cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.5039183.v3
title: A combined morphological and molecular approach to <i>Nitzschia varelae</i> sp. nov., with discussion of symmetry in Bacillariaceae

description: A previously unknown member of the Bacillariaceae was discovered almost simultaneously in four different brackish coastal wetlands on the Atlantic and Mediterranean coasts of the Iberian Peninsula. It appears to tolerate a wide range of salinities but was never common in samples where it occurred. The frustules were consistently hantzschioid (i.e. with the raphe systems always on the same side of the frustule) and the valve outline was asymmetrical about the apical plane, two features that have until recently been considered characteristic of <i>Hantzschia</i>. Molecular phylogenies based on <i>rbc</i>L and LSU rDNA indicated, however, that the new species does not belong in <i>Hantzschia</i> but among the several disparate lineages that comprise the paraphyletic genus <i>Nitzschia</i>. This finding, coupled with the recent discovery of other diatoms with constant hantzschioid symmetry but with a morphology very similar to the type species of <i>Nitzschia</i>, is discussed in relation to the status and characterization of <i>Hantzschia</i> as an independent genus. It is concluded that, while a core of hantzschioid species may exist that can be classified together, corresponding to the traditional understanding of the genus <i>Hantzschia</i>, there is no single morphological feature common to all of them that can be used to diagnose the group and differentiate it from the various hantzschioid lineages that are separate from true <i>Hantzschia</i> and currently placed in e.g. <i>Nitzschia</i> or <i>Cymbellonitzschia</i>. Testing whether a hantzschioid species does or does not belong to <i>Hantzschia</i> will in many cases require molecular evidence. Although the new coastal species does not belong to the same lineage as the type species of <i>Nitzschia, N. sigmoidea</i>, it is described for the moment as <i>N. varelae</i> Carballeira, D.G. Mann & Trobajo, <i>sp. nov</i>., until there is a better understanding of generic limits in the Bacillariaceae following a wider molecular and morphological survey of that family.
DOI: 10.6084/m9.figshare.5039150.v1
title: Anisotropy of magnetic susceptibility of the Pyrenean granites

description: In this paper, we report on a compilation of more than 2200 sites (more than 10,000 individual measurements) where anisotropy of magnetic susceptibility (AMS) was studied in granites from the Variscan Pyrenees. The standardization and homogenization of this information has allowed us to produce three Main Maps that synthesize all the information related with the AMS of the Pyrenean granites. We also describe the problems found during the construction of the database (variable geo-positioning, different published information, etc.). The information derived from 21 granite bodies, the database, and the synthesis maps (magnetic susceptibility, Km, and the orientation of the magnetic foliation, plane perpendicular to k3, and of the magnetic lineation, k1) allow us to see for the first time a complete image of this important kinematic and petrographic indicator.
DOI: 10.6084/m9.figshare.5039183.v2
title: A combined morphological and molecular approach to <i>Nitzschia varelae</i> sp. nov., with discussion of symmetry in Bacillariaceae

description: A previously unknown member of the Bacillariaceae was discovered almost simultaneously in four different brackish coastal wetlands on the Atlantic and Mediterranean coasts of the Iberian Peninsula. It appears to tolerate a wide range of salinities but was never common in samples where it occurred. The frustules were consistently hantzschioid (i.e. with the raphe systems always on the same side of the frustule) and the valve outline was asymmetrical about the apical plane, two features that have until recently been considered characteristic of <i>Hantzschia</i>. Molecular phylogenies based on <i>rbc</i>L and LSU rDNA indicated, however, that the new species does not belong in <i>Hantzschia</i> but among the several disparate lineages that comprise the paraphyletic genus <i>Nitzschia</i>. This finding, coupled with the recent discovery of other diatoms with constant hantzschioid symmetry but with a morphology very similar to the type species of <i>Nitzschia</i>, is discussed in relation to the status and characterization of <i>Hantzschia</i> as an independent genus. It is concluded that, while a core of hantzschioid species may exist that can be classified together, corresponding to the traditional understanding of the genus <i>Hantzschia</i>, there is no single morphological feature common to all of them that can be used to diagnose the group and differentiate it from the various hantzschioid lineages that are separate from true <i>Hantzschia</i> and currently placed in e.g. <i>Nitzschia</i> or <i>Cymbellonitzschia</i>. Testing whether a hantzschioid species does or does not belong to <i>Hantzschia</i> will in many cases require molecular evidence. Although the new coastal species does not belong to the same lineage as the type species of <i>Nitzschia, N. sigmoidea</i>, it is described for the moment as <i>N. varelae</i> Carballeira, D.G. Mann & Trobajo, <i>sp. nov</i>., until there is a better understanding of generic limits in the Bacillariaceae following a wider molecular and morphological survey of that family.
DOI: 10.6084/m9.figshare.5039141.v2
title: Phenotypic variation in root development of 162 soybean accessions under hypoxia condition at the seedling stage

