State Key Laboratory of Hydraulics and Mountain River Engineering

The plant hormone ethylene plays a key role in climacteric fruit ripening. Studies on components of ethylene signaling have revealed a linear transduction pathway leading to the activation of ethylene response factors. However, the means by which ethylene selects the ripening-related genes and interacts with other signaling pathways to regulate the ripening process are still to be elucidated. Using tomato (Solanum lycopersicum) as a reference species, the present review aims to revisit the mechanisms by which ethylene regulates fruit ripening by taking advantage of new tools available to perform in silico studies at the genome-wide scale, leading to a global view on the expression pattern of ethylene biosynthesis and response genes throughout ripening. Overall, it provides new insights on the transcriptional network by which this hormone coordinates the ripening process and emphasizes the interplay between ethylene and ripening-associated developmental factors and the link between epigenetic regulation and ethylene during fruit ripening.

The kiwifruit (Actinidia chinensis) is an economically and nutritionally important fruit crop with remarkably high vitamin C content. Here we report the draft genome sequence of a heterozygous kiwifruit, assembled from ~140-fold next-generation sequencing data. The assembled genome has a total length of 616.1 Mb and contains 39,040 genes. Comparative genomic analysis reveals that the kiwifruit has undergone an ancient hexaploidization event (γ) shared by core eudicots and two more recent whole-genome duplication events. Both recent duplication events occurred after the divergence of kiwifruit from tomato and potato and have contributed to the neofunctionalization of genes involved in regulating important kiwifruit characteristics, such as fruit vitamin C, flavonoid and carotenoid metabolism. As the first sequenced species in the Ericales, the kiwifruit genome sequence provides a valuable resource not only for biological discovery and crop improvement but also for evolutionary and comparative genomics analysis, particularly in the asterid lineage. The kiwifruit is an economically and nutritionally important fruit crop with high vitamin C content. Here, the authors report the draft genome sequence of a heterozygous kiwifruit and through comparative genomic analysis provide valuable insight into kiwifruit evolution.

In this study, the previously overlooked effects of contaminants’ molecular structure on their degradation efficiencies and dominant reactive oxygen species (ROS) in advanced oxidation processes (AOPs) are investigated with a peroxymonosulfate (PMS) activation system selected as the typical AOP system. Averagely, degradation efficiencies of 19 contaminants are discrepant in the CoCaAl-LDO/PMS system with production of SO4•–, •OH, and 1O2. Density functional theory calculations indicated that compounds with high EHOMO, low-energy gap (ΔE = ELUMO – EHOMO), and low vertical ionization potential are more vulnerable to be attacked. Further analysis disclosed that the dominant ROS was the same one when treating similar types of contaminants, namely SO4•–, 1O2, 1O2, and •OH for the degradation of CBZ-like compounds, SAs, bisphenol, and triazine compounds, respectively. This phenomenon may be caused by the contaminants’ structures especially the commonly shared or basic parent structures which can affect their effective reaction time and second-order rate constants with ROS, thus influencing the contribution of each ROS during its degradation. Overall, the new insights gained in this study provide a basis for designing more effective AOPs to improve their practical application in wastewater treatment.

Rock engineering is highly susceptible to cyclic loads resulting from earthquakes, quarrying or rockbursts. Acquiring the fatigue properties and failure mechanism of rocks is pivotal for long-term stability assessment of rock engineering structures. So far, significant progress has been gained on the mechanical characteristics of rocks subjected to cyclic loading. For providing a global insight of typical results and main features of rocks under cyclic loading conditions, this study comprehensively reviews the state-of-the-art of deformation and failure mechanism and fatigue constitutive relationship of rocks subjected to cyclic loading in the past 60 years. Firstly, cyclic tests on rocks are classified into different types based on loading paths, loading parameters, loading types and environment conditions. Secondly, representative results are summarized and highlighted in terms of the fatigue response of rocks, including the deformation degradation, energy dissipation, damage evolution and failure characteristics; both laboratory testing and numerical results are presented, and various measurement techniques such as X-ray micro-computed tomography (micro-CT) and digital image correlation (DIC) are considered. Thirdly, the influences of cyclic loads on the mechanical characteristics of rocks are discussed, including the cyclic stress, frequency, amplitude and waveform. Subsequently, constitutive relationships for rocks subjected to cyclic loading are outlined, in which typical fatigue constitutive models are compared and analyzed, regarding the elastoplastic model, the internal variable model, the energy-based damage model and the discrete element-based model. Finally, some ambiguous questions and prospective research are interpreted and discussed.

