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In silico discovery and anti-tumor bioactivities validation of an algal lectin from Kappaphycus alvarezii genome
No full textLectins are proteins that bind specifically and reversibly to carbohydrates, and some of them have significant anti-tumor activities. Compared to those of lectins from land plants, there are far fewer studies on algal lectins, despite of the high biodiversity of algae. However, canonical strategies based on chromatographic featureoriented screening cannot satisfy the requirement for algal lectin discovery. In this study, prospecting for novel OAAH family lectins throughout 358 genomes of red algae and cyanobacteria was conducted. Then 35 candidate lectins and 1843 of their simulated mutated forms were virtually screened based on predicted binding specificities to characteristic carbohydrates on cancer cells inferred by a deep learning model. A new lectin, named Siye, was discovered in Kappaphycus alvarezii genome and further verified on different cancer cells. Without causing agglutination of erythrocytes, Siye showed significant cytotoxicity to four human cancer cell lines (IC50 values ranging from 0.11 to 3.95 mu g/mL), including breast adenocarcinoma HCC1937, lung carcinoma A549, liver cancer HepG2 and romyelocytic leukemia HL60. And the cytotoxicity was induced through promoting apoptosis by regulating the caspase and the p53 pathway within 24 h. This study testifies the feasibility and efficiency of the genome mining guided by evolutionary theory and artificial intelligence in the discovery of algal lectins
Turnover structures in macrobenthic communities rather than nestedness in the Yellow River Delta wetland, China
No full textComprehending the triggers, such as turnover and nestedness, in structuring of macrobenthic communities is crucial for informing wetland biodiversity conservation strategies. Previous studies on macrobenthic communities in the Yellow River Delta wetland lacked beta-diversity analysis and did not consider the role of turnover and nestedness in different ecological zones. Therefore, we analyzed taxonomic, phylogenetic and functional alpha- and beta-diversities in the Yellow River Delta wetland, intertidal and offshore zones. The study revealed that the intertidal zone had higher polychaete abundance of species, while the offshore zone was dominated by a more mobile crustaceans and fish species. The findings of this study showed that alpha-diversity metrics for taxonomic, phylogenetic and functional dimensions were higher in offshore stations, whereas beta-diversity was higher in intertidal communities. Turnover contributed more significantly to taxonomic, phylogenetic and functional beta-diversities, highlighting changes not only happened in species composition but also in phylogenetic relationships and functional traits between the two zones. Additionally, the intertidal zone exhibited higher turnover, while the offshore zone had an increased proportion of nestedness component contribution, especially for functional beta-diversity. Correlation analysis indicated significant associations among three beta-diversities and their respective turnover and nestedness components. The correlation between taxonomic and phylogenetic aspects was stronger compared to the correlations between taxonomic and functional aspects as well as between functional and phylogenetic aspects. These findings enhance our understanding of the drivers of biodiversity in macrobenthic communities and underscore the importance of considering phylogenetic and functional dimensions in beta-diversity studies
Direct interspecies electron transfer for environmental treatment and chemical electrosynthesis: A review
No full textMicrobial electric syntrophy, involving direct electron transfer between electron-donating strains and electron-accepting strains, could reduce more than 50% of methane emissions and remove 90% of nitrate pollution in some wastewaters. Microbial electric syntrophy is also a key natural process allowing the survival of bacteria in harsh environmental conditions. Here we review natural and artificial cases of interspecies electron transfer in microbial syntrophy, with emphasis on methane production, electroactive bacteria, methanogens, anaerobic methane-oxidizing consortia, Geobacter species, phototrophic bacteria, co-cultures, anaerobic digestion, environmental remediation and microbial electrosynthesis. Environmental remediation includes nitrogen removal, reductive dechlorination and pollutant degradation. Microbial electrosynthesis can be used for carbon dioxide reduction. Conductive proteins and materials, and light-assisted electron transfer contribute to the direct interspecies electron transfer
