Article
Multidisciplinary Sciences
Nastasia J. Freyria, Nathalie Joli, Connie Lovejoy
Summary: The study shows the seasonal dynamics of microbial communities in the North Water region, indicating that summer communities are more variable, while autumn communities favor undescribed dinoflagellates. Despite nutrient input, autumn chlorophyll concentrations remained low.
SCIENTIFIC REPORTS
(2021)
Article
Biochemistry & Molecular Biology
Leonid S. Brown
Summary: In the past twenty years, there have been significant breakthroughs in understanding the rules and mechanisms of proton transport in microbial rhodopsins, transitioning from atomic-level understanding to a confounding variety of new homologs. This review summarizes and discusses experimental data obtained on new microbial rhodopsin variants, with a focus on the vectoriality of proton transport and their structural determinants.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2022)
Article
Multidisciplinary Sciences
Alexandra D. Zinnen, Jonathan Vichich, Jeanette M. Metzger, Julia C. Gambardella, Viktoriya Bondarenko, Heather A. Simmons, Marina E. Emborg
Summary: This study reveals the similarity in microanatomy and expression of PD-related proteins between the human appendix and the ceca of common marmosets and rhesus macaques, suggesting that these NHP species are suitable for studying PD development linked to alpha-syn and tau pathological changes in the ENS.
Article
Veterinary Sciences
Jing Liu, Shuibing Liu, Wentao Zhang, Xiaolong Hu, Huirong Mao, Sanfeng Liu, Biao Chen
Summary: This study examined the key genes involved in skeletal muscle development in ducks using circular RNA sequencing and identified abundant and differentially expressed circular RNAs during duck skeletal muscle development. One gene, GAS2, was found to accelerate cell cycling and promote myoblast proliferation. This study enriches the duck circular RNA database and provides initial insights into circular RNAs in duck skeletal muscle development.
VETERINARY SCIENCES
(2023)
Article
Environmental Sciences
T. R. Vonnahme, L. Klausen, R. M. Bank, D. Michellod, G. Lavik, U. Dietrich, R. Gradinger
Summary: The polar night is an active biological season that is understudied in terms of microbial ecology. This study found that factors such as light availability, mixing, and input of organic matter from land, play important roles in driving the dynamics of the polar night microbial ecosystem.
FRONTIERS IN MARINE SCIENCE
(2022)
Article
Microbiology
Thomas Grevesse, Celine Gueguen, Vera E. Onana, David A. Walsh
Summary: This study investigated the metabolic pathways and bacterial taxa involved in aromatic compound degradation in the microbiomes of the Arctic Ocean. The results showed that Arctic Ocean microbiomes have the ability to metabolize humic substances of terrestrial origin and that this is an adaptive trait. Future increases in terrestrial organic matter input may enhance the importance of aromatic compound processing bacteria in the Arctic Ocean carbon and nutrient cycles.
Article
Gastroenterology & Hepatology
Burcin Oezdirik, Maria Scherf, Ana Brumercek, Jule M. M. Nicklaus, Tassilo Kruis, Philipp K. K. Haber, Johann Pratschke, Frank Tacke, Michael Sigal
Summary: This study analyzed microbial cultures from bile specimens of 114 patients with primary sclerosing cholangitis (PSC). It found that 76% of patients had positive bile culture results. Concomitant inflammatory bowel disease (IBD) was associated with positive bile culture results, while the presence of Enterococcus and Candida in bile was associated with adverse outcomes.
HEPATOLOGY COMMUNICATIONS
(2023)
Article
Microbiology
D. Touchette, C. Gostincar, L. G. Whyte, I Altshuler
Summary: This study investigated the snow microbial community in a remote alpine tundra and found that it had low functional diversity and was dominated by lichen-associated bacteria and fungi. The results of this study are important for understanding the ecological roles of microorganisms in rapidly changing environments.
FEMS MICROBIOLOGY ECOLOGY
(2023)
Article
Environmental Sciences
A. Bruce Cahoon, Robert D. VanGundy
Summary: The study investigated the eukaryotic microbiome of two karst caves in the Valley and Ridge region of the Appalachian Mountains. Two methods, filtering water and using periphytometers with glass microscope slides, were employed to survey microeukaryotes. The periphyton sampling method yielded significantly more unique amplicon sequence variants (ASVs) compared to filtered water. The dominant protist supergroup was Alveolata, followed by Rhizarians, Stramenopiles, and Ameobozoans. Very few ASVs matched curated protist sequences, indicating the uniqueness of the cave microbiome. The overall composition suggests a combination of bacterial grazers, parasitic species, and potential surface transport.
