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22 pages, 13335 KiB  
Article
An Integrated Drought Index (Vapor Pressure Deficit–Soil Moisture–Sun-Induced Chlorophyll Fluorescence Dryness Index, VMFDI) Based on Multisource Data and Its Applications in Agricultural Drought Management
by Caiyun Deng, Li Zhang, Tianhe Xu, Siqi Yang, Jian Guo, Lulu Si, Ran Kang and Hermann Josef Kaufmann
Remote Sens. 2024, 16(24), 4666; https://doi.org/10.3390/rs16244666 - 13 Dec 2024
Viewed by 242
Abstract
To more precisely monitor drought, a new remote sensing-based drought index, the Vapor Pressure Deficit–Soil Moisture–Sun-Induced Chlorophyll fluorescence Dryness Index (VMFDI), with a spatial resolution of 1 km based on vapor pressure deficit (VPD), soil moisture (SM), and sun-induced chlorophyll fluorescence (SIF) data [...] Read more.
To more precisely monitor drought, a new remote sensing-based drought index, the Vapor Pressure Deficit–Soil Moisture–Sun-Induced Chlorophyll fluorescence Dryness Index (VMFDI), with a spatial resolution of 1 km based on vapor pressure deficit (VPD), soil moisture (SM), and sun-induced chlorophyll fluorescence (SIF) data was constructed via a three-dimensional spatial distance model, and it was used to monitor dryness in the Yellow River Basin during 2003–2020. The spatiotemporal variations in and main factors of the VMFDI and agroecosystem responses were analyzed via the Theil–Sen median and Mann–Kendall tests and Liang–Kleeman information flow. The results revealed the following: (1) The VMFDI effectively monitors regional drought and is more sensitive than other indices like the standardized precipitation evapotranspiration index (SPEI) and GRACE drought severity index and single variables. (2) VMFDI values fluctuated seasonally in the Yellow River Basin, peaking in August and reaching their lowest in March. The basin becomes drier in winter but wetter in spring, summer, and autumn, with the middle and lower reaches, particularly Shaanxi and Gansu, being drought-prone. The VMFDI values in the agroecosystem were lower. (3) SM and VPD dominated drought at the watershed and agroecosystem scales, respectively. Key agroecosystem indicators, including greenness (NDVI), gross primary productivity (GPP), water use efficiency (WUE), and leaf area index (LAI), were negatively correlated with drought (p < 0.05). When VPD exceeded a threshold range of 7.11–7.17 ha, the relationships between these indicators and VPD shifted from positive to negative. The specific VPD thresholds in maize and wheat systems were 8.03–8.57 ha and 7.15 ha, respectively. Suggestions for drought risk management were also provided. This study provides a new method and high-resolution data for accurately monitoring drought, which can aid in mitigating agricultural drought risks and promoting high-quality agricultural development. Full article
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Figure 1
<p>Location and land use of study area.</p>
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<p>Technical flowchart.</p>
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<p>The concept of the VMFDI in a three-dimensional space model. A principle map of the VMFDI. The reference point D (1, 0, 0) is the driest point, where the value of the VMFDI is 0. Point W (0, 1, 1) is the wettest point, where the value of the VMFDI is <math display="inline"><semantics> <mrow> <msqrt> <mn>3</mn> </msqrt> </mrow> </semantics></math>.</p>
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<p>Significant temporal correlations between VMFDI and (<b>a</b>) SPEI01, (<b>b</b>) SPEI03, (<b>c</b>) SPEI12, (<b>d</b>) DSI, (<b>e</b>) PRE, (<b>f</b>) VPD, (<b>g</b>) SM, and (<b>h</b>) SIF (<span class="html-italic">p</span> &lt; 0.05). In (<b>i</b>), R &gt; 0 means that VMFDI results are consistent with those of SPEI01, SPEI03, SPEI12, GRACE_DSI, PRE, VPD, SM, and SIF.</p>
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<p>A comparison of the drought monitoring ability of different drought indices. In this Figure, the red, light gray, and purple dashed lines are the drought thresholds for the GRACE-DSI, SPEI, and VMFDI, respectively (classified by <a href="#remotesensing-16-04666-t002" class="html-table">Table 2</a>). The light pink columns represent the actual observed drought events in the Yellow River Basin recorded in the Bulletin of Flood and Drought Disasters in China.</p>
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<p>Correlation coefficients between the VMFDI and other indices in the Yellow River Basin (<b>a</b>) based on all monthly data and (<b>b1</b>–<b>b12</b>) for each month of data in the range of 2003~2020.</p>
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<p>Monthly spatiotemporal variations in the VMFDI values (1 km <math display="inline"><semantics> <mrow> <mo>×</mo> </mrow> </semantics></math> 1 km) of the Yellow River Basin from 2003 to 2020. (<b>a</b>) shows the distribution pattern of the multiyear mean value of the monthly VMFDI and the temporal series of the monthly VMFDI at the basin scale. In (<b>b</b>,<b>c</b>), the changes in VMFDI values and their significance from 2003 to 2020, respectively, are shown; an obvious increase or decrease represents a region of significant change (<span class="html-italic">p</span> &lt; 0.05).</p>
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<p>The distribution and movement tracks of the annual and monthly drought centers in the Yellow River Basin identified by VMFDI anomalies and the gravity model. (<b>a</b>) is an overview map showing the location of the drought centers. In (<b>b</b>,<b>c</b>), the color dots represent the center of gravity of drought in different months or years, where drought is most likely to occur. The lines are the trajectory of the drought center. The standard deviational ellipses represent the change direction of drought.</p>
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<p>A time series of monthly VMFDI, VPD, SM, SIF, and VMFDI anomalies in the agroecosystem of the Yellow River Basin from 2003 to 2020. In figure (<b>a</b>)., r represents the correlation between variables and * represents the level of significance (<span class="html-italic">p</span> &lt; 0.05). The box diagram represents the value distribution of each variable. In figure (<b>b</b>), <math display="inline"><semantics> <mrow> <msub> <mrow> <mi mathvariant="normal">V</mi> <mi mathvariant="normal">M</mi> <mi mathvariant="normal">F</mi> <mi mathvariant="normal">D</mi> <mi mathvariant="normal">I</mi> <mo>_</mo> <mi mathvariant="normal">a</mi> <mi mathvariant="normal">n</mi> <mi mathvariant="normal">m</mi> <mi mathvariant="normal">o</mi> <mi mathvariant="normal">m</mi> <mi mathvariant="normal">a</mi> <mi mathvariant="normal">l</mi> <mi mathvariant="normal">i</mi> <mi mathvariant="normal">e</mi> <mi mathvariant="normal">s</mi> </mrow> <mrow> <mi mathvariant="normal">i</mi> <mo>,</mo> <mi mathvariant="normal">j</mi> </mrow> </msub> </mrow> </semantics></math> is the difference between the VMFDI value in month <math display="inline"><semantics> <mrow> <mi mathvariant="normal">i</mi> </mrow> </semantics></math> of year <math display="inline"><semantics> <mrow> <mi mathvariant="normal">j</mi> </mrow> </semantics></math> and the multiyear mean value in month <math display="inline"><semantics> <mrow> <mi mathvariant="normal">i</mi> </mrow> </semantics></math>. The red bars represent the values below zero.</p>
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<p>Correlations between the monthly VMFDI and crop growth status indicators in the agroecosystem of the Yellow River Basin from 2003 to 2020. The corresponding data for the agroecosystem (<b>a</b>), maize (<b>b</b>), and wheat (<b>c</b>) included data from January to December, April to September (the maize growth cycle), and March to June (wheat regreening to maturity) from 2003 to 2020, respectively. r is the correlation efficiency, and * indicates that there is a significant correlation with a <span class="html-italic">p</span> value less than 0.05.</p>
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<p>Causalities between the monthly VMFDI and other corresponding variables. <math display="inline"><semantics> <mrow> <msub> <mrow> <mi mathvariant="normal">T</mi> </mrow> <mrow> <mi mathvariant="normal">i</mi> <mo>→</mo> <mi mathvariant="normal">j</mi> </mrow> </msub> </mrow> </semantics></math> is the rate of the information flow from <math display="inline"><semantics> <mrow> <mi mathvariant="normal">i</mi> </mrow> </semantics></math> to <math display="inline"><semantics> <mrow> <mi mathvariant="normal">j</mi> </mrow> </semantics></math>. * represents a 95% significance level.</p>
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<p>Thresholds in the relationships between VPD and the NDVI, GPP, or LAI in various agroecosystems. The temporal ranges of the corresponding data in (<b>a</b>–<b>c</b>) were 12 months (January to December), 6 months (April to September, which is the maize growing season), and 4 months (March to June, in which wheat regreens to maturity) from 2003 to 2020, respectively.</p>
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28 pages, 724 KiB  
Article
Dynamic Capacity Sharing for Cyber–Physical Resilience of EV Charging
by Erdem Gümrükcü, Charukeshi Joglekar, Grace Muriithi, Ali Arsalan, Ahmed Aboulebdeh, Behnaz Papari, Alparslan Zehir, Ferdinanda Ponci and Antonello Monti
Energies 2024, 17(24), 6277; https://doi.org/10.3390/en17246277 - 12 Dec 2024
Viewed by 280
Abstract
Electric vehicle (EV) charging infrastructure hardware–software solutions and communication protocols have inherent vulnerabilities against cyberattacks. Due to the wide range of back doors and infiltration possibilities, there is an important need for solutions that can maintain critical service continuity during incidents. This study [...] Read more.
