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Keywords = biogeochemical limitation

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21 pages, 2263 KiB  
Article
Elevational Patterns and Drivers of Soil Total, Microbial, and Enzymatic C:N:P Stoichiometry in Karst Peak-Cluster Depressions in Southwestern China
by Siyu Chen, Chaohao Xu, Cong Hu, Chaofang Zhong, Zhonghua Zhang and Gang Hu
Forests 2025, 16(8), 1216; https://doi.org/10.3390/f16081216 - 24 Jul 2025
Viewed by 294
Abstract
Elevational gradients in temperature, moisture, and vegetation strongly influence soil nutrient content and stoichiometry in mountainous regions. However, exactly how total, microbial, and enzymatic carbon (C), nitrogen (N), and phosphorus (P) stoichiometry vary with elevation in karst peak-cluster depressions remains poorly understood. To [...] Read more.
Elevational gradients in temperature, moisture, and vegetation strongly influence soil nutrient content and stoichiometry in mountainous regions. However, exactly how total, microbial, and enzymatic carbon (C), nitrogen (N), and phosphorus (P) stoichiometry vary with elevation in karst peak-cluster depressions remains poorly understood. To address this, we studied soil total, microbial, and enzymatic C:N:P stoichiometry in seasonal rainforests within karst peak-cluster depressions in southwestern China at different elevations (200, 300, 400, and 500 m asl) and depths (0–20 and 20–40 cm). We found that soil organic carbon (SOC), total nitrogen (TN), and the C:P and N:P ratios increased significantly with elevation, whereas total phosphorus (TP) decreased. Microbial phosphorus (MBP) also declined with elevation, while the microbial N:P ratio rose. Activities of nitrogen- (β-N-acetylglucosaminidase and L-leucine aminopeptidase combined) and phosphorus-related enzymes (alkaline phosphatase) increased markedly with elevation, suggesting potential phosphorus limitation for plant growth at higher elevations. Our results suggest that total, microbial, and enzymatic soil stoichiometry are collectively shaped by topography and soil physicochemical properties, with elevation, pH, and exchangeable calcium (ECa) acting as the key drivers. Microbial stoichiometry exhibited positive interactions with soil stoichiometry, while enzymatic stoichiometry did not fully conform to the expectations of resource allocation theory, likely due to the functional specificity of phosphatase. Overall, these findings enhance our understanding of C–N–P biogeochemical coupling in karst ecosystems, highlight potential nutrient limitations, and provide a scientific basis for sustainable forest management in tropical karst regions. Full article
(This article belongs to the Section Forest Soil)
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15 pages, 2997 KiB  
Article
Volcanic Ash–Alkaline (Soda) Lake Water Interactions: Biogeochemical Effects in Lake Van as a Model System
by Nazlı Olgun
Water 2025, 17(15), 2171; https://doi.org/10.3390/w17152171 - 22 Jul 2025
Viewed by 494
Abstract
Volcanic ash from explosive eruptions can significantly alter lake water chemistry through ash–water interactions, potentially influencing primary productivity. Alkaline (soda) lakes, mostly found in volcanic regions, are particularly sensitive due to their unique geochemical properties. However, the effects of volcanic ash on the [...] Read more.