ENVIRONMENTAL MICROBIOLOGY REPORTS
(2022)
Article
Microbiology
Maria Papale, Carmen Rizzo, Stefania Giannarelli, Gabriella Caruso, Stefano Amalfitano, Paul Eric Aspholm, Giovanna Maimone, Stefano Miserocchi, Alessandro Ciro Rappazzo, Angelina Lo Giudice, Maurizio Azzaro
Summary: This study aims to study the riverine benthic microbial community in the Paasvik River and evaluate its ecological role in relation to contamination levels. The results show that bacterial diversity in the river sediments is influenced by micro-niche conditions, with differences in the abundance of taxa involved in the C, Fe, and N cycles, as well as organic pollutant and toxic compound degradation.
Review
Chemistry, Physical
Xin Meng, Srividya Ganapathy, Lars van Roemburg, Marco Post, Daan Brinks
Summary: Voltage imaging using genetically encoded voltage indicators (GEVIs) has revolutionized neuroscience in the past decade. Microbial rhodopsins, a subclass of GEVIs, are known for their high voltage sensitivity and fast response kinetics. This review discusses the essential aspects of microbial rhodopsin photocycles, which are crucial for understanding the mechanism of voltage sensitivity in these proteins, and explores efforts to improve the speed, brightness, and sensitivity of microbial rhodopsin-based GEVIs.
ACS PHYSICAL CHEMISTRY AU
(2023)
Article
Marine & Freshwater Biology
P. P. Krishnapriya, S. Bijoy Nandan, K. Hari Krishnan, K. P. Krishnan
Summary: This study investigates the spatial distribution, abundance, and biomass of benthic communities in the deep sub-Arctic Kongsfjord and their responses to changing environmental conditions. The study reveals that several environmental drivers, including depth profiles, salinity gradients, intrusion of high glacial melts, sediment composition, and organic matter availability, influence the biocoenosis of benthic fauna in the Arctic Kongsfjord.
Article
Biochemistry & Molecular Biology
Giada Ferrari, Lane M. Atmore, Sissel Jentoft, Kjetill S. Jakobsen, Daniel Makowiecki, James H. Barrett, Bastiaan Star
Summary: Genomic assignment tests are crucial for identifying important biological characteristics, but high-coverage sequence data can be challenging to obtain. A novel approach has been developed to efficiently assign biologically relevant information in extremely low-coverage sequence data, enabling the accurate identification of population identity and structural variants.
MOLECULAR ECOLOGY RESOURCES
(2022)
Article
Plant Sciences
David E. Berthold, Forrest W. Lefler, H. Dail Laughinghouse
Summary: Marine benthic proliferations are increasing in occurrence, range and duration due to anthropogenic nutrient loading and climate change. This study conducted sampling and isolation of cyanobacteria from underexplored regions in the USA and France to expand knowledge on their diversity and reveal their phylogenetic relationships.
