cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.15061017
title: The ecology of interspecies recombination among the zoonotic bacterium Campylobacter

description: Horizontal gene transfer (HGT) can allow traits that have evolved in one bacterial species to transfer to another. This has potential to rapidly promote new adaptive trajectories such as zoonotic transfer or antimicrobial resistance. However, for this to occur requires gaps to align in barriers to recombination within a given time frame. Chief among these barriers is the physical separation of species with distinct ecologies in separate niches. Within the genus <i>Campylobacter </i>there are species with divergent ecologies, from rarely isolated single host specialists to multi-host generalist species that are among the most common global causes of human bacterial gastroenteritis. Here, by characterising these contrasting ecologies, we are able to quantify HGT among sympatric and allopatric species in natural populations. Analysing recipient and donor population ancestry among genomes from 30 <i>Campylobacter </i>species we show that cohabitation in the same host can lead to a 6-fold increase in HGT between species. This accounts for up to 30% of all SNPs within a given species and identifies highly recombinogenic genes with functions including host adaptation and antimicrobial resistance. As described in some animal and plant species, ecological factors are a major evolutionary force for speciation in bacteria and changes to the host landscape can promote partial convergence of distinct species through HGT.
DOI: 10.6084/m9.figshare.15061017.v1
title: The ecology of interspecies recombination among the zoonotic bacterium Campylobacter

description: Horizontal gene transfer (HGT) can allow traits that have evolved in one bacterial species to transfer to another. This has potential to rapidly promote new adaptive trajectories such as zoonotic transfer or antimicrobial resistance. However, for this to occur requires gaps to align in barriers to recombination within a given time frame. Chief among these barriers is the physical separation of species with distinct ecologies in separate niches. Within the genus <i>Campylobacter </i>there are species with divergent ecologies, from rarely isolated single host specialists to multi-host generalist species that are among the most common global causes of human bacterial gastroenteritis. Here, by characterising these contrasting ecologies, we are able to quantify HGT among sympatric and allopatric species in natural populations. Analysing recipient and donor population ancestry among genomes from 30 <i>Campylobacter </i>species we show that cohabitation in the same host can lead to a 6-fold increase in HGT between species. This accounts for up to 30% of all SNPs within a given species and identifies highly recombinogenic genes with functions including host adaptation and antimicrobial resistance. As described in some animal and plant species, ecological factors are a major evolutionary force for speciation in bacteria and changes to the host landscape can promote partial convergence of distinct species through HGT.
DOI: 10.5255/ukda-sn-855102
title: Forced Displacement and Ongoing Vulnerability to Disaster Risk in Colombia

description: Series of transcripts from semi-structured lifecourse interviews with households displaced by violence and subsequently exposed to risk from natural hazards in their places of resettlement. The qualitative data derives from four case studies situated within these areas: the city of Manizales, Caldas (24 interviews); the area Cazuca in Soacha, Cundinamarca (24 interviews); and the settlements Caimalito (26 interviews) and Esperanza Galicia (26 interviews) in Risaralda. The transcripts are in Spanish, and are anonymised (both personal details of interviewees and the names of the barrios in which they are located).
DOI: 10.5517/ccdc.csd.cc1jl2fm
title: CCDC 1417550: Experimental Crystal Structure Determination

description: Related Article: K. Manoj, Hiroki Takahashi, Hirohito Tsue, Rui Tamura|2016|CSD Communication|||
description: Related Article: Kochunnoonny Manoj, Hiroki Takahashi, Sekai Iwama, Rajesh G. Gonnade, Hirohito Tsue, Rui Tamura|2021|J.Mol.Struct.|1245|131073|doi:10.1016/j.molstruc.2021.131073
DOI: 10.5517/ccdc.csd.cc1jl2gn
title: CCDC 1417551: Experimental Crystal Structure Determination

