cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.19227406
title: Table S3.xlsx from Head transcriptome profiling of glossiphoniid leech (<i>Helobdella austinensis</i>) reveals clues of proboscis development

description: Cephalization refers to the evolutionary trend toward concentration of neural tissues, sensory organs, mouth and associated structures at the front end of bilaterian animals. Comprehensive studies on gene expression related to anterior formation in invertebrate models are currently lacking. In this study, we performed <i>de novo</i> transcriptional profiling, on a proboscis-bearing leech <i>Helobdella austinensis</i> to identify differentially expressed genes (DEGs) in the anterior versus other parts of the body, and in particular to find clues as to the development of the proboscis. Between the head and the body, 132 head-specific DEGs were identified, of which we chose 11 to investigate their developmental function during embryogenesis. Analysis of the spatial expression of these genes using <i>in situ</i> hybridization showed that they were characteristically expressed in the anterior region of the developing embryo, including the proboscis. Our results provide information on genes related to head formation and insights into the function of proboscis-related genes during organogenesis with the potential roles of genes not yet characterized.
DOI: 10.6084/m9.figshare.19227406.v1
title: Table S3.xlsx from Head transcriptome profiling of glossiphoniid leech (<i>Helobdella austinensis</i>) reveals clues of proboscis development

description: Cephalization refers to the evolutionary trend toward concentration of neural tissues, sensory organs, mouth and associated structures at the front end of bilaterian animals. Comprehensive studies on gene expression related to anterior formation in invertebrate models are currently lacking. In this study, we performed <i>de novo</i> transcriptional profiling, on a proboscis-bearing leech <i>Helobdella austinensis</i> to identify differentially expressed genes (DEGs) in the anterior versus other parts of the body, and in particular to find clues as to the development of the proboscis. Between the head and the body, 132 head-specific DEGs were identified, of which we chose 11 to investigate their developmental function during embryogenesis. Analysis of the spatial expression of these genes using <i>in situ</i> hybridization showed that they were characteristically expressed in the anterior region of the developing embryo, including the proboscis. Our results provide information on genes related to head formation and insights into the function of proboscis-related genes during organogenesis with the potential roles of genes not yet characterized.
DOI: 10.6084/m9.figshare.19227409
title: Table S1.xlsx from Head transcriptome profiling of glossiphoniid leech (<i>Helobdella austinensis</i>) reveals clues of proboscis development

description: Cephalization refers to the evolutionary trend toward concentration of neural tissues, sensory organs, mouth and associated structures at the front end of bilaterian animals. Comprehensive studies on gene expression related to anterior formation in invertebrate models are currently lacking. In this study, we performed <i>de novo</i> transcriptional profiling, on a proboscis-bearing leech <i>Helobdella austinensis</i> to identify differentially expressed genes (DEGs) in the anterior versus other parts of the body, and in particular to find clues as to the development of the proboscis. Between the head and the body, 132 head-specific DEGs were identified, of which we chose 11 to investigate their developmental function during embryogenesis. Analysis of the spatial expression of these genes using <i>in situ</i> hybridization showed that they were characteristically expressed in the anterior region of the developing embryo, including the proboscis. Our results provide information on genes related to head formation and insights into the function of proboscis-related genes during organogenesis with the potential roles of genes not yet characterized.
DOI: 10.6084/m9.figshare.19227409.v1
title: Table S1.xlsx from Head transcriptome profiling of glossiphoniid leech (<i>Helobdella austinensis</i>) reveals clues of proboscis development

description: Cephalization refers to the evolutionary trend toward concentration of neural tissues, sensory organs, mouth and associated structures at the front end of bilaterian animals. Comprehensive studies on gene expression related to anterior formation in invertebrate models are currently lacking. In this study, we performed <i>de novo</i> transcriptional profiling, on a proboscis-bearing leech <i>Helobdella austinensis</i> to identify differentially expressed genes (DEGs) in the anterior versus other parts of the body, and in particular to find clues as to the development of the proboscis. Between the head and the body, 132 head-specific DEGs were identified, of which we chose 11 to investigate their developmental function during embryogenesis. Analysis of the spatial expression of these genes using <i>in situ</i> hybridization showed that they were characteristically expressed in the anterior region of the developing embryo, including the proboscis. Our results provide information on genes related to head formation and insights into the function of proboscis-related genes during organogenesis with the potential roles of genes not yet characterized.
DOI: 10.6084/m9.figshare.19227131.v1
title: Additional file 1 of Eco-evolutionary significance of domesticated retroelements in microbial genomes