description: Soybean is often damaged by hypoxia caused by waterlogging at the seedling stage. Hypoxia severely inhibits root development and retards plant growth. We aimed to clarify phenotypic variation in root development under hypoxia condition at the seedling stage using diverse soybean accessions. Root development in 162 accessions was evaluated in hydroponic culture. Substantial changes under hypoxia were investigated by means of WinRHIZO analysis before and after the treatment. We found significant phenotypic variation in hypoxia tolerance in root among the 162 accessions. A principal components analysis indicated an association between hypoxia tolerance and the country of origin. We found three new accessions which have a high ability to develop roots under hypoxia (Kokubu 7, Maetsue zairai 90B, and Yahagi). Root development in selected accessions was also evaluated in soil culture. Root development levels in hydroponic and soil culture were significantly correlated. These results will provide important information on waterlogging damage in regions where waterlogging occurs. The three accessions with hypoxia-tolerant roots might be useful for genetic improvement of waterlogging tolerance of modern soybean varieties.
DOI: 10.6084/m9.figshare.5039126
title: Unravelling the complexity of salt marsh ‘<i>Fucus cottonii</i>’ forms (Phaeophyceae, Fucales)

description: Genetic affiliation, nuclear DNA content, and gamete functioning were examined in small salt marsh <i>Fucus</i> from three localities in western Ireland. Individuals with small and dioecious receptacles were found at all localities, but production of germlings was only evident at Locality 1. Here, the <i>Fucus</i> vegetation formed a morphological cline from <i>F. vesiculosus</i> with bladders in the mid-intertidal to small <i>Fucus</i> individuals lacking bladders in the salt marsh of the upper intertidal. Measurements of nuclear DNA content ranged from 1–1.8 pg at this locality, with <i>F. vesiculosus</i> individuals in the lower range. At the two other localities, the small salt marsh <i>Fucus</i> consisted of distinct morphological entities. Microsatellite analyses revealed that individuals at Locality 2 were derived mainly from <i>F. vesiculosus</i>, whereas those from Locality 3 were hybrids between <i>F. vesiculosus</i> and <i>F. spiralis</i> with greatest affiliation to <i>F. spiralis</i>. While the small salt marsh <i>Fucus</i> forms from Locality 2 had high nuclear DNA content (<i>c</i>. 4 pg) and were probably octoploids, the small salt marsh <i>Fucus</i> from Locality 3 formed two groups: one with high (3.9–4.6 pg) and one with low (1.5–1.9 pg) nuclear DNA content. Nuclear DNA content measured in individuals from Locality 3 varied between 1.1–2.8 pg in <i>F. vesiculosus</i> and 2–3.5 pg in <i>F. spiralis</i>, and showed a more or less stepwise increase in both species, consistent with polyploidy. We hypothesize that the small salt marsh <i>Fucus</i> forms originate from genome size changes in the parental taxa.
DOI: 10.6084/m9.figshare.5039126.v2
title: Unravelling the complexity of salt marsh ‘<i>Fucus cottonii</i>’ forms (Phaeophyceae, Fucales)

description: Genetic affiliation, nuclear DNA content, and gamete functioning were examined in small salt marsh <i>Fucus</i> from three localities in western Ireland. Individuals with small and dioecious receptacles were found at all localities, but production of germlings was only evident at Locality 1. Here, the <i>Fucus</i> vegetation formed a morphological cline from <i>F. vesiculosus</i> with bladders in the mid-intertidal to small <i>Fucus</i> individuals lacking bladders in the salt marsh of the upper intertidal. Measurements of nuclear DNA content ranged from 1–1.8 pg at this locality, with <i>F. vesiculosus</i> individuals in the lower range. At the two other localities, the small salt marsh <i>Fucus</i> consisted of distinct morphological entities. Microsatellite analyses revealed that individuals at Locality 2 were derived mainly from <i>F. vesiculosus</i>, whereas those from Locality 3 were hybrids between <i>F. vesiculosus</i> and <i>F. spiralis</i> with greatest affiliation to <i>F. spiralis</i>. While the small salt marsh <i>Fucus</i> forms from Locality 2 had high nuclear DNA content (<i>c</i>. 4 pg) and were probably octoploids, the small salt marsh <i>Fucus</i> from Locality 3 formed two groups: one with high (3.9–4.6 pg) and one with low (1.5–1.9 pg) nuclear DNA content. Nuclear DNA content measured in individuals from Locality 3 varied between 1.1–2.8 pg in <i>F. vesiculosus</i> and 2–3.5 pg in <i>F. spiralis</i>, and showed a more or less stepwise increase in both species, consistent with polyploidy. We hypothesize that the small salt marsh <i>Fucus</i> forms originate from genome size changes in the parental taxa.
DOI: 10.6084/m9.figshare.5039084
title: Functional capacities of Polish adults of 60–87 years and risk of losing functional independence