description: Related Article: K. Manoj, Hiroki Takahashi, Hirohito Tsue, Rui Tamura|2016|CSD Communication|||
description: Related Article: Kochunnoonny Manoj, Hiroki Takahashi, Sekai Iwama, Rajesh G. Gonnade, Hirohito Tsue, Rui Tamura|2021|J.Mol.Struct.|1245|131073|doi:10.1016/j.molstruc.2021.131073
DOI: 10.5517/ccdc.csd.cc1zn3j8
title: CCDC 1836580: Experimental Crystal Structure Determination

description: Related Article: Hazem A. Ghabbour, yahia Mabkhot, Smaail Radi|2018|CSD Communication|||
description: Related Article: Khalid Karrouchi, Saad Fettach, El Hassane Anouar, Burak Tüzün, Smaail Radi, Abdulrahman I. Alharthi, Hazem A. Ghabbour, Yahia N. Mabkhot, My El Abbes Faouzi, M'hammed Ansar, Yann Garcia|2021|J.Mol.Struct.|1245|131067|doi:10.1016/j.molstruc.2021.131067
DOI: 10.5517/ccdc.csd.cc233dd1
title: CCDC 1939682: Experimental Crystal Structure Determination

description: Related Article: Weiyi Wang, Yibo Yu, Bao Cheng, Huayi Fang, Xue Zhang, Hui Qian, Shengming Ma|2021|Nat. Catal.|4|586|doi:10.1038/s41929-021-00643-9
DOI: 10.5517/ccdc.csd.cc233fd2
title: CCDC 1939713: Experimental Crystal Structure Determination

description: Related Article: Weiyi Wang, Yibo Yu, Bao Cheng, Huayi Fang, Xue Zhang, Hui Qian, Shengming Ma|2021|Nat. Catal.|4|586|doi:10.1038/s41929-021-00643-9
DOI: 10.34740/kaggle/dsv/2472794
title: 2021 World Population (updated daily)
DOI: 10.5281/zenodo.5141862
title: Impact of aortic angle on transcatheter aortic valve implantation outcome with Evolut-R, Portico, and Acurate-NEO

description: Dataset from Gorla R, De Marco F, Garatti A, Bianchi G, Popolo Rubbio A, Acerbi E, Casenghi M, Spagnolo P, Brambilla N, Testa L, Agnifili ML, Tusa M, Bedogni F. Impact of aortic angle on transcatheter aortic valve implantation outcome with Evolut-R, Portico, and Acurate-NEO. Catheter Cardiovasc Interv. 2021 Jan 1;97(1):E135-E145. doi: 10.1002/ccd.28957. Epub 2020 May 13. PMID: 32400068. <strong>Abstract</strong> <strong>Objectives: </strong>To investigate paravalvular leak (PVL) and devices success rates according to aortic angle (AA) in patients undergoing transcatheter aortic valve implantation (TAVI) with three new-generation self-expanding devices. <strong>Background: </strong>The impact of aortic angle (AA) on TAVI device success and PVL rates is controversial. <strong>Methods: </strong>This retrospective study included 392 patients submitted to TAVI for severe aortic stenosis with Portico, Evolut-R and Acurate-NEO, and available AA measurements at computed tomography (CT) angiography. AA was calculated from the implantation projection and was defined as the angle between the plane of aortic annulus and an ideal horizontal plane. Aorta was defined horizontal if AA&gt;57° (75th percentile). <strong>Results: </strong>In the horizontal group, the rates of moderate/severe PVL was higher in the Evolut-R group (20.8%), which was also characterized by a lower implant compared to that of Acurate-NEO, whereas device success was comparable among the three devices. AA was a significant predictor of moderate/severe PVLs (AUC 0.72, p = .002) only in the Evolut-R population. On multivariate analysis, calcium volume 850HU, bicuspid aortic valve, and implantation depth at the level of left coronary cusp were independent predictors of moderate/severe PVL. On univariate analysis in the horizontal aorta population, implantation depth was confirmed among the most significant predictors of moderate/severe PVL. <strong>Conclusions: </strong>Despite comparable device success rates, horizontal aorta represented a technical challenge only in the Evolut-R subgroup, which showed higher rates of moderate/severe PVL than Portico and Acurate-NEO, and was associated with a low implant.
DOI: 10.5281/zenodo.5141861
title: Impact of aortic angle on transcatheter aortic valve implantation outcome with Evolut-R, Portico, and Acurate-NEO

