cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.17041181
title: Effects of Heat Stress on the Ruminal Epithelial Barrier of Dairy Cows revealed by Micromorphological Observation and Transcriptomic Analysis

description: Heat stress (HS) alters the rumen fermentation of dairy cows thereby affecting the metabolism of rumen papillae and thus the epithelial barrier function. The aim of the present study was to investigate if HS damage the barrier function of ruminal epithelia. Eight multiparous Holstein dairy cows with rumen cannula were randomly equally allocated to two replicates (n=4), with each replicate being subjected to heat stress (HS) or thermal neutrality and pair-feeding (PFTN) in four environmental chambers. Compared with PFTN, HS raised respiration rate (by 2.65-fold), rectal temperature (by 1.33°C), and skin temperature (by 4.59°C) but decreased milk yield (by 34.22%) and content of milk protein (by 10.44%). Additionally, HS increased the concentrations of total volatile fatty acids (by 31.60%), acetate (by 39.51%), propionate (by 47.29%), and valerate (by 61.54%). Micromorphological observation showed that HS aggravated the shedding of the corneum and destroyed the physical barrier of the ruminal epithelium to certain extent. Transcriptomics analysis of the rumen papillae using the KEEG database revealed upregulation of 238 genes downregulation of 263 (<i>P</i><sub>adj</sub> ≤ 0.05) by HS, including the pathways associated with DNA replication and repair and amino acid metabolism. Transcriptomic analysis using the Database for Annotation, Visualization and Integrated Discovery (DAVID) showed that the biological processes related to sister chromatid segregation, double-strand break repair, meiotic nuclear division, etc. were also up-regulated by HS, while the MAPK and NF-kB cell signaling pathways were downregulated. However, no heat stress-specific change in the expression of tight junction protein or TLR4 signaling was found in the rumen papillae. These data suggest that HS negatively affected the physical barrier of the ruminal epithelium to some extent but did not break the ruminal epithelium. Heat stress invoked mechanisms to maintain the integrity of the rumen epithelial barrier by upregulating the expression of heat shock protein and repairments in rumen papillae. The increase in amino acid metabolism in rumen papillae might affect the nutrient utilization of the whole body in dairy cows. The findings of this study may inform future research to better understand how heat stress affects the physiology and productivity of lactating cows and the development of mitigation strategies.
DOI: 10.6084/m9.figshare.17041181.v1
title: Effects of Heat Stress on the Ruminal Epithelial Barrier of Dairy Cows revealed by Micromorphological Observation and Transcriptomic Analysis

description: Heat stress (HS) alters the rumen fermentation of dairy cows thereby affecting the metabolism of rumen papillae and thus the epithelial barrier function. The aim of the present study was to investigate if HS damage the barrier function of ruminal epithelia. Eight multiparous Holstein dairy cows with rumen cannula were randomly equally allocated to two replicates (n=4), with each replicate being subjected to heat stress (HS) or thermal neutrality and pair-feeding (PFTN) in four environmental chambers. Compared with PFTN, HS raised respiration rate (by 2.65-fold), rectal temperature (by 1.33°C), and skin temperature (by 4.59°C) but decreased milk yield (by 34.22%) and content of milk protein (by 10.44%). Additionally, HS increased the concentrations of total volatile fatty acids (by 31.60%), acetate (by 39.51%), propionate (by 47.29%), and valerate (by 61.54%). Micromorphological observation showed that HS aggravated the shedding of the corneum and destroyed the physical barrier of the ruminal epithelium to certain extent. Transcriptomics analysis of the rumen papillae using the KEEG database revealed upregulation of 238 genes downregulation of 263 (<i>P</i><sub>adj</sub> ≤ 0.05) by HS, including the pathways associated with DNA replication and repair and amino acid metabolism. Transcriptomic analysis using the Database for Annotation, Visualization and Integrated Discovery (DAVID) showed that the biological processes related to sister chromatid segregation, double-strand break repair, meiotic nuclear division, etc. were also up-regulated by HS, while the MAPK and NF-kB cell signaling pathways were downregulated. However, no heat stress-specific change in the expression of tight junction protein or TLR4 signaling was found in the rumen papillae. These data suggest that HS negatively affected the physical barrier of the ruminal epithelium to some extent but did not break the ruminal epithelium. Heat stress invoked mechanisms to maintain the integrity of the rumen epithelial barrier by upregulating the expression of heat shock protein and repairments in rumen papillae. The increase in amino acid metabolism in rumen papillae might affect the nutrient utilization of the whole body in dairy cows. The findings of this study may inform future research to better understand how heat stress affects the physiology and productivity of lactating cows and the development of mitigation strategies.
DOI: 10.5281/zenodo.5757217
title: Complementary molecular and visual sampling of fish on oil and gas platforms provides superior biodiversity characterisation

