cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.34808/1yh8-6453
title: Kinetics of cyclohexane removal by Candida subhashii and Fusarium solani

description: Dataset presents cyclohexane biodegradation in gas phase using two species of microorganisms: Candida Subhashii and Fusarium solani. Biodegradation was carried out in sealed chambers with a capacity of 1000 ml. In each of them there are two discs inhabited with microorganisms, made of polyurethane foam, 80 mm in diameter and 20 mm thick.
An immobilization of Candida subhashii on the support materials was carried out in 500 ml sterile beakers containing single type of the substrate and 100 mL growth Sabouraud medium with 10% (v/v) inoculum, under orbital agitation at 100 rpm and at 24°C. After 24 h, 50% of the volume of medium was replaced with the same volume of the minimal medium: Na2HPO4•2H2O (15.2 g/dm-3), KH2PO4 (3 g/dm-3), NaCl (0.5 g/dm-3) and NH4Cl (1 g/dm-3). The beakers with appropriate contents were shaken throughout the whole immobilization. The next day, all medium was poured out, replacing it with the minimal medium. The procedure was repeated after one day with the difference that the medium spilled was replaced with the Sabouraud medium. After the same time interval the support materials were completely colonized The immobilization of Fusarium solani on the support particles was carried out on Petri plates (10 cm) with Sabourand Agar medium. Using inoculation loop seed individual fungal colonies on plates. Incubate the plates at 24°C for 3-4 days. After this time, were placed the the support materials in the plates. Incubate the plates at 24°C for 5-6 days. After 8-10 days from the beginning, the polyurethane foam material was completely colonized.In the next step, an appropriate amount of cyclohexane and toluene (in case of a mixture) were injected into each chamber. The amounts of the substances were selected so that the initial concentration of cyclohexane was about 400-500 ppm v/v, and of toluene 200-300 ppm v/v (in gas phase).The cycloehxane concentrations were determined using the gas chromatography technique. The obtained results of the cyclohexane concentrations are presented in four files:1. Candida_subhashii_cyclohexane - presents cyclohexane concentration changes in the chamber filled with a one-component mixture (only cyclohexane)2. Candida_subhashii_mixture - presents cyclohexane concentration changes in the chamber filled with a multi-component mixture (cyclohexane and toluene)3. Fusarium_solani_cyclohexane - presents cyclohexane concentration changes in the chamber filled with a one-component mixture (only cyclohexane)4. Fusarium_solani_mixture - presents cyclohexane concentration changes in the chamber filled with a multi-component mixture (cyclohexane and toluene)
DOI: 10.6084/m9.figshare.16830736.v4
title: Intestinal microbiota and host cooperate for adaptation as a hologenome. Additional Supplementary Tables S6-S21

description: Table S6 The different microbial pathways in ceca of HWS and LWS. Table S7 The cecal microbiota identified at the species level. Table S8 Differentially expressed genes in ceca between HWS and LWS. Table S9 The enriched functions of differentially expressed genes. Table S10 Differentially expressed genes targeted by differentially expressed miRNAs. Table S11 The distribution of differentially methylated regions in ceca of HWS and LWS. Table S12 Genes containing differentially methylated regions. Table S13 The information of the differentially methylated regions in ceca of HWS and LWS. Table S14 Hypomethylated DMRs in HWS related to CpG Island. Table S15 Genes with altered methylation and expression levels in HWS and LWS. Table S16 The association between up-regulated genes in ceca of HWS and cecal microbiota. Table S17 The association between up-regulated genes in ceca of LWS and cecal microbiota. Table S18 Data summary for 16S rRNA gene sequencing. Table S19 Data summary for mRNA sequencing. Table S20 Data summary for small RNA sequencing. Table S21 Data summary for MBD sequencing.
DOI: 10.6084/m9.figshare.16830736.v5
title: Additional supplementary tables S6-S21 for article: Intestinal microbiota and host cooperate for adaptation as a hologenome.

description: Table S6 The different microbial pathways in ceca of HWS and LWS. Table S7 The cecal microbiota identified at the species level. Table S8 Differentially expressed genes in ceca between HWS and LWS. Table S9 The enriched functions of differentially expressed genes. Table S10 Differentially expressed genes targeted by differentially expressed miRNAs. Table S11 The distribution of differentially methylated regions in ceca of HWS and LWS. Table S12 Genes containing differentially methylated regions. Table S13 The information of the differentially methylated regions in ceca of HWS and LWS. Table S14 Hypomethylated DMRs in HWS related to CpG Island. Table S15 Genes with altered methylation and expression levels in HWS and LWS. Table S16 The association between up-regulated genes in ceca of HWS and cecal microbiota. Table S17 The association between up-regulated genes in ceca of LWS and cecal microbiota. Table S18 Data summary for 16S rRNA gene sequencing. Table S19 Data summary for mRNA sequencing. Table S20 Data summary for small RNA sequencing. Table S21 Data summary for MBD sequencing.
DOI: 10.6084/m9.figshare.16830736
title: Supplementary Table S6-S21 for article: Intestinal microbiota and host cooperate for adaptation as a hologenome.

