species, with Actinobacteria being the most abundant and Candidatus Jiangella antarctica being recorded in all samples. Most of these new species belong to monophyletic bacterial clades that are functionally distinct from known related taxa.
Article
Biochemical Research Methods
Emily Goren, Chong Wang, Zhulin He, Amy M. Sheflin, Dawn Chiniquy, Jessica E. Prenni, Susannah Tringe, Daniel P. Schachtman, Peng Liu
Summary: This study proposes a method for more accurately identifying microbiome features that affect outcomes, with advantages in controlling for confounding by a categorical variable.
BMC BIOINFORMATICS
(2021)
Article
Ecology
Jinglie Zhou, Susanna M. Theroux, Clifton P. Bueno de Mesquita, Wyatt H. Hartman, Ye Tian, Susannah G. Tringe
Summary: The study showed that wetland restoration effectively restored microbial communities in former industrial salt ponds to compositions more similar to reference wetlands, reducing salinity, sulfate concentrations, and methane emissions.
Article
Biochemistry & Molecular Biology
Elle M. Barnes, Susannah G. Tringe
Summary: Plants benefit from their association with soil microbes in responding to stress, but much is unknown about these interactions. Climate change affects both plants and soil microbial communities, necessitating a multi-dimensional approach to studying their interactions. New tools, such as fabricated ecosystems and synthetic communities, can help researchers explore plant-microbe-environment interactions with more precision.
BIOCHEMICAL JOURNAL
(2022)
Article
Genetics & Heredity
Clifton P. Bueno de Mesquita, Jinglie Zhou, Susanna Theroux, Susannah G. Tringe
Summary: Aerobic bacteria that degrade methylphosphonates and produce methane have been found to play a crucial role in marine carbon and phosphorus cycles. In this study, two newly discovered species of the Marivita genus were identified from metagenomes of former industrial salterns with high salinity levels. These bacteria were found to be significantly more abundant in the salterns compared to nearby reference and restored wetlands.
Article
Ecology
Mingsheng Qi, Jeffrey C. Berry, Kira W. Veley, Lily O'Connor, Omri M. Finkel, Isai Salas-Gonzalez, Molly Kuhs, Julietta Jupe, Emily Holcomb, Tijana Glavina del Rio, Cody Creech, Peng Liu, Susannah G. Tringe, Jeffery L. Dangl, Daniel P. Schachtman, Rebecca S. Bart
Summary: This study identified key root-associated microbial strains that significantly affect plant phenotypes under drought conditions in the staple cereal crop sorghum. The research found that certain Arthrobacter strains inhibit root growth, while Variovorax strains can protect plants from Arthrobacter-induced harm. The abundance of Arthrobacter was negatively correlated with plant growth in a field trial. By cross-referencing data from high-throughput phenotyping and field experiments, a list of bacteria positively associated with plant growth under drought stress was established.
News Item
Microbiology
Susannah G. Tringe
NATURE REVIEWS MICROBIOLOGY
(2022)
Article
Ecology
Naihao Ye, Wentao Han, Andrew Toseland, Yitao Wang, Xiao Fan, Dong Xu, Cock van Oosterhout, Igor Grigoriev, Alessandro Tagliabue, Jian Zhang, Yan Zhang, Jian Ma, Huan Qiu, Youxun Li, Xiaowen Zhang, Thomas Mock
Summary: This study reveals that polar microalgae have a higher demand for zinc due to elevated cellular levels of zinc-binding proteins. Zinc plays an important role in supporting photosynthetic growth in eukaryotic polar phytoplankton, which is critical for algal colonization of low-temperature polar oceans.
NATURE ECOLOGY & EVOLUTION
(2022)
Article
Cell Biology
Brayon J. Fremin, Ami S. Bhatt, Nikos C. Kyrpides
Summary: This study used a large-scale comparative genomics approach to discover that small genes are more prevalent in phage genomes than in host prokaryotic genomes. These small genes may have important functions, such as encoding anti-CRISPR proteins and antimicrobial proteins.
Article
Microbiology
Igor Brown, Tanja Woyke, Natalia Ivanova, Nicole Shapiro, Jaime Alcorta, Andrei Chistoserdov, Donald Pan, Svetlana Sarkisova, Susannah G. Tringe
Summary: The draft genome sequence of the siderophilic cyanobacterium Fischerella thermalis JSC-11, isolated from an iron-depositing hot spring, is reported. JSC-11 has bioremediation potential due to its ability to both extracellularly absorb and intracellularly mineralize colloidal iron. This genomic information will facilitate the exploration of JSC-11 for bioremediation.
MICROBIOLOGY RESOURCE ANNOUNCEMENTS
(2022)
Review
Microbiology
Clifton Bueno P. de Mesquita, Dongying Wu, Susannah G. Tringe
Summary: Methyl-based methanogenesis is one of the three broad categories of archaeal anaerobic methanogenesis, and it is recognized as an important source of methane in various environments.
MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS
(2023)
Article
Plant Sciences
Qing Zheng, Yuntao Hu, Suzanne M. Kosina, Marc W. Van Goethem, Susannah G. Tringe, Benjamin P. Bowen, Trent R. Northen
Summary: Biocrusts, phototroph-driven communities in arid soil, have beneficial interactions with cyanosphere bacteria similar to those in the rhizosphere. This study found that biocrust microbes promote the growth of a model grass and a dominant biocrust cyanobacterium, and identified specific strains that significantly promote the growth of both hosts. Furthermore, a metabolite produced by one of the strains increased the biomass of the model grass. These findings indicate that biocrusts and diverse photoautotrophic hosts can be a source for new plant growth-promoting microbes and metabolites.
Article
Forestry
Antonio J. Fernandez-Gonzalez, Ana V. V. Lasa, Jose F. Cobo-Diaz, Pablo J. J. Villadas, Antonio J. J. Perez-Luque, Fernando M. M. Garcia-Rodriguez, Susannah G. G. Tringe, Manuel Fernandez-Lopez
Summary: The long-term recovery of prokaryotic communities in a Mediterranean ecosystem after a forest fire is not yet complete, even after a decade. Specific biomarkers, including the genera Arthrobacter, Blastococcus, and Massilia, persist in the soil microbial communities for an extended period of time.
Article
Environmental Sciences
Brett D. Van Houghton, Shwetha M. Acharya, James S. Rosenblum, Romy Chakraborty, Susannah Green Tringe, Tzahi Y. Cath
Summary: The study showed that membrane bioreactors (MBRs) exhibit excellent long-term performance in removing organic constituents from produced water (PW), even in high salinity conditions. MBRs were effective in removing dissolved organic carbon from PW from different shale basins, but showed less consistent removal of surfactants. The study also found that microbial diversity decreased during reactor establishment but increased at higher total dissolved solid (TDS) concentrations.