Weakened western Indian Ocean dominance on Antarctic sea ice variability in a changing climate.

Patterns of sea surface temperature (SST) anomalies of the Indian Ocean Dipole (IOD) exhibit strong diversity, ranging from being dominated by the western tropical Indian Ocean (WTIO) to the eastern tropical Indian Ocean (ETIO). Whether and how the different types of IOD variability patterns affect the variability of Antarctic sea ice is not known, nor is how the impact may change in a warming climate. Here, we find that the leading mode of austral spring Antarctic sea ice variability is dominated by WTIO SST variability rather than ETIO SST or El Niño-Southern Oscillation. WTIO warm SST anomalies excite a poleward-propagating Rossby wave, inducing a tri-polar anomaly pattern characterized by a decrease in sea ice near the Amundsen Sea but an increase in regions on both sides. Such impact has been weakening in the two decades post-2000, accompanied by weakened WTIO SST variability. Under greenhouse warming, climate models project a decrease in WTIO SST variability, suggesting that the reduced impact on Antarctic sea ice from the IOD will likely to continue, facilitating a fast decline of Antarctic sea ice.

A Prognostic Model for Survival in Patients with Gastric Signet-Ring Cell Carcinoma.

BACKGROUND: The objective of our study was to develop a nomogram to predict overall survival (OS) and cancer-specific survival (CSS) in patients with gastric signet ring cell carcinoma (GSRCC). PATIENTS AND METHODS: A total of 3408 GSRCC patients between 1975 and 2017 were screened from the Surveillance, Epidemiology, and End Results (SEER) database and randomly divided into training and validation cohorts. Univariate and multivariate Cox analyses were conducted to identify independent prognostic factors for the construction of a nomogram. The performance of the model was then assessed by the concordance index (C-index), calibration plot and area under the receiver operating characteristic (ROC) curve (AUC). Then, the novel nomogram was further assessed by 64 GSRCC patients from our hospital as the external cohort. RESULTS: We identified age, tumor lymph node metastasis (TNM) staging system, surgery and chemotherapy as significant independent elements of prognosis. On this basis, a nomogram was constructed, with a C-index of OS in the training and validation cohorts of 0.763 (95% CI: 0.751-0.774) and 0.766 (95% CI: 0.748-0.784) and a C-index of CSS of 0.765 (95% CI: 0.753-0.777) and 0.773 (95% CI: 0.755-0.791), respectively. The AUCs of the nomogram for predicting 2- and 5-year OS were 0.848 and 0.885, respectively, and those for predicting CSS were 0.854 and 0.899, respectively, demonstrating the excellent predictive value of the constructed nomogram compared to the traditional AJCC staging system. Similar results were also observed in both the internal and external validation sets. CONCLUSION: The nomogram provided an accurate tool to predict OS and CSS in patients with GSRCC, which can assist clinicians in making predictions about individual patient survival.

Resonance between projected Tibetan Plateau surface darkening and Arctic climate change.

The Tibetan Plateau (TP) exerts a profound influence on global climate over million-year timescales due to its past uplift. However, whether the ongoing climate changes over the TP, particularly the persistent reduction in its local albedo (referred to as "TP surface darkening"), can exert global impacts remains elusive. In this study, a state-of-the-art coupled land-atmosphere global climate model has been employed to scrutinize the impact of TP darkening on polar climate changes. Results indicate that the projected TP darkening has the potential to generate a stationary Rossby wave train, thereby modulating the atmospheric circulation in the high-latitudes of the Northern Hemisphere and instigating a dipole-like surface air temperature anomaly pattern around the Arctic region. An additional experiment suggests that the projected Arctic warming may in return warm the TP, thus forming a bi-directional linkage between these two climate systems. Given their association with vast ice reservoirs, the elucidation of this mechanism in our study is crucial in advancing our comprehension of Earth system climate projections.

Decadal oscillation provides skillful multiyear predictions of Antarctic sea ice.

Over the satellite era, Antarctic sea ice exhibited an overall long-term increasing trend, contrary to the Arctic reduction under global warming. However, the drastic decline of Antarctic sea ice in 2014-2018 raises questions about its interannual and decadal-scale variabilities, which are poorly understood and predicted. Here, we identify an Antarctic sea ice decadal oscillation, exhibiting a quasi-period of 8-16 years, that is anticorrelated with the Pacific Quasi-Decadal Oscillation (r = -0.90). By combining observations, Coupled Model Intercomparison Project historical simulations, and pacemaker climate model experiments, we find evidence that the synchrony between the sea ice decadal oscillation and Pacific Quasi-Decadal Oscillation is linked to atmospheric poleward-propagating Rossby wave trains excited by heating in the central tropical Pacific. These waves weaken the Amundsen Sea Low, melting sea ice due to enhanced shortwave radiation and warm advection. A Pacific Quasi-Decadal Oscillation-based regression model shows that this tropical-polar teleconnection carries multi-year predictability.