description: Raw data output from Fish and Elasmobranch surveys on oil platforms in the Gulf of Thailand
DOI: 10.5281/zenodo.5757216
title: Complementary molecular and visual sampling of fish on oil and gas platforms provides superior biodiversity characterisation

description: Raw data output from Fish and Elasmobranch surveys on oil platforms in the Gulf of Thailand
DOI: 10.6084/m9.figshare.13341248
title: Explaining Structural Difference between the Eastern and Western Zones of the Qiongdongnan Basin, Northern South China Sea: Insights from Scaled Physical Models

description: The western and eastern zones of the Qiongdongnan Basin (China) show clear contrasts in sub-basin distribution, fault orientation, and structural styles. Generally, pre-existing structures are considered to control such differences, i.e., NE-striking main faults in the western zone underwent orthogonal stretching, while E–W- and NE-striking faults in the eastern zone underwent oblique stretching. In addition to the influence of the pre-existing structures, we suggest that depth-dependent stretching controlled by the strength of the lower crust together with a change in extension direction may also affect the structural differences of the western and eastern Qiongdongnan Basin. In this study, we use physical analog modeling to explain the structural differences between the eastern and western zones of the Qiongdongnan Basin with the main variables being the strength of the lower crust and a change in extension direction. The model with weak lower crust is successful in accounting for the observed first-order structural characteristics of this basin. This finding indicates that the rift formation is depth-dependent and controlled by the orientation of the velocity discontinuities (VDs) and thus the extension direction. Experiment with a change of the extensional direction and weak lower crust reveal that the pre-existing VDs mainly control the structural belts’ location and fault strikes; some minor structures (late features) respond to the extension change, whereas the main faults are inherited and developed from the previous stage of deformation. <br><br>
DOI: 10.6084/m9.figshare.13341248.v1
title: Explaining Structural Difference between the Eastern and Western Zones of the Qiongdongnan Basin, Northern South China Sea: Insights from Scaled Physical Models

description: The western and eastern zones of the Qiongdongnan Basin (China) show clear contrasts in sub-basin distribution, fault orientation, and structural styles. Generally, pre-existing structures are considered to control such differences, i.e., NE-striking main faults in the western zone underwent orthogonal stretching, while E–W- and NE-striking faults in the eastern zone underwent oblique stretching. In addition to the influence of the pre-existing structures, we suggest that depth-dependent stretching controlled by the strength of the lower crust together with a change in extension direction may also affect the structural differences of the western and eastern Qiongdongnan Basin. In this study, we use physical analog modeling to explain the structural differences between the eastern and western zones of the Qiongdongnan Basin with the main variables being the strength of the lower crust and a change in extension direction. The model with weak lower crust is successful in accounting for the observed first-order structural characteristics of this basin. This finding indicates that the rift formation is depth-dependent and controlled by the orientation of the velocity discontinuities (VDs) and thus the extension direction. Experiment with a change of the extensional direction and weak lower crust reveal that the pre-existing VDs mainly control the structural belts’ location and fault strikes; some minor structures (late features) respond to the extension change, whereas the main faults are inherited and developed from the previous stage of deformation. <br><br>
DOI: 10.15151/esrf-es-536300121
title: BAG BARCELONA