Volcanic ash from explosive eruptions can significantly alter lake water chemistry through ash–water interactions, potentially influencing primary productivity. Alkaline (soda) lakes, mostly found in volcanic regions, are particularly sensitive due to their unique geochemical properties. However, the effects of volcanic ash on the biogeochemistry and phytoplankton dynamics of soda lakes remain poorly understood. This study presents the first nutrient release experiments using natural alkaline water from Lake Van (Türkiye) and volcanic ash from four volcanoes (Hekla, Arenal, Sakurajima, Rabaul-Tavurvur) with different compositions. Sixteen abiotic leaching experiments were conducted over contact durations ranging from 1 to 24 h. Results show rapid increases in pH (~0.4–0.5 units), enhanced silica and phosphate concentrations, and elevated levels of Na, K, Ca, Sr, and S. Nitrate and Mg were generally depleted. The low N:P ratio (~0.06) in Lake Van water indicated nitrogen limitation, partially mitigated by ash-derived inputs. Cyanobacteria dominated the phytoplankton community (95%), consistent with nitrogen fixation under low-nitrate conditions. Elevated silica may promote diatom growth, while changes in Mg/Ca ratios suggest possible impacts on carbonate precipitation and microbialite development. These findings highlight the biogeochemical and ecological relevance of volcanic ash inputs to soda lakes. Full article
(This article belongs to the Section Hydrogeology)
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31 pages, 23687 KiB  
Article
Spatiotemporal Dynamics of Ecosystem Services and Human Well-Being in China’s Karst Regions: An Integrated Carbon Flow-Based Assessment
by Yinuo Zou, Yuefeng Lyu, Guan Li, Yanmei Ye and Cifang Wu
Land 2025, 14(8), 1506; https://doi.org/10.3390/land14081506 - 22 Jul 2025
Viewed by 305
Abstract
The relationship between ecosystem services (ESs) and human well-being (HWB) is a central issue of sustainable development. However, current research often relies on qualitative frameworks or indicator-based assessments, limiting a comprehensive understanding of the relationship between natural environment and human acquisition, which still [...] Read more.
The relationship between ecosystem services (ESs) and human well-being (HWB) is a central issue of sustainable development. However, current research often relies on qualitative frameworks or indicator-based assessments, limiting a comprehensive understanding of the relationship between natural environment and human acquisition, which still needs to be strengthened. As an element transferred in the natural–society coupling system, carbon can assist in characterizing the dynamic interactions within coupled human–natural systems. Carbon, as a fundamental element transferred across ecological and social spheres, offers a powerful lens to characterize these linkages. This study develops and applies a novel analytical framework that integrates carbon flow as a unifying metric to quantitatively assess the spatiotemporal dynamics of the land use and land cover change (LUCC)–ESs–HWB nexus in Guizhou Province, China, from 2000 to 2020. The results show that: (1) Ecosystem services in Guizhou showed distinct trends from 2000 to 2020: supporting and regulating services declined and then recovered, and provisioning services steadily increased, while cultural services remained stable but varied across cities. (2) Human well-being generally improved over time, with health remaining stable and the HSI rising across most cities, although security levels fluctuated and remained low in some areas. (3) The contribution of ecosystem services to human well-being peaked in 2010–2015, followed by declines in central and northern regions, while southern and western areas maintained or improved their levels. (4) Supporting and regulating services were positively correlated with HWB security, while cultural services showed mixed effects, with strong synergies between culture and health in cities like Liupanshui and Qiandongnan. Overall, this study quantified the coupled dynamics between ecosystem services and human well-being through a carbon flow framework, which not only offers a unified metric for cross-dimensional analysis but also reduces subjective bias in evaluation. This integrated approach provides critical insights for crafting spatially explicit land management policies in Guizhou and offers a replicable methodology for exploring sustainable development pathways in other ecologically fragile karst regions worldwide. Compared with conventional ecosystem service frameworks, the carbon flow approach provides a process-based, dynamic mediator that quantifies biogeochemical linkages in LUCC–ESs–HWB systems, which is particularly important in fragile karst regions. However, we acknowledge that further empirical comparison with traditional ESs metrics could strengthen the framework’s generalizability. Full article
(This article belongs to the Special Issue Advances in Land Consolidation and Land Ecology (Second Edition))
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35 pages, 9965 KiB  
Review
Advances in Dissolved Organic Carbon Remote Sensing Inversion in Inland Waters: Methodologies, Challenges, and Future Directions
by Dandan Xu, Rui Xue, Mengyuan Luo, Wenhuan Wang, Wei Zhang and Yinghui Wang
Sustainability 2025, 17(14), 6652; https://doi.org/10.3390/su17146652 - 21 Jul 2025
Viewed by 333
Abstract
Inland waters, serving as crucial carbon sinks and pivotal conduits within the global carbon cycle, are essential targets for carbon assessment under global warming and carbon neutrality initiatives. However, the extensive spatial distribution and inherent sampling challenges pose fundamental difficulties for monitoring dissolved [...] Read more.