description: Additional file 1: Table S1. Reverse transcriptase genes in Trichodesmium erythraeum IMS101 and the coordinates of their associated retroelement features (where applicable). Table S2. Coordinates of putative remote DGR target genes, with the corresponding template repeat (TR) based on homology. Table S3. Metagenome details for TARA Global Oceans datasets that were used in the Trichodesmium pangenomic analysis.
DOI: 10.6084/m9.figshare.19227122.v1
title: Additional file 1 of Use of nCounter mRNA profiling to identify at-arrival gene expression patterns for predicting bovine respiratory disease in beef cattle

description: Additional file 1: Table S1. Metadata of cattle selected for NanoString nCounter mRNA profiling. Table S2. Quality control information from sample preparation and RNA isolation. Table S3. mRNA probe selection information. Table S4. Differentially expressed genes identified between Healthy vs BRD cattle (fold change directionality in Healthy). Table S5. Differentially expressed genes identified between Treated_1 vs Healthy cattle (fold change directionality in Treated_1). Table S6. Differentially expressed genes identified between Treated_2+ vs Healthy cattle (fold change directionality in Treated_2+). Table S7. Differentially expressed genes identified between Treated_2+ vs Treated_1 cattle (fold change directionality in Treated_2+). Table S8. Levene’s test for homogeneity of variance across all 30 DEGs. Table S9. Selective multiclass receiver operator characteristic (ROC) curve analysis for each study population.
DOI: 10.6084/m9.figshare.19227131
title: Additional file 1 of Eco-evolutionary significance of domesticated retroelements in microbial genomes

description: Additional file 1: Table S1. Reverse transcriptase genes in Trichodesmium erythraeum IMS101 and the coordinates of their associated retroelement features (where applicable). Table S2. Coordinates of putative remote DGR target genes, with the corresponding template repeat (TR) based on homology. Table S3. Metagenome details for TARA Global Oceans datasets that were used in the Trichodesmium pangenomic analysis.
DOI: 10.6084/m9.figshare.19227122
title: Additional file 1 of Use of nCounter mRNA profiling to identify at-arrival gene expression patterns for predicting bovine respiratory disease in beef cattle

description: Additional file 1: Table S1. Metadata of cattle selected for NanoString nCounter mRNA profiling. Table S2. Quality control information from sample preparation and RNA isolation. Table S3. mRNA probe selection information. Table S4. Differentially expressed genes identified between Healthy vs BRD cattle (fold change directionality in Healthy). Table S5. Differentially expressed genes identified between Treated_1 vs Healthy cattle (fold change directionality in Treated_1). Table S6. Differentially expressed genes identified between Treated_2+ vs Healthy cattle (fold change directionality in Treated_2+). Table S7. Differentially expressed genes identified between Treated_2+ vs Treated_1 cattle (fold change directionality in Treated_2+). Table S8. Levene’s test for homogeneity of variance across all 30 DEGs. Table S9. Selective multiclass receiver operator characteristic (ROC) curve analysis for each study population.
DOI: 10.6084/m9.figshare.19227061
title: Additional file 4 of Meta-analysis defines predominant shared microbial responses in various diseases and a specific inflammatory bowel disease signal

description: Additional file 4: Dataset S3. IBD-specific ASVs.
DOI: 10.6084/m9.figshare.19227576
title: Raw monitoring data.xlsx

description: This dataset provides the number adult <i>Halyomorpha halys</i> found in black light, incandescent light, and pheromone traps monitored from May through October in Kyoto, Japan from 2010 - 2020. The dataset is used in the article, <b>Monitoring trap comparisons and seasonal phenology of brown marmorated stink bug (<i>Halyomorpha halys</i>) in Japan.</b>
DOI: 10.6084/m9.figshare.19227724
title: Quantitative results from ‘Inert’ ingredients are understudied, potentially dangerous to bees and deserve more research attention

description: Outcomes of the systematic review categorisation of papers
DOI: 10.5281/zenodo.13625671
title: vireo_atricapilla_decontaminated_FSCR.fasta.gz

description: .
DOI: 10.5281/zenodo.13625672
title: vireo_atricapilla_decontaminated_FSCR.fasta.gz

description: .
DOI: 10.15468/dl.x67zfq
title: Occurrence Download

description: A dataset containing 2704 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-21.97283 14.80787,78.75662 14.80787,78.75662 46.41753,-21.97283 46.41753,-21.97283 14.80787))",
 "TaxonKey is Pistacia atlantica Desf."
 ]
}

 The dataset includes 2704 records from 75 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0112071-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.uhszqr
title: Occurrence Download

description: A dataset containing 39400 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Eptesicus nilssonii (Keyserling & Blasius, 1839)",
 "HasCoordinate is true",
 "Year is greater than or equal to 2011",
 "Year is less than or equal to 2024"
 ]
}

 The dataset includes 39400 records from 117 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0112072-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.jwfcfd
title: Occurrence Download

description: A dataset containing 2704 species occurrences available in GBIF matching the query:
{
 "and" : [
 "Geometry POLYGON((-21.97283 14.80787,78.75662 14.80787,78.75662 46.41753,-21.97283 46.41753,-21.97283 14.80787))",
 "TaxonKey is Pistacia atlantica Desf."
 ]
}