description: Dataset from Gorla R, De Marco F, Garatti A, Bianchi G, Popolo Rubbio A, Acerbi E, Casenghi M, Spagnolo P, Brambilla N, Testa L, Agnifili ML, Tusa M, Bedogni F. Impact of aortic angle on transcatheter aortic valve implantation outcome with Evolut-R, Portico, and Acurate-NEO. Catheter Cardiovasc Interv. 2021 Jan 1;97(1):E135-E145. doi: 10.1002/ccd.28957. Epub 2020 May 13. PMID: 32400068. <strong>Abstract</strong> <strong>Objectives: </strong>To investigate paravalvular leak (PVL) and devices success rates according to aortic angle (AA) in patients undergoing transcatheter aortic valve implantation (TAVI) with three new-generation self-expanding devices. <strong>Background: </strong>The impact of aortic angle (AA) on TAVI device success and PVL rates is controversial. <strong>Methods: </strong>This retrospective study included 392 patients submitted to TAVI for severe aortic stenosis with Portico, Evolut-R and Acurate-NEO, and available AA measurements at computed tomography (CT) angiography. AA was calculated from the implantation projection and was defined as the angle between the plane of aortic annulus and an ideal horizontal plane. Aorta was defined horizontal if AA&gt;57° (75th percentile). <strong>Results: </strong>In the horizontal group, the rates of moderate/severe PVL was higher in the Evolut-R group (20.8%), which was also characterized by a lower implant compared to that of Acurate-NEO, whereas device success was comparable among the three devices. AA was a significant predictor of moderate/severe PVLs (AUC 0.72, p = .002) only in the Evolut-R population. On multivariate analysis, calcium volume 850HU, bicuspid aortic valve, and implantation depth at the level of left coronary cusp were independent predictors of moderate/severe PVL. On univariate analysis in the horizontal aorta population, implantation depth was confirmed among the most significant predictors of moderate/severe PVL. <strong>Conclusions: </strong>Despite comparable device success rates, horizontal aorta represented a technical challenge only in the Evolut-R subgroup, which showed higher rates of moderate/severe PVL than Portico and Acurate-NEO, and was associated with a low implant.
DOI: 10.34740/kaggle/dsv/2472829
title: YouTube Trending Video Dataset (updated daily)
DOI: 10.25345/c5ck0s
title: MassIVE MSV000087895 - Endophytic fungi from Brazilian Pantanal
title: Extracts from the endothytic fungi Nigrospora sphaerica obtained from Pantanal
DOI: 10.6084/m9.figshare.15066756
title: Supplementary Material for: The Association of Sleep Habits and Advancing Age in Japanese Older Adults: Results from the National Center for Geriatrics and Gerontology Study of Geriatric Syndromes

description: <b><i>Background:</i></b> The association of sleep habits with “advancing age among older adults” is not fully understood. <b><i>Objectives:</i></b> The purpose of the present study was to examine the association of sleep habits with advancing age among community-dwelling older adults in Japan. <b><i>Methods:</i></b> A total of 18,005 older people (mean age: 73.2 ± 6.0 years; 8,070 men and 9,935 women) from the National Center for Geriatrics and Gerontology Study of Geriatric Syndromes were analyzed. Participants were asked in face-to-face interviews about the times they usually go to bed, fall asleep, wake-up, and get up. The amount of time spent in bed and self-reported sleep duration were then calculated from the differences between these times. As other parameters, the subjects were also asked about sleep latency, time spent in bed after waking up, number of nocturnal awakenings, and duration of napping in a typical day. <b><i>Results:</i></b> The results of the Jonckheere-Terpstra test showed that all sleep parameters shifted to an earlier time (going to bed, falling asleep, waking up, and getting out of bed), longer duration (sleep duration, time spent in bed, sleep latency, time spent in bed after waking up, and napping), or more nocturnal awakenings with advancing age (all <i>p</i> &lt; 0.01). Among the men, the time of waking up was not significantly associated with age, while among the women, the time of getting up was not significantly associated with age. <b><i>Conclusion:</i></b> These results from a large cohort show the age-related trends of sleep habits in community-dwelling older adults in Japan. Our results revealed that a longer duration and earlier timing of sleep are associated with advancing age.
DOI: 10.6084/m9.figshare.15066756.v1
title: Supplementary Material for: The Association of Sleep Habits and Advancing Age in Japanese Older Adults: Results from the National Center for Geriatrics and Gerontology Study of Geriatric Syndromes