description: <b>Aim:</b> To characterise the functional capacities of Polish men and women aged 60–87 years and evaluate their status relative to criteria for functional independence. <b>Subjects and methods:</b> Four hundred and thirty-one women and 125 men, aged 60–87 years, who were residents of Wrocław, southwestern Poland, were recruited. Height and weight were measured and BMI was calculated. The Fullerton Functional Fitness Test was administered to test upper and lower body strength, upper and lower body flexibility, agility-dynamic balance and aerobic endurance. The Paffenbarger physical activity questionnaire was completed. Characteristics of individuals classified by the number of tests which equalled or exceeded criterion-referenced standards for functional independence (excluding flexibility) were compared. <b>Results:</b> Polish older adults compared favourably to American reference values. Percentages meeting the criteria for all four, for two or three and for one or no tests were, respectively, 21%, 54% and 25% in women and 37%, 45% and 18% in men. Adults meeting the criteria for all four tests were lighter, with a lower BMI and more physically active than those meeting the criteria on two or three tests and on one or no tests. <b>Conclusion:</b> The majority of Polish older adults were not at risk for loss of physical independence. The most functionally independent adults of both sexes had a lower BMI and less obesity, and were physically more active; the converse was true for those not meeting the criteria.
DOI: 10.6084/m9.figshare.5039126.v1
title: Unravelling the complexity of salt marsh ‘<i>Fucus cottonii</i>’ forms (Phaeophyceae, Fucales)

description: Genetic affiliation, nuclear DNA content, and gamete functioning were examined in small salt marsh <i>Fucus</i> from three localities in western Ireland. Individuals with small and dioecious receptacles were found at all localities, but production of germlings was only evident at Locality 1. Here, the <i>Fucus</i> vegetation formed a morphological cline from <i>F. vesiculosus</i> with bladders in the mid-intertidal to small <i>Fucus</i> individuals lacking bladders in the salt marsh of the upper intertidal. Measurements of nuclear DNA content ranged from 1–1.8 pg at this locality, with <i>F. vesiculosus</i> individuals in the lower range. At the two other localities, the small salt marsh <i>Fucus</i> consisted of distinct morphological entities. Microsatellite analyses revealed that individuals at Locality 2 were derived mainly from <i>F. vesiculosus</i>, whereas those from Locality 3 were hybrids between <i>F. vesiculosus</i> and <i>F. spiralis</i> with greatest affiliation to <i>F. spiralis</i>. While the small salt marsh <i>Fucus</i> forms from Locality 2 had high nuclear DNA content (<i>c</i>. 4 pg) and were probably octoploids, the small salt marsh <i>Fucus</i> from Locality 3 formed two groups: one with high (3.9–4.6 pg) and one with low (1.5–1.9 pg) nuclear DNA content. Nuclear DNA content measured in individuals from Locality 3 varied between 1.1–2.8 pg in <i>F. vesiculosus</i> and 2–3.5 pg in <i>F. spiralis</i>, and showed a more or less stepwise increase in both species, consistent with polyploidy. We hypothesize that the small salt marsh <i>Fucus</i> forms originate from genome size changes in the parental taxa.
DOI: 10.6084/m9.figshare.5039084.v1
title: Functional capacities of Polish adults of 60–87 years and risk of losing functional independence