Horseradish peroxidase (HRP)-based assays feature particular interests because of the simple colorimetric readout. In these assays, 3,3′,5,5′-tetramethylbenzidine (TMB) is the most widely used chromogenic substrates for HRP. The later research in nanozyme and DNAzyme also used TMB (the chosen substrate) because they are both HRP-mimics. It should be noted that the substrate of HRP is not just limited to TMB but, in fact, a broad range of benzidine derivatives. However, except decreased carcinogenicity due to tetrasubstitution of benzidine, the rationale for the chosen substrate TMB is not clear yet. Here, we addressed such a fundamental issue from the chemistry point of view. Nine benzidine derivatives featuring varied properties (different substitution groups and varied number of substitutions) were selected and investigated with four typical TMB-involved chromogenic systems. Among the existing benzidine substrates that are used for peroxidase-based assays, TMB exhibited the highest sensitivity, better color purity of colored products, and reasonable stability of oxidation products. Moreover, two tetrasubstituted benzidine derivatives other than TMB (4OCH3 and 2OCH32CH3) were synthesized for comparison. It turned out that the performances (sensitivity, color purity, and stability of the colored products) of TMB are still superior, thus chemically confirming its status of “the chosen substrate” in colorimetric assays.

This paper aims at providing a state-of-the-art review on the applications of particle methods in hydrodynamics-related problems in ocean and coastal engineering. The problems are placed into three categories according to their physical characteristics, namely, wave hydrodynamics and corresponding mass (air, oil, etc.) transport, wave-structure interaction, and wave-current-sediment interaction. For the first category, particle-based simulations of wave generation, propagation, breaking, as well as the associated turbulence production and dissipation, air entrainment, and mass transport, are reviewed. For wave-structure interaction, extensive structural types are considered that include fixed and moving (floating) structures, rigid and deformable structures, impermeable and porous structures, etc. For the third category, the latest advances of particle methods in wave/current interaction with sediments, i.e., sediment transport and coastal morphological changes, are outlined. This article also reviews the latest developments of particle methods with respect to enhancement of numerical stability, accuracy, efficiency and consistency in order to handle the multi-physics and multi-scale problems emerging from coastal and ocean engineering practices. Finally, the future perspectives of extending particle methods to a wider range of ocean and coastal engineering applications are highlighted.

During deep mining, the excavation disturbance stress path is the domination factor for the stability of the surrounding rock mass as well as the ground pressure. One of the important parameters of the stress path is the loading or unloading rate of the disturbed rock or coal, which depended on the mining rate. To achieve a well understanding of the mining rate and its effect on the coal behavior, a preliminary case investigation of the mechanical properties of the coal at the various mining rates in both the laboratory scale and field scale was performed. Based on the uniaxial compression test and the digital image correlation (DIC) method, the mechanical behavior of the coal samples, such as the evolution of the strength, surface deformation, crack propagation, and elastic strain energy of the coal under the various loading rates were analyzed. A threshold range of the loading rate has been observed. The uniaxial compressive strength (UCS) and releasable elastic strain energy (Ue) increase with increasing loading rate when the loading rate is below the threshold. Otherwise, the UCS and Ue may decrease with the loading rate. Under the low loading rate (≤0.05 mm/min), the tensile deformation of the original defects could result in crack coalescence, whereas failure of the coal matrix is the key contributor to the crack coalescence under the high loading rate (greater than0.05 mm/min). Afterwards, with the consideration of the bearing capacity (UCS) and energy release of the mining-disturbed coal mass (Ue), a power exponential relationship between the mining rate (MR) in the field and the critical loading rate (vc) in the laboratory was proposed. The application potential of the formulas was then validated against the field monitored data. Finally, based on the critical loading rate, the released strain energy, and the monitored pressure on the roof supports, a reasonable mining rate MR for the Ji15-31030 working face was determined to be approximately 3 m/d.