description: <b><i>Background:</i></b> The association of sleep habits with “advancing age among older adults” is not fully understood. <b><i>Objectives:</i></b> The purpose of the present study was to examine the association of sleep habits with advancing age among community-dwelling older adults in Japan. <b><i>Methods:</i></b> A total of 18,005 older people (mean age: 73.2 ± 6.0 years; 8,070 men and 9,935 women) from the National Center for Geriatrics and Gerontology Study of Geriatric Syndromes were analyzed. Participants were asked in face-to-face interviews about the times they usually go to bed, fall asleep, wake-up, and get up. The amount of time spent in bed and self-reported sleep duration were then calculated from the differences between these times. As other parameters, the subjects were also asked about sleep latency, time spent in bed after waking up, number of nocturnal awakenings, and duration of napping in a typical day. <b><i>Results:</i></b> The results of the Jonckheere-Terpstra test showed that all sleep parameters shifted to an earlier time (going to bed, falling asleep, waking up, and getting out of bed), longer duration (sleep duration, time spent in bed, sleep latency, time spent in bed after waking up, and napping), or more nocturnal awakenings with advancing age (all <i>p</i> &lt; 0.01). Among the men, the time of waking up was not significantly associated with age, while among the women, the time of getting up was not significantly associated with age. <b><i>Conclusion:</i></b> These results from a large cohort show the age-related trends of sleep habits in community-dwelling older adults in Japan. Our results revealed that a longer duration and earlier timing of sleep are associated with advancing age.
DOI: 10.6084/m9.figshare.15066696
title: Supplementary Material for: Sarcopenic Obesity in Chronic Kidney Disease: Challenges in Diagnosis Using Different Diagnostic Criteria

description: <b><i>Objectives:</i></b> Obesity, muscle impairment (low muscle mass or strength), and sarcopenic obesity are present in chronic kidney disease (CKD) and are associated with worse clinical prognosis. However, the various existing definitions for these conditions make the diagnosis variable. The aim of the present study was to evaluate the agreement between diagnostic criteria for sarcopenic obesity and its components in CKD. <b><i>Subject and Methods:</i></b> 267 patients with CKD were included in the study. We assessed body composition by dual-energy X-ray absorptiometry and muscle function by handgrip strength (HGS) and adiposity by body mass index (BMI), waist circumference (WC), fat mass index (FMI), and percentage of FM. Diagnosis of muscle impairment was made by HGS, appendicular lean mass (ALM), and ALM index; obesity by BMI, WC, FMI, and %FM, and sarcopenic obesity was diagnosed by concomitant presence of muscle impairment and obesity. <b><i>Results:</i></b> Prevalence of muscle impairment varied from 11 to 50%, higher when low muscle mass criteria were used. Prevalence of obesity varied from 26 to 62%, higher when WC and %FM criteria were used. Prevalence of sarcopenic obesity varied from 2 to 23%. Women were more affected by sarcopenic obesity. Muscle impairment and sarcopenic obesity were more prevalent among patients on hemodialysis and obesity among nondialysis-dependent and kidney transplant patients. The agreement was poor between muscle mass and strength criteria; substantial between FMI, BMI, and %FM and fair between WC and the other measures; for sarcopenic obesity, it varied from poor to almost perfect. <b><i>Conclusion:</i></b> Significant differences were found among the various diagnostic criteria that are used in the diagnosis of sarcopenic obesity. Our results highlight the need for standardization in the diagnosis of sarcopenic obesity.
DOI: 10.6084/m9.figshare.7405694
title: Draft genome of the Chinese seabass (Lateolabrax maculatus)

