Computational discovery of organometallic catalysts that effectively catalyze nitrogen fixation is a difficult task. The complexity of the chemical reactions involved and the lack of understanding of natures enzyme catalysts raises the need for intricate computational models. In this study, we use a dataset of 91 experimentally verified ligands as starting population for a Genetic Algorithm (GA) and use this to discover molybdenum based nitrogen fixation catalyst in trigonal bipyramidal and octahedral configurations. Through evolutionary discovery with a semi-empirical quantum method driven GA and a density functional theory (DFT) based screening process, we find 3 promising catalyst candidates that are shown to effectively catalyze the first protonation step of the Schrock cycle. Synthetic accessibility (SA) scores are used to guide the GA towards reasonable ligands and the work features a description of the GA framework, including pre-screening of catalyst candidates that involves assignment of metal coordination atoms and catalyst stereoisomers. This research thus not only offers insights into the specific field of molybdenum-based catalysts for nitrogen fixation but also demonstrates the broader applicability and potential of genetic algorithms in the field of catalyst discovery and materials science.
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http://dx.doi.org/10.1039/d4sc02227k | DOI Listing |
PeerJ
January 2025
College of Agronomy, Guizhou University, Guiyang, Guizhou, China.
Background: is an important cash crop in southwestern China, with soil organic carbon playing a vital role in soil fertility, and microorganisms contributing significantly to nutrient cycling, thus both of them influencing tea tree growth and development. However, existing studies primarily focus on soil organic carbon, neglecting carbon fractions, and the relationship between soil organic carbon fractions and microbial communities is unclear. Consequently, this study aims to clarify the impact of different tea planting durations on soil organic carbon fractions and microbial communities and identify the main factors influencing microbial communities.
View Article and Find Full Text PDFBMC Genomics
January 2025
Laboratory of Artificial Intelligence Applied to Bioinformatics, Professional and Technical Education Sector - SEPT, UFPR, Curitiba, Paraná, Brazil.
Background: Diazotrophs carry out biological nitrogen fixation (BNF) using the nitrogenase enzyme complex (NEC), which relies on nitrogenase encoded by nif genes. Horizontal gene transfer (HGT) and gene duplications have created significant diversity among these genes, making it challenging to identify potential diazotrophs. Previous studies have established a minimal set of Nif proteins, known as the Nif core, which includes NifH, NifD, NifK, NifE, NifN, and NifB.
View Article and Find Full Text PDFProc Natl Acad Sci U S A
February 2025
Department of Marine Microbiology and Biogeochemistry, Royal Netherlands Institute for Sea Research (NIOZ), Den Burg 1790 AB, The Netherlands.
Heterocytes, specialized cells for nitrogen fixation in cyanobacteria, are surrounded by heterocyte glycolipids (HGs), which contribute to protection of the nitrogenase enzyme from oxygen. Diverse HGs preserve in the sediment and have been widely used as evidence of past nitrogen fixation, and structural variation has been suggested to preserve taxonomic information and reflect paleoenvironmental conditions. Here, by comprehensive HG identification and screening of HG biosynthetic gene clusters throughout cyanobacteria, we reconstruct the convergent evolutionary history of HG structure, in which different clades produce the same HGs.
View Article and Find Full Text PDFAntioxid Redox Signal
January 2025
Department of Soil and Plant Microbiology, Estación Experimental del Zaidín, CSIC, Granada, Spain.
To investigate the role of the RegSR-NifA regulatory cascade in the oxygen control of nitric oxide (NO) reduction in the soybean endosymbiont . We have performed an integrated study of expression and NO reductase activity in , , , , and mutants in response to microoxia (2% O) or anoxia. An activating role of RegR and NifA was observed under anoxia.
View Article and Find Full Text PDFChem Commun (Camb)
January 2025
College of Chemistry, Baicheng Normal University, Baicheng 137018, P. R. China.
Herein, the construction of potential donor-acceptor (D-A) structures was guided using density-functional theory (DFT) calculations. The photocatalytic nitrogen fixation performance of TAPT-CHF was then experimentally determined to be 327.58 μmol g h, which was attributed to its efficient photo-induced charge separation and migration ability.
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