description: <b>Aim:</b> To characterise the functional capacities of Polish men and women aged 60–87 years and evaluate their status relative to criteria for functional independence. <b>Subjects and methods:</b> Four hundred and thirty-one women and 125 men, aged 60–87 years, who were residents of Wrocław, southwestern Poland, were recruited. Height and weight were measured and BMI was calculated. The Fullerton Functional Fitness Test was administered to test upper and lower body strength, upper and lower body flexibility, agility-dynamic balance and aerobic endurance. The Paffenbarger physical activity questionnaire was completed. Characteristics of individuals classified by the number of tests which equalled or exceeded criterion-referenced standards for functional independence (excluding flexibility) were compared. <b>Results:</b> Polish older adults compared favourably to American reference values. Percentages meeting the criteria for all four, for two or three and for one or no tests were, respectively, 21%, 54% and 25% in women and 37%, 45% and 18% in men. Adults meeting the criteria for all four tests were lighter, with a lower BMI and more physically active than those meeting the criteria on two or three tests and on one or no tests. <b>Conclusion:</b> The majority of Polish older adults were not at risk for loss of physical independence. The most functionally independent adults of both sexes had a lower BMI and less obesity, and were physically more active; the converse was true for those not meeting the criteria.
DOI: 10.6084/m9.figshare.5038988
title: PONE-D-15-08760R2.xls

description: <b>Soil Organic Carbon, Nitrogen, and Yield under Different Management Approaches in </b><b>Perennial Forage-Based Rotations</b><b> </b>
DOI: 10.6084/m9.figshare.5038991
title: Importance of Feature Selection in the Adaptive Design of Materials by Machine Learning

description: This dataset contains features (combined, ionic radii, and electronegativity) and band gap (Eg) values for apatites in their lowest energy structure.
DOI: 10.6084/m9.figshare.5038979
title: Assembled sequence

description: Assembled sequence
DOI: 10.6084/m9.figshare.5038988.v1
title: PONE-D-15-08760R2.xls

description: <b>Soil Organic Carbon, Nitrogen, and Yield under Different Management Approaches in </b><b>Perennial Forage-Based Rotations</b><b> </b>
DOI: 10.6084/m9.figshare.5038955
title: Env 188B sample readme file

description: Sample readme for UCLA Env 188B students to use as a template for creating their own readme files.
DOI: 10.6084/m9.figshare.5038958
title: Dataset for: An EM algorithm for nonparametric estimation of the cumulative incidence function from repeated imperfect test results

description: In screening and surveillance studies, event times are interval censored. Besides, screening tests are imperfect so that the interval at which an event takes place may be uncertain. We describe an Expectation Maximization (EM) algorithm to find the nonparametric maximum likelihood estimator of the cumulative incidence function of an event based on screening test data. Our algorithm has a closed form solution for the combined E- and M-step and is computationally undemanding. A simulation study indicated that the bias of the estimator tends to zero for large sample size and its mean squared error is in general lower than the mean squared error of the estimator that assumes the screening test is perfect. We apply the algorithm to follow-up data from women treated for cervical precancer.
DOI: 10.6084/m9.figshare.5038979.v1
title: Assembled sequence

description: Assembled sequence
DOI: 10.6084/m9.figshare.5038910
title: Gluatamate data files2.rar

description: the paper "Glutamate alleviates muscle protein loss by modulating TLR4, NODs, Akt/FOXO and mTOR signaling pathways in LPS-challenged piglets" is supported by this database.
DOI: 10.6084/m9.figshare.5038958.v1
title: Dataset for: An EM algorithm for nonparametric estimation of the cumulative incidence function from repeated imperfect test results

description: In screening and surveillance studies, event times are interval censored. Besides, screening tests are imperfect so that the interval at which an event takes place may be uncertain. We describe an Expectation Maximization (EM) algorithm to find the nonparametric maximum likelihood estimator of the cumulative incidence function of an event based on screening test data. Our algorithm has a closed form solution for the combined E- and M-step and is computationally undemanding. A simulation study indicated that the bias of the estimator tends to zero for large sample size and its mean squared error is in general lower than the mean squared error of the estimator that assumes the screening test is perfect. We apply the algorithm to follow-up data from women treated for cervical precancer.
DOI: 10.6084/m9.figshare.5038910.v1
title: Gluatamate data files2.rar

description: the paper "Glutamate alleviates muscle protein loss by modulating TLR4, NODs, Akt/FOXO and mTOR signaling pathways in LPS-challenged piglets" is supported by this database.
DOI: 10.6084/m9.figshare.5038685
title: Community pharmacists research interest

description: Sample data of the Community Pharmacists interest and attitude towards Pharmacy Practice Research in Ethiopia
DOI: 10.6084/m9.figshare.5038685.v1
title: Community pharmacists research interest

description: Sample data of the Community Pharmacists interest and attitude towards Pharmacy Practice Research in Ethiopia
DOI: 10.6084/m9.figshare.5037839
title: data for: ratematrix: an R package for studying evolutionary integration among several traits on phylogenetic trees

