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Mechanisms underlying the interactions and adaptability of nitrogen removal microorganisms in freshwater sediments.
Adv Biotechnol (Singap)
June 2024
Marine Synthetic Ecology Research Center, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), School of Environmental Science and Engineering/Life Sciences/Ecology, Guangdong Provincial Observation and Research Station for Marine Ranching in Lingdingyang Bay, China-ASEAN Belt and Road Joint Laboratory On Mariculture Technology, State Key Laboratory for Biocontrol, Sun Yat-Sen University, Zhuhai, 519082, China.
Microorganisms in eutrophic water play a vital role in nitrogen (N) removal, which contributes significantly to the nutrient cycling and sustainability of eutrophic ecosystems. However, the mechanisms underlying the interactions and adaptation strategies of the N removal microorganisms in eutrophic ecosystems remain unclear. We thus analyzed field sediments collected from a eutrophic freshwater ecosystem, enriched the N removal microorganisms, examined their function and adaptability through amplicon, metagenome and metatranscriptome sequencing.
View Article and Find Full Text PDFA plasmid with the gene enhances the fitness of strains under laboratory conditions.
Microbiology (Reading)
January 2025
Instituto de Microbiologa, Colegio de Ciencias Biolgicas y Ambientales, Universidad San Francisco de Quito, Quito, Ecuador.
Antimicrobial resistance (AMR) is a major threat to global public health that continues to grow owing to selective pressure caused by the use and overuse of antimicrobial drugs. Resistance spread by plasmids is of special concern, as they can mediate a wide distribution of AMR genes, including those encoding extended-spectrum -lactamases (ESBLs). The CTX-M family of ESBLs has rapidly spread worldwide, playing a large role in the declining effectiveness of third-generation cephalosporins.
View Article and Find Full Text PDFIron(II/III) Alters the Relative Roles of the Microbial Byproduct and Humic Acid during Chromium(VI) Reduction and Fixation by Soil-Dissolved Organic Matter.
Environ Sci Technol
January 2025
Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtse River), Ministry of Agriculture and Rural Affairs, College of Resources and Environment, Huazhong Agricultural University, Wuhan 430070, China.
Though reduction of hexavalent chromium (Cr(VI)) to Cr(III) by dissolved organic matter (DOM) is critical for the remediation of polluted soils, the effects of DOM chemodiversity and underlying mechanisms are not fully elucidated yet. Here, Cr(VI) reduction and immobilization mediated by microbial byproduct (MBP)- and humic acid (HA)-like components in (hot) water-soluble organic matter (WSOM), (H)WSOM, from four soil samples in tropical and subtropical regions of China were investigated. It demonstrates that Cr(VI) reduction capacity decreases in the order WSOM > HWSOM and MBP-enriched DOM > HA-enriched DOM due to the higher contents of low molecular weight saturated compounds and CHO molecules in the former.
View Article and Find Full Text PDFKaMLs for Predicting Protein p Values and Ionization States: Are Trees All You Need?
J Chem Theory Comput
January 2025
Department of Pharmaceutical Sciences, University of Maryland School of Pharmacy, Baltimore, Maryland 21201, United States.
Despite its importance in understanding biology and computer-aided drug discovery, the accurate prediction of protein ionization states remains a formidable challenge. Physics-based approaches struggle to capture the small, competing contributions in the complex protein environment, while machine learning (ML) is hampered by the scarcity of experimental data. Here, we report the development of p ML (KaML) models based on decision trees and graph attention networks (GAT), exploiting physicochemical understanding and a new experiment p database (PKAD-3) enriched with highly shifted p's.
View Article and Find Full Text PDFIntegrative RNA, miRNA, and 16S rRNA sequencing reveals immune-related regulation network for glycinin-induced enteritis in hybrid yellow catfish, ♀ × ♂.
Front Immunol
January 2025
College of Fisheries, Key Lab of Freshwater Animal Breeding, Ministry of Agriculture, Huazhong Agricultural University, Wuhan, Hubei, China.
Glycinin-induced foodborne enteritis is a significant obstacle that hinders the healthy development of the aquatic industry. Glycinin causes growth retardation and intestinal damage in hybrid yellow catfish ( ♀ × ♂), but its immune mechanisms are largely unknown. In the current study, five experimental diets containing 0% (CK), 1.
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