description: BAG Barcelona is constituted by 9 groups that belong to the Institute of Molecular Biology Barcelona from the Spanish Research Council (IBMB-CSIC), the Institute for Research in Biomedicine (IRB), and the Research Institute from Hospital Santa Creu i Sant Pau (HSCSP-IR). The main subjects of research are protein/DBA complexes, molecular machines, compounds of viruses, and the molecular mechanisms of proteases and other enzymes. Our Scientific results strongly rely on the high quality data and excellent performance and support of ESRF macromolecular crystallography beamlines.
DOI: 10.15151/esrf-es-541100365
title: Structural Biology BAG - Portugal

description: The Portuguese MX BAG includes 13 PIs from three different institutions. Our research interests include soluble and membrane proteins of biomedical interest from humans or pathogenic organisms, many of which can be drug targets. Focus is also given to structural enzymology, aimed at the elucidation of reaction mechanisms, active sites, and inhibition tolerance in proteins with potential biotechnology applications. In several cases, complementary structural biology approaches are being used, combining MX with SAXS and, more recently, CryoEM.
DOI: 10.15151/esrf-es-541146231
title: Heidelberg BAG (HeidelBAG)

description: The HeidelBAG unifies structural efforts of the EMBL, the Heidelberg University Biochemistry Center (BZH), and the German Cancer Research Center (DKFZ). Central to all projects are large assemblies involved in chromosome organization and transcription control, in nuclear and cytoplasmic RNA regulation, in translational control as ribosome associated factors or further on in protein targeting, membrane protein insertion or post-translational modification. As new members, Mandy Jeske from BZH adds projects on early embryonic development in Drosophila and Erec Stebbins from DKFZ on immune evasion of the African trypanosome T. brucei. Nearly all projects make use of integrated structural biology techniques (MX, SAXS/SANS, NMR, cryo-EM) combined with complementary biophysical, biochemical and cell biological approaches, a strategy that warrantied the continuous success of the BAG. More and more pathological implications of the studied central cellular processes come into focus.
DOI: 10.15151/esrf-es-541451752
title: Structural Studies of Membrane and Soluble Proteins from the Gothenburg and Lund Structural Biology Groups

description: Our BAG combines the research interests of the Principal Investigators based in Gothenburg (Brändén, Burmann, Hedfalk, Gallego, Höög, Johansson, Katona, Neutze, Westenhoff) and in Lund (Gourdon, , Krintel, Lindkvist, Logan, Törnroth-Horsefield). Most of the PIs are relatively young and represent a strong cluster within Swedish life-science research. We use diverse methods including cryo-crystallography, serial crystallography, X-ray scattering and cryo-electron microscopy. We have scientific interests in a diverse sample of membrane protein and soluble protein targets. This is the first time that we used the BAG structure to request access to the electron microscopy facilities of the ESRF. We also wish to collaborate with scientists at the ESRF to promote and diversify the field of serial millisecond crystallography.
DOI: 10.15151/esrf-es-542597810
title: The Netherlands BAG
DOI: 10.15151/esrf-es-584035356
title: High resolution powder diffraction of proteins associated with pharmaceutical interest.

description: The current proposal focuses on the structural determination via XRPD of nano/micro-crystalline proteins and complexes associated with diseases and epidemics, which are or will become a threat to public health. XRPD allows for studies of low quality crystals, polymorph screening and time-resolved studies. The proteins that we will study are: (a) Microcrystalline protein drugs against diabetes: Insulin-ligand complexes & insulin analogues for improving drug delivery & formulation. (b) Target proteins of newly emerging viruses for drug design. Concerning drug delivery, microcrystalline samples will be produced and characterized upon variation of their physicochemical environment. We focus on pH, humidity and oxidative stress mimicking in vivo conditions.
DOI: 10.5517/ccdc.csd.cc25kqm3
title: CCDC 2013035: Experimental Crystal Structure Determination