Many reagents as electron sacrificers have been recently investigated to induce decomposition of permanganate (KMnO4) to produce highly reactive intermediate Mn species toward oxidation of organic contaminants; however, this strategy meanwhile causes low KMnO4 utilization efficiency. This study surprisingly found that graphite can mediate direct electron transfer from organics (e.g., sulfamethoxazole (SMX)) to KMnO4, resulting in high KMnO4 utilization efficiency, rather than reductive sites of graphite-induced conversion of KMnO4 to highly reactive intermediate Mn species. The galvanic oxidation process (GOP) and comparative experiments of different organic contaminants prove that the KMnO4/graphite system mainly extracts electrons from organic contaminants via a one-electron pathway instead of a two-electron pathway. More importantly, the KMnO4/graphite system has superior reusability, graphite can keep a long-lasting reactivity, and the KMnO4 utilization efficiency elevates significantly after each cycle of graphite. The transformation of SMX in the KMnO4/graphite system mainly includes self-coupling, hydroxylation, oxidation, and hydrolytic reaction. The work will improve insights into the electron-transfer mechanism and unveil the advantages of efficient KMnO4 utilization in the KMnO4-based technologies in environmental remediation.

Materials for photosensitized oxygen activation are extremely important for a suite of photodynamic applications in biomedical, analytical, and energy sectors. Carbon-based photosensitizers are attractive for their low cost and high stability, but most of them such as fullerene and graphene quantum dots suffer from low efficiency, and the rational design of carbon-based photosensitizers remains a challenge. Given the similar chemical origin of phosphorescence and photosensitization, we herein synthesized a series of nitrogen-doped carbon dots (C-dots) and confirmed that their photo-oxidation activity correlated with their phosphorescence quantum yields, providing a direction for the rational designing of such materials. Compared to other carbon nanomaterials and molecular photosensitizers, these C-dots have the highest activity, and they can finish oxidation reactions in a few seconds. The excellent photosensitized oxygen activation makes these water-soluble C-dots a promising oxidase-mimicking nanozyme for photodynamic antimicrobial chemotherapy and other applications.

The nanoconfinement effect in Fenton-like reactions shows great potential in environmental remediation, but the construction of confinement structure and the corresponding mechanism are rarely elucidated systematically. Herein, we proposed a novel peroxymonosulfate (PMS) activation system employing the single Fe atom supported on mesoporous N-doped carbon (FeSA-MNC, specific surface area = 1520.9 m2/g), which could accelerate the catalytic oxidation process via the surface-confinement effect. The degradation activity of the confined system was remarkably increased by 34.6 times compared to its analogue unconfined system. The generation of almost 100% high-valent iron-oxo species was identified via 18O isotope-labeled experiments, quenching tests, and probe methods. The density functional theory illustrated that the surface-confinement effect narrows the gap between the d-band center and Fermi level of the single Fe atom, which strengthens the charge transfer rate at the reaction interface and reduces the free energy barrier for PMS activation. The surface-confinement system exhibited excellent pollutant degradation efficiency, robust resistance to coexisting matter, and adaptation of a wide pH range (3.0–11.0) and various temperature environments (5–40 °C). Finally, the FeSA-MNC/PMS system could achieve 100% sulfamethoxazole removal without significant performance decline after 10,000-bed volumes. This work provides novel and significant insights into the surface-confinement effect in Fenton-like chemistry and guides the design of superior oxidation systems for environmental remediation.