 The dataset includes 2704 records from 75 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0112073-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.3bynyk
title: Occurrence Download

description: A dataset containing 8281 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Myotis brandtii (Eversmann, 1845)",
 "HasCoordinate is true",
 "Year is greater than or equal to 2011",
 "Year is less than or equal to 2024"
 ]
}

 The dataset includes 8281 records from 320 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0112074-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.15468/dl.7gzdbk
title: Occurrence Download

description: A dataset containing 37483 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Myotis emarginatus (E.Geoffroy, 1806)",
 "HasCoordinate is true",
 "Year is greater than or equal to 2011",
 "Year is less than or equal to 2024"
 ]
}

 The dataset includes 37483 records from 1181 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0112075-240626123714530/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.48597/jmjv-5e5p
title: Measurement of Sulphate_total at Hoburgen

description: Measurement of Sulphate_total at Hoburgen
DOI: 10.48597/jrtd-muvc
title: Measurement of Inorganics in air and particle phase at Bredkälen

description: Measurement of Inorganics in air and particle phase at Bredkälen
DOI: 10.48597/ke6v-swrf
title: Measurement of Sulphate_total at Vavihill

description: Measurement of Sulphate_total at Vavihill
DOI: 10.48597/kxm8-9xcq
title: Measurement of Sulphate_total at Hoburgen

description: Measurement of Sulphate_total at Hoburgen
DOI: 10.48597/m6db-35bu
title: Measurement of Sulphur_dioxide at Aspvreten

description: Measurement of Sulphur_dioxide at Aspvreten
DOI: 10.48597/n3tq-vd4h
title: Measurement of Inorganics in precipitation at Aspvreten

description: Measurement of Inorganics in precipitation at Aspvreten
DOI: 10.48597/n782-f3ga
title: Measurement of Inorganics in precipitation at Aspvreten

description: Measurement of Inorganics in precipitation at Aspvreten
DOI: 10.48597/n8ca-9j8a
title: Measurement of Sulphur_dioxide at Hoburgen

description: Measurement of Sulphur_dioxide at Hoburgen
DOI: 10.48597/nhu4-qzym
title: Measurement of Inorganics in air and particle phase at Aspvreten

description: Measurement of Inorganics in air and particle phase at Aspvreten
DOI: 10.48597/nhvu-ehw3
title: Measurement of Inorganics in precipitation at Vavihill

description: Measurement of Inorganics in precipitation at Vavihill
DOI: 10.48597/pbez-bdjq
title: Measurement of Sulphur_dioxide at Aspvreten

description: Measurement of Sulphur_dioxide at Aspvreten
DOI: 10.48597/phgd-tnjs
title: Measurement of Sulphate_total at Velen

description: Measurement of Sulphate_total at Velen
DOI: 10.48597/pzxc-gsad
title: Measurement of Inorganics in air and particle phase at Hoburgen

description: Measurement of Inorganics in air and particle phase at Hoburgen
DOI: 10.48597/qvdw-rd75
title: Measurement of Inorganics in precipitation at Vavihill

description: Measurement of Inorganics in precipitation at Vavihill
DOI: 10.48597/r2cz-6phh
title: Measurement of Sulphate_total at Velen

description: Measurement of Sulphate_total at Velen
DOI: 10.48597/s5kp-scz8
title: Measurement of Inorganics in air and particle phase at Vavihill

description: Measurement of Inorganics in air and particle phase at Vavihill
DOI: 10.48597/s999-vgat
title: Measurement of Inorganics in air and particle phase at Velen

description: Measurement of Inorganics in air and particle phase at Velen
DOI: 10.48597/sy45-wmex
title: Measurement of Sulphate_total at Velen

description: Measurement of Sulphate_total at Velen
DOI: 10.48597/sztu-ux6h
title: Measurement of Sum_ammonia_and_ammonium at Vavihill

description: Measurement of Sum_ammonia_and_ammonium at Vavihill
DOI: 10.48597/t9dv-ncwt
title: Measurement of Sulphur_dioxide at Vavihill

description: Measurement of Sulphur_dioxide at Vavihill
DOI: 10.6084/m9.figshare.23540593
title: Laccase-evoked removal of antibiotics: Reaction kinetics, conversion mechanisms, and ecotoxicity assessment