Inland waters, serving as crucial carbon sinks and pivotal conduits within the global carbon cycle, are essential targets for carbon assessment under global warming and carbon neutrality initiatives. However, the extensive spatial distribution and inherent sampling challenges pose fundamental difficulties for monitoring dissolved organic carbon (DOC) in these systems. Since 2010, remote sensing has catalyzed a technological revolution in inland water DOC monitoring, leveraging its advantages for rapid, cost-effective long-term observation. In this critical review, we systematically evaluate research progress over the past two decades to assess the performance of remote sensing products and existing methodologies in DOC retrieval. We provide a detailed examination of diverse remote sensing data sources, outlining their application characteristics and limitations. By tracing uncertainties in retrieval outcomes, we identify atmospheric correction, spatial heterogeneity, and model and data deficiencies as primary sources of uncertainty. Current retrieval approaches—direct, indirect, and machine learning (ML) methods—are thoroughly scrutinized for their features, effectiveness, and application contexts. While ML offers novel solutions, its application remains nascent, constrained by limited waterbody-specific samples and model constraints. Furthermore, we discuss current challenges and future directions, focusing on data optimization, feature engineering, and model refinement. We propose that future research should (1) employ integrated satellite–air–ground observations and develop tailored atmospheric correction for inland waters to reduce data noise; (2) develop deep learning architectures with branch networks to extract DOC’s intrinsic shortwave absorption and longwave anti-interference features; and (3) incorporate dynamic biogeochemical processes within study regions to refine retrieval frameworks using biogeochemical indicators. We also advocate for multi-algorithm collaborative prediction to overcome the spectral paradox and unphysical solutions arising from the single data-driven paradigm of traditional ML, thereby enhancing retrieval reliability and interpretability. Full article
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13 pages, 5276 KiB  
Technical Note
Regional Assessment of COCTS HY1-C/D Chlorophyll-a and Suspended Particulate Matter Standard Products over French Coastal Waters
by Corentin Subirade, Cédric Jamet and Bing Han
Remote Sens. 2025, 17(14), 2516; https://doi.org/10.3390/rs17142516 - 19 Jul 2025
Viewed by 246
Abstract
Chlorophyll-a (Chla) and suspended particulate matter (SPM) are key indicators of water quality, playing critical roles in understanding marine biogeochemical processes and ecosystem health. Although satellite data from the Chinese Ocean Color and Temperature Scanner (COCTS) onboard the Haiyang-1C/D satellites is freely available, [...] Read more.
Chlorophyll-a (Chla) and suspended particulate matter (SPM) are key indicators of water quality, playing critical roles in understanding marine biogeochemical processes and ecosystem health. Although satellite data from the Chinese Ocean Color and Temperature Scanner (COCTS) onboard the Haiyang-1C/D satellites is freely available, there has been limited validation of its standard Chla and SPM products. This study is a first step to address this gap by evaluating COCTS-derived Chla and SPM products against in situ measurements in French coastal waters. The matchup analysis showed robust performance for the Chla product, with a median symmetric accuracy (MSA) of 50.46% over a dynamic range of 0.13–4.31 mg·m−3 (n = 24, Bias = 41.11%, Slope = 0.93). In contrast, the SPM product showed significant limitations, particularly in turbid waters, despite a reasonable performance in the matchup exercise, with an MSA of 45.86% within a range of 0.18–10.52 g·m−3 (n = 23, Bias = −14.59%, Slope = 2.29). A comparison with another SPM model and Moderate Resolution Imaging Spectroradiometer (MODIS) products showed that the COCTS standard algorithm tends to overestimate SPM and suggests that the issue does not originate from the input radiometric data. This study provides the first regional assessment of COCTS Chla and SPM products in European coastal waters. The findings highlight the need for algorithm refinement to improve the reliability of COCTS SPM products, while the Chla product demonstrates suitability for water quality monitoring in low to moderate Chla concentrations. Future studies should focus on the validation of COCTS ocean color products in more diverse waters. Full article
(This article belongs to the Section Ocean Remote Sensing)
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28 pages, 10458 KiB  
Article
Salinity Gradients Override Hydraulic Connectivity in Shaping Bacterial Community Assembly and Network Stability at a Coastal Aquifer–Reservoir Interface
by Cuixia Zhang, Haiming Li, Mengdi Li, Qian Zhang, Sihui Su, Xiaodong Zhang and Han Xiao
Microorganisms 2025, 13(7), 1611; https://doi.org/10.3390/microorganisms13071611 - 8 Jul 2025
Viewed by 523
Abstract
The coastal zone presents complex hydrodynamic interactions among inland groundwater, reservoir water, and intruding seawater, with important implications for ecosystem functioning and water quality. However, the relative roles of hydraulic connectivity and seawater-driven salinity gradients in shaping microbial communities at the aquifer–reservoir interface [...] Read more.