Many Actinidia cultivars are characterized by anthocyanin accumulation, specifically in the inner pericarp, but the underlying regulatory mechanism remains elusive. Here we report two interacting transcription factors, AcMYB123 and AcbHLH42, that regulate tissue-specific anthocyanin biosynthesis in the inner pericarp of Actinidia chinensis cv. Hongyang. Through transcriptome profiling analysis we identified five MYB and three bHLH transcription factors that were upregulated in the inner pericarp. We show that the combinatorial action of two of them, AcMYB123 and AcbHLH42, is required for activating promoters of AcANS and AcF3GT1 that encode the dedicated enzymes for anthocyanin biosynthesis. The presence of anthocyanin in the inner pericarp appears to be tightly associated with elevated expression of AcMYB123 and AcbHLH42. RNA interference repression of AcMYB123, AcbHLH42, AcF3GT1 and AcANS in 'Hongyang' fruits resulted in significantly reduced anthocyanin biosynthesis. Using both transient assays in Nicotiana tabacum leaves or Actinidia arguta fruits and stable transformation in Arabidopsis, we demonstrate that co-expression of AcMYB123 and AcbHLH42 is a prerequisite for anthocyanin production by activating transcription of AcF3GT1 and AcANS or the homologous genes. Phylogenetic analysis suggests that AcMYB123 or AcbHLH42 are closely related to TT2 or TT8, respectively, which determines proanthocyanidin biosynthesis in Arabidopsis, and to anthocyanin regulators in monocots rather than regulators in dicots. All these experimental results suggest that AcMYB123 and AcbHLH42 are the components involved in spatiotemporal regulation of anthocyanin biosynthesis specifically in the inner pericarp of kiwifruit.

Food loss and waste (FLW) occurs at each and every stage of the food supply chain. The current linear model of FLW management (incineration and landfill) creates a linear path of nutrients utilization, which threatens food security and environmental sustainability in the long run. Circular economy model has been proposed as an efficient strategy to reduce and recycle FLW. Although many literature reviews were conducted to realize the transition from linear model to circular economy, a more focused and rigorous assessment of FLW reduction and recycling is currently not available. A lot of work remains in order to translate this “circular model” into an actionable plan. By reviewing the recent progress in the FLW management in the literature, this paper highlights their pros and cons to provide a deep and comprehensive understanding about the “circular model”. This review can provide a deeper analysis of “circular” solutions to existing linear pathways, which play an important role in enhancing food security and environmental sustainability in future.

Our knowledge of the factors mediating ethylene-dependent ripening of climacteric fruit remains limited. The transcription of ethylene-regulated genes is mediated by ethylene response factors (ERFs), but mutants providing information on the specific role of the ERFs in fruit ripening are still lacking, likely due to functional redundancy among this large multigene family of transcription factors. We present here a comprehensive expression profiling of tomato (Solanum lycopersicum) ERFs in wild-type and tomato ripening-impaired tomato mutants (Never-ripe [Nr], ripening-inhibitor [rin], and non-ripening [nor]), indicating that out of the 77 ERFs present in the tomato genome, 27 show enhanced expression at the onset of ripening while 28 display a ripening-associated decrease in expression, suggesting that different ERFs may have contrasting roles in fruit ripening. Among the 19 ERFs exhibiting the most consistent up-regulation during ripening, the expression of 11 ERFs is strongly down-regulated in rin, nor, and Nr tomato ripening mutants, while only three are consistently up-regulated. Members of subclass E, SlERF.E1, SlERF.E2, and SlERF.E4, show dramatic down-regulation in the ripening mutants, suggesting that their expression might be instrumental in fruit ripening. This study illustrates the high complexity of the regulatory network connecting RIN and ERFs and identifies subclass E members as the most active ERFs in ethylene- and RIN/NOR-dependent ripening.