Electric vehicle (EV) charging infrastructure hardware–software solutions and communication protocols have inherent vulnerabilities against cyberattacks. Due to the wide range of back doors and infiltration possibilities, there is an important need for solutions that can maintain critical service continuity during incidents. This study proposes a dynamic capacity sharing method for effective use of the constrained grid capacity between neighboring charging clusters in distribution grids when the communication link between the clusters’ operators and the grid operator is disrupted due to hardware faults or cyberattacks. The performance of the developed solution is thoroughly investigated in a Denial-of-Service cyberattack scenario that may take place at different times of the day in realistic scenarios involving residential demand and stochastic EV charging behavior. The analyses validated the effectiveness of the proposed method in improving the deteriorated service level per charging cluster and better utilization of an overall constrained capacity. Full article
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<p>Cyber interfaces in EV charging infrastructure.</p>
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<p>Communication architecture.</p>
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<p>Inter-cluster capacity sharing (the clusters with a capacity surplus are colored in green, the clusters with a capacity deficit are colored in red, and the clusters with neither capacity surplus nor deficit are colored in black).</p>
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<p>IEEE 33 bus test system and the selected 8 buses encircled in red.</p>
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<p>The aggregate daily residential demand profile of 15 houses for Bus 27.</p>
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<p>Cluster power consumption without disruption.</p>
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<p>Clusters’ power consumption profiles during DoS from 20:00 to 21:00 under benchmark versus dynamic capacity sharing.</p>
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<p>Simulation logs taken at 20:00 showing the negotiations for dynamic capacity sharing.</p>
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14 pages, 1081 KiB  
Review
Contemporary Issues in Postmastectomy Radiotherapy: A Brief Review
by Caroline A. Grace and Michael J. McKay
J. Clin. Med. 2024, 13(24), 7545; https://doi.org/10.3390/jcm13247545 - 11 Dec 2024
Viewed by 246
Abstract
Breast cancer is the one of the most common cancers and causes a significant disease burden. Currently, postmastectomy radiotherapy (PMRT) is indicated for breast cancer patients with higher risk of recurrence, such as those with positive surgical margins or high-risk breast cancer (T3 [...] Read more.
Breast cancer is the one of the most common cancers and causes a significant disease burden. Currently, postmastectomy radiotherapy (PMRT) is indicated for breast cancer patients with higher risk of recurrence, such as those with positive surgical margins or high-risk breast cancer (T3 with positive lymph nodes, ≥4 positive lymph nodes or T4 disease). Whether PMRT should be used in intermediate-risk breast cancer (T3 with no positive lymph nodes or T1-2 with 1-3 positive lymph nodes) is contentious. Rates of breast reconstruction postmastectomy are increasing in countries like Australia, and PMRT usage in such settings is another area of active research. Ongoing trials are also assessing the safety and efficacy of hypofractionated PMRT, a clinical scenario now widely accepted for early-stage breast cancer. This brief review is unique in that it aims to examine three current and controversial aspects of the PMRT field (PMRT in intermediate-risk breast cancer, PMRT in conjunction with breast reconstruction and its hypofractionation). To achieve this aim, we discuss available and emerging literature and guidelines to offer insights important to the PMRT field. Current literature suggests that PMRT could play a role in improving the overall survival rate and in reducing locoregional recurrence in intermediate-risk breast cancer. In terms of recommending a timing or type of breast reconstruction best suited to the setting of PMRT, we found that individual patient preferences and circumstances need to be considered alongside a multidisciplinary approach. Research into PMRT hypofractionation safety and efficacy is ongoing and its place remains to be elucidated. Full article
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Figure 1
<p>A diagrammatic representation of the TNM staging of breast cancer. Rows from top to bottom represent tumour, nodal and metastatic classifications of breast cancer. Tumours and affected lymph nodes are represented by blue-shaded circles for the tumour and nodal rows, respectively. Intermediate-risk breast cancer is classified by St Gallen [<a href="#B6-jcm-13-07545" class="html-bibr">6</a>] as E+B (pT2N0), E+C (pT3N0), A+F (pT1N1), B+F (pT2N1) or C+F (pT3N1). Diagrams are original, created by C.A.G. using PowerPoint and adapted from Cancer Research UK [<a href="#B7-jcm-13-07545" class="html-bibr">7</a>].</p>
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<p>A diagrammatic summary of the current and controversial indications of PMRT based on current PMRT guidelines from NCCN, ASCO and EviQ. (<b>A</b>) Apart from positive margins, PMRT is currently recommended for pN2-3 (≥4 nodes affected), pT3N+ (T3 with positive node(s)) and T4. (<b>B</b>) PMRT’s use in pT1-2N1 (T1-2 with &lt;4 nodes affected) and T3N0 (T3 with no nodes affected) is controversial. Small blue-shaded circles represent affected lymph nodes (black circle represents pN3), red shapes representing breast cancer. Diagrams were created by C.A.G. using PowerPoint and adapted from Cancer Research UK [<a href="#B7-jcm-13-07545" class="html-bibr">7</a>].</p>
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16 pages, 5184 KiB  
Article
Boa Fumigator: An Intelligent Robotic Approach for Mosquito Control
by Sriniketh Konduri, Prithvi Krishna Chittoor, Bhanu Priya Dandumahanti, Zhenyuan Yang, Mohan Rajesh Elara and Grace Hephzibah Jaichandar
Technologies 2024, 12(12), 255; https://doi.org/10.3390/technologies12120255 - 10 Dec 2024
Viewed by 432
Abstract
The mosquitoe population is reaching critical levels globally, posing significant threats to public health and ecosystems due to their role as vectors for diseases. This paper presents the development of a mobile robotic platform named Boa Fumigator with autonomous fumigation and prioritized path [...] Read more.