Incoherent ultrafast energy transfer in phycocyanin 620 from <i>Thermosynechococcus vulcanus</i> revealed by polarization-controlled two dimensional electronic spectroscopy
No full textPhycocyanin 620 (PC620) is the outermost light-harvesting complex in phycobilisome of cyanobacteria, engaged in light collection and energy transfer to the core antenna, allophycocyanin. Recently, long-lived exciton-vibrational coherences have been observed in allophycocyanin, accounting for the coherent energy transfer [Zhu et al., Nat. Commun. 15, 3171 (2024)]. PC620 has a nearly identical spatial location of three alpha 84-beta 84 phycocyanobilin pigment pairs to those in allophycocyanin, inferring an existence of possible coherent energy transfer pathways. However, whether PC620 undergoes coherent or incoherent energy transfer remains debated. Furthermore, accurate determination of energy transfer rates in PC620 is still necessary owing to the spectral overlap and broadening in conventional time-resolved spectroscopic measurements. In this work, the energy transfer process within PC620 was directly resolved by polarization-controlled two dimensional electronic spectroscopy (2DES) and global analysis. The results show that the energy transfer from alpha 84 to the adjacent beta 84 has a lifetime constant of 400 fs, from beta 155 to beta 84 of 6-8 ps, and from beta 155 to alpha 84 of 66 ps, fully conforming to the F & ouml;rster resonance energy transfer mechanism. The circular dichroism spectrum also reveals that the alpha 84-beta 84 pigment pair does not form excitonic dimer, and the observed oscillatory signals are confirmed to be vibrational coherence, excluding the exciton-vibrational coupling. Nodal line slope analysis of 2DES further reveals that all the vibrational modes participate in the energy dissipation of the excited states. Our results consolidate that the ultrafast energy transfer process in PC620 is incoherent, where the twisted conformation of alpha 84 is suggested as the main cause for preventing the formation of alpha 84-beta 84 excitonic dimer in contrast to allophycocyanin
Losses and destabilization of soil organic carbon stocks in coastal wetlands converted into aquaculture ponds
No full textCoastal-wetlands play a crucial role as carbon (C) reservoirs on Earth due to their C pool composition and functional sink, making them significant for mitigating global climate change. However, due to the development and utilization of wetland resources, many wetlands have been transformed into other land-use types. The current study focuses on the alterations in soil organic-C (SOC) in coastal-wetlands following reclamation into aquaculture ponds. We conducted sampling at 11 different coastal-wetlands along the tropical to temperate regions of the China coast. Each site included two community types, one with solely native species (Suaeda salsa, Phragmites australis and Mangroves) and the other with an adjacent reclaimed aquaculture pond. Across these 11 locations we compared SOC stock, active OC fractions, and soil physicochemical properties between coastal wetlands and aquaculture ponds. We observed that different soil uses, sampling sites, and their interaction had significant effects on SOC and its stock (p < .05). Reclamation significantly declined SOC concentration at depths of 0-15 cm and 15-30 cm by 35.5% and 30.3%, respectively, and also decreased SOC stock at 0-15 cm and 15-30 cm depths by 29.1% and 37.9%, respectively. Similar trends were evident for SOC stock, labile organic-C, dissolved organic-C and microbial biomass organic-C concentrations (p < .05), indicating soil C-destabilization and losses from soil following conversion. Soils in aquaculture ponds exhibited higher bulk density (BD; 11.3%) and lower levels of salinity (61.0%), soil water content (SWC; 11.7%), total nitrogen (TN) concentration (23.8%) and available-nitrogen concentration (37.7%; p < .05) than coastal-wetlands. Redundancy-analysis revealed that pH, BD and TN concentration were the key variables most linked with temporal variations in SOC fractions and stock between two land use types. This study provides a theoretical basis for the rational utilization and management of wetland resources, the achievement of an environment-friendly society, and the preservation of multiple service functions within wetland ecosystems
Toxic effects of freshwater grouper (Acrossocheilus fasciatus) eggs on poultry: Morphological and transcriptomic insights into hepatic toxicity