A real-world case-control study on the efficacy and safety of pulsed field ablation for atrial fibrillation.

OBJECTIVE: The primary objective of this study was to evaluate the efficacy and safety of pulsed field ablation in individuals diagnosed with atrial fibrillation. METHODS: A total of 36 patients diagnosed with atrial fibrillation were enrolled in the pulsed field ablation group, while another 36 patients diagnosed with atrial fibrillation were included in the radiofrequency ablation group. Among the study participants, 15 patients in the pulsed field ablation group and 17 patients in the radiofrequency ablation group had persistent atrial fibrillation. Comprehensive comparisons were made between the two groups, including baseline data, underlying diseases, medication usage, intraoperative parameters, and atrial fibrillation recurrence rates at 1, 3, and 6 months during the postoperative follow-up period. RESULTS: (1) There were no significant differences observed between the two groups concerning baseline data and antiarrhythmic drug usage (P > 0.05); (2) the effective ablation time for both left and right pulmonary veins in the pulsed field ablation group was markedly shorter compared to the radiofrequency ablation group (P < 0.001 for each vein); (3) within the pulsed field ablation group, the number of discharges, catheter operation time, and effective ablation time for the left pulmonary vein were significantly higher than those for the right pulmonary vein (P < 0.05). Conversely, in the radiofrequency ablation group, the number of discharges for the left pulmonary vein was significantly higher than that for the right pulmonary vein (P < 0.05); and (4) when comparing sinus rhythm maintenance at 1, 3, and 6 months postoperatively, no statistically significant differences were noted between the two groups for paroxysmal, persistent, and paroxysmal + persistent atrial fibrillation cases (P > 0.05). CONCLUSION: During the 6-month follow-up period, pulsed field ablation demonstrated comparable efficacy to radiofrequency ablation with respect to recurrence rates for both paroxysmal and persistent atrial fibrillation. Moreover, pulsed field ablation exhibited high safety levels, excellent surgical efficiency, and a notably brief learning curve, affirming its viability as a therapeutic option for these conditions.

Delayed Antarctic melt season reduces albedo feedback.

Antarctica's response to climate change varies greatly both spatially and temporally. Surface melting impacts mass balance and also lowers surface albedo. We use a 43-year record (from 1978 to 2020) of Antarctic snow melt seasons from space-borne microwave radiometers with a machine-learning algorithm to show that both the onset and the end of the melt season are being delayed. Granger-causality analysis shows that melt end is delayed due to increased heat flux from the ocean to the atmosphere at minimum sea-ice extent from warming oceans. Melt onset is Granger-caused primarily by the turbulent heat flux from ocean to atmosphere that is in turn driven by sea-ice variability. Delayed snowmelt season leads to a net decrease in the absorption of solar irradiance, as a delayed summer means that higher albedo occurs after the period of maximum solar radiation, which changes Antarctica's radiation balance more than sea-ice cover.

Is There a Different Mechanism for Water Oxidation in Higher Plants?

The leading mechanism for the formation of O2 in photosystem II (PSII) has, during the past decade, been established as the so-called oxyl-oxo mechanism. In that mechanism, O2 is formed from a binding between an oxygen radical (oxyl) and a bridging oxo group. For the case of higher plants, that mechanism has recently been criticized. Instead, a nucleophilic attack of an oxo group on a five-coordinated Mn(V)═O group forming O2 has been suggested in a so-called water-unbound (WU) mechanism. In the present study, the WU mechanism has been investigated. It is found that the WU mechanism is just a variant of a previously suggested mechanism but with a reactant and a transition state that have much higher energies. The addition of a water molecule on the empty site of the Mn(V)═O center is very exergonic and leads back to the previously suggested oxyl-oxo mechanism.

Theoretical Study of the Catalytic Mechanism of the Cu-Only Superoxide Dismutase.