The mosquitoe population is reaching critical levels globally, posing significant threats to public health and ecosystems due to their role as vectors for diseases. This paper presents the development of a mobile robotic platform named Boa Fumigator with autonomous fumigation and prioritized path planning capabilities in urban landscapes. The robot’s locomotion is based on a differential drive, facilitating easier maneuverability on semi-automated planar surfaces in landscaping infrastructure. The robot’s fumigator payload consists of a spray gun and a chemical tank, which can pan and fumigate up to 4.5 m from the ground. The system incorporates a wireless charging mechanism to allow for the autonomous charging of the mosquito catchers. A genetic algorithm fused with an A*-based prioritized path planning algorithm is developed for efficient navigation and charging of mosquito catchers. The algorithm, designed for maximizing charging efficiency, considers the initial charge percentage of mosquito catchers and the time required for fumigation to determine the optimal path for charging and fumigation. The experiment results show that the path planning algorithm can generate an optimized path for charging and fumigating multiple mosquito catchers based on their initial charge percentage. This paper concludes by summarizing the key findings and highlighting the significance of the fumigation robot in landscaping applications. Full article
(This article belongs to the Section Assistive Technologies)
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<p>Boa fumigator robot and mosquito catcher device’s internal architecture.</p>
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<p>Software architecture for determining the sequence of charging nodes<span class="html-small-caps">. </span>The green star symbol indicates node points to be charged, and the red star indicates those not being charged in this current cycle. The nodes to be charged are assigned * and named WP1*, WP2*, WP3*, and so on.</p>
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<p>Three-dimensional reconstruction of test site using LiDAR: (<b>a</b>) Isometric view of test site. (<b>b</b>) Isometric view of the 3D map generated using PointCloud2 data. (<b>c</b>) Top view of the 3D LiDAR map. (<b>d</b>) Two-dimensional projected map from PointCloud2 data.</p>
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<p>Period of ON and OFF of the MC; current consumption during the active state and deep-sleep state.</p>
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<p>Wireless charging coils used for ANSYS simulation and developing the charging circuit.</p>
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<p>Flowchart of genetic algorithm approach used in identifying the best sequence for optimized path generation.</p>
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<p>Path generated using the proposed algorithm for three different cases: (<b>a</b>) when the nearest MC has high priority; (<b>b</b>) when the farthest MC has high priority; (<b>c</b>) when multiple MCs have high priority.</p>
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<p>(<b>a</b>) Magnetic flux distribution at 0 mm lateral displacement and 20 mm displacement between coils. (<b>b</b>) Magnetic flux vectors linking with the receiver coil at 20 mm lateral and 20 mm displacement between coils, showing less magnetic flux lines linking with receiver coil, leading to reduced power transmission at larger displacements.</p>
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<p>Output voltage waveform of fumigation unit and MC at various intervals of vertical displacement between transmitter and receiver coil before rectification.</p>
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<p>Experimental output across receiver coil at regular lateral displacements between transmitter and receiver coil with different input voltages.</p>
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13 pages, 1963 KiB  
Article
Altered Cellular Metabolism Is a Consequence of Loss of the Ataxia-Linked Protein Sacsin
by Laura Perna, Grace Salsbury, Mohammed Dushti, Christopher J. Smith, Valle Morales, Katiuscia Bianchi, Gabor Czibik and J. Paul Chapple
Int. J. Mol. Sci. 2024, 25(24), 13242; https://doi.org/10.3390/ijms252413242 - 10 Dec 2024
Viewed by 278
Abstract
Mitochondrial dysfunction is implicated in the pathogenesis of the neurological condition autosomal recessive spastic ataxia of Charlevoix-Saguenay (ARSACS), yet precisely how the mitochondrial metabolism is affected is unknown. Thus, to better understand changes in the mitochondrial metabolism caused by loss of the sacsin [...] Read more.
Mitochondrial dysfunction is implicated in the pathogenesis of the neurological condition autosomal recessive spastic ataxia of Charlevoix-Saguenay (ARSACS), yet precisely how the mitochondrial metabolism is affected is unknown. Thus, to better understand changes in the mitochondrial metabolism caused by loss of the sacsin protein (encoded by the SACS gene, which is mutated in ARSACS), we performed mass spectrometry-based tracer analysis, with both glucose- and glutamine-traced carbon. Comparing the metabolite profiles between wild-type and sacsin-knockout cell lines revealed increased reliance on aerobic glycolysis in sacsin-deficient cells, as evidenced by the increase in lactate and reduction of glucose. Moreover, sacsin knockout cells differentiated towards a neuronal phenotype had increased levels of tricarboxylic acid cycle metabolites relative to the controls. We also observed disruption in the glutaminolysis pathway in differentiated and undifferentiated cells in the absence of sacsin. In conclusion, this work demonstrates consequences for cellular metabolism associated with a loss of sacsin, which may be relevant to ARSACS. Full article
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Figure 1
<p>Sacsin knockout cells exhibit increased lactate production. (<b>A</b>) Schematic representation of [U-13C] glucose tracer labelling of cellular metabolites. The six carbons of glucose are represented in different colours, and in each round of glycolysis, three of these carbons are converted into pyruvate and then incorporated into other metabolites. (<b>B</b>) Levels of glycolysis metabolites from both glucose and glutamine labelling in SH-SY5Y cells. (<b>C</b>) Percentage of lactate isotopomers distribution from [U-13C]-traced glucose of the cells. (<b>D</b>,<b>E</b>) Cell confluency was assessed for both wild-type control and sacsin knockout cells in vehicle-treated media and in media supplemented with sodium oxamate (<b>D</b>), in untreated media and glucose-free media (<b>E</b>) over 3 days. Cell confluency quantification was performed with Incucyte S3 software analysis. Two-way ANOVA with Tukey’s multiple comparison test was applied, <span class="html-italic">n</span> = 3. (<b>F</b>,<b>G</b>) Levels of (<b>F</b>) glucose and (<b>G</b>) lactate in cell culture media collected after 16 h. An additional control sample was added containing only the medium and processed as a regular sample. (<b>H</b>) Levels of glycolysis metabolites from both glucose and glutamine labelling in differentiated SH-SY5Y cells. (<b>I</b>) Levels of lactate in differentiated spent medium of SH-SY5Y cells. Levels of each isotopomer are expressed as a percentage of the total. The significance level was 0.05 (test used Anderson–Darling). The raw value, for the peak areas of the metabolites of interest, has been normalised to the total ion count (TIC), which is the sum of every metabolite found in the samples. Total metabolites (<b>B</b>–<b>I</b>) unpaired <span class="html-italic">t</span>-test, isotopomers distribution (<b>C</b>) one-way ANOVA. All error bars are S.D. ○ = traced glucose, ∆ = traced glutamine, KG = ketoglutarate, TCA = tricarboxylic acid cycle, CoA = coenzyme A, PEP = phosphoenolpyruvate, WT = wild-type control, KO = sacsin knockout, CTRL = media control, Undiff = undifferentiated SH-SY5Y and diff = differentiated SH-SY5Y.</p>
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<p>Malate levels were increased in sacsin knockout cells. (<b>A</b>) Levels of TCA metabolites in wild-type control and sacsin knockout SH-SY5Y cells from both glucose and glutamine labelling. (<b>B</b>,<b>D</b>) Distribution of fumarate (<b>B</b>) and malate (<b>D</b>) isotopomers arising from [U-13C]-traced glucose after labelling of the control and sacsin knockout cells. (<b>C</b>,<b>E</b>) Distribution of fumarate (<b>C</b>) and malate (<b>E</b>) isotopomers arising from [U-13C]-traced glutamine after labelling of the control and sacsin knockout cells. (<b>F</b>) Total levels of ADP, ATP, NAD<sup>+</sup> and NADH in the control and sacsin knockout cells from both glucose and glutamine labelling. (<b>G</b>) Levels of TCA cycle metabolites from both glucose and glutamine labelling in differentiated SH-SY5Y cells. (<b>H</b>) Total levels of ADP, ATP, NAD<sup>+</sup> and NADH in differentiated control and sacsin knockout cells from both glucose and glutamine labelling. Levels of each isotopomer are expressed as a percentage of the total. Data are normalised to the total ion count (TIC). Total metabolites (<b>A</b>,<b>F</b>–<b>H</b>) unpaired <span class="html-italic">t</span>-test, isotopomers distribution (<b>B</b>–<b>E</b>) one-way ANOVA. All error bars are S.D. ○ = traced glucose, ∆ = traced glutamine, KG = ketoglutarate, TCA = tricarboxylic acid cycle, WT = wild-type control, KO = sacsin knockout, Undiff = undifferentiated SH-SY5Y and diff = differentiated SH-SY5Y.</p>
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<p>Glutamate levels were decreased in sacsin knockout cells. (<b>A</b>) Levels of glutamine-related metabolites from both glucose and glutamine labelling in SH-SY5Y cells. (<b>B</b>,<b>C</b>) Distribution of glutamate isotopomers arising from (<b>B</b>) [U-13C]-traced glucose or (<b>C</b>) [U-13C]-traced glutamine after labelling of control and sacsin knockout cells. (<b>D</b>) Levels of glutamate in spent medium of [U-13C]-traced glucose. (<b>E</b>) Levels of glutamine-related metabolites from both glucose and glutamine labelling in differentiated SH-SY5Y cells. (<b>F</b>,<b>G</b>) Distribution of glutamate isotopomers arising from (<b>F</b>) [U-13C]-traced glucose or (<b>G</b>) [U-13C]-traced glutamine after labelling of control and sacsin knockout cells. (<b>H</b>) Levels of transcript for enzymes involved in the glutamine-related pathway in sacsin knockout normalised to the controls. Data are for differentially expressed genes (<span class="html-italic">p</span> &lt; 0.05), from the transcriptomics analysis of differentiated SH-SY5Y cells [<a href="#B8-ijms-25-13242" class="html-bibr">8</a>]. False discovery rate q values are displayed on the graph. Data are normalised to the total ion count (TIC). total metabolites unpaired <span class="html-italic">t</span>-test. All error bars are the S.D. ○ = traced glucose, ∆ = traced glutamine, WT = wild-type control, KO = sacsin knockout, CTRL = media control, Undiff = undifferentiated SH-SY5Y and diff = differentiated SH-SY5Y.</p>
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<p>Isoleucine and leucine levels were increased in the absence of sacsin. (<b>A</b>–<b>C</b>) Levels of (<b>A</b>) essential amino acids, (<b>B</b>) amino acids and (<b>C</b>) urea cycle metabolites from both glucose and glutamine labelling in SH-SY5Y cells. (<b>D</b>–<b>F</b>) Levels of (<b>D</b>) essential amino acids, (<b>E</b>) amino acids and (<b>F</b>) urea cycle metabolites from both glucose and glutamine labelling in differentiated SH-SY5Y cells. Data are normalised to the total ion count (TIC). total metabolites unpaired <span class="html-italic">t</span>-test. All error bars are the S.D. ○ = traced glucose, ∆ = traced glutamine, diff = differentiated SH-SY5Y, WT = wild-type control, KO = sacsin knockout and N-acasp = n-acetylaspartate.</p>
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<p>Summary of the metabolic alteration in the absence of sacsin. Schematic representation of altered metabolites in the absence of sacsin on the left in undifferentiated cell lines, and on the right in differentiated cell lines, using both [U-13C] glucose and [U-13C] glutamine tracer labelling. Red arrows indicate if levels of metabolites are increased or decreased. Black arrows show metabolic pathways.</p>
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16 pages, 2114 KiB  
Article
Untargeted Metabolomics Reveals Dysregulation of Glycine- and Serine-Coupled Metabolic Pathways in an ALDH1L1-Dependent Manner In Vivo
by Grace Fu, Sabrina Molina, Sergey A. Krupenko, Susan Sumner and Blake R. Rushing
Metabolites 2024, 14(12), 696; https://doi.org/10.3390/metabo14120696 - 10 Dec 2024
Viewed by 321
Abstract
Background: ALDH1L1 plays a crucial role in folate metabolism, regulating the flow of one-carbon groups through the conversion of 10-formyltetrahydrofolate to tetrahydrofolate and CO2 in a NADP+-dependent reaction. The downregulation of ALDH1L1 promotes malignant tumor growth, and silencing of ALDH1L1 [...] Read more.