A long-standing challenge in nanozyme catalysis is low activity at physiological pH, especially for oxidase- and peroxidase-mimicking nanozymes. We herein communicate that Mn(II) can promote catalysis at neutral pH for carbon dots (C-dots) as a photo-oxidase nanozyme. The C-dots produce singlet oxygen upon light irradiation to oxidize Mn(II) to Mn(III), which is confirmed by a suite of spectroscopic evidence. The in situ produced Mn(III) acts as a mediator, analogous to mediators in electrochemistry to enhance electron transfer. None of the other divalent metal ions show such an effect, allowing the selective detection of Mn(II) down to 5 nM. EDTA further enhances the activity by stabilizing the highly active Mn(III), producing an intense blue color by oxidizing 3,3',5,5'-tetramethylbenzidine (TMB) in just 10 s. Finally, this reaction was used to evaluate antioxidants. With this method, more analytical and biomedical applications of nanozymes can be exploited at neutral pH, and it may inspire other strategies to overcome the pH limitation in nanozyme catalysis.

Double hierarchy hesitant fuzzy linguistic term set (DHHFLTS) can be used to express complex linguistic information by combining two hierarchy linguistic term sets with 2-tuple linguistic structures. In decision-making processes, experts’ assessment information may often be represented by some possible double hierarchy hesitant fuzzy linguistic elements (DHHFLEs) or some DHHFLEs with probability information, and we cannot ignore these probabilities when they are directly provided or aggregated by the experts’ assessments. As we are aware that representing probability information is a new improvement and challenge for DHHFLTSs, this paper defines a novel and more general concept named probabilistic double hierarchy linguistic term set (PDHLTS). Then, to propose some more reasonable operations and a distance measure of PDHLTSs, we develop an adjustment method to ensure that two PDHLTSs have same probability distribution. Additionally, this paper develops an extended probabilistic double hierarchy linguistic VIKOR method by improving the traditional VIKOR method. Moreover, the advantages and practicality of the proposed method are demonstrated by applying it to solve a practical multiple criteria decision-making problem involving smart healthcare. Finally, we make some comparative analyses, as well as discussing possible directions for future studies.

Abstract. Reliable precipitation data are highly necessary for geoscience research in the Third Pole (TP) region but still lacking, due to the complex terrain and high spatial variability of precipitation here. Accordingly, this study produces a long-term (1979–2020) high-resolution (1/30∘, daily) precipitation dataset (TPHiPr) for the TP by merging the atmospheric simulation-based ERA5_CNN with gauge observations from more than 9000 rain gauges, using the climatologically aided interpolation and random forest methods. Validation shows that TPHiPr is generally unbiased and has a root mean square error of 5.0 mm d−1, a correlation of 0.76 and a critical success index of 0.61 with respect to 197 independent rain gauges in the TP, demonstrating that this dataset is remarkably better than the widely used datasets, including the latest generation of reanalysis (ERA5-Land), the state-of-the-art satellite-based dataset (IMERG) and the multi-source merging datasets (MSWEP v2 and AERA5-Asia). Moreover, TPHiPr can better detect precipitation extremes compared with these widely used datasets. Overall, this study provides a new precipitation dataset with high accuracy for the TP, which may have broad applications in meteorological, hydrological and ecological studies. The produced dataset can be accessed via https://doi.org/10.11888/Atmos.tpdc.272763 (Yang and Jiang, 2022).

Precisely identifying the atomic structures in single-atom sites and establishing authentic structure–activity relationships for single-atom catalyst (SAC) coordination are significant challenges. Here, theoretical calculations first predicted the underlying catalytic activity of Fe–NxC4–x sites with diverse first-shell coordination environments. Substituting N with C to coordinate with the central Fe atom induces an inferior Fenton-like catalytic efficiency. Then, Fe-SACs carrying three configurations (Fe–N2C2, Fe–N3C1, and Fe–N4) fabricate facilely and demonstrate that optimized coordination environments of Fe–NxC4–x significantly promote the Fenton-like catalytic activity. Specifically, the reaction rate constant increases from 0.064 to 0.318 min–1 as the coordination number of Fe–N increases from 2 to 4, slightly influencing the nonradical reaction mechanism dominated by 1O2. In-depth theoretical calculations unveil that the modulated coordination environments of Fe-SACs from Fe–N2C2 to Fe–N4 optimize the d-band electronic structures and regulate the binding strength of peroxymonosulfate on Fe–NxC4–x sites, resulting in a reduced energy barrier and enhanced Fenton-like catalytic activity. The catalytic stability and the actual hospital sewage treatment capacity also showed strong coordination dependency. This strategy of local coordination engineering offers a vivid example of modulating SACs with well-regulated coordination environments, ultimately maximizing their catalytic efficiency.