The coastal zone presents complex hydrodynamic interactions among inland groundwater, reservoir water, and intruding seawater, with important implications for ecosystem functioning and water quality. However, the relative roles of hydraulic connectivity and seawater-driven salinity gradients in shaping microbial communities at the aquifer–reservoir interface remain unclear. Here, we integrated hydrochemical analyses with high-throughput 16S rRNA gene sequencing to investigate bacterial community composition, assembly processes, and co-occurrence network patterns across groundwater_in (entering the reservoir), groundwater_out (exiting the reservoir), and reservoir water in a coastal system. Our findings reveal that seawater intrusion exerts a stronger influence on groundwater_out, leading to distinct chemical profiles and salinity-driven environmental filtering, whereas hydraulic connectivity promotes greater microbial similarity between groundwater_in and reservoir water. Groundwater samples exhibited higher alpha and beta diversity compared to the reservoir, with dominant taxa such as Comamonadaceae, Flavobacteriaceae, and Rhodobacteraceae serving as indicators of seawater intrusion. Community assembly analyses showed that homogeneous selection predominated, especially under strong salinity gradients, while dispersal limitation and spatial distance also contributed in areas of reduced connectivity. Key chemical factors, including TDS, Na+, Cl, Mg2+, and K+, strongly shaped groundwater communities. Additionally, groundwater bacterial networks were more complex and robust than those in reservoir water, suggesting enhanced resilience to salinity stress. Collectively, this study demonstrates that salinity gradients can override the effects of hydraulic connectivity in structuring bacterial communities and their networks at coastal interfaces. Our findings provide novel microbial insights relevant for understanding biogeochemical processes and support the use of microbial indicators for more sensitive monitoring and management of coastal groundwater resources. Full article
(This article belongs to the Special Issue Microbial Communities in Aquatic Environments)
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21 pages, 7082 KiB  
Review
The Bright Decade of Ocean Salinity from Space
by Roberto Sabia, Jacqueline Boutin, Nicolas Reul, Tong Lee and Simon H. Yueh
Remote Sens. 2025, 17(13), 2261; https://doi.org/10.3390/rs17132261 - 1 Jul 2025
Viewed by 504
Abstract
Sea Surface Salinity is a crucial climatic variable due to its twofold role as both a passive and an active tracer of oceanic processes. Despite its relevance, however, it could not be measured from space, mainly because of technological limitations, until 2009. Since [...] Read more.
Sea Surface Salinity is a crucial climatic variable due to its twofold role as both a passive and an active tracer of oceanic processes. Despite its relevance, however, it could not be measured from space, mainly because of technological limitations, until 2009. Since then, the generation and assessment of satellite salinity has become a game-changer in physical and biogeochemical oceanography, as well as in climate science. Three satellite sensors with salinity-measuring capabilities (SMOS-Soil Moisture and Ocean Salinity, Aquarius, and SMAP-Soil Moisture Active Passive) have been launched in the previous decade, each characterized by specific measurement concepts and features and ad hoc validation approaches. The increasing usage of spaceborne salinity products has produced a variety of results and applications, which are here summarized under three specific domains: climate, scientific, and operational. Finally, short-to-mid-term perspectives, indicating both the expected improvements in terms of algorithms and also looking at novel mission concepts (that will provide continuation of these measurements in the decade to come) have been described. Full article
(This article belongs to the Special Issue Oceans from Space V)
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33 pages, 1395 KiB  
Review
Soil Carbon Sequestration: A Mechanistic Perspective on Limitations and Future Possibilities
by Saurav Das, Sahila Beegum, Bharat Sharma Acharya and Dinesh Panday
Sustainability 2025, 17(13), 6015; https://doi.org/10.3390/su17136015 - 30 Jun 2025
Viewed by 1227
Abstract
Climate change, driven by rising atmospheric concentrations of greenhouse gases (GHGs) such as CO2, poses the most pressing environmental challenges today. Soil carbon (C) sequestration emerges as a crucial strategy to mitigate this issue by capturing atmospheric CO2 and storing [...] Read more.
