cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.1568257.v2
title: Chronic Responses of <i>Daphnia magna</i> Under Dietary Exposure to Leaves of a Transgenic (Event MON810) Bt–Maize Hybrid and its Conventional Near-Isoline

description: Insect resistance is the second most common trait globally in cultivated genetically modified (GM) plants. Resistance is usually obtained by introducing into the plant’s genome genes from the bacterium <i>Bacillus thuringiensis</i> (Bt) coding for insecticidal proteins (Cry proteins or toxins) that target insect pests. The aim of this study was to examine the hypothesis that a chronic, high-dose dietary exposure to leaves of a Bt–maize hybrid (GM event MON810, expressing a transgenic or recombinant Cry1Ab toxin), exerted no adverse effects on fitness parameters of the aquatic nontarget organism <i>Daphnia magna</i> (water flea) when compared to an identical control diet based on leaves of the non-GM near-isoline. Cry1Ab was immunologically detected and quantified in GM maize leaf material used for <i>Daphnia</i> feed. A 69-kD protein near Bt’s active core-toxin size and a 34-kD protein were identified. The <i>D. magna</i> bioassay showed a resource allocation to production of resting eggs and early fecundity in <i>D. magna</i> fed GM maize, with adverse effects for body size and fecundity later in life. This is the first study to examine GM-plant leaf material in the <i>D. magna</i> model, and provides of negative fitness effects of a MON810 maize hybrid in a nontarget model organism under chronic, high dietary exposure. Based upon these results, it is postulated that the observed transgenic proteins exert a nontarget effect in <i>D. magna</i> and/or unintended changes were produced in the maize genome/metabolome by the transformation process, producing a nutritional difference between GM-maize and non-GM near-isoline.
DOI: 10.6084/m9.figshare.12919031
title: Data set: Rescuing intraspecific variation in human impacted environments

description: These dataset are part of the study "Rescuing intraspecific variation in human impacted environments" published in Journal of Applied Ecology<br>dispersed_seeds2.txt: size of dispersed seeds of Euterpe edulis in ten forest fragments in Brazilian Atlantic forest.produced_seeds2.txt: size of produced seeds of Euterpe edulis in ten forest fragments in Brazilian Atlantic forest.defaunation_data.txt: frugivory data for Euterpe edulis in ten forest fragments in Brazilian Atlantic forest
DOI: 10.6084/m9.figshare.1568257.v1
title: Chronic Responses of <i>Daphnia magna</i> Under Dietary Exposure to Leaves of a Transgenic (Event MON810) Bt–Maize Hybrid and its Conventional Near-Isoline

description: Insect resistance is the second most common trait globally in cultivated genetically modified (GM) plants. Resistance is usually obtained by introducing into the plant’s genome genes from the bacterium <i>Bacillus thuringiensis</i> (Bt) coding for insecticidal proteins (Cry proteins or toxins) that target insect pests. The aim of this study was to examine the hypothesis that a chronic, high-dose dietary exposure to leaves of a Bt–maize hybrid (GM event MON810, expressing a transgenic or recombinant Cry1Ab toxin), exerted no adverse effects on fitness parameters of the aquatic nontarget organism <i>Daphnia magna</i> (water flea) when compared to an identical control diet based on leaves of the non-GM near-isoline. Cry1Ab was immunologically detected and quantified in GM maize leaf material used for <i>Daphnia</i> feed. A 69-kD protein near Bt’s active core-toxin size and a 34-kD protein were identified. The <i>D. magna</i> bioassay showed a resource allocation to production of resting eggs and early fecundity in <i>D. magna</i> fed GM maize, with adverse effects for body size and fecundity later in life. This is the first study to examine GM-plant leaf material in the <i>D. magna</i> model, and provides of negative fitness effects of a MON810 maize hybrid in a nontarget model organism under chronic, high dietary exposure. Based upon these results, it is postulated that the observed transgenic proteins exert a nontarget effect in <i>D. magna</i> and/or unintended changes were produced in the maize genome/metabolome by the transformation process, producing a nutritional difference between GM-maize and non-GM near-isoline.
DOI: 10.6084/m9.figshare.1568253
title: How ‘Circumpolar’ is Ainu Music? Musical and Genetic Perspectives on the History of the Japanese Archipelago