description: Related Article: Yi‐Zhong Shi, Kai Wang, Shao‐Li Zhang, Xiao‐Chun Fan, Youichi Tsuchiya, Yi‐Ting Lee, Gao‐Le Dai, Jia‐Xiong Chen, Cai‐Jun Zheng, Shi‐Yun Xiong, Xue‐Mei Ou, Jia Yu, Jian‐Sheng Jie, Chun‐Sing Lee, Chihaya Adachi, Xiao‐Hong Zhang|2021|Angew.Chem.,Int.Ed.|60|25878|doi:10.1002/anie.202108943
DOI: 10.5517/ccdc.csd.cc25kqn4
title: CCDC 2013036: Experimental Crystal Structure Determination

description: Related Article: Yi‐Zhong Shi, Kai Wang, Shao‐Li Zhang, Xiao‐Chun Fan, Youichi Tsuchiya, Yi‐Ting Lee, Gao‐Le Dai, Jia‐Xiong Chen, Cai‐Jun Zheng, Shi‐Yun Xiong, Xue‐Mei Ou, Jia Yu, Jian‐Sheng Jie, Chun‐Sing Lee, Chihaya Adachi, Xiao‐Hong Zhang|2021|Angew.Chem.,Int.Ed.|60|25878|doi:10.1002/anie.202108943
DOI: 10.5517/ccdc.csd.cc26c3wl
title: CCDC 2036479: Experimental Crystal Structure Determination

description: Related Article: Michael J. Tilby, Damien F. Dewez, Adrian Hall, Carolina Martínez Lamenca, Michael C. Willis|2021|Angew.Chem.,Int.Ed.|60|25680|doi:10.1002/anie.202109160
DOI: 10.5517/ccdc.csd.cc26c3xm
title: CCDC 2036480: Experimental Crystal Structure Determination

description: Related Article: Michael J. Tilby, Damien F. Dewez, Adrian Hall, Carolina Martínez Lamenca, Michael C. Willis|2021|Angew.Chem.,Int.Ed.|60|25680|doi:10.1002/anie.202109160
DOI: 10.5517/ccdc.csd.cc27j701
title: CCDC 2071172: Experimental Crystal Structure Determination

description: Related Article: Zi-Qi Hu, Xiang Li, Li-Xia Liu, Chang-Bin Yu, Yong-Gui Zhou|2021|J.Org.Chem.|86|17453|doi:10.1021/acs.joc.1c02156
DOI: 10.5517/ccdc.csd.cc27v3y5
title: CCDC 2080687: Experimental Crystal Structure Determination

description: Related Article: Jingyu Zhang, Wei Xia, Meilin Qu, Saskia Huda, Jas S. Ward, Kari Rissanen, Markus Albrecht|2021|Eur.J.Org.Chem.|2021|6097|doi:10.1002/ejoc.202101191
DOI: 10.5517/ccdc.csd.cc27v3z6
title: CCDC 2080688: Experimental Crystal Structure Determination

description: Related Article: Jingyu Zhang, Wei Xia, Meilin Qu, Saskia Huda, Jas S. Ward, Kari Rissanen, Markus Albrecht|2021|Eur.J.Org.Chem.|2021|6097|doi:10.1002/ejoc.202101191
DOI: 10.5517/ccdc.csd.cc27v408
title: CCDC 2080689: Experimental Crystal Structure Determination

description: Related Article: Jingyu Zhang, Wei Xia, Meilin Qu, Saskia Huda, Jas S. Ward, Kari Rissanen, Markus Albrecht|2021|Eur.J.Org.Chem.|2021|6097|doi:10.1002/ejoc.202101191
DOI: 10.5517/ccdc.csd.cc27v419
title: CCDC 2080690: Experimental Crystal Structure Determination

description: Related Article: Jingyu Zhang, Wei Xia, Meilin Qu, Saskia Huda, Jas S. Ward, Kari Rissanen, Markus Albrecht|2021|Eur.J.Org.Chem.|2021|6097|doi:10.1002/ejoc.202101191
DOI: 10.5517/ccdc.csd.cc27v42b
title: CCDC 2080691: Experimental Crystal Structure Determination