Background: ALDH1L1 plays a crucial role in folate metabolism, regulating the flow of one-carbon groups through the conversion of 10-formyltetrahydrofolate to tetrahydrofolate and CO2 in a NADP+-dependent reaction. The downregulation of ALDH1L1 promotes malignant tumor growth, and silencing of ALDH1L1 is commonly observed in many cancers. In a previous study, Aldh1l1 knockout (KO) mice were found to have an altered liver metabotype, including significant alterations in glycine and serine. Serine and glycine play crucial roles in pathways linked to cancer initiation and progression, including one-carbon metabolism. Objective/Methods: To further investigate the metabolic role of ALDH1L1, an untargeted metabolomic analysis was conducted on the liver and plasma of both KO and wild-type (WT) male and female mice. Since ALDH1L1 affects glycine- and serine-coupled metabolites and metabolic pathways, correlation analyses between liver glycine and serine with other liver or plasma metabolites were performed for both WT and KO mice. Significantly correlated metabolites were input into MetaboAnalyst 5.0 for pathway analysis to uncover metabolic pathways coupled with serine and glycine in the presence or absence of ALDH1L1 expression. Results: This analysis showed substantial alterations in pathways associated with glycine and serine following ALDH1L1 loss, including the amino acid metabolism, antioxidant pathways, fatty acid oxidation, and vitamin B5 metabolism. These results indicate the glycine- and serine-linked metabolic reprogramming following ALDH1L1 loss to support macromolecule biosynthesis and antioxidant defense. Additional research is required to further explore the correlation between specific alterations in these pathways and tumor growth, as well as to identify potential dietary interventions to mitigate the detrimental effects of ALDH1L1 loss. Full article
(This article belongs to the Special Issue Metabolomics Techniques in Nutrition and Pharmacy Research)
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<p><b>Schematic of analytic approach.</b> Hepatic serine and glycine peak intensities and the ratio of serine-to-glycine peak intensities, were correlated with the intensities of other metabolites in the liver and plasma datasets for both WT and KO mice. Significantly correlated metabolites were then used as inputs for pathway analysis in MetaboAnalyst to determine metabolic pathways significantly correlated with serine, glycine, or the serine-to-glycine ratio for both liver and plasma, and results were compared between WT and KO samples.</p>
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<p><b>Correlation heat map of liver and plasma metabolites using peak intensities in WT (A) and KO (B) mice.</b> Values within the heatmap are Spearman rank correlation values. Red indicates a strong positive correlation whereas blue indicates a strong negative correlation. For each heatmap, the top 20 correlated metabolites with glycine are displayed.</p>
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<p><b>Example correlation between liver glycine and liver cystathionine in ALDH1L1 KO mice.</b> Correlations were performed using peak area values that were calculated by Progenesis QI.</p>
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<p><b>Pathway analysis of liver metabolites correlated with glycine in WT mice.</b> Pathways with <span class="html-italic">p</span> &lt; 0.05 are annotated.</p>
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<p><b>Pathway analysis of liver metabolites correlated with glycine in KO mice.</b> Pathways with <span class="html-italic">p</span> &lt; 0.05 are annotated.</p>
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<p><b>Schematic showing the role of ALDH1L1 in folate metabolism</b>.</p>
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<p><b>Schematic depicting the interaction of folate with glycine, serine, and threonine metabolism</b>.</p>
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16 pages, 473 KiB  
Article
Australians’ Well-Being and Resilience During COVID-19: The Role of Trust, Misinformation, Intolerance of Uncertainty, and Locus of Control
by Nida Denson, Kevin M. Dunn, Alanna Kamp, Jehonathan Ben, Daniel Pitman, Rachel Sharples, Grace Lim, Yin Paradies and Craig McGarty
J. Clin. Med. 2024, 13(24), 7495; https://doi.org/10.3390/jcm13247495 - 10 Dec 2024
Viewed by 334
Abstract
Background/Objectives: In response to the COVID-19 pandemic, Australian state and federal governments enacted boarder closures, social distancing measures, and lockdowns. By the end of October 2020, the 112-day lockdown in the Australian state of Victoria was the longest continuous lockdown period internationally. [...] Read more.
Background/Objectives: In response to the COVID-19 pandemic, Australian state and federal governments enacted boarder closures, social distancing measures, and lockdowns. By the end of October 2020, the 112-day lockdown in the Australian state of Victoria was the longest continuous lockdown period internationally. Previous studies have examined how the COVID-19 pandemic and government restrictions have affected Australians’ mental health and well-being; however, less is known about the relationship between psychological variables and well-being. Methods: We administered a national survey of Australians aged 16 years and over (N = 1380) in November 2020 to examine the psychological factors that promoted and hindered Australians’ well-being and resilience during the first year of the pandemic. Results: Our study found that Australians reported normal to moderate levels of anxiety, moderate stress, mild depression, and moderate to high loneliness. Interpersonal trust was consistently a protective factor for well-being and resilience and was associated with less depression, anxiety, stress, and loneliness, and greater resilience. Participants with greater inhibitory anxiety (intolerance of uncertainty) and an external locus of control were more likely to be depressed, anxious, stressed, and lonely, and less resilient, compared with those with less inhibitory anxiety and those who believed that these outcomes were determined by their own actions. COVID-19 beliefs were associated with more depression, anxiety, stress, and resilience. Conclusions: This study seeks to inform the development of mental-health, well-being, and resilience strategies by government agencies, non-government organisations, and healthcare providers in times of crisis and in “ordinary” times. Full article
(This article belongs to the Special Issue The COVID-19 Pandemic and Mental Health: The Next Phase)
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<p>Anxiety, stress, and depression during the COVID-19 pandemic (<span class="html-italic">N</span> = 1380).</p>
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14 pages, 245 KiB  
Article
The Impact of Tumor Stage and Histopathology on Survival Outcomes in Esophageal Cancer Patients over the Past Decade
by Ayrton Bangolo, Vignesh Krishnan Nagesh, Grace Simonson, Abhishek Thapa, Arun Ram, Nithin Jayan Santhakumari, Rayan Chamroukh, Vivek Joseph Varughese, Shallot Nareeba, Aiswarya Menon, Kousik Sridharan, Angel Ann Chacko, Charlene Mansour, Daniel Elias, Gurinder R. Singh, Aaron Rambaransingh, Luis Roman Mendez, Charlotte Levy, Izage Kianifar Aguilar, Ibrahim Hamad, Urveesh Sharma, Jose Salcedo, Hadrian Hoang-Vu Tran, Abdullah Haq, Tahir B. Geleto, Kaysha Jean, Luis Periel, Sara Bravin and Simcha Weissmanadd Show full author list remove Hide full author list
Med. Sci. 2024, 12(4), 70; https://doi.org/10.3390/medsci12040070 - 9 Dec 2024
Viewed by 432
Abstract
Background: Esophageal cancer (EC) is the sixth leading cause of cancer-related mortality worldwide, continuing to be a significant public health concern. The purpose of this study is to assess the impact of staging and histopathology of EC on associated mortality. The study also [...] Read more.