Climate change, driven by rising atmospheric concentrations of greenhouse gases (GHGs) such as CO2, poses the most pressing environmental challenges today. Soil carbon (C) sequestration emerges as a crucial strategy to mitigate this issue by capturing atmospheric CO2 and storing it in soil organic carbon (SOC), thereby reducing GHG levels and enhancing soil health. Although soil is the largest terrestrial C sink, capable of storing between 1500–2400 petagrams (Pg) of C, the practical potential for SOC sequestration through regenerative practices is still widely debated. This review examines the biotic, abiotic, structural, physical, and chemical limitations that constrain soil C sequestration, along with the human dimensions that influence these processes. It explores the role of plant physiology, root architecture, microbial interactions, and environmental factors in determining the efficacy of SOC sequestration. Furthermore, it discusses the potential innovative strategies, including photosynthetic modifications, root system engineering, microbial bioengineering, and the application of advanced materials such as C-capturing minerals, poly-carboxylic compounds, and nanomaterials, to enhance C capture and storage in soils. By providing a comprehensive understanding of these factors, this review aims to inform future research and policy development, offering pathways to optimize soil C sequestration as a viable tool for climate change mitigation. Full article
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16 pages, 2072 KiB  
Article
Dynamic Modeling of the Sulfur Cycle in Urban Sewage Pipelines Under High-Temperature and High-Salinity Conditions
by Zhiwei Cao, Zhen Xu, Yufeng Chen, Bingxuan Zhao, Chenxu Wang, Zuozhou Yu and Jingya Zhou
Microorganisms 2025, 13(7), 1534; https://doi.org/10.3390/microorganisms13071534 - 30 Jun 2025
Viewed by 319
Abstract
This study addresses the microbial corrosion of cement-based materials in coastal urban sewer networks, systematically investigating the kinetic mechanisms of sulfur biogeochemical cycling under seawater infiltration conditions. Through dynamic monitoring of sulfide concentrations and environmental parameter variations in anaerobic pipelines, a multiphase coupled [...] Read more.
This study addresses the microbial corrosion of cement-based materials in coastal urban sewer networks, systematically investigating the kinetic mechanisms of sulfur biogeochemical cycling under seawater infiltration conditions. Through dynamic monitoring of sulfide concentrations and environmental parameter variations in anaerobic pipelines, a multiphase coupled kinetic model integrating liquid-phase, gas-phase, and biofilm metabolic processes was developed. The results demonstrate that moderate salinity enhances the activity of sulfate-reducing bacteria (SRB) and accelerates sulfate reduction rates, whereas excessive sulfide accumulation inhibits SRB activity. At 35 °C, the mathematical model coefficient “a” for sulfate reduction in the reactor with 3 g/L salinity was significantly higher than those in reactors with 19 g/L and 35 g/L salinities, with no significant difference observed between the latter two. Overall, high sulfate concentrations do not act as limiting factors for sulfide oxidation under anaerobic conditions; instead, they enhance the reaction within specific concentration ranges. The refined kinetic model enables prediction of sulfur speciation in tropical coastal urban sewer pipelines, providing a scientific basis for corrosion risk assessment. Full article
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28 pages, 2868 KiB  
Article
Satellite-Based Seasonal Fingerprinting of Methane Emissions from Canadian Dairy Farms Using Sentinel-5P
by Padmanabhan Jagannathan Prajesh, Kaliaperumal Ragunath, Miriam Gordon and Suresh Neethirajan
Climate 2025, 13(7), 135; https://doi.org/10.3390/cli13070135 - 27 Jun 2025
Viewed by 494
Abstract
Methane (CH4) emissions from dairy farming represent a substantial yet under-quantified share of agricultural greenhouse gas emissions. This study provides an in-depth, satellite-based fingerprinting analysis of methane emissions from Canada’s dairy sector, using Sentinel-5P/TROPOMI data. We utilized a robust quasi-experimental design, [...] Read more.