description: Refined chromosome-level genome assembly of spotted sea bass (<i>Lateolabrax maculatus</i>). previous reference genome assembly was completed with high accuracy and contiguity at the scaffold level (GenBank accession: GCA_004028665.1). However, the obsolete software LACHESIS was used in processing the raw Hi-C data and chromosome-level scaffolding, which may have introduced sub-optimal orderings and orientations of scaffolds. We therefore re-assembled the reference genome at the chromosome level to correct potential assembly mistakes using the recently developed software 3D-DNA.
DOI: 10.6084/m9.figshare.7405694.v1
title: Draft genome of the Chinese seabass (Lateolabrax maculatus)

description: The Chinese seabass (<i>Lateolabrax maculatus</i>) is an euryhaline teleost fish native to the margin seas of the Northwest Pacific Ocean with broad distribution along the Chinese coast reaching the south most to the Indo-China Peninsula and the north most to the Bohai Gulf. The life history, distribution and other biological characters of <i>L. maculatus</i> provide us suitable fish model for population studies in continual marginal sea. <i>L. maculatus</i> is also one of the most important cultivated marine fish in China and contributes over 120,000 tons annually. Here, we report the first reference genome of <i>L. maculatus</i>. The draft genome of <i>L. maculatus</i> is 597.39 Mb in size, with a contig N50 size of 182.31 kb and a scaffold N50 size of 2.79 Mb. We have predicted a total of 23,657 protein-coding genes with an average of 9.75 exons per gene, and subsequently annotated 22,509 genes with preliminary function. We also identified approximately 17.66% of <i>L. maculatus</i> genome as repeats including 6.09% of DNA transposons, 4.99% of long interspersed nuclear elements (LINEs) and 2.31% of long terminal repeats (LTRs). The high-quality draft genome of <i>L. maculatus</i> provides a valuable genetic resource for population genetics, adaptive evolution and genetic breeding of this ecologically and economically important teleost fish.
DOI: 10.3886/e113970v1-92820
title: Replication data for: Mortality Inequality: The Good News from a County-Level Approach

description: In this essay, we ask whether the distributions of life expectancy and mortality have become generally more unequal, as many seem to believe, and we report some good news. Focusing on groups of counties ranked by their poverty rates, we show that gains in life expectancy at birth have actually been relatively equally distributed between rich and poor areas. Analysts who have concluded that inequality in life expectancy is increasing have generally focused on life expectancy at age 40 to 50. This observation suggests that it is important to examine trends in mortality for younger and older ages separately. Turning to an analysis of age-specific mortality rates, we show that among adults age 50 and over, mortality has declined more quickly in richer areas than in poorer ones, resulting in increased inequality in mortality. This finding is consistent with previous research on the subject. However, among children, mortality has been falling more quickly in poorer areas with the result that inequality in mortality has fallen substantially over time. We also show that there have been stunning declines in mortality rates for African Americans between 1990 and 2010, especially for black men. Finally we offer some hypotheses about causes for the results we see, including a discussion of differential smoking patterns by age and socioeconomic status.
DOI: 10.25345/c57v7z
title: MassIVE MSV000087896 - Endophytic fungi from Brazilian Pantanal
title: Extract from endophytic fungi of Nigrospora sphaerica obtained from a vegetal species of Pantanal
DOI: 10.5066/p91wdvz0
title: Evaluation of ELISA for the Analysis of Imidacloprid in Plasma, Liver, and Fecal Matter