The catalytic mechanisms for the wild-type and the mutated Cu-only superoxide dismutase were studied using the hybrid density functional B3LYP and a quantum chemical cluster approach. Optimal protonation states of the active site were examined for each stage of the catalytic cycle. For both the reductive and the oxidative half-reactions, the arrival of the substrate O2•- was found to be accompanied by a charge-compensating H+ with exergonicities of -15.4 kcal·mol and -4.7 kcal·mol, respectively. The second-sphere Glu-110 and first-sphere His-93 were suggested to be the transient protonation site for the reductive and the oxidative half-reactions, respectively, which collaborates with the hydrogen bonding water chain to position the substrate near the redox-active copper center. For the reductive half-reaction, the rate-limiting step was found to be the inner-sphere electron transfer from the partially coordinated O2•- to CuII with a barrier of 8.1 kcal·mol. The formed O2 is released from the active site with an exergonicity of -14.9 kcal·mol. For the oxidative half-reaction, the inner-sphere electron transfer from CuI to the partially coordinated O2•- was found to be accompanied by the proton transfer from the protonated His-93 and barrierless. The rate-limiting step was found to be the second proton transfer from the protonated Glu-110 to HO2- with a barrier of 7.3 kcal·mol. The barriers are reasonably consistent with experimental activities, and a proton-transfer rate-limiting step in the oxidative half-reaction could explain the experimentally observed pH-dependence. For the E110Q CuSOD, Asp-113 was suggested to be likely to serve as the transient protonation site in the reductive half-reaction. The rate-limiting barriers were found to be 8.0 and 8.6 kcal·mol, respectively, which could explain the slightly lower performance of E110X mutants. The results were found to be stable, with respect to the percentage of exact exchange in B3LYP.

Southern Ocean warming and its climatic impacts.

The Southern Ocean has warmed substantially, and up to early 21st century, Antarctic stratospheric ozone depletion and increasing atmospheric CO2 have conspired to intensify Southern Ocean warming. Despite a projected ozone recovery, fluxes to the Southern Ocean of radiative heat and freshwater from enhanced precipitation and melting sea ice, ice shelves, and ice sheets are expected to increase, as is a Southern Ocean westerly poleward intensification. The warming has far-reaching climatic implications for melt of Antarctic ice shelf and ice sheet, sea level rise, and remote circulations such as the intertropical convergence zone and tropical ocean-atmosphere circulations, which affect extreme weathers, agriculture, and ecosystems. The surface warm and freshwater anomalies are advected northward by the mean circulation and deposited into the ocean interior with a zonal-mean maximum at ∼45°S. The increased momentum and buoyancy fluxes enhance the Southern Ocean circulation and water mass transformation, further increasing the heat uptake. Complex processes that operate but poorly understood include interactive ice shelves and ice sheets, oceanic eddies, tropical-polar interactions, and impact of the Southern Ocean response on the climate change forcing itself; in particular, limited observations and low resolution of climate models hinder rapid progress. Thus, projection of Southern Ocean warming will likely remain uncertain, but recent community effort has laid a solid foundation for substantial progress.

Impact of intercropping grass on the soil rhizosphere microbial community and soil ecosystem function in a walnut orchard.

The intercropping of grass in orchards has beneficial effects on soil properties and soil microbial communities and is an important soil management measure for improving orchard productivity and land-use efficiency. However, few studies have explored the effects of grass intercropping on rhizosphere microorganisms in walnut orchards. In this study, we explored the microbial communities of clear tillage (CT), walnut/ryegrass (Lolium perenne L.) (Lp), and walnut/hairy vetch (Vicia villosa Roth.) (Vv) intercropping system using MiSeq sequencing and metagenomic sequencing. The results revealed that the composition and structure of the soil bacterial community changed significantly with walnut/Vv intercropping compared to CT and walnut/Lp intercropping. Moreover, the walnut/hairy vetch intercropping system had the most complex connections between bacterial taxa. In addition, we found that the soil microorganisms of walnut/Vv intercropping had a higher potential for nitrogen cycling and carbohydrate metabolism, which may be related to the functions of Burkholderia, Rhodopseudomonas, Pseudomonas, Agrobacterium, Paraburkholderia, and Flavobacterium. Overall, this study provided a theoretical basis for understanding the microbial communities associated with grass intercropping in walnut orchards, providing better guidance for the management of walnut orchards.

Rice yield benefits from historical climate warming to be negated by extreme heat in Northeast China.

Rice is currently benefiting from climate warming in Northeast China, but whether such positive effect will continue in the future remains unknown. Here, we evaluate the impacts of individual and combined climate variables on rice yields in Northeast China during 1980-2015. Results show that there is 10% yield increase induced by climate change in Northeast China since 1980. At present, the reduced chilling results in 5.4% yield increase (approximately 28,000 tons) and the higher growing degree-day contributes to 4.6% yield increase (approximately 24,000 tons), while the high-temperature extreme reduced yield by 0.054% (approximately 280 tons). However, with continuous warming, the harmful impact of such high-temperature extreme will outweigh other positive climate effects when the temperature increases by 3.36 °C. Therefore, high-temperature extremes cannot be ignored despite their influence on rice yield being quite limited at present in Northeast China. Climate change mitigation and heat tolerance breeding are thus necessary for rice production in Northeast China.