Methane (CH4) emissions from dairy farming represent a substantial yet under-quantified share of agricultural greenhouse gas emissions. This study provides an in-depth, satellite-based fingerprinting analysis of methane emissions from Canada’s dairy sector, using Sentinel-5P/TROPOMI data. We utilized a robust quasi-experimental design, pairing 14 dairy-intensive zones with eight non-dairy reference regions, to analyze methane emissions from 2019 to 2024. A dynamic, region-specific baseline approach was implemented to remove temporal non-stationarity and isolate dairy-specific methane signals. Dairy regions exhibited consistently higher methane concentrations than reference areas, with an average methane anomaly of 17.4 ppb. However, this concentration gap between dairy and non-dairy regions notably narrowed by 57.23% (from 24.42 ppb in 2019 to 10.44 ppb in 2024), driven primarily by accelerated methane increases in non-dairy landscapes and a pronounced one-year contraction during 2022–2023 (−39.29%). Nationally, atmospheric methane levels rose by 3.83%, revealing significant spatial heterogeneity across provinces. Notably, an inverse relationship between the initial methane concentrations in 2019 and subsequent growth rates emerged, indicating spatial convergence. The seasonal analysis uncovered consistent spring minima and fall–winter maxima across regions, reflecting the combined effects of seasonal livestock management practices, atmospheric transport dynamics, and biogeochemical processes. The diminishing dairy methane anomaly suggests complex interplay of intensifying background methane emissions from climate-driven wetland fluxes, increasing fossil fuel extraction activities, and diffuse agricultural emissions. These findings underscore the emerging challenges in attributing sector-specific methane emissions accurately from satellite observations, highlighting both the capabilities and limitations of current satellite monitoring approaches. Full article
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20 pages, 6564 KiB  
Article
Influence of Soil Depth and Land Use Type on the Diversity of and Metabolic Restriction in the Soil Microbial Community of a Forest-Grass Ecotone
by Xuman Ma, Xiaogang Li, Yaxin Meng, Jinhua Liu, Jinxin Wang, Xiaomeng Yu, Weipeng Wang and Xuehua Xu
Microorganisms 2025, 13(7), 1450; https://doi.org/10.3390/microorganisms13071450 - 22 Jun 2025
Viewed by 387
Abstract
Revealing soil microbial diversity and metabolic limitations in different land uses and soil depths is essential to understanding the regulation processes of soil nutrients. Here, bacterial and fungal microbial diversity and metabolic restriction in the 0–50 cm soil layers of four land uses, [...] Read more.
Revealing soil microbial diversity and metabolic limitations in different land uses and soil depths is essential to understanding the regulation processes of soil nutrients. Here, bacterial and fungal microbial diversity and metabolic restriction in the 0–50 cm soil layers of four land uses, namely farmland, grassland, Betula platyphylla secondary forest, and Larix principis-rupprechtii-planted forest in the mountainous forest-grass ecotone of northern China, were determined. The results showed that soil microbial diversity in farmland was the lowest. Soil microorganisms from all land uses are limited by nitrogen, with the highest nitrogen limitation in planted forest. However, microbial nitrogen limitation in farmland increased with increasing soil depth, while microbial nitrogen limitation in grassland, secondary forest, and planted forest decreased with increasing soil depth. The bacterial and fungal community composition was influenced by soil organic carbon, total nitrogen, soil organic carbon:total phosphorus ratio, soil water content, soil organic carbon, and total nitrogen:total phosphorus ratio. The soil organic carbon:total phosphorus ratio has an impact on microbial metabolic limitation. This study shows that soil microbial communities were more affected by land-use type than soil depth. Land use changes the input of soil nutrients from aboveground plants, which affects the physical and chemical properties of soil, microbial community diversity, and microbial metabolic limitation. The vertical filtration effect between soil layers reduces soil nutrients, making the microbial diversity and enzyme activity of surface soil greater than those of deep soil. Our study helps to understand the function of soil microorganisms under different land use types in the forest-grass ecotone of northern China and provides a basis for predicting biogeochemical cycle dynamics in the ecotone in the context of global warming. Full article
(This article belongs to the Section Microbiomes)
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18 pages, 3125 KiB  
Article
Influences of the China–Russia Crude Oil Pipelines on the Characteristics of Soil Bacterial and Fungal Communities in Permafrost Regions of the Da Xing’anling Mountains, Northeast China
by Xue Yang, Yanling Shi, Xiaoying Jin, Zuwang Li, Wenhui Wang, Shuai Huang and Huijun Jin
Forests 2025, 16(7), 1038; https://doi.org/10.3390/f16071038 - 20 Jun 2025
Viewed by 352
Abstract
Engineering disturbances are increasing in permafrost regions of northeastern China, where soil microorganisms play essential roles in biogeochemical cycling and are highly sensitive to linear infrastructure disturbances. However, limited research has addressed how microbial communities respond to different post-engineering-disturbance recovery stages. This study [...] Read more.