description: Table S6 The different microbial pathways in ceca of HWS and LWS. Table S7 The cecal microbiota identified at the species level. Table S8 Differentially expressed genes in ceca between HWS and LWS. Table S9 The enriched functions of differentially expressed genes. Table S10 Differentially expressed genes targeted by differentially expressed miRNAs. Table S11 The distribution of differentially methylated regions in ceca of HWS and LWS. Table S12 Genes containing differentially methylated regions. Table S13 The information of the differentially methylated regions in ceca of HWS and LWS. Table S14 Hypomethylated DMRs in HWS related to CpG Island. Table S15 Genes with altered methylation and expression levels in HWS and LWS. Table S16 The association between up-regulated genes in ceca of HWS and cecal microbiota. Table S17 The association between up-regulated genes in ceca of LWS and cecal microbiota. Table S18 Data summary for 16S rRNA gene sequencing. Table S19 Data summary for mRNA sequencing. Table S20 Data summary for small RNA sequencing. Table S21 Data summary for MBD sequencing.
DOI: 10.6084/m9.figshare.16830736.v7
title: Supplementary Table S6-S21 for article: Intestinal microbiota and host cooperate for adaptation as a hologenome.

description: Table S6 The different microbial pathways in ceca of HWS and LWS. Table S7 The cecal microbiota identified at the species level. Table S8 Differentially expressed genes in ceca between HWS and LWS. Table S9 The enriched functions of differentially expressed genes. Table S10 Differentially expressed genes targeted by differentially expressed miRNAs. Table S11 The distribution of differentially methylated regions in ceca of HWS and LWS. Table S12 Genes containing differentially methylated regions. Table S13 The information of the differentially methylated regions in ceca of HWS and LWS. Table S14 Hypomethylated DMRs in HWS related to CpG Island. Table S15 Genes with altered methylation and expression levels in HWS and LWS. Table S16 The association between up-regulated genes in ceca of HWS and cecal microbiota. Table S17 The association between up-regulated genes in ceca of LWS and cecal microbiota. Table S18 Data summary for 16S rRNA gene sequencing. Table S19 Data summary for mRNA sequencing. Table S20 Data summary for small RNA sequencing. Table S21 Data summary for MBD sequencing.
DOI: 10.6084/m9.figshare.16830736.v6
title: Supplementary Tables S6-S21 for article: Intestinal microbiota and host cooperate for adaptation as a hologenome.

description: Table S6 The different microbial pathways in ceca of HWS and LWS. Table S7 The cecal microbiota identified at the species level. Table S8 Differentially expressed genes in ceca between HWS and LWS. Table S9 The enriched functions of differentially expressed genes. Table S10 Differentially expressed genes targeted by differentially expressed miRNAs. Table S11 The distribution of differentially methylated regions in ceca of HWS and LWS. Table S12 Genes containing differentially methylated regions. Table S13 The information of the differentially methylated regions in ceca of HWS and LWS. Table S14 Hypomethylated DMRs in HWS related to CpG Island. Table S15 Genes with altered methylation and expression levels in HWS and LWS. Table S16 The association between up-regulated genes in ceca of HWS and cecal microbiota. Table S17 The association between up-regulated genes in ceca of LWS and cecal microbiota. Table S18 Data summary for 16S rRNA gene sequencing. Table S19 Data summary for mRNA sequencing. Table S20 Data summary for small RNA sequencing. Table S21 Data summary for MBD sequencing.
DOI: 10.6084/m9.figshare.16652371
title: Description of the first isolates of guinea fowl corona and picornaviruses obtained from a case of guinea fowl fulminating enteritis