Editorial Material
Multidisciplinary Sciences
Harris A. Lewin, Stephen Richards, Erez Lieberman Aiden, Miguel L. Allende, John M. Archibald, Miklos Balint, Katharine B. Barker, Bridget Baumgartner, Katherine Belov, Giorgio Bertorelle, Mark L. Blaxter, Jing Cai, Nicolette D. Caperello, Keith Carlson, Juan Carlos Castilla-Rubio, Shu-Miaw Chaw, Lei Chen, Anna K. Childers, Jonathan A. Coddington, Dalia A. Conde, Montserrat Corominas, Keith A. Crandall, Andrew J. Crawford, Federica DiPalma, Richard Durbin, ThankGod E. Ebenezer, Scott V. Edwards, Olivier Fedrigo, Paul Flicek, Giulio Formenti, Richard A. Gibbs, M. Thomas P. Gilbert, Melissa M. Goldstein, Jennifer Marshall Graves, Henry T. Greely, Igor V. Grigoriev, Kevin J. Hackett, Neil Hall, David Haussler, Kristofer M. Helgen, Carolyn J. Hogg, Sachiko Isobe, Kjetill Sigurd Jakobsen, Axel Janke, Erich D. Jarvis, Warren E. Johnson, Steven J. M. Jones, Elinor K. Karlsson, Paul J. Kersey, Jin-Hyoung Kim, W. John Kress, Shigehiro Kuraku, Mara K. N. Lawniczak, James H. Leebens-Mack, Xueyan Li, Kerstin Lindblad-Toh, Xin Liu, Jose V. Lopez, Tomas Marques-Bonet, Sophie Mazard, Jonna A. K. Mazet, Camila J. Mazzoni, Eugene W. Myers, Rachel J. O'Neill, Sadye Paez, Hyun Park, Gene E. Robinson, Cristina Roquet, Oliver A. Ryder, Jamal S. M. Sabir, H. Bradley Shaffer, Timothy M. Shank, Jacob S. Sherkow, Pamela S. Soltis, Boping Tang, Leho Tedersoo, Marcela Uliano-Silva, Kun Wang, Xiaofeng Wei, Regina Wetzer, Julia L. Wilson, Xun Xu, Huanming Yang, Anne D. Yoder, Guojie Zhang
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Environmental Sciences
Kaytee L. Pokrzywinski, West M. Bishop, Christopher R. Grasso, Brianna M. Fernando, Benjamen P. Sperry, David E. Berthold, Haywood Dail Laughinghouse, Erika M. Van Goethem, Kaitlin Volk, Mark Heilman, Kurt D. Getsinger
Summary: This study evaluated the effectiveness of a peroxide-based algaecide for controlling natural cyanobacteria population. The results showed that the peroxide treatment significantly reduced cyanobacteria biomass in a short period of time, but the overall community structure remained unchanged.
Article
Ecology
Michael Matschiner, Julia Maria Isis Barth, Ole Kristian Torresen, Bastiaan Star, Helle Tessand Baalsrud, Marine Servane Ono Brieuc, Christophe Pampoulie, Ian Bradbury, Kjetill Sigurd Jakobsen, Sissel Jentoft
Summary: This study investigates the origin and evolution of four megabase-scale supergenes in Atlantic cod. The results show that these supergenes are formed through chromosomal inversions at different time points. Furthermore, gene conversion and double crossover play important roles in the maintenance and evolution of supergenes.
NATURE ECOLOGY & EVOLUTION
(2022)
Article
Biodiversity Conservation
Sergio C. Gonzalez, H. Dail Laughinghouse
Summary: Florida scrub is a unique habitat type in the Southeastern United States, known for its high levels of endemism and unique geological history. However, there is a gap in the literature regarding the invertebrate communities in scrub wetlands, which are crucial for threatened species. This report presents a list of aquatic invertebrate species from wetlands surveyed in Martin County, FL in 2017, providing a snapshot of the invertebrate community structure in remnant Florida Scrub habitat.
SOUTHEASTERN NATURALIST
(2022)
Editorial Material
Ecology
Giulio Formenti, Kathrin Theissinger, Carlos Fernandes, Iliana Bista, Aureliano Bombarely, Christoph Bleidorn, Claudio Ciofi, Angelica Crottini, Jose A. Godoy, Jacob Hoglund, Joanna Malukiewicz, Alice Mouton, Rebekah A. Oomen, Sadye Paez, Per J. Palsboll, Christophe Pampoulie, Maria J. Ruiz-Lopez, Hannes Svardal, Constantina Theofanopoulou, Jan de Vries, Ann-Marie Waldvogel, Guojie Zhang, Camila J. Mazzoni, Erich D. Jarvis, Miklos Balint
Summary: Progress in genome sequencing has enabled the generation of large-scale reference genomes, representing global biodiversity. These genomes provide unique insights into genomic diversity and architecture, allowing comprehensive analyses in population and functional genomics, and are expected to revolutionize conservation genomics.