Background: Esophageal cancer (EC) is the sixth leading cause of cancer-related mortality worldwide, continuing to be a significant public health concern. The purpose of this study is to assess the impact of staging and histopathology of EC on associated mortality. The study also aims to further investigate clinical characteristics, prognostic factors, and survival outcomes in patients diagnosed with EC between 2010 and 2017. Furthermore, we analyzed the interaction between tumor histology and staging and the risk of mortality. Methods: A total of 24,011 patients diagnosed with EC between 2010 and 2017 in the United States were enrolled from the Surveillance, Epidemiology, and End Results (SEER) database. Demographic parameters, tumor stage, and histologic subtypes were analyzed and associated overall mortality (OM) and cancer-specific mortality (CSM) were measured across all subgroups. Covariates reaching the level of statistical significance, demonstrable by a p-value equal to or less than 0.01, were incorporated into a multivariate Cox proportional hazards model. A hazard ratio greater than 1 was indicative of an increased risk of mortality in the presence of the variable under discussion. Additionally, the study explores the interaction between histology and tumor stage on outcomes. Results: The majority of patients were male (80.13%) and non-Hispanic white (77.87%), with a predominant age at diagnosis of between 60 and 79 years (59.86%). Adenocarcinoma was the most common tumor subtype (68.17%), and most patients were diagnosed at a distant stage (41.29%). Multivariate analysis revealed higher mortality risks for males, older patients, unmarried individuals, and those with advanced-stage tumors. Higher income, receiving radiation or chemotherapy, and undergoing surgery were associated with lower mortality. Tumor subtype significantly influenced mortality, with squamous cell carcinoma and neuroendocrine tumors showing higher hazard ratios compared to adenocarcinoma. Adenocarcinoma is linked to a poorer prognosis at advanced stages, whereas the opposite trend is observed for SCC. Conclusions: The study identifies significant demographic and clinicopathologic factors influencing mortality in esophageal cancer patients, highlighting the importance of early diagnosis and treatment intervention. Future research should focus on tailored treatment strategies to improve survival outcomes in high-risk groups and to understand the interaction between tumor histology and tumor stage. Full article
(This article belongs to the Section Hepatic and Gastroenterology Diseases)
15 pages, 608 KiB  
Article
How Does Cultural Upbringing Influence How University Students in the Middle East Utilize ChatGPT Technology?
by Samar Aad, Grace K. Dagher and Mariann Hardey
Adm. Sci. 2024, 14(12), 330; https://doi.org/10.3390/admsci14120330 - 6 Dec 2024
Viewed by 418
Abstract
The Middle East, with its diverse cultures and adherence to social norms, offers a relevant case study for exploring the current research question. Using established theories of social interaction and technology acceptance, this research examines how cultural background shapes student interactions with ChatGPT. [...] Read more.
The Middle East, with its diverse cultures and adherence to social norms, offers a relevant case study for exploring the current research question. Using established theories of social interaction and technology acceptance, this research examines how cultural background shapes student interactions with ChatGPT. Analyzing data from 202 online surveys, our findings underscore the gender-based disparities in ChatGPT use, potentially revealing consequences for technology adoption within the Middle East. This study contributes to a deeper understanding of how cultural upbringing influences AI utilization and paves the way for developing more culturally sensitive and inclusive AI systems. By promoting a more equitable and informed approach to AI adoption in the Middle East and beyond, this research offers valuable insights for future research directions and technology applications. Full article
(This article belongs to the Special Issue Diversity, Equity & Inclusion and Its Perception in Organization)
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<p>The conceptual model for our study.</p>
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15 pages, 1675 KiB  
Article
Low Prevalence of SARS-CoV-2 in Farmed and Free-Ranging White-Tailed Deer in Florida
by Savannah G. Grace, Kristen N. Wilson, Rayann Dorleans, Zoe S. White, Ruiyu Pu, Natasha N. Gaudreault, Konner Cool, Juan M. Campos Krauer, Laura E. Franklin, Bambi C. Clemons, Kuttichantran Subramaniam, Juergen A. Richt, John A. Lednicky, Maureen T. Long and Samantha M. Wisely
Viruses 2024, 16(12), 1886; https://doi.org/10.3390/v16121886 - 6 Dec 2024
Viewed by 906
Abstract
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has been detected in multiple animal species, including white-tailed deer (WTD), raising concerns about zoonotic transmission, particularly in environments with frequent human interactions. To understand how human exposure influences SARS-CoV-2 infection in WTD, we compared infection [...] Read more.
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has been detected in multiple animal species, including white-tailed deer (WTD), raising concerns about zoonotic transmission, particularly in environments with frequent human interactions. To understand how human exposure influences SARS-CoV-2 infection in WTD, we compared infection and exposure prevalence between farmed and free-ranging deer populations in Florida. We also examined the timing and viral variants in WTD relative to those in Florida’s human population. Between 2020 and 2022, we collected respiratory swabs (N = 366), lung tissue (N = 245), retropharyngeal lymph nodes (N = 491), and serum specimens (N = 381) from 410 farmed and 524 free-ranging WTD. Specimens were analyzed using RT-qPCR for infection and serological assays for exposure. SARS-CoV-2 infection was detected in less than 1% of both northern Florida farmed (0.85%) and free-ranging (0.76%) WTD. No farmed deer possessed virus-neutralizing antibodies, while one free-ranging WTD tested positive for SARS-CoV-2 antibodies (3.45%). Viral sequences in infected WTD matched peaks in human cases and circulating variants, indicating human-to-deer spillover but at a lower frequency than reported elsewhere. Our findings suggest a reduced risk of SARS-CoV-2 spillover to WTD in northern Florida compared to other regions, highlighting the need for further research on transmission dynamics across North America. Full article
(This article belongs to the Section Coronaviruses)
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<p>Geographic distribution of WTD sampling efforts from 2020 to 2022 and SARS-CoV-2-positive cases. (<b>A</b>) Total number of farmed WTD specimens by county. (<b>B</b>) Total number of free-ranging WTD specimens by county. (<b>C</b>) Counties with SARS-CoV-2 RNA positive cases as determined by RT-PCR. (<b>D</b>) Counties with SARS-CoV-2 neutralizing antibodies positive WTD.</p>
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<p>Temporal distribution of all specimens from farmed and free-ranging WTD and the timing of SARS-CoV-2 positives for infection or virus-neutralizing antibodies. WTD status is color-coded, with sex distinctions. An asterisk denotes the virus-neutralizing antibody-positive deer, while all others were positive for viral infection by RT-qPCR.</p>
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<p>The temporal distribution of SARS-CoV-2 lineages in Florida humans and WTD from 2020 to 2022. The black line depicts the cumulative human cases in counties with confirmed positive WTD. Positioned above the graph, designated time points mark instances of positive WTD alongside the discerned SARS-CoV-2 lineages determined through whole genome sequencing. An asterisk denotes the virus-neutralizing antibody-positive WTD, while all others were positive for SARS-CoV-2 infection by RT-qPCR.</p>
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<p>Maximum likelihood cladogram of the relationships of the whole genome SARS-CoV-2 nucleotide sequences isolated from Florida humans and farmed WTD. The SARS-CoV-2 isolates include their accession references from either NCBI or GISAID, location, WHO variant name, Pangolin lineage, and collection date. Nodes with black circles are supported by bootstrap values of &gt;90%. The tree was rooted with the Wuhan-Hu-1 reference strain. The farmed WTD isolates are in red, and the Delta clad is highlighted in yellow.</p>
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28 pages, 32302 KiB  
Article
Reconstructing Long-Term, High-Resolution Groundwater Storage Changes in the Songhua River Basin Using Supplemented GRACE and GRACE-FO Data
by Chuanqi Liu, Zhijie Zhang, Chi Xu and Wanchang Zhang
Remote Sens. 2024, 16(23), 4566; https://doi.org/10.3390/rs16234566 - 5 Dec 2024
Viewed by 450
Abstract
The Gravity Recovery and Climate Experiment (GRACE) enables large-scale monitoring of terrestrial water storage changes, significantly contributing to hydrology and related fields. However, the coarse resolution of groundwater storage anomaly (GWSA) data limits local-scale research utilizing GRACE and GRACE-FO missions. In this study, [...] Read more.