description: Understanding the cultural and genetic origins of the Ainu of northern Japan has important implications for understanding the history of the Japanese archipelago. Ethnomusicologists have tended to emphasise connections between Ainu music and a ‘circumpolar’ culture area. However, the ‘dual structure’ model from physical anthropology describes the Ainu as descendants of the first inhabitants of Japan with minimal circumpolar influence. To examine Ainu musical diversity empirically from a comparative perspective, we analysed 680 traditional songs from two Ainu and 33 surrounding East Asian and circumpolar populations. The Ainu repertoire contained a majority (∼50%) of unique stylistic song-types and lower frequencies of types shared with circumpolar (∼40%) and East Asian (∼10%) populations. These frequencies were similar to the corresponding frequencies of mitochondrial DNA types within the Ainu gene pool (∼50%, ∼30% and ∼20%, respectively), consistent with an emerging ‘triple structure’ model of Japanese archipelago history.
DOI: 10.6084/m9.figshare.12919031.v2
title: Data set: Rescuing intraspecific variation in human impacted environments

description: These dataset are part of the study "Rescuing intraspecific variation in human impacted environments" published in Journal of Applied Ecology<br>dispersed_seeds2.txt: size of dispersed seeds of Euterpe edulis in ten forest fragments in Brazilian Atlantic forest.produced_seeds2.txt: size of produced seeds of Euterpe edulis in ten forest fragments in Brazilian Atlantic forest.defaunation_data.txt: frugivory data for Euterpe edulis in ten forest fragments in Brazilian Atlantic forest
DOI: 10.6084/m9.figshare.12919031.v1
title: 1. Anthropogenic activities influence ongoing selective regimes leading to changes in phenotypic variation of plants and animals. The reduction of phenotypic variation may decrease populations' ability to cope with environmental changes. To counteract the increasing risk of extinction of affected populations it is important to rescue intraspecific variability, assuring higher success of establishment and persistence under global changes. 2. We evaluated whether it is possible to revert phenotypi

description: Data set for the paper "Rescuing intraspecific variation in human impacted environments", accept in Journal of Applied Ecology
DOI: 10.6084/m9.figshare.1568249
title: Simultaneous quantitative determination, identification and qualitative screening of pesticides in fruits and vegetables using LC-Q-Orbitrap™-MS

description: A method based on QuEChERS extraction and LC-quadrupole-Orbitrap™ MS detection was established utilising an improved fully non-targeted way of data acquisition with and without fragmentation. A full-scan acquisition event without fragmentation (resolving power 70 000) was followed by five consecutive fragmentation events (variable data independent acquisition – vDIA; resolving power 35 000) where all ions from the full-scan range are fragmented. Compared with fragmentation in a single event (all-ion fragmentation – AIF), this improves both selectivity and sensitivity for the fragment ions, which is beneficial for screening performance and identification capability. The method was validated, using the data from the same measurements, for two types of analysis: quantitation/identification and qualitative screening. The quantitative validation, performed according to the guidelines in SANCO/12571/2013, tested the performance of the method for 184 compounds in lettuce and orange at two spiking levels: 10 and 50 ng g<sup>−1</sup>. The validation showed that the vast majority of the compounds met the criteria for trueness and precision set in the SANCO guidance document. In the qualitative validation the same 184 compounds were used to test the untargeted screening capabilities of the method. In this validation the compounds were spiked at three levels into 11 different fruit and vegetable matrices, which were measured twice on separate days. Taking all data from the qualitative validation together, an overall detection rate of 92% was achieved at the 10 ng g<sup>−1</sup> level, increasing to 98% at 200 ng g<sup>−1</sup>. A screening detection limit (as defined in the SANCO guidelines) of 10 ng g<sup>−1</sup> could be achieved for 134 compounds. For 39 and two pesticides the SDL was 50 and 200 ng g<sup>−1</sup>, respectively. For the other nine compounds no SDL could be established. The identification (ion ratio) criteria as recommended in the SANCO document could be met for 93% of the detected pesticide/matrix/concentration combinations. The outcome of both validations shows that the described method can be used to combine quantitative analysis and the identification of frequently detected pesticides (so far typically done using triple quadrupole MS/MS) with a qualitative screening to be used for a wide range of less frequent detected compounds in one measurement.
DOI: 10.6084/m9.figshare.1568253.v1
title: How ‘circumpolar’ is Ainu music? Musical and genetic perspectives on the history of the Japanese archipelago