TRENDS IN ECOLOGY & EVOLUTION
(2022)
Article
Environmental Sciences
Forrest W. Lefler, David E. Berthold, Maximiliano Barbosa, H. Dail Laughinghouse
Summary: This study tested the effectiveness of different concentrations and combinations of algaecides and herbicides on Microcystis wesenbergii-dominated bloom. The results showed that a combination of SeClear and Hydrothol 191 with GreenClean Liquid 5.0 was the most effective, significantly reducing the abundance of the cyanobacterial bloom.
Article
Biology
Naomi Croft Guslund, Anders K. Krabberod, Simen F. Norstebo, Monica Hongro Solbakken, Kjetill S. Jakobsen, Finn-Eirik Johansen, Shuo-Wang Qiao
Summary: This study explores the heterogeneity of lymphocyte subsets in the spleen of Atlantic cod using single-cell RNA sequencing. The findings reveal different T cell and B cell subsets, as well as provide insights into the differentiation trajectory of B cells. Additionally, a CD8-negative T cell subpopulation with distinct expression characteristics is identified.
COMMUNICATIONS BIOLOGY
(2022)
Article
Biology
Lourdes Martinez-Garcia, Giada Ferrari, Angelica Cuevas, Lane M. Atmore, Begona Lopez-Arias, Mark Culling, Laura Llorente-Rodriguez, Arturo Morales-Muniz, Eufrasia Rosello-Izquierdo, Juan Antonio Quiros, Ricard Marlasca-Martin, Bernd Hanfling, William F. Hutchinson, Kjetill S. Jakobsen, Sissel Jentoft, David Orton, Bastiaan Star, James H. Barrett
Summary: Using whole-genome sequencing, this study determined the biological origin of ancient Atlantic cod specimens from England and Spain. The findings provide insights into the timing and geography of the trans-Atlantic cod trade, demonstrating the utility of genomic and ancient DNA approaches in understanding the globalization of marine fisheries.
PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
(2022)
Article
Marine & Freshwater Biology
Jing Hu, David E. Berthold, Yi Wang, Xi Xiao, H. Dail Laughinghouse
Summary: This study investigated the effectiveness of six USEPA-registered algaecides on treating toxic dinoflagellates in marine environments. The results showed that both copper-based and peroxide-based algaecides were effective in reducing the density of the toxic dinoflagellate, with peroxide-based algaecides having a greater impact on decreasing toxin levels. The study also revealed that salinity, microorganisms, and organic matter influenced the stability of peroxide-based algaecides.
Article
Cell Biology
Synne Arstad Bjornestad, Monica Hongro Solbakken, Kjetill S. Jakobsen, Sissel Jentoft, Oddmund Bakke, Cinzia Progida
Summary: Until recently, it was believed that MHC genes and their associated immune components had been conserved since their evolutionary emergence. However, sequencing of the Atlantic cod genome revealed a loss of MHC class II genes and an extreme expansion of MHC class I genes. These findings suggest a possible functional shift from MHC class II to MHC class I.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2023)
Article
Microbiology
Maximiliano Barbosa, Forrest W. Lefler, David E. Berthold, Venetia S. Briggs-Gonzalez, Frank J. Mazzotti, H. Dail Laughinghouse
Summary: Land use and trophic state significantly affect the composition of microbial eukaryote communities in freshwater systems, with impacted and mesotrophic sites having higher biodiversity.
Article
Multidisciplinary Sciences
William B. Reinar, Anne Greulich, Ida M. Sto, Jonfinn B. Knutsen, Trond Reitan, Ole K. Torresen, Sissel Jentoft, Melinka A. Butenko, Kjetill S. Jakobsen
Summary: Intrinsically disordered protein regions play a crucial role in plant responses to biotic and abiotic stresses. Length variations in tracts of identical amino acids in these regions are influenced by natural selection and correlate with local bioclimatic habitat. Experimental evidence shows that length variations in a disordered transcription factor affect protein function and may have adaptive significance. Understanding the role of length variations in modulating protein function has implications for protein evolution and eco-evolutionary biology.
Article
Biology
Lourdes Martinez-Garcia, Giada Ferrari, Anne Karin Hufthammer, Kjetill S. Jakobsen, Sissel Jentoft, James H. Barrett, Bastiaan Star
Summary: Climate change has been found to affect the spawning distribution of Northeast Arctic cod. The study suggests that temperature may not be the sole driver of this distribution, and highlights the complexity of long-term ecological interactions in the marine environment.