Characterization and Identification of Lactic Acid Bacteria Isolated from Silage Prepared in Lao PDR

Silage is now the most common preserved cattle feed in many countries and lactic acid bacteria (LAB) play an important role during silage fermentation process. In order to establish an animal feed production system to cover the shortage of animal feed in the dry season of Lao PDR, silage fermentation technology is needed that has potential application in poor villages. Therefore, the characterization of LAB in various forage crops and their species identification requires further study. In the present study, the characterization of LAB species isolated from forage crops in Lao PDR was examined. In order to determine their taxonomic status, these strains were also studied by 16S rRNA sequence analysis

Semi-Supervised End-To-End Contrastive Learning For Time Series Classification

Time series classification is a critical task in various domains, such as finance, healthcare, and sensor data analysis. Unsupervised contrastive learning has garnered significant interest in learning effective representations from time series data with limited labels. The prevalent approach in existing contrastive learning methods consists of two separate stages: pre-training the encoder on unlabeled datasets and fine-tuning the well-trained model on a small-scale labeled dataset. However, such two-stage approaches suffer from several shortcomings, such as the inability of unsupervised pre-training contrastive loss to directly affect downstream fine-tuning classifiers, and the lack of exploiting the classification loss which is guided by valuable ground truth. In this paper, we propose an end-to-end model called SLOTS (Semi-supervised Learning fOr Time clasSification). SLOTS receives semi-labeled datasets, comprising a large number of unlabeled samples and a small proportion of labeled samples, and maps them to an embedding space through an encoder. We calculate not only the unsupervised contrastive loss but also measure the supervised contrastive loss on the samples with ground truth. The learned embeddings are fed into a classifier, and the classification loss is calculated using the available true labels. The unsupervised, supervised contrastive losses and classification loss are jointly used to optimize the encoder and classifier. We evaluate SLOTS by comparing it with ten state-of-the-art methods across five datasets. The results demonstrate that SLOTS is a simple yet effective framework. When compared to the two-stage framework, our end-to-end SLOTS utilizes the same input data, consumes a similar computational cost, but delivers significantly improved performance. We release code and datasets at https://anonymous.4open.science/r/SLOTS-242E.Comment: Submitted to NeurIPS 202

Substrate Induced Structural and Dynamics Changes in Human Phosphomevalonate Iinase and Implications for Mechanism

Phosphomevalonate kinase (PMK) catalyzes an essential step in the mevalonate pathway, which is the only pathway for synthesis of isoprenoids and steroids in humans. PMK catalyzes transfer of the γ-phosphate of ATP to mevalonate 5-phosphate (M5P) to form mevalonate 5-diphosphate. Bringing these phosphate groups in proximity to react is especially challenging, given the high negative charge density on the four phosphate groups in the active site. As such, conformational and dynamics changes needed to form the Michaelis complex are of mechanistic interest. Herein, we report the characterization of substrate induced changes (Mg-ADP, M5P, and the ternary complex) in PMK using NMR-based dynamics and chemical shift perturbation measurements. Mg-ADP and M5P Kd\u27s were 6–60 μM in all complexes, consistent with there being little binding synergy. Binding of M5P causes the PMK structure to compress (τc = 13.5 nsec), whereas subsequent binding of Mg-ADP opens the structure up (τc = 15.6 nsec). The overall complex seems to stay very rigid on the psec-nsec timescale with an average NMR order parameter of S2 ∼0.88. Data are consistent with addition of M5P causing movement around a hinge region to permit domain closure, which would bring the M5P domain close to ATP to permit catalysis. Dynamics data identify potential hinge residues as H55 and R93, based on their low order parameters and their location in extended regions that connect the M5P and ATP domains in the PMK homology model. Likewise, D163 may be a hinge residue for the lid region that is homologous to the adenylate kinase lid, covering the “Walker-A” catalytic loop. Binding of ATP or ADP appears to cause similar conformational changes; however, these observations do not indicate an obvious role for γ-phosphate binding interactions. Indeed, the role of γ-phosphate interactions may be more subtle than suggested by ATP/ADP comparisons, because the conservative O to NH substitution in the β-γ bridge of ATP causes a dramatic decrease in affinity and induces few chemical shift perturbations. In terms of positioning of catalytic residues, binding of M5P induces a rigidification of Gly21 (adjacent to the catalytically important Lys22), although exchange broadening in the ternary complex suggests some motion on a slower timescale does still occur. Finally, the first nine residues of the N-terminus are highly disordered, suggesting that they may be part of a cleavable signal or regulatory peptide sequence. Proteins 2009. © 2008 Wiley-Liss, Inc