North Atlantic oscillation controls multidecadal changes in the North Tropical Atlantic-Pacific connection.

By exciting subtropical teleconnections, sea surface temperature (SST) anomalies in the North Tropical Atlantic (NTA) during boreal spring can trigger El Niño-Southern Oscillation (ENSO) events in the following boreal winter, thereby providing a precursor for ENSO predictability. However, this NTA-ENSO connection is not stationary, and it varies considerably over multidecadal timescales, which cannot be directly explained by the Atlantic multidecadal oscillation or the global warming trend. Here we show that multidecadal changes in the NTA-ENSO connection are principally controlled by multidecadal variability associated with the North Atlantic Oscillation (NAO). During the positive phase of the NAO, the amplification of the NTA impact on ENSO mainly arises from strengthening of the boreal spring mean precipitation over the equatorial Atlantic and enhancement of the persistence of NTA SST anomalies, which enhance the NTA influence by exciting stronger and more persistent subtropical teleconnections. Our findings show that multidecadal variability of the NAO is key to understanding the impacts of the NTA SST on the tropical Pacific Ocean.

Greenhouse warming and internal variability increase extreme and central Pacific El Niño frequency since 1980.

El Niño has been recorded to change its properties since the 1980s, characterized by more common extreme El Niño and Central Pacific (CP) El Niño events. However, it is still unclear whether such change is externally forced or part of the natural variability. Here, we find that the frequency of the extreme and CP El Niño events also increased during the period 1875-1905, when the anthropogenic CO2 concentration was relatively lower, but with a positive phase of the Atlantic Multidecadal Oscillation (AMO). Models and palaeoclimate proxies reveal that a positive AMO enhances the zonal sea surface temperature gradient in the CP, which strengthens zonal advective feedback, favoring extreme and CP El Niño development. Moreover, we estimate that internal variability contributed to ~65% of the increasingly extreme and CP El Niño events, while anthropogenic forcing has made our globe experience ~1 more extreme and ~2 more CP events over the past four decades.

Theoretical investigation on the reaction mechanism of UTP cyclohydrolase.

Nucleoside triphosphate cyclohydrolase (UrcA) is a critical enzyme of the uracil catabolism pathway that catalyses the two-step hydrolysis of uridine triphosphate (UTP). Although the recently resolved X-ray structure of UrcA in complex with substrate analogue dUTP provided insights into the structural characteristics of the enzyme, the detailed catalytic mechanism, including how the reaction intermediate accomplishes conformational conversion in the active centre, remains unclear. In this study, extensive DFT calculations and MD simulations were performed to investigate the catalytic reaction process of UrcA. This study shows that the first hydrolytic reactions in UrcA follow a three-step mechanism, while the second hydrolytic reaction follows a two-step mechanism. Glu392 plays a critical role in deprotonating the lytic water in both hydrolytic reactions. The rate-limiting step of the first hydrolytic reaction lies in the cleavage of the uracil ring, in which an extraneous water molecule bridges the proton transfer from C6-OH to N1 to enable the reaction to go through a six-membered transition state with relatively low steric tension. In the second hydrolytic reaction, Glu392 abstracts protons from the lytic water and directly transfers them to the nitrogen atom of the cleaved C4-N3 bond so that the hydrolytic reaction is no longer rate-limited by the C-N bond cleavage step. MD simulations show that the reaction intermediate experiences spontaneous conformation overturn in the active site of UrcA under the assistance of the hydrogen bond interaction from Tyr307 to place its C4-N3 bond alongside the Zn2+ centre of the enzyme to trigger the second hydrolytic reaction.

Reorienting Mechanism of Harderoheme in Coproheme Decarboxylase-A Computational Study.