description: Data compiled from:<br>"Mahler, D.L., Ingram, T., Revell, L.J. & Losos, J.B. (2013) Exceptional convergence on the macroevolutionary landscape in island lizard radiations. Science, 341, 292–295."<br>and<br>"Moreno-Arias, R.A. & Calderon-Espinosa, M.L. (2016) Patterns of morphological diversification of mainland Anolis lizards from northwestern South America. Zoological Journal of the Linnean Society, 176, 632–647."<br><br>PLEASE CITE THE ARTICLES ABOVE WHEN USING THE DATA<br><br>'data_anoles.csv' is a comma limited text file with the log-transformed data for Snout-vent length (SVL), Tail length, Head length, and location (mainland or island).<br><br>'simmap_tree_anoles.tree' is a text file with the simmap tree. The tree was written using the R function 'phytools::write.simmap' with R version 3.4.0 (2017-04-21) and 'phytools' version 0.6.0<br>
DOI: 10.6084/m9.figshare.5037839.v1
title: data for: ratematrix: an R package for studying evolutionary integration among several traits on phylogenetic trees

description: Data compiled from:<br>"Mahler, D.L., Ingram, T., Revell, L.J. & Losos, J.B. (2013) Exceptional convergence on the macroevolutionary landscape in island lizard radiations. Science, 341, 292–295."<br>and<br>"Moreno-Arias, R.A. & Calderon-Espinosa, M.L. (2016) Patterns of morphological diversification of mainland Anolis lizards from northwestern South America. Zoological Journal of the Linnean Society, 176, 632–647."<br><br>PLEASE CITE THE ARTICLES ABOVE WHEN USING THE DATA<br><br>'data_anoles.csv' is a comma limited text file with the log-transformed data for Snout-vent length (SVL), Tail length, Head length, and location (mainland or island).<br><br>'simmap_tree_anoles.tree' is a text file with the simmap tree. The tree was written using the R function 'phytools::write.simmap' with R version 3.4.0 (2017-04-21) and 'phytools' version 0.6.0<br>
DOI: 10.6084/m9.figshare.5036222
title: Transcriptomic response of <i>Arabidopsis thaliana</i> (L.) Heynh. roots to ibuprofen

description: Surface waters in urban areas are contaminated by ibuprofen (IBP), a popular and extensively used anti-inflammatory drug. In this study, we investigated the transcriptomic response in <i>Arabidopsis thaliana</i> (L.) Heynh. roots with the aim of revealing genes that are potentially involved in IBP detoxification and elucidating the effect of IBP on plants. IBP upregulated 63 and downregulated 38 transcripts (p-value &lt; 0.1, fold change ≥2) after 2-day exposure to a 5-µM (1.03 mg/L) concentration of IBP under hydroponic conditions. Although the IBP concentration used in the experiment was highly relative to the concentrations found in rivers and wastewater, the number of genes with transcriptional changes was relatively low. The upregulation of cytochrome P450s, glutathione S-transferases, and UDP-glycosyltransferases indicates the occurrence of IBP oxidation in the first phase, followed by conjugation with glutathione and sugar in the second detoxification phase. ABC transporters could be involved in the transport of IBP and its metabolites. The identification of genes potentially involved in IBP detoxification could be useful in an IBP phytoremediation approach.
DOI: 10.6084/m9.figshare.5036222.v1
title: Transcriptomic response of <i>Arabidopsis thaliana</i> (L.) Heynh. roots to ibuprofen

description: Surface waters in urban areas are contaminated by ibuprofen (IBP), a popular and extensively used anti-inflammatory drug. In this study, we investigated the transcriptomic response in <i>Arabidopsis thaliana</i> (L.) Heynh. roots with the aim of revealing genes that are potentially involved in IBP detoxification and elucidating the effect of IBP on plants. IBP upregulated 63 and downregulated 38 transcripts (p-value &lt; 0.1, fold change ≥2) after 2-day exposure to a 5-µM (1.03 mg/L) concentration of IBP under hydroponic conditions. Although the IBP concentration used in the experiment was highly relative to the concentrations found in rivers and wastewater, the number of genes with transcriptional changes was relatively low. The upregulation of cytochrome P450s, glutathione S-transferases, and UDP-glycosyltransferases indicates the occurrence of IBP oxidation in the first phase, followed by conjugation with glutathione and sugar in the second detoxification phase. ABC transporters could be involved in the transport of IBP and its metabolites. The identification of genes potentially involved in IBP detoxification could be useful in an IBP phytoremediation approach.