The Gravity Recovery and Climate Experiment (GRACE) enables large-scale monitoring of terrestrial water storage changes, significantly contributing to hydrology and related fields. However, the coarse resolution of groundwater storage anomaly (GWSA) data limits local-scale research utilizing GRACE and GRACE-FO missions. In this study, we develop a regional downscaling model based on the linear regression relationship between GWSA and environmental variables, reducing the grid resolution of GWSA obtained from GRACE from approximately 25 km to 1 km. First, we estimate the missing values of monthly continuous terrestrial water storage anomaly (TWSA) for the period from 2003 to 2020 using interpolated multi-channel singular spectrum analysis (IMSSA). Next, we apply the water balance equation to separate GWSA from TWSA, which is provided jointly by the Global Land Data Assimilation System (GLDAS) and the distributed ecohydrological model ESSI-3. We then employ a partial least squares regression (PLSR) model to identify the most significant environmental variables related to GWSA. Precipitation (Prec), normalized difference vegetation index (NDVI), and actual evapotranspiration (AET), with variable importance in projection (VIP) values greater than 1.0, are recognized as effective variables for reconstructing long-term, high-resolution groundwater storage changes. Finally, we downscale and reconstruct the long-term (2003–2020), high-resolution (1 km × 1 km) monthly GWSA in the Songhua River Basin using fused and supplemented GRACE/GRACE-FO data, employing either geographically weighted regression (GWR) or random forest (RF) models. The results demonstrate superior performance of the GWR model (CC = 0.995, NSE = 0.989, RMSE = 2.505 mm) compared to the RF model in downscaling. The downscaled GWSA in the Songhua River Basin not only achieves high spatial resolution but also exhibits improved accuracy when compared to in situ groundwater observation records. This research enhances understanding of spatiotemporal variations in regional groundwater due to local agricultural and industrial water use, providing a scientific basis for regional water resource management. Full article
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<p>Songhua River Basin: (<b>a</b>) Digital elevation model (DEM) along with river systems and borehole in situ points; (<b>b</b>) geo-location map of study site in China; (<b>c</b>) annual mean precipitation map from 2003 to 2020; and (<b>d</b>); and use and land cover map.</p>
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<p>Framework for constructing a downscaling model of GWSA changes in the Songhua River Basin. (<b>a</b>,<b>b</b>): Scatter plot analysis of downscaled GWSA of different models and the original GWSA; (<b>c</b>–<b>f</b>): Spatial distribution of GWSA change trends after downscaling in the Songhua River Basin in different periods.</p>
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<p>Comparison of CLSM TWSA and GRACE TWSA supplemented by the IMSSA method.</p>
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<p>Evaluation and comparison of TWSA predicted by IMSSA with GRACE-TWSA using 24 months of test data from 2003 to 2020.</p>
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<p>Comparison of measured and simulated discharges during the calibration period (2010–2014) and validation period (2015–2020) of two hydrological stations: (<b>a</b>) Xiaoergou station and (<b>b</b>) Jiamusi station.</p>
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<p>In situ grids distribution map of the Songhua River Basin: A1–A9: In situ grid number.</p>
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<p>VIP values of all variables based on the PLSR model.</p>
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<p>Comparison of the spatial distribution of annual average GWSA results of different downscaling schemes and original GWSA data: (<b>a</b>) original GWSA; (<b>b</b>) GWR model results; and (<b>c</b>) RF model results.</p>
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<p>Scatter plot analysis of downscaled GWSA of different models and the original GWSA: (<b>a</b>) GWR model and (<b>b</b>) RF model.</p>
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<p>Spatial distribution of multi-year monthly average GWSA at original grid resolution in the Songhua River Basin (0.25°).</p>
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<p>Spatial distribution of multi-year monthly average GWSA after downscaling in the Songhua River Basin (1 km).</p>
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<p>Radar chart of the comparison results between GWSA and in situ grids before and after downscaling: (<b>a</b>) CC and (<b>b</b>) RMSE. O is the GWSA data before downscaling, and D is the GWSA data after downscaling.</p>
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<p>Comparative analysis of GWR_GWSA and Insitu_GWSA measurements.</p>
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<p>Spatial distribution of GWSA at different grid resolutions in 2005 and the changes with geographical location under different example lines: (<b>a</b>,<b>c</b>) 0.25° and (<b>b</b>,<b>d</b>) 1 km.</p>
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<p>Time series of GRACE-derived GWSA and downscaled GWSA changes in the Songhua River Basin from 2003 to 2020: (I) January 2003 to July 2009, (II) August 2009 to May 2012, (III) June 2012 to April 2019, and (IV) May 2019 to December 2020.</p>
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<p>Spatial distribution of GWSA change trends after downscaling in the Songhua River Basin in different periods: (<b>a</b>) 2003–2020; (<b>b</b>) 2003–2008; (<b>c</b>) 2009–2013; and (<b>d</b>) 2014–2020.</p>
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<p>Spatial distribution of LULC and GWSA in the Songhua River Basin at different periods: (<b>a</b>) LULC_2003; (<b>b</b>) LULC_2020; (<b>c</b>) GWSA_2003; and (<b>d</b>) GWSA_2020.</p>
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37 pages, 2037 KiB  
Review
The Good, the Bad, and the Fungus: Insights into the Relationship Between Plants, Fungi, and Oomycetes in Hydroponics
by Grace C. S. Laevens, William C. Dolson, Michelle M. Drapeau, Soufiane Telhig, Sarah E. Ruffell, Danielle M. Rose, Bernard R. Glick and Ashley A. Stegelmeier
Biology 2024, 13(12), 1014; https://doi.org/10.3390/biology13121014 - 4 Dec 2024
Viewed by 982
Abstract
Hydroponic systems are examples of controlled environment agriculture (CEA) and present a promising alternative to traditional farming methods by increasing productivity, profitability, and sustainability. In hydroponic systems, crops are grown in the absence of soil and thus lack the native soil microbial community. [...] Read more.
Hydroponic systems are examples of controlled environment agriculture (CEA) and present a promising alternative to traditional farming methods by increasing productivity, profitability, and sustainability. In hydroponic systems, crops are grown in the absence of soil and thus lack the native soil microbial community. This review focuses on fungi and oomycetes, both beneficial and pathogenic, that can colonize crops and persist in hydroponic systems. The symptomatology and mechanisms of pathogenesis for Botrytis, Colletotrichum, Fulvia, Fusarium, Phytophthora, Pythium, and Sclerotinia are explored for phytopathogenic fungi that target floral organs, leaves, roots, and vasculature of economically important hydroponic crops. Additionally, this review thoroughly explores the use of plant growth-promoting fungi (PGPF) to combat phytopathogens and increase hydroponic crop productivity; details of PGP strategies and mechanisms are discussed. The benefits of Aspergillus, Penicillium, Taloromyces, and Trichoderma to hydroponics systems are explored in detail. The culmination of these areas of research serves to improve the current understanding of the role of beneficial and pathogenic fungi, specifically in the hydroponic microbiome. Full article
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<p>Comparing and contrasting characteristics of oomycetes and true fungi. Oomycetes (green) and true fungi (blue) are highly similar, but differ in a few key characteristics: pigmentation, cell wall composition, dominant life cycle ploidy, and spore production.</p>
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<p>Comparison of biotrophic and necrotrophic phytopathogen behaviors. Fungal and oomycete interactions in plants are categorized based on their effect on the plant tissue. Biotrophic interactions tend to preserve tissue health, where the parasite (oomycete or fungus) siphons off nutrients from healthy tissue. Whereas necrotrophic parasites cause host cell death, freeing nutrients and allowing saprophytic feeding.</p>
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<p>Germination of phytopathogenic propagules that target root systems. Spore germination does not always occur on plant roots. In most cases, the spores are drawn through chemotaxis to nutrients, which can be mineral deposits in the soil, growth media or exudates from plant roots. In the case of root exudates, the abundance of nutrients allows for germination and mycelium development, hence further colonization of the host. In the case of mineral deposits, the lack of a host can lead to a quick exhaustion of nutrients, such as phosphorous (P), potassium (K), iron (Fe), and nitrogen (N), and the development of ‘’secondary’’ propagules to persist in the environment until favorable conditions are met.</p>
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<p>Plant growth-promoting mechanisms used by fungi (i.e., PGPF) fall under two broad categories: direct and indirect methods. Methods that directly benefit the plant are considered direct methods (A, B). In contrast, methods that benefit the plant indirectly, by decreasing the deleterious effects of pathogens are considered indirect methods (C, D). PGPF may secrete organic acids, siderophores, or enzymes to increase the bioavailability of nutrients such as iron, phosphorous, and potassium (A). Phytohormones (e.g., indole-3-acetic acid (IAA), cytokinin, and gibberellins) produced by PGPF can be taken up via the roots and stimulate growth and regulate stress within the host plant (B). PGPF may also participate in antagonistic relationships with phytopathogens in the rhizosphere, thereby controlling phytopathogen populations and decreasing infection and disease severity for the host plant (C). Many PGPF also secrete secondary metabolites that function in signaling cascades within the plant, inducing plant defenses and preparing the plant to encounter phytopathogens (D). Both phytohormones and immune-inducing metabolites taken up by the roots can function throughout the plant.</p>
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21 pages, 10795 KiB  
Article
COSMIC-2 RFI Prediction Model Based on CNN-BiLSTM-Attention for Interference Detection and Location
by Cheng-Long Song, Rui-Min Jin, Chao Han, Dan-Dan Wang, Ya-Ping Guo, Xiang Cui, Xiao-Ni Wang, Pei-Rui Bai and Wei-Min Zhen
Sensors 2024, 24(23), 7745; https://doi.org/10.3390/s24237745 - 4 Dec 2024
Viewed by 426
Abstract
As the application of the Global Navigation Satellite System (GNSS) continues to expand, its stability and safety issues are receiving more and more attention, especially the interference problem. Interference reduces the signal reception quality of ground terminals and may even lead to the [...] Read more.