description: Guinea fowl fulminating enteritis has been reported in France since the 1970s. In 2014, a coronavirus was identified and appeared as a possible viral pathogen involved in the disease. In the present study, intestinal content from a guinea fowl involved in a new case of the disease in 2017 was analysed by deep sequencing, revealing the presence of a guinea fowl coronavirus (GfCoV) and a picornavirus (GfPic). Serial passage assays into the intra-amniotic cavity of 13-day-old specific pathogen-free chicken eggs and 20-day-old conventional guinea fowl eggs were attempted. In chicken eggs, isolation assays failed, but in guinea fowl eggs, both viruses were successfully obtained. Furthermore, two GfCoV and two GfPic isolates were obtained from the same bird but from different sections of its intestines. This shows that using eggs of the same species, in which the virus has been detected, can be the key for successful isolation. The consensus sequence of the full-length genomes of both GfCoV isolates was highly similar, and correlated to those previously described in terms of genome organization, ORF length and phylogenetic clustering. According to full-length genome analysis and the structure of the Internal Ribosome Entry Site, both GfPic isolates belong to the <i>Anativirus</i> genus and specifically the species <i>Anativirus B</i>. The availability of the first isolates of GfCoV and GfPic will now provide a means of assessing their pathogenicity in guinea fowl in controlled experimental conditions and to assess whether they are primary viral pathogens of the disease “guinea fowl fulminating enteritis”. <b>RESEARCH HIGHLIGHTS</b>First isolation of guinea fowl coronaviruses and picornaviruses.Eggs homologous to the infected species are key for isolation.Isolates available to precisely evaluate the virus roles in fulminating enteritis.First full-length genome sequences of guinea fowl picornaviruses. First isolation of guinea fowl coronaviruses and picornaviruses. Eggs homologous to the infected species are key for isolation. Isolates available to precisely evaluate the virus roles in fulminating enteritis. First full-length genome sequences of guinea fowl picornaviruses.
DOI: 10.6084/m9.figshare.16962734
title: Assessing the infiltration of immune cells in the upper trachea mucosa after infectious laryngotracheitis virus (ILTV) vaccination and challenge

description: The types of immune cells that populate the trachea after ILTV vaccination and infection have not been assessed. The objective of this study was to quantify CD4<sup>+</sup>, CD8α<sup>+</sup>, CD8β<sup>+</sup>, TCRγδ<sup>+</sup>, and MRC1LB<sup>+</sup> cells that infiltrate the trachea after vaccination with chicken embryo origin (CEO), tissue culture origin (TCO), and recombinant herpesvirus of turkey-laryngotracheitis (rHVT-LT) vaccines, and after challenge of vaccinated and non-vaccinated chickens with a virulent ILTV strain. Eye-drop vaccination with CEO, or TCO, or <i>in ovo</i> vaccination with rHVT-LT did not alter the number of CD4<sup>+</sup>, CD8α<sup>+</sup>, CD8β<sup>+</sup>, TCRγδ<sup>+</sup>, and MRC1LB<sup>+</sup> cells in the trachea. After challenge, the CEO vaccinated group of chickens showed swift clearance of the challenge virus, the mucosa epithelium of the trachea remained intact, and a limited number of CD4<sup>+</sup>, CD8α<sup>+</sup>, and CD8β<sup>+</sup> cells were detected in the upper trachea mucosa. The TCO and rHVT-LT vaccinated groups of chickens showed narrow viral clearance with moderate disruption of the trachea epithelial integrity, and a significant increase in CD4<sup>+</sup>, CD8α<sup>+</sup>, CD8β<sup>+</sup>, and TCRγδ<sup>+</sup> cells infiltrated the upper trachea mucosa. Non-vaccinated challenged chickens showed high levels of viral replication, the epithelial organization of the upper trachea mucosa was heavily disrupted, and the predominant infiltrates were CD4<sup>+</sup>, TCRγδ<sup>+</sup>, and MRC1LB<sup>+</sup> cells. Hence, the very robust protection provided by CEO vaccination was characterized by minimal immune cell infiltration to the trachea mucosa. In contrast, partial protection induced by the TCO and rHVT-LT vaccines requires a prolonged period of T cell expansion to overcome the established infection in the trachea mucosa.
DOI: 10.6084/m9.figshare.16652371.v2
title: Description of the first isolates of guinea fowl corona and picornaviruses obtained from a case of guinea fowl fulminating enteritis

