Search Results (993)

Protein turnover is essential for cellular metabolism, organelle biogenesis, stress adaptation, and ultimately the viability of cells and tissues. Papain-like cysteine proteases (PLCPs) are one of the vital components in protein degradation. PLCPs have been reported to act in senescence-associated proteolysis, but their roles in vegetative growth remain unclear. We identified PtCP1, an AALP-like PLCP in Populus tomentosa, localized to the vacuole and acid-triggered activated. CRISPR/Cas9-generated loss-of-function mutant (d7) showed dwarfism and non-stomatal photosynthetic limitations. On the other hand, the gain-of-function line (EM, deleted ERFNIN domain) exhibited accelerated growth and enhanced photosynthetic parameters. We showed d7 had the accumulation of Rubisco, which was the most important protein in photosynthetic carbon fixation. Transcriptomics revealed dysregulated carbon metabolism in d7. This data supported PtCP1-mediated proteolysis regulated photosynthetic carbon assimilation via altered Rubisco turnover, and then it increased the biomass accumulation during vegetative growth in woody plants. Full article

Ophicarbonates provide an important natural record of mineral carbonation during serpentinization of ultramafic rocks and therefore offer insight into the mechanisms and limits of CO₂ fixation in low-temperature geological environments. This paper presents a synthesis and process-oriented reinterpretation of stable-isotope published and previously unpublished data, petrographic, and mineralogical evidence for carbonate formation under fluid-limited serpentinization conditions. Using mineralogical constraints together with a compiled δ¹³C–δ¹⁸O dataset that includes legacy measurements from the 1980s–1990s, we evaluate how multi-stage carbonate precipitation reflects evolving water–rock ratio, redox state, transport limitation, and deformation-controlled permeability. Particular attention is given to systematic differences between vein-hosted carbonates and dispersed intergranular or scattered-grain ophicarbonates, as these textural–isotopic relationships help identify fluid flux, carbon source, and reaction progress in ultramafic systems. The analysis shows that carbonation does not proceed uniformly but is restricted to overlapping reactive windows controlled by fluid availability, nucleation kinetics, and permeability evolution. These constraints help explain why carbonation may either intensify or stall during progressive serpentinization. The Author further discuss why kinetic barriers and Mg–Ca partitioning may redirect carbonate mineralogy toward calcite or metastable Mg-rich phases even where dolomite or magnesite may be thermodynamically favored. The results highlight the importance of coupling isotopic signatures with petrographic context in reconstructing carbonation pathways and provide a broader framework for understanding natural mineral sequestration of carbon in heterogeneous serpentinite systems. Full article

Members of the class Campylobacteria are microaerophilic bacteria widely distributed across diverse environments and are abundant in hydrothermal systems. However, cultivated representatives, particularly from shallow-water vents, remain limited. Here, we investigated the genomic diversity and environmental adaptation of the genus Sulfurospirillum. Phylogenomic analysis revealed a clear separation between terrestrial and marine clades, with relatively few cultured representatives in the marine lineage. Strain 1307, isolated from shallow-water hydrothermal vents, expands the genomic representation of this underexplored clade. Pan-genome analyses based on complete genomes revealed an open pan-genome, indicating ongoing diversification of genus Sulfurospirillum. Further comparison between hydrothermal vent (HTV) and non-HTV lineages identified distinct adaptive features. Vent-associated strains are enriched in genes involved in sulfur metabolism, carbon fixation, the glycine cleavage system (GCS), and the biosynthesis of key cofactors (spermidine, thiamine, lipoate, and heme), reflecting metabolic adaptation to hydrothermal environments. Beyond well-established processes such as sulfur metabolism and autotrophic carbon fixation, the widespread presence of the GCS in vent-associated lineages suggests its potential role as an auxiliary carbon fixation pathway under anaerobic conditions. Overall, this study expands the phylogenetic and genomic diversity of Sulfurospirillum and offers new insights into the mechanisms underlying environmental adaptation and niche differentiation in vent-associated Campylobacteria. Full article