As the application of the Global Navigation Satellite System (GNSS) continues to expand, its stability and safety issues are receiving more and more attention, especially the interference problem. Interference reduces the signal reception quality of ground terminals and may even lead to the paralysis of GNSS function in severe cases. In recent years, Low Earth Orbit (LEO) satellites have been highly emphasized for their unique advantages in GNSS interference detection, and related commercial and academic activities have increased rapidly. In this context, based on the signal-to-noise ratio (SNR) and radio-frequency interference (RFI) measurements data from COSMIC-2 satellites, this paper explores a method of predicting RFI measurements using SNR correlation variations in different GNSS signal channels for application to the detection and localization of civil terrestrial GNSS interference signals. Research shows that the SNR in different GNSS signal channels shows a correlated change under the influence of RFI. To this end, a CNN-BiLSTM-Attention model combining a convolutional neural network (CNN), bi-directional long and short-term memory network (BiLSTM), and attention mechanism is proposed in this paper, and the model takes the multi-channel SNR time series of the GNSS as the input and outputs the maximum measured value of RFI in the multi-channels. The experimental results show that compared with the traditional band-pass filtering inter-correlation method and other deep learning models, the model in this paper has a root mean square error (RMSE), mean absolute error (MAE), and correlation coefficient (R2) of 1.0185, 1.8567, and 0.9693, respectively, in RFI prediction, which demonstrates a higher RFI detection accuracy and a wide range of rough localization capabilities, showing significant competitiveness. Since the correlation changes in the SNR can be processed to decouple the signal strength, this model is also suitable for future GNSS-RO missions (such as COSMIC-1, CHAMP, GRACE, and Spire) for which no RFI measurements have yet been made. Full article
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<p>The different signal transmission paths between the RFI source, the GNSS satellites, and the GNSS RO satellites (not to scale).</p>
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<p>SNR, S4 scintillation index, elevation angle, and RFI measurements for the POD 01 antenna of C2E1 satellite near 1:35 UTC on 1 January 2023: (<b>a</b>) SNR sequence of CA code L1 band for different channels. (<b>b</b>) S4 scintillation index. (<b>c</b>) Elevation angle of the LEO-GPS link. (<b>d</b>) Maximum value of RFI measurements in multiple channels.</p>
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<p>Changes in SNR, S4 scintillation index, and RFI measurements of the C2E1 satellite POD 01 antenna when scintillation occurs on 1 January 2023 near 1:10 UTC. (<b>a</b>) SNR sequence of CA code L1 band for different channels. (<b>b</b>) S4 scintillation index. (<b>c</b>) Maximum value of RFI measurements in multiple channels.</p>
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<p>Results of the interference detection algorithm: (<b>a</b>) The result of band-pass filtering and normalization of the multi-channel SNR sequence in <a href="#sensors-24-07745-f002" class="html-fig">Figure 2</a>a. (<b>b</b>) The calculated cross-correlation sequence after moving window normalization and filtering, as well as interference, can be detected by setting a threshold (set to 0.01 in this example).</p>
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<p>Spatial distribution of the orbits of GPS and COSMIC-2 satellites during the SNR duration in <a href="#sensors-24-07745-f002" class="html-fig">Figure 2</a>a.</p>
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<p>Calculation results of the RFI measurement sequence and cross-correlation sequence output by the C2E1 satellite 01 antenna on January 1, 2023 UTC. The two sequences also show a certain degree of correlation over the day: (<b>a</b>) RFI measurement sequence; (<b>b</b>) Calculated normalized cross-correlation sequence after band-pass filtering.</p>
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<p>Basic structure of a CNN model.</p>
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<p>LSTM model schematic.</p>
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<p>Schematic diagram of the BiLSTM model.</p>
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<p>Basic structure of the CNN-BiLSTM-Attention model used in this paper.</p>
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<p>Flowchart of the algorithm.</p>
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<p>Predicted RFI measurements and dRFI for the training set on the COSMIC-2 C2E1 satellite for the CNN-BiLSTM-Attention model. The dashed line in the figure indicates the interference threshold y = ±0.001, with the time resolution downsampled to 3 h: (<b>a</b>) the blue line is the true value of the RFI measurement, and the red line is the prediction result; (<b>b</b>) dRFI.</p>
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<p>Predicted RFI measurements and dRFI for the training set on the COSMIC-2 C2E1 satellite for the BiLSTM-Attention model. The dashed line in the figure indicates the interference threshold y = ±0.001, with the time resolution downsampled to 3 h: (<b>a</b>) the blue line is the true value of the RFI measurement, and the red line is the prediction result; (<b>b</b>) dRFI.</p>
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<p>Predicted RFI measurements and dRFI for the training set on the COSMIC-2 C2E1 satellite for the LSTM model. The dashed line in the figure indicates the interference threshold y = ±0.001, with the time resolution downsampled to 3 h: (<b>a</b>) the blue line is the true value of the RFI measurement, and the red line is the prediction result; (<b>b</b>) dRFI.</p>
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<p>Predicted RFI measurements and dRFI for the test set on the COSMIC-2 C2E1 satellite for the CNN-BiLSTM-Attention model. The dashed line in the figure indicates the interference threshold y = ±0.001, with the time resolution downsampled to 3 h: (<b>a</b>) the blue line is the true value of the RFI measurement, and the red line is the prediction result; (<b>b</b>) dRFI.</p>
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<p>Predicted RFI measurements and dRFI for the test set on the COSMIC-2 C2E1 satellite for the BiLSTM-Attention model. The dashed line in the figure indicates the interference threshold y = ±0.001, with the time resolution downsampled to 3 h: (<b>a</b>) the blue line is the true value of the RFI measurement, and the red line is the prediction result; (<b>b</b>) dRFI.</p>
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<p>Predicted RFI measurements and dRFI for the test set on the COSMIC-2 C2E1 satellite for the LSTM model. The dashed line in the figure indicates the interference threshold y = ±0.001, with the time resolution downsampled to 3 h: (<b>a</b>) the blue line is the true value of the RFI measurement, and the red line is the prediction result; (<b>b</b>) dRFI.</p>
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<p>Global RFI situation map of the six COSMIC-2 satellites’ 01 and 02 antenna superposition cases using the four methods mentioned in this paper and the actual measured values: (<b>a</b>) real measured values, and the three green dotted rectangles inside the marker are the primary sources of prediction error for various algorithms (<b>b</b>) CNN-BiLSTM-Attention, (<b>c</b>) BiLSTM-Attention, (<b>d</b>) LSTM, (<b>e</b>) normalized cross-correlation method with band-pass filtering.</p>
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<p>Global RFI situation map of the six COSMIC-2 satellites’ 01 and 02 antenna superposition cases using the four methods mentioned in this paper and the actual measured values: (<b>a</b>) real measured values, and the three green dotted rectangles inside the marker are the primary sources of prediction error for various algorithms (<b>b</b>) CNN-BiLSTM-Attention, (<b>c</b>) BiLSTM-Attention, (<b>d</b>) LSTM, (<b>e</b>) normalized cross-correlation method with band-pass filtering.</p>
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26 pages, 1954 KiB  
Systematic Review
Biological Hazards and Indicators Found in Products of Animal Origin in Cambodia from 2000 to 2022: A Systematic Review
by Shwe Phue San, Rortana Chea, Delia Grace, Kristina Roesel, Sothyra Tum, Stephen Young, Tumnoon Charaslertrangsi, Nazanin Zand, Shetty Seetharama Thombathu, Ra Thorng, Leab Kong, Kuok Fidero and Linda Nicolaides
Int. J. Environ. Res. Public Health 2024, 21(12), 1621; https://doi.org/10.3390/ijerph21121621 - 3 Dec 2024
Viewed by 774
Abstract
Biological hazards in products of animal origin pose a significant threat to human health. In Cambodia, there are few comprehensive data and information on the causes of foodborne diseases or risks. To date, there has been no known published study similar to this [...] Read more.