Agriculture intensification increases summer precipitation in Tianshan Mountains, China

The land-use and land-cover change has a significant impact on the climate at different spatio-temporal scales. In this study, we explored the long term oasis expansion effects on regional summer precipitation in the north slope of Tianshan Mountains, China using high-resolution regional climate model. The results indicate that the oasis expansion increases the summer precipitation in the middle Tianshan Mountains while it has only a small effect over the oasis regions itself. The results indicate further that the oasis expansion affects mainly the late afternoon summer convective precipitation. The advection of air with additional moisture from the oasis areas to the mountains due to the mountain/plain circulation system during the day triggers the orographic precipitation in the middle mountain regions. These new results indicate that the oasis expansion could attribute significantly to the recent finding from observational studies about the increasing trend of precipitation in the middle Tianshan Mountains

Assessment of climate change in Central Asia from 1980 to 2100 using the Koppen-Geiger climate classification

The accelerated global warming and heterogeneous change in precipitation have been resulting in climate system shifts, which plays a key role in the stability of ecosystem and social economic development. Central Asia is account 80% of the temperate desert, characterized by fragile ecosystem; however, it has experienced the fastest warming in recent decades and projected warming in future. The Koppen-Geiger climate classification is a useful tool to assess the potential impacts of climate change on regional ecosystem. The spatial shift and temporal evolution of each climatic zone based on Koppen-Geiger climate classification are analyzed in historical and future period under different scenarios (RCP2.6, RCP4.5 and RCP8.5), high risk regions that might experience more frequent climatic zone shifts are delimited in this study, which could provide the useful information for developing mitigate strategies in coping with the warming threat. The hotter and dryer subtypes of arid climatic zone and warmer subtypes of temperate climatic zone expanded their coverage in Central Asia, corresponding to the tundra climatic, cooler subtype of arid and temperate climatic zone contracted. Based on a method defining the climate-sensitivity, high risk regions are mainly distributed in northern Kazakhstan and Tianshan Mountains region

Numerical study of the interaction between oasis and urban areas within an arid mountains-desert system in Xinjiang, China

The rapid oasis expansion and urbanization that occurred in Xinjiang province (China) in the last decades have greatly modified the land surface energy balance and influenced the local circulation under the arid mountains-plain background system. In this study, we first evaluated the ALARO regional climate model coupled to the land surface scheme SURFEX at 4 km resolution using 53 national climatological stations and 5 automatic weather stations. We found that the model correctly simulates daily and hourly variation of 2 m temperature and relative humidity. A 4-day clear sky period has been chosen to study both local atmospheric circulations and their mutual interaction. Observations and simulations both show that a low-level divergence over oasis appears between 19:00 and 21:00 Beijing Time when the background mountain-plain wind system is weak. The model simulates a synergistic interaction between the oasis-desert breeze and urban-rural breeze from 16:00 until 22:00 with a maximum effect at 20:00 when the downdraft over oasis (updraft over urban) areas increases by 0.8 (0.4) Pa/s. The results show that the oasis expansion decreases the nocturnal urban heat island in the city of Urumqi by 0.8 degrees C, while the impact of urban expansion on the oasis cold island is negligible

The state-of-the-art of urban climate change modeling and observations

As an effect of climate change, cities need detailed information on urban climates at decision scale that cannot be easily delivered using current observation networks, nor global and even regional climate models. A review is presented of the recent literature and recommendations are formulated for future work. In most cities, historical observational records are too short, discontinuous, or of too poor quality to support trend analysis and climate change attribution. For climate modeling, on the other hand, specific dynamical and thermal parameterization dedicated to the exchange of water and energy between the atmosphere and the urban surfaces have to be implemented. Therefore, to fully understand how cities are impacted by climate change, it is important to have (1) simulations of the urban climate at fine spatial scales (including coastal hazards for coastal cities) integrating global climate scenarios with urban expansion and population growth scenarios and their associated uncertainty estimates, (2) urban climate observations, especially in Global South cities, and (3) spatial data of high resolution on urban structure and form, human behavior, and energy consumption