description: Related Article: Jingyu Zhang, Wei Xia, Meilin Qu, Saskia Huda, Jas S. Ward, Kari Rissanen, Markus Albrecht|2021|Eur.J.Org.Chem.|2021|6097|doi:10.1002/ejoc.202101191
DOI: 10.5517/ccdc.csd.cc2847xl
title: CCDC 2089459: Experimental Crystal Structure Determination

description: Related Article: Aleksandra Kieliszek, Maura Malinska|2021|Cryst.Growth Des.|21|6862|doi:10.1021/acs.cgd.1c00773
DOI: 10.5517/ccdc.csd.cc2847ym
title: CCDC 2089460: Experimental Crystal Structure Determination

description: Related Article: Aleksandra Kieliszek, Maura Malinska|2021|Cryst.Growth Des.|21|6862|doi:10.1021/acs.cgd.1c00773
DOI: 10.5517/ccdc.csd.cc28690t
title: CCDC 2091415: Experimental Crystal Structure Determination

description: Related Article: Da-Ping Jin, Zhu-Peng Gao, Lin Liu, Shi-Qi Cao, Xue-Tao Xu, Xue-Wei Hou, Tian-Lu Zheng, Li-Ming Jiang, Dao-Yong Zhu, Shao-Hua Wang|2021|Org.Lett.|23|8843|doi:10.1021/acs.orglett.1c03353
DOI: 10.5517/ccdc.csd.cc286cgb
title: CCDC 2091491: Experimental Crystal Structure Determination

description: Related Article: Michael J. Tilby, Damien F. Dewez, Adrian Hall, Carolina Martínez Lamenca, Michael C. Willis|2021|Angew.Chem.,Int.Ed.|60|25680|doi:10.1002/anie.202109160
DOI: 10.5517/ccdc.csd.cc286frp
title: CCDC 2091562: Experimental Crystal Structure Determination

description: Related Article: Wenqing Xu, Lauren E. Brown, John A. Porco, Jr.|2021|J.Org.Chem.|86|16485|doi:10.1021/acs.joc.1c01848
DOI: 10.5517/ccdc.csd.cc2847sg
title: CCDC 2089455: Experimental Crystal Structure Determination

description: Related Article: Aleksandra Kieliszek, Maura Malinska|2021|Cryst.Growth Des.|21|6862|doi:10.1021/acs.cgd.1c00773
DOI: 10.5517/ccdc.csd.cc2847rf
title: CCDC 2089454: Experimental Crystal Structure Determination

description: Related Article: Aleksandra Kieliszek, Maura Malinska|2021|Cryst.Growth Des.|21|6862|doi:10.1021/acs.cgd.1c00773
DOI: 10.6084/m9.figshare.16786099.v2
title: Patients and Family Members Perspectives on The Use of Bedside Whiteboard and Its Implication to Treatment Outcomes and Patient Satisfaction: A Pilot Survey in General and Tertiary Hospitals in Makkah, Saudi Arabia

description: <sup>Effective communication between the members of the healthcare team and the patient and families are essential components for patient-centered care, it improves patient outcomes. Likewise, poor communication between healthcare team members and the patient and families is associated with poor patient outcomes. Due to several communication challenges, the use of visual tools such as bedside whiteboard to enhance communication has been widely implemented; however, the exact benefit of its use from patient perspective is still understudied. Thus, this study aims to determine the impact of bedside whiteboard use in facilitating patient’s involvement to achieving goal the day’s goal, adherence to pain medication schedule and use, tests and procedures schedule, patients and family engagement with the healthcare team, and discharge planning. This study is a descriptive cross-sectional study conducted among 335 patients and/or family members admitted in six hospitals in Makkah city: Al Noor hospital, Hera hospital, King Abdul-Aziz hospital, King Abdullah Medical City, King Faisal specialist hospital, and Maternity and Children hospital. The survey questionnaire used was adapted from previous studies and revalidated to ensure its suitability to the study subjects. Data collection was performed from August 1 to 31, 2020 and data analysis was done with SPSS software. Of the 335 participants, majority were satisfied to bedside white board for its use (4.36), and they recommend it to be used in hospitals because they perceived that through this medium of communication, their connection with the healthcare team will be easier (4.35). In regression analysis, the day’s goal and patient and/or family engagement are found to be the significant predictors of patient’s satisfaction level. Therefore, whiteboard is a useful tool to help patients achieve their daily goals and to improve their engagement with the healthcare team which also impacts on patient satisfaction. This study was approved by the Institutional Review Board of King Abdullah Medical City, Makkah, Saudi Arabia. All patients and relatives who agreed to participate in the online survey, completely filled-in and submit the survey questionnaire was accepted as implied consent. All information. Data entered into the Microsoft Excel®️ and SPSS was coded and rendered anonymous as to patient identity. All collected information relative to the patient's identity is considered confidential.</sup><br>
DOI: 10.5281/zenodo.5758480
title: A consistency evaluation of marine aquaculture with marine spatial planning by remote sensing and GIS