Conservation tillage has an influence on the cultivation and sustainable utilization of farmland. However, the microbial mechanism driving soil nutrient cycling in conservation tillage and its regulation pathway remain unclear. Based on a positioning experiment in black soil areas, this study systematically compared the effects of no-tillage (NT) and moldboard tillage (MT) combined with different straw returning amounts (straw non-returning, NS; straw half-returning, HS; straw full-returning, TS) on the composition of soil carbon (C), nitrogen (N) and phosphorus (P) and focused on the role of microbial community structure succession and functional changes in soil nutrient cycling. Microbial community remodeling driven by tillage measures was mainly regulated by C and N components. Bacterial modules 2 and 4 and fungal modules 1 and 2 were key for regulating the C, N and P cycle, of which 87 bacteria and 45 fungi taxa represented the core driving microorganisms. The total amount of no-tillage straw return reduced the formation and accumulation of labile organic carbon fractions by enriching yeast-like fungi and inhibiting the expression of complex organic matter decomposition genes. Tillage mainly promoted the accumulation of labile organic carbon fractions and nutrient release by regulating the bacterial community, while no-tillage straw returning promoted the accumulation of total organic carbon and organic nitrogen fixation by promoting the fungal community. This study revealed the biological pathway of conservation tillage that drives soil nutrient cycling by regulating key microbial communities. It also provides a microbiological basis for sustainable soil management in black soil areas. Full article

Autotrophic carbon-fixing microbes can assimilate atmospheric carbon dioxide into biomass via the Calvin–Benson–Bassham (CBB) cycle (their primary carbon fixation pathway), thereby reinforcing soil carbon sequestration in the plantation ecosystem; however, the succession of RubisCO-harboring microbial communities across stand ages remains poorly understood. Here, we investigated the community succession of microbes carrying the gene encoding RubisCO, a key enzyme in the CBB cycle, across a stand-age chronosequence in a Picea asperata plantation ecosystem. Our results revealed a progressive decrease in microbial α-diversity and a significant restructuring of community composition with increasing stand age, characterized by an enrichment of Proteobacteria and a concomitant depletion of Actinobacteria. While the Shannon–Wiener index was most strongly correlated with soil total nitrogen content, redundancy analysis identified soil pH as the predominant environmental driver of community turnover, a relationship that was found to be threshold-dependent, with substantial community shifts occurring in response to pH variations of 0.5 to 1.0 units. These findings suggest that sustaining the diversity of RubisCO-harboring microbes in older stands—a process potentially enhanced by soil nitrogen management—provides a viable strategy for augmenting the carbon sequestration capacity of managed forests through targeted microbiome regulation. Full article

Microbial nutrient cycling in afforested mine soils may be affected by the plant litter quality. This study investigated how different tree species—Scots pine (Pinus sylvestris), silver birch (Betula pendula), European larch (Larix decidua), and black alder (Alnus glutinosa)—influence microbial carbon (C), nitrogen (N), and phosphorus (P) limitations in reclaimed sandy mine soils. We combined substrate-induced respiration (SIR) and ecoenzymatic stoichiometry (EES) to diagnose these metabolic constraints. The SIR analysis revealed a universal primary limitation by labile C across all tree species, with glucose addition stimulating respiration by 271%–333%, regardless of the soil organic carbon content. However, EES revealed distinct secondary nutrient constraints driven by species-specific litter quality. Alder stands exhibited severe P limitation, likely due to high P demand for symbiotic N-fixation and intense competition for P between trees and microbes. In contrast, birch stands showed stoichiometric homeostasis and a slight N deficiency. Coniferous species exhibited P limitation and low enzymatic activity, indicating a strategy focused on intensive nutrient acquisition under low-energy conditions associated with recalcitrant needle litter. These findings demonstrate that while energy limitation is a universal constraint in mine soils, tree species determine the nature and intensity of secondary nutrient limitations due to differences in litter stoichiometry. Full article