No full textFish egg poisoning is a serious and neglected public menace that kills hundreds of people and numerous poultry each year. Freshwater groupers (Acrossocheilus fasciatus) are common food fish in the southeastern regions of China. Their toxic eggs are regarded as a significant public health concern. The molecular mechanisms of eggtoxin toxicity in freshwater grouper to poisoned organisms are elusive. In this study, black-boned chicks were exposed to toxic eggs from freshwater grouper at a lethal dose. The hepatic morphology of the intoxicated chick was assessed. An analysis of the liver gene expression profile was conducted by comparing samples exposed to toxic eggs with control samples using RNA-Seq. The result revealed that an increase in vacuolation and congestion was observed in chicks with toxic eggs exposure. The transcriptome analysis revealed 5421 genes with differential expression, comprising 2810 up-regulated and 2611 down-regulated genes. The genes were primarily linked to energy metabolism, cell apoptosis, cell adhesion, exogenous microbial infection, and cell junction. The most strongly upregulated genes were cholecystokinin (CCK), cholecystokinin A receptor (CCKAR), and unc-80 homolog, NALCN activator (UNC80), and the most downregulated genes were glycine amidinotransferase (GATM), fatty acid desaturase 2 (FADS2), and hexokinase 2 (HKDC1). GO term with the highest enrichment of DEGs is nucleosome assembly. According to KEGG pathways, the three most significant metabolic pathways in the liver are DNA replication, retinol metabolism, and steroid biosynthesis. The results could be crucial for comprehending the negative biological impacts of egg-toxin and its toxic mechanisms. The outcome could provide potential biomarkers of egg-toxin exposure in hepatic, which might be useful for manufacturing an antidote to egg-toxin and providing valuable insights for ecotoxicity studies
Analysis of the evolution, losses and gains of tidal wetlands in the Bohai Rim based on image data cube
No full textUnder the influence of challenges posed by both human and natural factors, tidal wetlands in the Bohai Rim have been confronting severe threats. It is imperative to comprehend the evolution, as well as the losses and gains of tidal wetlands in the Bohai Rim, for effective coastal management and planning. However, the dynamic fluctuations in the losses and gains of tidal wetlands in this region are frequently overlooked. In this study, employing image data cubes and frequency method, we systematically monitored tidal wetlands in the Bohai Rim spanning the period from 1986 to 2022. Additionally, we performed an exhaustive analysis of the evolution, losses, and gains of tidal wetlands within the provinces and municipality surrounding the Bohai Rim, as well as a detailed analysis of typical areas. This study unveiled three key findings. Firstly, tidal wetlands in Liaoning, Hebei, Tianjin, and Shandong had experienced significant declines of 42%, 66.3%, 71.08% and 60.52% from 1986 to 2022, respectively; they had contracted spatially and changed from a contiguous complete distribution to a scattered fragmented distribution. Secondly, reclamation and erosion had led to the loss of tidal wetlands, while sedimentation had led to the gain of tidal wetlands. The loss area of tidal wetlands caused by reclamation and erosion, as well as the gain area of tidal wetlands caused by sedimentation, had exhibited fluctuating changes from 1986 to 2022. Finally, the area of tidal wetlands in the Liaohe River Delta, Tianjin Port, and Yellow River Delta had decreased by 46.48%, 74.96% and 22.36% from 1986 to 2022, respectively; and tidal wetlands in these three typical areas had spatially contracted. Our findings offer a fresh perspective and a solid scientific foundation for the effective management and strategic planning of tidal wetlands in the Bohai Rim region
The water-insoluble organic carbon in PM<sub>2.5</sub> of typical Chinese urban areas: light-absorbing properties, potential sources, radiative forcing effects, and a possible light-absorbing continuum
No full textWater-insoluble organic carbon (WIOC) constitutes a substantial portion of organic carbon (OC) and contributes significantly to light absorption by brown carbon (BrC), playing pivotal roles in climate forcing. China is a hotspot region with high levels of OC and BrC, but information regarding the sources and light-absorbing properties of WIOC on a national scale remains scarce. Here, we investigated the light-absorbing properties and sources of WIOC in 10 representative urban cities in China. On average, WIOC made up 33.4 +/- 7.66 % and 40.5 +/- 9.73 % of concentrations and light absorption at 365 nm (Abs(365)) of extractable OC (EX-OC), which includes relatively hydrophobic OC (WIOC and humic-like substances, HULIS-C) and hydrophilic OC (non-humic-like substances, non-HULIS-C). The mass absorption efficiency of WIOC at 365 nm (MAE(365)) was (1.59 +/- 0.55 m(2) (g C)(-1)) comparable to that of HULIS (1.54 +/- 0.57 m(2) (g C)(-1)) but significantly