description: ABSTRACTUnderstanding the cultural and genetic origins of the Ainu of northern Japan has important implications for understanding the history of the Japanese archipelago. Ethnomusicologists have tended to emphasise connections between Ainu music and a ‘circumpolar’ culture area. However, the ‘dual structure’ model from physical anthropology describes the Ainu as descendants of the first inhabitants of Japan with minimal circumpolar influence. To examine Ainu musical diversity empirically from a comparative perspective, we analysed 680 traditional songs from two Ainu and 33 surrounding East Asian and circumpolar populations. The Ainu repertoire contained a majority (∼50%) of unique stylistic song-types and lower frequencies of types shared with circumpolar (∼40%) and East Asian (∼10%) populations. These frequencies were similar to the corresponding frequencies of mitochondrial DNA types within the Ainu gene pool (∼50%, ∼30% and ∼20%, respectively), consistent with an emerging ‘triple structure’ model of Japanese archipelago history.
DOI: 10.6084/m9.figshare.1568253.v2
title: How ‘circumpolar’ is Ainu music? Musical and genetic perspectives on the history of the Japanese archipelago

description: ABSTRACTUnderstanding the cultural and genetic origins of the Ainu of northern Japan has important implications for understanding the history of the Japanese archipelago. Ethnomusicologists have tended to emphasise connections between Ainu music and a ‘circumpolar’ culture area. However, the ‘dual structure’ model from physical anthropology describes the Ainu as descendants of the first inhabitants of Japan with minimal circumpolar influence. To examine Ainu musical diversity empirically from a comparative perspective, we analysed 680 traditional songs from two Ainu and 33 surrounding East Asian and circumpolar populations. The Ainu repertoire contained a majority (∼50%) of unique stylistic song-types and lower frequencies of types shared with circumpolar (∼40%) and East Asian (∼10%) populations. These frequencies were similar to the corresponding frequencies of mitochondrial DNA types within the Ainu gene pool (∼50%, ∼30% and ∼20%, respectively), consistent with an emerging ‘triple structure’ model of Japanese archipelago history.
DOI: 10.6084/m9.figshare.1568249.v1
title: Simultaneous quantitative determination, identification and qualitative screening of pesticides in fruits and vegetables using LC-Q-Orbitrap™-MS

description: A method based on QuEChERS extraction and LC-quadrupole-Orbitrap™ MS detection was established utilising an improved fully non-targeted way of data acquisition with and without fragmentation. A full-scan acquisition event without fragmentation (resolving power 70 000) was followed by five consecutive fragmentation events (variable data independent acquisition – vDIA; resolving power 35 000) where all ions from the full-scan range are fragmented. Compared with fragmentation in a single event (all-ion fragmentation – AIF), this improves both selectivity and sensitivity for the fragment ions, which is beneficial for screening performance and identification capability. The method was validated, using the data from the same measurements, for two types of analysis: quantitation/identification and qualitative screening. The quantitative validation, performed according to the guidelines in SANCO/12571/2013, tested the performance of the method for 184 compounds in lettuce and orange at two spiking levels: 10 and 50 ng g<sup>−1</sup>. The validation showed that the vast majority of the compounds met the criteria for trueness and precision set in the SANCO guidance document. In the qualitative validation the same 184 compounds were used to test the untargeted screening capabilities of the method. In this validation the compounds were spiked at three levels into 11 different fruit and vegetable matrices, which were measured twice on separate days. Taking all data from the qualitative validation together, an overall detection rate of 92% was achieved at the 10 ng g<sup>−1</sup> level, increasing to 98% at 200 ng g<sup>−1</sup>. A screening detection limit (as defined in the SANCO guidelines) of 10 ng g<sup>−1</sup> could be achieved for 134 compounds. For 39 and two pesticides the SDL was 50 and 200 ng g<sup>−1</sup>, respectively. For the other nine compounds no SDL could be established. The identification (ion ratio) criteria as recommended in the SANCO document could be met for 93% of the detected pesticide/matrix/concentration combinations. The outcome of both validations shows that the described method can be used to combine quantitative analysis and the identification of frequently detected pesticides (so far typically done using triple quadrupole MS/MS) with a qualitative screening to be used for a wide range of less frequent detected compounds in one measurement.
DOI: 10.6084/m9.figshare.1568246
title: RG7112, a Small-Molecule Inhibitor of MDM2, Enhances Trabectedin Response in Soft Tissue Sarcomas

description: ABSTRACTMDM2 is a critical negative regulator of the p53 tumor suppressor protein. Selected sarcoma subtypes are being treated with Trabectedin in second line, which promotes DNA damage and p53-dependent apoptosis. The aim of this study was to evaluate the improvement of Trabectedin response with MDM2 inhibitors in soft tissue sarcomas. The antitumor effects of Trabectedin, Nutlin-3A and RG7112 as single agents or in combination were examined <i>in vitro</i>. RG7112 significantly synergized with Trabectedin in MDM2-amplified liposarcoma cells, representing a promising new therapeutic strategy for the treatment of sarcomas with MDM2 amplification.
DOI: 10.6084/m9.figshare.1568253.v4
title: How ‘Circumpolar’ is Ainu Music? Musical and Genetic Perspectives on the History of the Japanese Archipelago