Microalgae are among the most efficient photosynthetic organisms on Earth, and their capacity for CO₂ fixation directly links the global carbon cycle with green energy conversion, positioning them as strategic biological platforms for achieving carbon neutrality. This review provides a comprehensive and multiscale synthesis of the engineering and biological mechanisms underlying microalgal CO₂ fixation, integrating perspectives from gas–liquid mass transfer, CO₂ assimilation pathways, key enzymatic systems, metabolic regulation, and environmental control. From an engineering standpoint, we analyze the limitations governing CO₂ transfer from the gas phase to the aqueous phase and critically evaluate intensification strategies aimed at enhancing inorganic carbon availability in cultivation systems. At the biological and biochemical levels, we dissect carbon concentrating mechanisms (CCMs), including C₄-like pathways, and elucidate the structural organization, regulatory properties, and functional coordination of Rubisco and carbonic anhydrase systems. Particular emphasis is placed on the coupling between enzyme-level regulation and metabolic flux redistribution, supported by insights from metabolic flux analysis and systems-level modeling, to establish theoretical and engineering foundations for improving carboxylation efficiency. Finally, we propose an integrated roadmap for the future development of microalgal CO₂ fixation technologies, highlighting the convergence of synthetic biology, artificial intelligence, and systems engineering to achieve end-to-end optimization from molecular mechanisms to reactor-scale performance, while enabling the valorization of waste gas streams and circular carbon utilization. This review aims to provide a coherent theoretical framework and forward looking perspective for the development of efficient, intelligent, and sustainable microalgal CO₂ fixation systems. Full article

This study presents a systematic bibliometric analysis and critical review of assessment indicators and multi-criteria decision-making methods for rural energy systems from 2010 to 2025. It examines the evolving definitions and regional variations in these indicators and methods. The research hotspots of rural energy systems have shifted from basic rural electrification to multi-dimensional assessment indicators and hybrid multi-criteria decision-making methods. The assessment indicators for rural energy systems demonstrate a marked imbalance, dominated by economic and technical dimensions. Specifically, economic evaluations for rural energy systems frequently utilize net present cost and levelized energy cost, shifting from static capital comparisons to comprehensive lifecycle assessments. Meanwhile, loss of power supply probability is identified as the primary inherent constraint among technical assessment indicators for rural energy systems. Geographically, assessment indicators for rural energy systems priorities exhibit significant divergence. Developing regions prioritize basic power supply and affordability, whereas developed regions focus on grid stability and market risk resilience. In addition, environmental evaluations for rural energy systems remain fixated on carbon emissions. Developed nations emphasize global climate benefits, while developing nations focus on localized dividends like indoor air quality improvement. Critically, despite an increasing focus on rural livelihoods, social indicators remain systematically marginalized in rural energy systems, leading to the neglect of local requirements and increasing technical risks. The field of rural energy system assessment is advancing toward multi-criteria decision-making indicators. Future methodologies must integrate robust, dynamic adaptive mechanisms that respond to evolving developmental priorities in order to effectively address inherent data scarcity and complex socio-economic uncertainties of rural energy systems. Full article

Background: Pinellia ternata is a major medicinal herb widely utilized in traditional medicine, but is sensitive to high temperature, which often triggers a severe “sprout tumble” phenomenon. Methods: To elucidate the molecular mechanisms of heat tolerance in P. ternata, we screened two contrasting germplasms: the heat-tolerant JBX1 and the heat-sensitive XBX4. In the present study, a combined analysis of physiology, transcriptome, and metabolome was performed on JBX1 and XBX4 under heat stress at 40 °C. Results: JBX1 exhibited significantly greater leaf thickness, higher basal chlorophyll content, more stable antioxidant enzyme activities, and lower oxidative damage than XBX4 under heat stress. Transcriptomically, JBX1 maintained elevated basal expression of genes encoding key enzymes in carbon fixation, amino acid metabolism, and phenylpropanoid biosynthesis, as well as those encoding heat shock transcription factors (HSFs), heat shock proteins (HSPs), and the thermosensor Thermo-With ABA-Response 1 (TWA1). Metabolomically, JBX1 accumulated higher levels of key primary metabolites, antioxidants, and protective phenylpropanoids under both control and heat conditions. Notably, a “polarity reversal” emerged in nitrogen metabolism, where core amino acids accumulated in JBX1 but were depleted in XBX4. Integrated analysis revealed a more coordinated gene–metabolite network in JBX1 involving the phenylpropanoid, ATP-binding cassette (ABC) transporter, and glutathione pathways. Conclusions: Our findings demonstrate that JBX1 possessed stronger basal thermotolerance, which is derived from coordinated establishment of higher constitutive metabolic reserves and efficient dynamic metabolic reprogramming. This study provides insights into the molecular mechanisms of heat stress in P. ternata. Full article