Coproheme decarboxylase (ChdC) is an important enzyme in the coproporphyrin-dependent pathway (CPD) of Gram-positive bacteria that decarboxylates coproheme on two propionates at position 2 and position 4 sequentially to generate heme b by using H2O2 as an oxidant. This work focused on the ChdC from Geobacillus stearothermophilus (GsChdC) to elucidate the mechanism of its sequential two-step decarboxylation of coproheme. The models of GsChdC in a complex with substrate and reaction intermediate were built to investigate the reorienting mechanism of harderoheme. Targeted molecular dynamics simulations on these models validated that harderoheme is able to rotate in the active site of GsChdC with a 19.06-kcal·mol-1 energy barrier after the first step of decarboxylation to bring the propionate at position 4 in proximity of Tyr145 to continue the second decarboxylation step. The harderoheme rotation mechanism is confirmed to be much easier than the release-rebinding mechanism. In the active site of GsChdC, Trp157 and Trp198 comprise a "gate" construction to regulate the clockwise rotation of the harderoheme. Lys149 plays a critical role in the rotation mechanism, which not only keeps the Trp157-Trp198 "gate" from being closed but also guides the propionate at position 4 through the gap between Trp157 and Trp198 through a salt bridge interaction.

A one-pot CRISPR/Cas13a-based contamination-free biosensor for low-cost and rapid nucleic acid diagnostics.

The pandemic due to the outbreak of 2019 coronavirus disease (COVID-19) caused by novel severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) has raised significant public health concerns. Rapid, affordable, and accurate diagnostic testing not only paves the way for the effective treatment of diseases, but also plays a crucial role in preventing the spreading of infectious diseases. Herein, a one-pot CRISPR/Cas13a-based visual biosensor was proposed and developed for the rapid and low-cost nucleic acid detection. By combining Cas13a cleavage and Recombinase Polymerase Amplification (RPA) in a one-pot reaction in a disposable tube-in-tube vessel, amplicon contamination could be completely avoided. The RPA reaction is carried out in the inner tube containing two hydrophobic holes at the bottom. After the completion of amplification reaction, the reaction solution enters the outer tube containing pre-stored Cas13a reagent under the action of centrifugation or shaking. Inner and outer tubes are combined to form an independent reaction pot to complete the nucleic acid detection without opening the lid. This newly developed nucleic acid detection method not only meets the need of rapid nucleic acid detection at home without the need for any specialized equipment, but also fulfils the requirement of rapid on-site nucleic acid detection with the aid of small automated instruments. In this study, CRISPR/Cas13a and CRISPR/Cas12a were used to verify the reliability of the developed one-pot nucleic acid detection method. The performance of the system was verified by detecting the DNA virus, i.e., African swine fever virus (ASFV) and the RNA virus, i.e., SARS-Cov-2. The results indicate that the proposed method possesses a limit of detection of 3 copy/µL. The negative and positive test results are consistent with the results of real-time fluorescence quantitative polymerase chain reaction (PCR), but the time required is shorter and the cost is lower. Thus, this study makes this method available in resource-limited areas for the purpose of large-scale screening and in case of epidemic outbreak.

Greenhouse warming intensifies north tropical Atlantic climate variability.

Variability of North Tropical Atlantic (NTA) sea surface temperature (SST), characterized by a near-uniform warming at its positive phase, is a consequential mode of climate variability. Modulated by El Niño-Southern Oscillation (ENSO) and the North Atlantic Oscillation, NTA warm anomalies tend to induce La Niña events, droughts in Northeast Brazil, increased frequency of extreme hurricanes, and phytoplankton blooms in the Guinea Dome. Future changes of NTA variability could have profound socioeconomic impacts yet remain unknown. Here, we reveal a robust intensification of NTA variability under greenhouse warming. This intensification mainly arises from strengthening of ENSO-forced Pacific-North American pattern and tropospheric temperature anomalies, as a consequence of an eastward shift of ENSO-induced equatorial Pacific convection and of increased ENSO variability, which enhances ENSO influence by reinforcing the associated wind and moist convection anomalies. The intensification of NTA SST variability suggests increased occurrences of extreme NTA events, with far-reaching ramifications.

Theoretical Studies on the Binding Mode and Reaction Mechanism of TLP Hydrolase kpHIUH.

In this work, we have investigated the binding conformations of the substrate in the active site of 5-HIU hydrolase kpHIUH and its catalytic hydrolysis mechanism. Docking calculations revealed that the substrate adopts a conformation in the active site with its molecular plane laying parallel to the binding interface of the protein dimer of kpHIUH, in which His7 and His92 are located adjacent to the hydrolysis site C6 and have hydrogen bond interactions with the lytic water. Based on this binding conformation, density functional theory calculations indicated that the optimal catalytic mechanism consists of two stages: (1) the lytic water molecule is deprotonated by His92 and carries out nucleophilic attack on C6=O of 5-HIU, resulting in an oxyanion intermediate; (2) by accepting a proton transferred from His92, C6-N5 bond is cleaved to completes the catalytic cycle. The roles of His7, His92, Ser108 and Arg49 in the catalytic reaction were revealed and discussed in detail.