higher than non-HULIS (0.71 +/- 0.28 m(2) (g C)(-1)), indicating that hydrophobic OC possesses a stronger light-absorbing capacity than hydrophilic OC. Biomass burning (31.0 %) and coal combustion (31.1 %) were the dominant sources of WIOC, with coal combustion sources exhibiting the strongest light-absorbing capacity. Moreover, employing the simple forcing efficiency (SFE300-700 nm) method, we observed that WIOC exhibited the highest SFE300-700 nm (6.57 +/- 5.37 W g(-1)) among the EX-OC fractions. The radiative forcing of EX-OC was predominantly contributed by hydrophobic OC (WIOC - 39.4 +/- 15.5 % and HULIS - 39.5 +/- 12.1 %). Considering the aromaticity, sources, and atmospheric processes of different carbonaceous components, we propose a light-absorbing carbonaceous continuum, revealing that components enriched with fossil sources tend to possess stronger light-absorbing capacity, higher aromatic levels, increased molecular weights, and greater recalcitrance in the atmosphere. Reducing fossil fuel emissions emerges as an effective means of mitigating both gaseous (CO2) and particulate light-absorbing carbonaceous warming components
Analysis of Carbon Flux Characteristics in Saline-Alkali Soil Under Global Warming
No full textThe carbon cycle of saline-alkali ecosystems will be affected to some extent in the context of future global warming. Therefore, we investigated the net ecosystem exchange (NEE) of three typical crops (wheat, maize and soybean) in the saline-alkaline land of the Yellow River Delta. To further investigate CO2 fluxes, NEE was decomposed into gross primary productivity (GPP) and ecosystem respiration (Re). In terms of seasonal variation, wheat and soybean were carbon sources in the early and late growth periods, and carbon sinks in the rest of the period, whereas maize was a carbon sink in the majority of the period, and maize had good carbon sink potential. The cumulative NEE during the growth periods for wheat, maize, and soybean were 414.86, 258.24 and 228.92 g cm-2, respectively, and the daily variation showed that the peak NEE values for the three crops preceded the peak values of both GPP and ecosystem respiration, occurring approximately at 12:00 a.m. In the correlation analysis, NEE and GPP of the three crops were well correlated with photosynthetic photon flux density and net radiation, whereas Re was significantly correlated with air temperature. Through a comparative analysis of CO2 fluxes within various agricultural ecosystems, our findings indicated that wheat demonstrated moderate carbon sequestration capabilities, whereas maize and soybean exhibited strong carbon sink characteristics. Notably, saline-alkali crops exhibited lower Re, whereas GPP levels remained at a moderate range. Therefore, under the global warming trend, the respiration of saline crops and soils will be affected and may change the original carbon sink into a carbon source. Hence, implementing suitable measures targeting saline-alkali areas, such as the establishment of an effective crop rotation system and the enhance saline-alkali land conditions, can reduce emissions of greenhouse gases, thus reducing the pressure of global warming and maintaining a stable carbon cycle in saline-alkali land
Occurrence and possible sources of antibiotic resistance genes in seawater of the South China Sea
No full textAntibiotic resistance genes (ARGs) might have great effect on ecological security and human health. Oceans are important reservoirs that receive tremendous amounts of pollutants globally. However, information on the proliferation of ARGs in seawater is still limited. This study performed field sampling to investigate the occurrence and distribution of ARGs in seawater of the South China Sea, which is the deepest and largest sea in China. The results showed that the total absolute abundances of ARGs in seawater samples ranged from 2.1 x 103 to 2.3 x 104 copies/mL, with an of 5.0 x 103 copies/mL and a range of 2.2 x 103-1.8 x 104 copies/mL for those with mobile genetic elements (MGEs). Genes resistant to multidrug, aminoglycoside, tetracycline, and fluoroquinolone antibiotics accounted for 77.3%-88.6% of total ARGs in seawater. Proteobacteria and Cyanobacteria represented 32.1%-56.2% and 30.4%-49.5% of microbial community, respectively. Prochlorococcus_MIT9313 and Clade_la were the prevalent genera in seawater of the South China Sea. Complex co-occurrence relationship existed among ARGs, MGEs, and bacteria. Anthropogenic activities had critical influence on ARGs and MGEs. Hospital wastewater, wastewater treatment plant effluent, sewage, aquaculture tailwater, and runoff were determined as the important sources of ARGs in seawater of the South China Sea based on positive matrix factorization analysis