Thismia species are non-photosynthetic plants entirely dependent on fungal partners for carbon and nutrients. While their arbuscular mycorrhizal associations are well-documented, bacterial symbiont roles remain unexplored. Using 16S rRNA gene amplicon sequencing, we investigated endophytic bacterial communities in T. gardneriana, T. javanica, and T. mirabilis from geographically distinct locations in Thailand. Despite geographic separation, Thismia spp. consistently harbored bacterial compositions taxonomically and functionally distinct from surrounding soil microbiomes. Root endospheres were significantly enriched in Pseudomonadota and Bacteroidota, particularly Puia, while showing reduced compositional dynamics of Acidobacteriota and Planctomycetota. Bacterial communities in Thismia roots were markedly distinct from surrounding soil, while root endosphere communities from geographically distinct habitats clustered together regardless of spatial separation. Mantel and partial Mantel tests confirmed that host species identity, not geographical location, was the primary predictor of root bacterial community structure. Functional prediction analyses suggested root-associated communities were enriched for nitrogen cycling pathways, particularly nitrogen fixation and nitrate reduction. The selective enrichment of Bacteroidota, known for nitrogen fixation and phosphate mobilization, suggests these bacteria provide critical nutritional support in nutrient-poor forest floor environments. Isolated root strains belonged exclusively to Bacillota, including Neobacillus with plant growth-promoting traits. Our findings highlight the importance of tripartite plant–fungal–bacterial interactions in Thismia nutritional ecology. Full article

Photosynthesis, the main energy source for life on Earth, confronts escalating challenges of high-light–high-temperature stress (HLHT). Our previous study identified a mutation in ATP synthase, F₁-α-C252Y, that significantly enhances the HLHT tolerance of Synechococcus elongatus PCC 7942 (Sye7942), although the underlying mechanism remains obscure. In this study, we found that this mutation led to elevated levels of the b subunit of F_o, F₁ subunits, and the ATP synthase within cells, without affecting ATP synthetic activity, indicating improved intracellular ATP synthesis activity. Additionally, the mutation altered the transcriptome of Sye7942, impacting the expression of genes involved in crucial processes, such as the electron transport chain, carbon fixation, and regulatory factors, which are crucial for cyanobacteria’s adaptation to stresses. Correspondingly, the mutant exhibited enhanced photosynthesis, accelerated growth, and increased glycogen under HLHT conditions, showing improved adaptation. The higher intracellular ATP synthesis activity, along with enhanced photosynthetic activity, suggests increased ATP production in the mutant under HLHT. Enhancing ATP production and remodeling the cellular transcriptome appear to be key strategies employed by the C252Y mutation for Sye7942 acclimating to HLHT. These findings provide valuable insights for enhancing photosynthetic efficiency and stress resilience in cyanobacteria and other photosynthetic organisms facing HLHT challenges. Full article

Endosymbiotic bacteria in insects are known to influence plant–insect interactions by altering host plant physiology. This study reveals that the endosymbiont Wolbachia significantly impairs photosynthesis in cotton plants. Comparative transcriptomic analysis of cotton leaves infested by Wolbachia-infected spider mites (Tt-I) and uninfected spider mites (Tt-UI) identified 1912 differentially expressed genes (DEGs). Photosynthesis was the most adversely affected biological process, with 17 genes downregulated in the photosynthesis pathway (e.g., key genes psbW and PETF), as supported by GO and KEGG enrichment analyses. Gene co-expression network analysis further highlighted core genes involved in photosynthesis disruption and carbon fixation. Physiological assessments showed that Wolbachia infection led to significantly reduced chlorophyll content and elevated reactive oxygen species (ROS) levels, inducing oxidative stress. These findings demonstrate that Wolbachia disrupts cotton photosynthesis through transcriptional repression and ROS-mediated oxidative stress, providing novel insights into plant–insect-symbiont interactions and a theoretical basis for managing mite pests in cotton. Full article