description: Understanding the cultural and genetic origins of the Ainu of northern Japan has important implications for understanding the history of the Japanese archipelago. Ethnomusicologists have tended to emphasise connections between Ainu music and a ‘circumpolar’ culture area. However, the ‘dual structure’ model from physical anthropology describes the Ainu as descendants of the first inhabitants of Japan with minimal circumpolar influence. To examine Ainu musical diversity empirically from a comparative perspective, we analysed 680 traditional songs from two Ainu and 33 surrounding East Asian and circumpolar populations. The Ainu repertoire contained a majority (∼50%) of unique stylistic song-types and lower frequencies of types shared with circumpolar (∼40%) and East Asian (∼10%) populations. These frequencies were similar to the corresponding frequencies of mitochondrial DNA types within the Ainu gene pool (∼50%, ∼30% and ∼20%, respectively), consistent with an emerging ‘triple structure’ model of Japanese archipelago history.
DOI: 10.6084/m9.figshare.1568253.v3
title: How ‘Circumpolar’ is Ainu Music? Musical and Genetic Perspectives on the History of the Japanese Archipelago

description: Understanding the cultural and genetic origins of the Ainu of northern Japan has important implications for understanding the history of the Japanese archipelago. Ethnomusicologists have tended to emphasise connections between Ainu music and a ‘circumpolar’ culture area. However, the ‘dual structure’ model from physical anthropology describes the Ainu as descendants of the first inhabitants of Japan with minimal circumpolar influence. To examine Ainu musical diversity empirically from a comparative perspective, we analysed 680 traditional songs from two Ainu and 33 surrounding East Asian and circumpolar populations. The Ainu repertoire contained a majority (∼50%) of unique stylistic song-types and lower frequencies of types shared with circumpolar (∼40%) and East Asian (∼10%) populations. These frequencies were similar to the corresponding frequencies of mitochondrial DNA types within the Ainu gene pool (∼50%, ∼30% and ∼20%, respectively), consistent with an emerging ‘triple structure’ model of Japanese archipelago history.
DOI: 10.6084/m9.figshare.1568244
title: Surface modification of electrospun poly(methyl methacrylate) (PMMA) nanofibers for the development of <i>in vitro</i> respiratory epithelium model

description: Scaffold design is an important aspect of <i>in vitro</i> model development. In this study, nanoscaffold surface modification, namely UV radiation and genipin cross-linking to immobilize collagen on the surface of electrospun poly (methyl methacrylate) (PMMA) nanofiber sheet was investigated. Samples were divided into four groups; PMMA nanofibers (PMMA), collagen-coated PMMA nanofibers (PMMACOL), genipin cross-linked collagen-coated PMMA nanofibers (PMMAGEN), and UV-irradiated collagen-coated PMMA nanofibers (PMMAUV). 6 h of UV radiation significantly reduced the hydrophobicity of PMMA nanofibers from (131.88° ± 1.33°) to (110.04° ± 0.27°) (<i>p</i> p 4 ± 2.77 × 10<sup>4</sup> cells/cm<sup>2</sup>) and it has the highest proliferation rate from day 4 to 9 (0.005 ± 0.003 h<sup>−1</sup>) compared to the other groups. Even though PMMAGEN group showed the highest collagen adsorption, in terms of cells attachment and proliferation, PMMAUV group showed a better outcome compared to the other groups. Thus, PMMAUV scaffold is more suitable to be used in the construction of <i>in vitro</i> respiratory epithelial model.
DOI: 10.6084/m9.figshare.1568246.v2
title: RG7112, a Small-Molecule Inhibitor of MDM2, Enhances Trabectedin Response in Soft Tissue Sarcomas

description: ABSTRACTMDM2 is a critical negative regulator of the p53 tumor suppressor protein. Selected sarcoma subtypes are being treated with Trabectedin in second line, which promotes DNA damage and p53-dependent apoptosis. The aim of this study was to evaluate the improvement of Trabectedin response with MDM2 inhibitors in soft tissue sarcomas. The antitumor effects of Trabectedin, Nutlin-3A and RG7112 as single agents or in combination were examined <i>in vitro</i>. RG7112 significantly synergized with Trabectedin in MDM2-amplified liposarcoma cells, representing a promising new therapeutic strategy for the treatment of sarcomas with MDM2 amplification.
DOI: 10.6084/m9.figshare.1568246.v1
title: RG7112, a Small-Molecule Inhibitor of MDM2, Enhances Trabectedin Response in Soft Tissue Sarcomas