description: This study used multi-phase satellite remote sensing images of Shandong Province and an automatic extraction algorithm for aquaculture to obtain aquaculture spatial distribution data. GIS spatial overlay analysis technology was used to superimpose marine functional zoning (2010–2020) data for comparative analysis to evaluate implementation effectiveness and existing problems in marine functional zoning.
DOI: 10.5281/zenodo.5758479
title: A consistency evaluation of marine aquaculture with marine spatial planning by remote sensing and GIS

description: This study used multi-phase satellite remote sensing images of Shandong Province and an automatic extraction algorithm for aquaculture to obtain aquaculture spatial distribution data. GIS spatial overlay analysis technology was used to superimpose marine functional zoning (2010–2020) data for comparative analysis to evaluate implementation effectiveness and existing problems in marine functional zoning.
DOI: 10.5281/zenodo.5758484
title: Cyclotron resonance overtones and near-field magnetoabsorption via terahertz Bernstein modes in graphene

description: Data from Fig. 1, Fig. 2, and Fig. 3 of the main text.
DOI: 10.5281/zenodo.5758483
title: Cyclotron resonance overtones and near-field magnetoabsorption via terahertz Bernstein modes in graphene

description: Data from Fig. 1, Fig. 2, and Fig. 3 of the main text.
DOI: 10.5517/ccdc.csd.cc2847wk
title: CCDC 2089458: Experimental Crystal Structure Determination

description: Related Article: Aleksandra Kieliszek, Maura Malinska|2021|Cryst.Growth Des.|21|6862|doi:10.1021/acs.cgd.1c00773
DOI: 10.5517/ccdc.csd.cc28nv2w
title: CCDC 2105398: Experimental Crystal Structure Determination

description: Related Article: Shinya Tajima, Atsuya Muranaka, Masaya Naito, Noriho Taniguch, Mei Harada, Shinobu Miyagawa, Masahiro Ueda, Hikaru Takaya, Nagao Kobayashi, Masanobu Uchiyama, Yuji Tokunaga|2021|Org.Lett.|23|8678|doi:10.1021/acs.orglett.1c02983
DOI: 10.5281/zenodo.5758356
title: Response of East Asian Precipitation to Precessional Orbital Forcing during Glacials –Sensitivity to Model Spatial Resolution

description: Output data (precipitation, wind vector, etc) from three resolution experiments (F19,F09,F05) . LGM means Last glacial maximum. cntl means control run(21ka), HighSolin means the orbital year modified to 174ka. Please see more in the publication.
DOI: 10.5281/zenodo.5758355
title: Response of East Asian Precipitation to Precessional Orbital Forcing during Glacials –Sensitivity to Model Spatial Resolution

description: Output data (precipitation, wind vector, etc) from three resolution experiments (F19,F09,F05) . LGM means Last glacial maximum. cntl means control run(21ka), HighSolin means the orbital year modified to 174ka. Please see more in the publication.
DOI: 10.34740/kaggle/dsv/2885050
title: AutoXGB