Engineering disturbances are increasing in permafrost regions of northeastern China, where soil microorganisms play essential roles in biogeochemical cycling and are highly sensitive to linear infrastructure disturbances. However, limited research has addressed how microbial communities respond to different post-engineering-disturbance recovery stages. This study investigated the impacts of the China–Russia Crude Oil Pipelines (CRCOPs) on soil microbial communities in a typical boreal forest permafrost zone of the Da Xing’anling Mountains. Soil samples were collected from undisturbed forest (the control, CK); short-term disturbed sites associated with Pipeline II, which was constructed in 2018 (SD); and long-term disturbed sites associated with Pipeline I, which was constructed in 2011 (LD). Pipeline engineering disturbances significantly increased soil clay content and pH while reducing soil water content (SWC), soil organic carbon (SOC), total nitrogen (TN), and total phosphorus (TP) (p < 0.05). No significant differences in these soil properties were observed between SD and LD. Bacterial diversity increased significantly, whereas fungal diversity significantly decreased following pipeline disturbances (p < 0.05). The beta diversity of both bacterial and fungal communities differed significantly among the three disturbance types. At the phylum level, pipeline disturbance increased the relative abundances of Proteobacteria, Acidobacteriota, Actinobacteriota, Ascomycota, and Mortierellomycota while reducing those of Bacteroidota and Basidiomycota. These shifts were associated with disturbance-induced changes in soil properties. Microbial co-occurrence networks in SD exhibited greater complexity and connectivity than those in CK and LD, suggesting intensified biotic interactions and active ecological reassembly during the early recovery phase. These findings suggest that pipeline disturbance could drive soil microbial systems into a new stable state that is difficult to restore over the long term, highlighting the profound impacts of linear infrastructure on microbial ecological functions in cold regions. This study provides a scientific basis for ecological restoration and biodiversity conservation in permafrost-affected areas. Full article
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27 pages, 10005 KiB  
Article
Reconstruction of Three-Dimensional Temperature and Salinity in the Equatorial Ocean with Deep-Learning
by Xiaoyu Yu, Daling Li Yi and Peng Wang
Remote Sens. 2025, 17(12), 2005; https://doi.org/10.3390/rs17122005 - 10 Jun 2025
Viewed by 554
Abstract
Ocean temperature and salinity are core elements influencing ocean dynamics and biogeochemical cycles, critical to climate change and ocean process studies. In recent years, Argo floats and satellite remote sensing data have provided key support for observing and reconstructing three-dimensional (3D) ocean temperature [...] Read more.