Biological hazards in products of animal origin pose a significant threat to human health. In Cambodia, there are few comprehensive data and information on the causes of foodborne diseases or risks. To date, there has been no known published study similar to this review. This systematic review is aimed to investigate the prevalence of biological hazards and their indicators in products of animal origin from 2000 to 2022. The main objective of this study was also to contribute to strengthening Cambodia’s food control system. This review followed the established “Preferred Reporting Items for Systematic Reviews and Meta-Analyses” (PRISMA) guidelines. In total, 46 studies were retained for complete review. Most studies (n = 40) had been conducted by or with external researchers, reflecting the under-resourcing of the National Food Control System in terms of surveillance; areas outside the capital were relatively understudied, reflecting evidence found in Ethiopia and Burkina Faso. Five categories of hazards were reported with the highest number of studies on fish parasites. Marketed fish, often originating from different countries, had a higher mean value of parasite prevalence (58.85%) than wild-caught fish (16.46%). Viral pathogens in bat meat presented a potential spillover risk. Many potentially important hazards had not yet been studied or reported (e.g., Norovirus, Shigella, toxin-producing Escherichia coli, and Vibrio cholerae). The findings of our review highlighted significant urgencies for national competent authorities to enhance food hygiene practices along the production chain, tackle import control, and enforce the implementation of a traceability system, alongside more research collaboration with neighboring countries and key trading partners. It is crucial to conduct more extensive research on food safety risk analysis, focusing on the identification and understanding of various biological hazards and their associated risk factors in food. Full article
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<p>PRISMA flowchart showing identification, screening, and inclusion of eligible articles reporting foodborne biological hazards in animals and POAOs in Cambodia from 2000 to 2022.</p>
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<p>Evidence of frequency of research for food biological hazards in animals and POAOs conducted by national initiatives, joint initiatives, and international institutions in Cambodia (2000 to 2022).</p>
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<p>Evidence of frequency of studies identified for different types of biological hazards in animals and POAOs in Cambodia from 2000 to 2022.</p>
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<p>Number of publications of biological hazards in animals and POAOs in Cambodia for different intervals from 2000 to 2022.</p>
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<p>Number of studies included in the systematic review in each province in Cambodia from 2000 to 2022 (the map of Cambodia with provinces was downloaded from <a href="http://Vemaps.com" target="_blank">Vemaps.com</a> (accessed on 17 December 2023).</p>
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<p>Evidence of the prevalence of different types of parasites in fish and fishery products.</p>
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<p>Evidence of parasite prevalence in fish and fishery products taken from three different points of sampling showing the significant difference between “nature” (a) and “market” (b).</p>
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12 pages, 1983 KiB  
Article
Metabolic Engineering of Komagataella phaffii for Xylose Utilization from Cellulosic Biomass
by Jongbeom Park, Sujeong Park, Grace Evelina, Sunghee Kim, Yong-Su Jin, Won-Jae Chi, In Jung Kim and Soo Rin Kim
Molecules 2024, 29(23), 5695; https://doi.org/10.3390/molecules29235695 - 2 Dec 2024
Viewed by 561
Abstract
Cellulosic biomass hydrolysates are rich in glucose and xylose, but most microorganisms, including Komagataella phaffii, are unable to utilize xylose effectively. To address this limitation, we engineered a K. phaffii strain optimized for xylose metabolism through the xylose oxidoreductase pathway and promoter [...] Read more.
Cellulosic biomass hydrolysates are rich in glucose and xylose, but most microorganisms, including Komagataella phaffii, are unable to utilize xylose effectively. To address this limitation, we engineered a K. phaffii strain optimized for xylose metabolism through the xylose oxidoreductase pathway and promoter optimization. A promoter library with varying strengths was used to fine-tune the expression levels of the XYL1, XYL2, and XYL3 genes, resulting in a strain with a strong promoter for XYL2 and weaker promoters for XYL1 and XYL3. This engineered strain exhibited superior growth, achieving 14 g cells/L and a maximal growth rate of 0.4 g cells/L-h in kenaf hydrolysate, outperforming a native strain by 17%. This study is the first to report the introduction of the xylose oxidoreductase pathway into K. phaffii, demonstrating its potential as an industrial platform for producing yeast protein and other products from cellulosic biomass. Full article
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<p>Expression of a heterologous xylose-metabolic pathway in <span class="html-italic">Komagataella phaffii</span> regulated by strong promoters, leading to the generation of the G-XYL-strong strain. (<b>a</b>) Cell density, (<b>b</b>) xylose consumption, (<b>c</b>) xylitol production, and (<b>d</b>) ethanol production were measured in YP medium containing 20 g/L xylose, at 30 °C and 130 rpm. The pathway genes (<span class="html-italic">XYL1</span>, <span class="html-italic">XYL2</span>, and <span class="html-italic">XYL3</span>) were derived from native xylose-fermenting yeast <span class="html-italic">Scheffersomyces stipitis</span>. These genes were expressed under the control of <span class="html-italic">K. phaffii</span> promoters, including <span class="html-italic">GAPDHp</span>, <span class="html-italic">ENO1p</span>, and <span class="html-italic">PET9p</span>. Data represent the mean ± standard deviation of three independent biological replicate, with error bars reflecting the observed variability.</p>
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<p>Optimization of a heterologous xylose-metabolic pathway in <span class="html-italic">Komagataella phaffii</span> using a promoter library. (<b>a</b>) Construction of promoter library by a random DNA assembly, and the optimized promoters identified from a best-growing isolate. (<b>b</b>) Enrichment of yeast library (<span class="html-italic">K. phaffii</span> GS115 with promoter library) on xylose by four consecutive sub-cultures, after which colonies were isolated for growth evaluation. Enrichment was performed in YP medium containing 200 g/L xylose supplemented with 200 μg/mL hygromycin B at 30 °C and 130 rpm.</p>
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<p>Confirmation of the optimized promoters for a heterologous xylose-metabolic pathway in <span class="html-italic">Komagataella phaffii</span>. The optimized promoters identified from a best-growing library isolate (#17) were identified, reconstructed, and introduced into wild-type <span class="html-italic">K. phaffii</span>, resulting in the G-XYL-opt strain. (<b>a</b>) Cell density, (<b>b</b>) xylose consumption, (<b>c</b>) xylitol production, and (<b>d</b>) ethanol production in YP medium containing 20 g/L xylose and 200 μg/mL hygromycin B at 30 °C and 130 rpm. Data represent the mean ± standard deviation of three independent biological replicate, with error bars reflecting the observed variability.</p>
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<p>Engineered <span class="html-italic">Komagataella phaffii</span> for the utilization of cellulosic biomass hydrolysates. Prototrophic <span class="html-italic">K. phaffii</span> X-33 strain was transformed with an empty vector (X-control: (<b>a</b>,<b>c</b>)) and the optimized xylose pathway (X-XYL-opt: (<b>b</b>,<b>d</b>)), respectively. Fermentations were performed in 10% (<span class="html-italic">w</span>/<span class="html-italic">w</span>) kenaf hydrolysates under two conditions: (<b>a</b>,<b>b</b>) without any organic nitrogen supplementation, and (<b>c</b>,<b>d</b>) supplemented with YP medium (1% yeast extract, 2% peptone) and 200 μg/mL hygromycin B. All fermentations were conducted at 30 °C and 130 rpm. Data represent the mean ± standard deviation of three independent biological replicate, with error bars reflecting the observed variability.</p>
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