description: Guinea fowl fulminating enteritis has been reported in France since the 1970s. In 2014, a coronavirus was identified and appeared as a possible viral pathogen involved in the disease. In the present study, intestinal content from a guinea fowl involved in a new case of the disease in 2017 was analysed by deep sequencing, revealing the presence of a guinea fowl coronavirus (GfCoV) and a picornavirus (GfPic). Serial passage assays into the intra-amniotic cavity of 13-day-old specific pathogen-free chicken eggs and 20-day-old conventional guinea fowl eggs were attempted. In chicken eggs, isolation assays failed, but in guinea fowl eggs, both viruses were successfully obtained. Furthermore, two GfCoV and two GfPic isolates were obtained from the same bird but from different sections of its intestines. This shows that using eggs of the same species, in which the virus has been detected, can be the key for successful isolation. The consensus sequence of the full-length genomes of both GfCoV isolates was highly similar, and correlated to those previously described in terms of genome organization, ORF length and phylogenetic clustering. According to full-length genome analysis and the structure of the Internal Ribosome Entry Site, both GfPic isolates belong to the <i>Anativirus</i> genus and specifically the species <i>Anativirus B</i>. The availability of the first isolates of GfCoV and GfPic will now provide a means of assessing their pathogenicity in guinea fowl in controlled experimental conditions and to assess whether they are primary viral pathogens of the disease “guinea fowl fulminating enteritis”. <b>RESEARCH HIGHLIGHTS</b>First isolation of guinea fowl coronaviruses and picornaviruses.Eggs homologous to the infected species are key for isolation.Isolates available to precisely evaluate the virus roles in fulminating enteritis.First full-length genome sequences of guinea fowl picornaviruses. First isolation of guinea fowl coronaviruses and picornaviruses. Eggs homologous to the infected species are key for isolation. Isolates available to precisely evaluate the virus roles in fulminating enteritis. First full-length genome sequences of guinea fowl picornaviruses.
DOI: 10.6084/m9.figshare.16962734.v1
title: Assessing the infiltration of immune cells in the upper trachea mucosa after infectious laryngotracheitis virus (ILTV) vaccination and challenge

description: The types of immune cells that populate the trachea after ILTV vaccination and infection have not been assessed. The objective of this study was to quantify CD4<sup>+</sup>, CD8α<sup>+</sup>, CD8β<sup>+</sup>, TCRγδ<sup>+</sup>, and MRC1LB<sup>+</sup> cells that infiltrate the trachea after vaccination with chicken embryo origin (CEO), tissue culture origin (TCO), and recombinant herpesvirus of turkey-laryngotracheitis (rHVT-LT) vaccines, and after challenge of vaccinated and non-vaccinated chickens with a virulent ILTV strain. Eye-drop vaccination with CEO, or TCO, or <i>in ovo</i> vaccination with rHVT-LT did not alter the number of CD4<sup>+</sup>, CD8α<sup>+</sup>, CD8β<sup>+</sup>, TCRγδ<sup>+</sup>, and MRC1LB<sup>+</sup> cells in the trachea. After challenge, the CEO vaccinated group of chickens showed swift clearance of the challenge virus, the mucosa epithelium of the trachea remained intact, and a limited number of CD4<sup>+</sup>, CD8α<sup>+</sup>, and CD8β<sup>+</sup> cells were detected in the upper trachea mucosa. The TCO and rHVT-LT vaccinated groups of chickens showed narrow viral clearance with moderate disruption of the trachea epithelial integrity, and a significant increase in CD4<sup>+</sup>, CD8α<sup>+</sup>, CD8β<sup>+</sup>, and TCRγδ<sup>+</sup> cells infiltrated the upper trachea mucosa. Non-vaccinated challenged chickens showed high levels of viral replication, the epithelial organization of the upper trachea mucosa was heavily disrupted, and the predominant infiltrates were CD4<sup>+</sup>, TCRγδ<sup>+</sup>, and MRC1LB<sup>+</sup> cells. Hence, the very robust protection provided by CEO vaccination was characterized by minimal immune cell infiltration to the trachea mucosa. In contrast, partial protection induced by the TCO and rHVT-LT vaccines requires a prolonged period of T cell expansion to overcome the established infection in the trachea mucosa.
DOI: 10.6084/m9.figshare.16652371.v1
title: Description of the first isolates of Guinea fowl corona and picornaviruses obtained from a case of Guinea fowl fulminating enteritis.