description: ABSTRACTMDM2 is a critical negative regulator of the p53 tumor suppressor protein. Selected sarcoma subtypes are being treated with Trabectedin in second line, which promotes DNA damage and p53-dependent apoptosis. The aim of this study was to evaluate the improvement of Trabectedin response with MDM2 inhibitors in soft tissue sarcomas. The antitumor effects of Trabectedin, Nutlin-3A and RG7112 as single agents or in combination were examined <i>in vitro</i>. RG7112 significantly synergized with Trabectedin in MDM2-amplified liposarcoma cells, representing a promising new therapeutic strategy for the treatment of sarcomas with MDM2 amplification.
DOI: 10.6084/m9.figshare.1568244.v1
title: Surface Modification of Electrospun Poly (Methylmethacrylate) (PMMA) Nanofibers for Development of <i>In Vitro</i> Respiratory Epithelium Model

description: Scaffold design is an important aspect of <i>in vitro</i> model development. In this study, nanoscaffold surface modification, namely UV-radiation and genipin cross-linking to immobilize collagen on the surface of electrospun Poly (methylmethacrylate) (PMMA) nanofibers sheet was investigated. Samples were divided into 4 groups; PMMA nanofibers (PMMA), collagen-coated PMMA nanofibers (PMMACOL), Genipin-crosslinked-collagen coated PMMA nanofibers (PMMAGEN), and UV-irradiated collagen-coated PMMA nanofibers (PMMAUV). 6 hours of UV radiation significantly reduced the hydrophobicity of PMMA nanofibers from (131.88°±1.33°) to (110.04°±0.27°) (p&lt;0.05). The amount of collagen immobilized was significantly higher in PMMAGEN group (239.36±16.63 µg collagen/mg nanofibers) (p&lt;0.05) compared to the other groups. RECs on all scaffold expressed epithelial cell specific markers (CK18 and CK14), mucin producing cell marker (MUC5Ac) and were actively proliferating, based on the positive expression of Ki67. Total number of attached cells was significantly highest in PMMAUV group on day 9 (6.44x10<sup>4</sup>±2.77x10<sup>4</sup> cells/cm<sup>2</sup>) and it has the highest proliferation rate from day 4 to 9 (0.005±0.003 h<sup>-1</sup>) compared to the other groups. Eventhough PMMAGEN group showed highest collagen adsorption, in terms of cells attachment and proliferation, PMMAUV group showed a better outcome compared to the other groups. Thus, PMMAUV scaffold is more suitable to be used in construction of <i>in vitro</i> respiratory epithelial model.
DOI: 10.6084/m9.figshare.1568244.v2
title: Surface modification of electrospun poly(methyl methacrylate) (PMMA) nanofibers for the development of <i>in vitro</i> respiratory epithelium model

description: Scaffold design is an important aspect of <i>in vitro</i> model development. In this study, nanoscaffold surface modification, namely UV radiation and genipin cross-linking to immobilize collagen on the surface of electrospun poly (methyl methacrylate) (PMMA) nanofiber sheet was investigated. Samples were divided into four groups; PMMA nanofibers (PMMA), collagen-coated PMMA nanofibers (PMMACOL), genipin cross-linked collagen-coated PMMA nanofibers (PMMAGEN), and UV-irradiated collagen-coated PMMA nanofibers (PMMAUV). 6 h of UV radiation significantly reduced the hydrophobicity of PMMA nanofibers from (131.88° ± 1.33°) to (110.04° ± 0.27°) (<i>p</i> p 4 ± 2.77 × 10<sup>4</sup> cells/cm<sup>2</sup>) and it has the highest proliferation rate from day 4 to 9 (0.005 ± 0.003 h<sup>−1</sup>) compared to the other groups. Even though PMMAGEN group showed the highest collagen adsorption, in terms of cells attachment and proliferation, PMMAUV group showed a better outcome compared to the other groups. Thus, PMMAUV scaffold is more suitable to be used in the construction of <i>in vitro</i> respiratory epithelial model.
DOI: 10.6084/m9.figshare.1568238
title: Performance evaluation of head and neck contour adaptation with cone beam CT using two commercial software systems

description: Performance evaluation of head and neck contour adaptation with cone beam CT using two commercial software systems