Bangladesh experiences frequent hydro-climatic disasters such as flooding. These disasters are believed to be associated with land use changes and climate variability. However, identifying the factors that lead to flooding is challenging. This study mapped flood susceptibility in the northeast region of Bangladesh using Bayesian regularization back propagation (BRBP) neural network, classification and regression trees (CART), a statistical model (STM) using the evidence belief function (EBF), and their ensemble models (EMs) for three time periods (2000, 2014, and 2017). The accuracy of machine learning algorithms (MLAs), STM, and EMs were assessed by considering the area under the curve—receiver operating characteristic (AUC-ROC). Evaluation of the accuracy levels of the aforementioned algorithms revealed that EM4 (BRBP-CART-EBF) outperformed (AUC > 90%) standalone and other ensemble models for the three time periods analyzed. Furthermore, this study investigated the relationships among land cover change (LCC), population growth (PG), road density (RD), and relative change of flooding (RCF) areas for the period between 2000 and 2017. The results showed that areas with very high susceptibility to flooding increased by 19.72% between 2000 and 2017, while the PG rate increased by 51.68% over the same period. The Pearson correlation coefficient for RCF and RD was calculated to be 0.496. These findings highlight the significant association between floods and causative factors. The study findings could be valuable to policymakers and resource managers as they can lead to improvements in flood management and reduction in flood damage and risks.

In the creep tests, stress is no longer a constant and increases gradually under the influence of damage occurring during accelerating creep, which is a slow-loading process rather than a conventional creep. With the accumulation of the damage over time, the actual stress increases greatly. The increased actual stress not only generates loading strain but also causes the steady creep rate to rise. This coupling possibly explains why salt rock presents nonlinear accelerating characteristics at the accelerating creep stage. In this work, the constraint of the present creep concept was overcome by assuming that the acceleration creep phase is a coupling process of loading and creeping. Furthermore, we demonstrate that the total strain in this phase is equal to the sum of loading strain and creeping strain. A new nonlinear constitutive equation for creep was then derived, and the mechanisms underlying the nonlinear accelerating characteristics emerging at the stage of accelerating creep are further explained. A step-loading experiment on salt rock was performed for a period of six months. The characteristics of accelerating creep appeared in the last step of loading. This new nonlinear creep damage constitutive model was used to fit and analyze the test data. Obtained results show that this model fits well to these test data and also favorably represents the nonlinear characteristics of accelerating creep, thus supporting the model’s validity.

Common oat (Avena sativa) is an important cereal crop serving as a valuable source of forage and human food. Although reference genomes of many important crops have been generated, such work in oat has lagged behind, primarily owing to its large, repeat-rich polyploid genome. Here, using Oxford Nanopore ultralong sequencing and Hi-C technologies, we have generated a reference-quality genome assembly of hulless common oat, comprising 21 pseudomolecules with a total length of 10.76 Gb and contig N50 of 75.27 Mb. We also produced genome assemblies for diploid and tetraploid Avena ancestors, which enabled the identification of oat subgenomes and provided insights into oat chromosomal evolution. The origin of hexaploid oat is inferred from whole-genome sequencing, chloroplast genomes and transcriptome assemblies of different Avena species. These findings and the high-quality reference genomes presented here will facilitate the full use of crop genetic resources to accelerate oat improvement.