description: Neonicotinoids have become the most widely used insecticides in world with rapid growth in applications as seed coatings. Nontarget organisms are exposed to concentrated levels of pesticidal active ingredients through ingestion of treated seeds. To better understand pesticide fate, analytical methods are necessary to rapidly screen and accurately quantitate contaminants in environmental and biological matrices. Liquid chromatography-tandem mass spectrometry (LC-MS/MS) is commonly employed for neonicotinoid analyses but requires expensive analytical instrumentation and potentially laborious sample preparation. Enzyme-linked immunosorbent assays (ELISAs) are efficient and sensitive alternative methods for neonicotinoid analyses, that does not require costly equipment. In this study, application of ELISA was compared to LC-MS/MS in the quantitation of imidacloprid in plasma, liver, and fecal matter from Japanese quail (Coturnix japonica) orally exposed to imidacloprid-treated wheat seeds. Two major imidacloprid metabolites, 5-OH-imidacloprid and imidacloprid-olefin, were found to cross-react within the immunoassay, confounding results. Imidacloprid concentrations from ELISA analysis ranged from 90.8-181 ng/mL, 7.90-40.4 ng/g, and 989-4404 ng/g in plasma, liver, and fecal matter, respectively. In comparison, LC-MS/MS imidacloprid concentrations ranged from 32.8-188 ng/mL for plasma, 18.7-116 ng/g for liver, and 51.3-427 ng/g for fecal matter. Imidacloprid concentrations determined by ELISA were generally higher in plasma and exceptionally higher in fecal matter compared to LC-MS/MS, Liver imidacloprid concentrations were higher when analyzed by LC-MS/MS. Good correlation was observed between imidacloprid concentrations determined in plasma (r2 = 0.93) and fecal matter (r2 = 0.89) by ELISA and LC-MS/MS, whereas a poor correlation (r2 = 0.35) was found in liver. In the analysis of these biological matrices, ELISA was found to be a good screening tool to measure active ingredients along with their metabolites. However, accurate quantitation should be completed with chromatographic based techniques such as LC-MS/MS.
DOI: 10.21227/qdst-pe30
title: Pulse Shrinking TDC 2ps resolution

description: This design is a Pulse Shrinking TDC with 2ps resolution, which is reduced to 7 CLBs.
DOI: 10.5517/ccdc.csd.cc26z8j0
title: CCDC 2054882: Experimental Crystal Structure Determination

description: Related Article: Jin Zhu, Austin C. Durham, Yidong Wang, James C. Corcoran, Xiao-Dong Zuo, Steven J. Geib, Yi-Ming Wang|2021|Organometallics|40|2295|doi:10.1021/acs.organomet.1c00032
DOI: 10.5517/ccdc.csd.cc279f88
title: CCDC 2064639: Experimental Crystal Structure Determination

description: Related Article: Philip Boehm, Tristano Martini, Yong Ho Lee, Bastien Cacherat, Bill Morandi|2021|Angew.Chem.,Int.Ed.|60|17211|doi:10.1002/anie.202103269
DOI: 10.5517/ccdc.csd.cc27f31v
title: CCDC 2068166: Experimental Crystal Structure Determination

description: Related Article: Huan Wang, Ji-Ming Yu, Ning Wang, Lu-Lu Xiao, Ji-Peng Yu, Qi Xu, Bing Zheng, Fang-Fang Cheng, Wei-Wei Xiong|2021|J.Solid State Chem.|300|122276|doi:10.1016/j.jssc.2021.122276
DOI: 10.5517/ccdc.csd.cc27f32w
title: CCDC 2068167: Experimental Crystal Structure Determination

description: Related Article: Huan Wang, Ji-Ming Yu, Ning Wang, Lu-Lu Xiao, Ji-Peng Yu, Qi Xu, Bing Zheng, Fang-Fang Cheng, Wei-Wei Xiong|2021|J.Solid State Chem.|300|122276|doi:10.1016/j.jssc.2021.122276