This review proposes a “phenomenon–mechanism–regulation” framework for understanding nitrogen immobilization during the conversion of green waste into growing media. Nitrogen immobilization acts as a double-edged sword: intense short-term immobilization, typically occurring within the first 1–2 weeks after substrate establishment, can rapidly deplete mineral nitrogen and induce plant nitrogen deficiency, whereas the immobilized nitrogen is subsequently incorporated into microbial biomass and lignin-associated organic pools, forming a slow-release reservoir that enhances nitrogen retention and reduces leaching losses. Owing to its extremely high C/N ratio (often >100) and the coexistence of labile carbon fractions and recalcitrant compounds (e.g., lignin and phenolics), green waste exhibits substantially stronger immobilization potential than conventional media. Empirical evidence indicates that nitrogen immobilization can reach 10–115 mg N·L⁻¹ within a few days in wood-derived substrates, and additional fertilization of up to 100 mg N·L⁻¹ may be required to maintain crop growth. Mechanistically, nitrogen immobilization is governed by the coupling of microbial assimilation—driven by stoichiometric C/N imbalance (typically triggered when C/N > 20–25)—and abiotic chemical fixation, including reactions between NH₄⁺/NO₂⁻ and lignin-derived phenolics forming stable organic nitrogen compounds. The relative dominance of these pathways is jointly regulated by carbon quality, nitrogen form, and pH. Based on these mechanisms, regulatory strategies are summarized at multiple scales, including feedstock pretreatment to reduce labile carbon availability, substrate formulation to optimize C/N balance, and model-assisted intelligent fertigation to synchronize nitrogen supply with crop demand. Overall, this study provides a theoretical basis for improving green waste valorization and promoting sustainable horticultural production. Full article

Mosses (Bryophyta) comprises a group of terrestrial plants that colonized land more than 450 million years ago that play fundamental ecological and evolutionary roles, particularly in polar and peatland ecosystems. The sequencing of Physcomitrium patens marked a milestone in bryophyte genomics, establishing mosses as model organisms for evolutionary and functional studies. However, the recent advent of next-generation sequencing technologies has broadened genomic exploration beyond P. patens, unveiling the genetic diversity of additional bryophyte species. Notably, the genomes of Sphagnum fallax, Sphagnum magellanicum, the liverwort Marchantia polymorpha and hornworts from Athoceros genus have provided new insights into carbon fixation mechanisms, ecological adaptations, and lineage-specific evolutionary traits. These advances have enabled large-scale comparative analyses and expanded the understanding of conserved and divergent genomic features among bryophytes. The integration of these datasets into public databases such as Phytozome and NCBI Genome has created a robust framework for investigating plant genome evolution and biotechnological potential. Altogether, the expanding genomic landscape of bryophytes reveals their remarkable evolutionary plasticity and underscores their importance as key models for studying adaptation, metabolism, and genomic innovation in terrestrial plants. Full article

The necrotrophic pathogen Sclerotinia sclerotiorum compromises the physiological and anatomical integrity of cotton, leading to substantial economic losses due to rapid tissue necrosis, stem blight, boll rot, and leaf wilting. In this context, the use of endophytic microorganisms emerges as a promising strategy for the biocontrol of white mold. This study tested the hypothesis that endophytic fungal strains isolated from the roots of Butia purpurascens, a palm tree endemic to the Cerrado biome, could mitigate disease symptoms in Gossypium hirsutum L. To evaluate this, cotton plants were subjected to biotic stress imposed by S. sclerotiorum to assess the effectiveness of seven fungal strains in attenuating disease. The impact of the pathogen was monitored through growth variables, gas exchange, leaf temperature, chlorophyll a fluorescence, antioxidant enzyme activity, proline and malondialdehyde (MDA) levels, and the incidence of rot in petioles, leaves, and flower buds. Overall, inoculation with endophytic fungi significantly alleviated the effects of the phytopathogen, promoting vegetative growth and optimizing physiological performance. Treated plants exhibited alleviated stress in primary photochemistry, reduced non-photochemical energy dissipation, and stable carbon fixation. Additionally, efficient modulation of the antioxidant system and preservation of anatomical structures were observed, minimizing the severe symptoms of white mold. Notably, the non-pathogenic strains BP10EF (Gibberella moniliformis), BP16EF (Penicillium purpurogenum), and BP33EF (Hamigera insecticola) acted as potent physiological modulators, yielding responses similar to those of healthy plants. These results highlight the biotechnological potential of these endophytic strains, which can be explored as both growth promoters and resistance inducers in cotton against white mold. Full article