description: Guinea fowl fulminating enteritis has been reported in France since the 70s. In 2014, a coronavirus was identified and appeared as a possible viral pathogen involved in the disease. In the present study, intestinal content from a guinea fowl involved in a new case of the disease in 2017 was analyzed by deep sequencing, revealing the presence of a guinea fowl coronavirus (GfCoV) and a picornavirus (GfPic). Serial passage assays into the intra-amniotic cavity of 13-day-old specific pathogen free chicken eggs and 20-day-old conventional guinea fowl eggs were attempted. On chicken eggs, isolation assays failed, but on guinea fowl eggs, both viruses were successfully obtained. Furthermore, two GfCoV and two GfPic isolates were obtained from the same bird but from different sections of its intestines. This shows that using eggs of the same species in which the virus has been detected can be key for successful isolation.The consensus sequence of the full-length genomes of both GfCoV isolates were highly similar, and correlated to those previously described in terms of genome organization, ORF length and phylogenetic clustering. According to full-length genome analysis and the structure of the Internal Ribosome Entry Site, both GfPic isolates belong to the <i>Anativirus</i> genus and specifically the species <i>Anativirus B</i>. The availability of the first isolates of GfCoV and GfPic will now provide a means of assessing their pathogenicity in guinea fowls in controlled experimental conditions and to assess whether they are primary viral pathogens of the disease ‘guinea fowl fulminating enteritis’. RESEARCH HIGHLIGHTS First isolation of guinea fowl coronaviruses and picornaviruses Eggs homologous to the infected species are key for isolation Isolates available to precisely evaluate the virus roles in fulminating enteritis First full-length genome sequences of guinea fowl picornaviruses
DOI: 10.5517/ccdc.csd.cc297p2b
title: CCDC 2122541: Experimental Crystal Structure Determination

description: Related Article: M. Guerain, F. Affouard, C. Henaff, C. Dejoie, F. Danède, J. Siepman, F. Siepman, J.-F. Willart|2021|Acta Crystallogr.,Sect.C:Cryst.Struct.Chem.|77|800|doi:10.1107/S2053229621012171
DOI: 10.5517/ccdc.csd.cc1prmvx
title: CCDC 1571850: Experimental Crystal Structure Determination

description: Related Article: B. Ośmiałowski, B. Dziuk, K. Ejsmont, L. Chęcińska, L. Dobrzańska|2021|Acta Crystallogr.,Sect.C:Cryst.Struct.Chem.|77|807|doi:10.1107/S2053229621012249
DOI: 10.5517/ccdc.csd.cc1prmwy
title: CCDC 1571851: Experimental Crystal Structure Determination

description: Related Article: B. Ośmiałowski, B. Dziuk, K. Ejsmont, L. Chęcińska, L. Dobrzańska|2021|Acta Crystallogr.,Sect.C:Cryst.Struct.Chem.|77|807|doi:10.1107/S2053229621012249
DOI: 10.5519/qd.hln1n2ci
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (757056 records)
DOI: 10.5281/zenodo.5743090
title: SILKNOW Knowledge Graph

description: SILKNOW is a research project that aims at improving the understanding, conservation and dissemination of the<br> European silk heritage from the 15th to the 19th century. The SILKNOW knowledge graph (KG) lies at<br> the center of the application of Semantic Web technologies and computing research to the needs of museums and every other user of this knowledge. The underlying data model is based on CIDOC-CRM and data mappings which are realised and implementedwith conversion tools developed for SILKNOW.<br> <br> Full instructions on how to deploy this KG can be found in the README.md file. See also https://github.com/silknow/knowledge-base
DOI: 10.5281/zenodo.5743089
title: SILKNOW Knowledge Graph

description: SILKNOW is a research project that aims at improving the understanding, conservation and dissemination of the<br> European silk heritage from the 15th to the 19th century. The SILKNOW knowledge graph (KG) lies at<br> the center of the application of Semantic Web technologies and computing research to the needs of museums and every other user of this knowledge. The underlying data model is based on CIDOC-CRM and data mappings which are realised and implementedwith conversion tools developed for SILKNOW.<br> <br> Full instructions on how to deploy this KG can be found in the README.md file. See also https://github.com/silknow/knowledge-base
DOI: 10.34740/kaggle/dsv/2870030
title: UNET Lung Segmentation Weights for Chest X Rays
DOI: 10.5281/zenodo.5645584
title: Ansbach, Löwen-Apotheke: Schüle, Karl

description: Questionnaire/s and index cards, partly selected enclosures regarding the history of a German pharmacy (Fragebogen und Karteikarten, ggf. gemeinfreie Anlagen zur Apothekengeschichte ; als Katalog dient das Nachlassportal Kalliope).
DOI: 10.17633/rd.brunel.17060135
title: Urban weather data for building performance simulations: London case study

description: Two datasets of measured and simulated current and future weather data for two London locations during the summer months of June to August. These data underpin the paper 'Generating future-urban weather files for building performance simulations: case studies in London' available in http://bura.brunel.ac.uk/handle/2438/23435. It includes data used to carry out the analysis presented in the paper. This includes measured air temperatures in two sites in London (urban and suburban) and hourly values of weather data used to carry out the dynamic thermal simulations.
DOI: 10.5519/qd.s5l0yqbf
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1 records)
DOI: 10.5519/qd.a4t89ysi
title: Query on the Natural History Museum Data Portal (data.nhm.ac.uk) (1 records)