A novel causal structure-based framework for comparing a basin-wide water–energy–food–ecology nexus applied to the data-limited Amu Darya and Syr Darya river basins

The previous comparative studies on watersheds were mostly based on the comparison of dispersive characteristics, which lacked systemicity and causality. We proposed a causal structure-based framework for basin comparison based on the Bayesian network (BN) and focus on the basin-scale water–energy–food–ecology (WEFE) nexus. We applied it to the Syr Darya River basin (SDB) and the Amu Darya River basin (ADB), of which poor water management caused the Aral Sea disaster. The causality of the nexus was effectively compared and universality of this framework was discussed. In terms of changes in the nexus, the sensitive factor for the water supplied to the Aral Sea changed from the agricultural development during the Soviet Union period to the disputes in the WEFE nexus after the disintegration. The water–energy contradiction of the SDB is more severe than that of the ADB, partly due to the higher upstream reservoir interception capacity. It further made management of the winter surplus water downstream of the SDB more controversial. Due to this, the water–food–ecology conflict between downstream countries may escalate and turn into a long-term chronic problem. Reducing water inflow to depressions and improving the planting structure prove beneficial to the Aral Sea ecology, and this effect of the SDB is more significant. The construction of reservoirs on the Panj River of the upstream ADB should be cautious to avoid an intense water–energy conflict such as the SDB's. It is also necessary to promote the water-saving drip irrigation and to strengthen the cooperation

Tonicity-responsive microRNAs contribute to the maximal induction of osmoregulatory transcription factor OREBP in response to high-NaCl hypertonicity

Osmotic response element binding protein (OREBP) is a Rel-like transcription factor critical for cellular osmoresponses. Previous studies suggest that hypertonicity-induced accumulation of OREBP protein might be mediated by transcription activation as well as posttranscriptional mRNA stabilization or increased translation. However, the underlying mechanisms remain incompletely elucidated. Here, we report that microRNAs (miRNAs) play critical regulatory roles in hypertonicity-induced induction of OREBP. In renal medullary epithelial mIMCD3 cells, hypertonicity greatly stimulates the activity of the 3′-untranslated region of OREBP (OREBP-3′UTR). Furthermore, overexpression of OREBP-3′UTR or depletion of miRNAs by knocking-down Dicer greatly increases OREBP protein expression. On the other hand, significant alterations in miRNA expression occur rapidly in response to high NaCl exposure, with miR-200b and miR-717 being most significantly down-regulated. Moreover, increased miR-200b or miR-717 causes significant down-regulation of mRNA, protein and transcription activity of OREBP, whereas inhibition of miRNAs or disruption of the miRNA–3′UTR interactions abrogates the silencing effects. In vivo in mouse renal medulla, miR-200b and miR-717 are found to function to tune OREBP in response to renal tonicity alterations. Together, our results support the notion that miRNAs contribute to the maximal induction of OREBP to participate in cellular responses to osmotic stress in mammalian renal cells

A phase separation method for analyses of fluoroquinones in meats based on ultrasound-assisted salt-induced liquid–liquid microextraction and a new integrated device

Herein, we developed a novel integrated device to perform phase separation based on ultrasound-assisted, salt-induced, liquid-liquid microextraction for determination of five fluoroquinones in meats by HPLC analysis. The novel integrated device consisted of three simple HDPE (high density polyethylene) parts that were used to separate the solvent from the aqueous solution prior to retrieving the extractant. The extraction parameters were optimized using the response surface method based on central composite design: 589μL of acetone solvent, pH2.1, 4.1min extraction time and 3.5g of Na2SO4. The limits of detection were 0.056-0.64 μgkg(-1) and recoveries were 87.2-110.6% for the five fluoroquinones in muscle tissue from fish, chicken, pork and beef. This method is easily constructed from inexpensive materials, extraction efficiency is high, and the approach is compatible with HPLC analysis. Thus, it has excellent prospects for sample pre-treatment and analysis of fluoroquinones in meat samples