Ocean temperature and salinity are core elements influencing ocean dynamics and biogeochemical cycles, critical to climate change and ocean process studies. In recent years, Argo floats and satellite remote sensing data have provided key support for observing and reconstructing three-dimensional (3D) ocean temperature and salinity. However, due to the challenges and high costs of in situ observations and the limitation of satellite measurements to surface data, effectively combining multi-source data to enhance the reconstruction accuracy of 3D temperature and salinity remains a significant challenge. In this study, we propose a VI-UNet model that incorporates a Vision Transformer module into UNet model and apply it to reconstruct 3D temperature and salinity in the equatorial oceans (20°S–20°N, 20°E–60°W) at depths from 1 to 6000 m using sea surface data acquired by satellites. In addition, we also investigate the impact of incorporating significant wave height (SWH) on the reconstruction of temperature and salinity. The results demonstrate that the VI-UNet model performs remarkably well in reconstructing temperature and salinity, achieving maximum reductions in root mean square error (RMSE) of up to 40% and 100%, respectively. Additionally, incorporating SWH enhances model accuracy, particularly in the upper 1000 m. Full article
(This article belongs to the Special Issue Artificial Intelligence and Big Data for Oceanography (2nd Edition))
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23 pages, 1546 KiB  
Review
From Microbes to Molecules: Synthetic Biology Approaches for Advanced Materials Design
by Roshini Ramachandran, Frank Macabenta, Grace Bettencourt and Shulammite Feng
BioChem 2025, 5(2), 12; https://doi.org/10.3390/biochem5020012 - 28 May 2025
Cited by 1 | Viewed by 681
Abstract
Traditional materials synthesis often involves energy-intensive processes with significant waste generation and limited control over material properties. This review examines synthetic biology as a sustainable alternative for designing advanced materials with enhanced precision and versatility. It explores microbial biomineralization, detailing how microorganisms influence [...] Read more.
Traditional materials synthesis often involves energy-intensive processes with significant waste generation and limited control over material properties. This review examines synthetic biology as a sustainable alternative for designing advanced materials with enhanced precision and versatility. It explores microbial biomineralization, detailing how microorganisms influence the formation of mineral deposits and participate in key biogeochemical cycles. It highlights recent research advancements in using a wide variety of microorganisms for the synthesis of inorganic materials such as metal and metal oxide nanoparticles, quantum dots, magnetic nanoparticles, and thin films. The review also discusses the production and properties of various biopolymers. Important factors that can influence the size, morphology, and uniformity of these biomaterials are covered in detail. Emphasis is placed on advancements utilizing synthetic biology tools, such as protein engineering and genome editing, and recent research for creating smart and responsive materials. Considering the present limitations of synthetic biology, challenges related to scale-up, yield, and uniformity are discussed, and suggestions for future research are detailed. Full article
(This article belongs to the Special Issue Feature Papers in BioChem, 2nd Edition)
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21 pages, 2528 KiB  
Article
Long-Term Variability of Phytoplankton Size Classes in the Littoral Seas of Korea Using Deep Neural Networks and Satellite Data
by Hyo-Keun Jang, Changsin Kim, Seok-Hyun Youn, Jae-Joong Kang, Hwaeun Jung and Huitae Joo
J. Mar. Sci. Eng. 2025, 13(6), 1064; https://doi.org/10.3390/jmse13061064 - 28 May 2025
Viewed by 592
Abstract
Understanding the dynamics of phytoplankton size classes (PSCs), highly sensitive to environmental conditions in marine ecosystems, is crucial for comprehending variations in primary production and biogeochemical processes. Over the past decades, the littoral seas of Korea have undergone significant environmental shifts, yet long-term [...] Read more.
Understanding the dynamics of phytoplankton size classes (PSCs), highly sensitive to environmental conditions in marine ecosystems, is crucial for comprehending variations in primary production and biogeochemical processes. Over the past decades, the littoral seas of Korea have undergone significant environmental shifts, yet long-term studies on PSC distribution remain limited. Employing a regionally developed deep neural network model and 20 years (2003–2022) of satellite ocean color data, we assessed spatiotemporal variability in dominant PSCs in the Yellow Sea (YS), South Sea of Korea (SS), and East/Japan Sea (EJS). Micro-size phytoplankton dominated turbid nearshore waters of the YS and western SS year-round, while nano-size phytoplankton were seasonally prevalent in the central YS and EJS. Pico-size phytoplankton exhibited strong summer dominance under warm, stratified, nutrient-depleted conditions, showing a sustained long-term expansion across all regions, particularly in the southwestern EJS. This expansion was closely linked to rising sea surface temperatures and changes in nutrient stoichiometry. The increasing dominance of smaller phytoplankton may reduce primary production, alter food web structure, and ultimately diminish fishery productivity. These findings provide new insight into climate-driven ecological shifts in marginal seas and underscore the need for integrated long-term monitoring to anticipate future ecosystem responses in a rapidly warming ocean. Full article
(This article belongs to the Section Marine Ecology)
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