description: Antibiotics in ecosystems stimulate the emergence and development of antibiotic-resistant bacteria and genes, consequently posing tremendous health risks to wildlife species and humans. Laccase, a multicopper-containing oxidoreductase, is capable of nonspecifically catalyzing oxidization of multiple hazardous micropollutants, including antibiotics, with O<sub>2</sub> as the terminal electron acceptor. Thus, laccase is recognized as a promising “green and sustainable biocatalyst” for the decontamination of antibiotics. Recently, great efforts have been made to design and exploit immobilized laccase to tackle antibiotics in the environment. In this review, the occurrence, fate, and ecological risks of antibiotics in environmental matrices are described. Moreover, the immobilized laccase-evoked removal of antibiotics, owing to immobilization technology reinforcing the stability and reusability of free laccase in bioremediation, is examined in details. In particular, advances in laccase-provoked transformation mechanisms (i.e. oxidative decomposition and radical polymerization) of antibiotics are highlighted, and a valuable guideline beneficial to large-scale practical applications is provided. Furthermore, evaluation of the intermediate products of antibiotics and their ecotoxicity in different laccase-enabled treatments is summarized. Finally, new directions for the application of laccase for effective antibiotic removal are envisaged, and several future directions to address the challenges are proposed.
DOI: 10.6084/m9.figshare.23540593.v1
title: Laccase-evoked removal of antibiotics: Reaction kinetics, conversion mechanisms, and ecotoxicity assessment

description: Antibiotics in ecosystems stimulate the emergence and development of antibiotic-resistant bacteria and genes, consequently posing tremendous health risks to wildlife species and humans. Laccase, a multicopper-containing oxidoreductase, is capable of nonspecifically catalyzing oxidization of multiple hazardous micropollutants, including antibiotics, with O<sub>2</sub> as the terminal electron acceptor. Thus, laccase is recognized as a promising “green and sustainable biocatalyst” for the decontamination of antibiotics. Recently, great efforts have been made to design and exploit immobilized laccase to tackle antibiotics in the environment. In this review, the occurrence, fate, and ecological risks of antibiotics in environmental matrices are described. Moreover, the immobilized laccase-evoked removal of antibiotics, owing to immobilization technology reinforcing the stability and reusability of free laccase in bioremediation, is examined in details. In particular, advances in laccase-provoked transformation mechanisms (i.e. oxidative decomposition and radical polymerization) of antibiotics are highlighted, and a valuable guideline beneficial to large-scale practical applications is provided. Furthermore, evaluation of the intermediate products of antibiotics and their ecotoxicity in different laccase-enabled treatments is summarized. Finally, new directions for the application of laccase for effective antibiotic removal are envisaged, and several future directions to address the challenges are proposed.
DOI: 10.6084/m9.figshare.11481987
title: Late Cretaceous–Eocene magmatism induced by slab rollback and breakoff in the Tengchong terrane, SW China

description: Late Cretaceous–Eocene granites are widespread in the Tengchong terrane and related to subduction and closure of the Neo–Tethyan Ocean. However, the reason of their compositional and spatial variations is still under explored. This study reports zircon U–Pb geochronological, whole–rock and Nd isotopic data for Guyong, Houqiao and Menglong granites in the Tengchong terrane. Our data show that the three plutons crystallized at 70.4 ± 0.3Ma, 64.4 ± 0.3Ma and 47.6 ± 0.2Ma. Guyong monzogranites show an I–type affinity and may have experienced fractional crystallization of plagioclase, biotite and sphene. Negative ε<sub>Nd</sub>(t) values (−9.19 to −11.01) with two-stage model ages (T<sub>2DM</sub> = 1.59–1.78 Ga) indicate that Guyong monzogranites are derived from a predominantly Paleoproterozoic crustal source with little involvement of mantle–derived materials in an extensional setting. Lower ε<sub>Nd</sub>(t) (−9.33 to −11.63) and negative correlations of HREE, LREE, Th, and Y vs. SiO<sub>2</sub> indicate that Houqiao plutons are S–type granites derived from a pure crustal source during crustal thickening. Low Zr/Hf and Nb/Ta ratios, zircon saturation temperature (T<sub>Zr</sub> = 750°C–786°C) and negative δEu (0.11–0.40) of Menglong biotite granites indicate that they have experienced fractional crystallization of plagioclase, biotite and sphene. Relatively high ε<sub>Nd</sub>(t) (−6.81 to −7.07) values indicate that they are products of felsic magma mixed with mafic magma, which is also supported by numerous coeval mafic–intermediate rocks (Eocene) such as metagabbros, diorites and MMEs (mafic microgranular enclaves) in the western Tengchong terrane. A process of slab rollback and slab breakoff may have triggered the late Cretaceous–Eocene magmatism and the compositional variation of associated granitoids in the Tengchong terrane.
DOI: 10.6084/m9.figshare.11481987.v1
title: Late Cretaceous–Eocene magmatism induced by slab rollback and breakoff in the Tengchong terrane, SW China

description: Late Cretaceous–Eocene granites are widespread in the Tengchong terrane and related to subduction and closure of the Neo–Tethyan Ocean. However, the reason of their compositional and spatial variations is still under explored. This study reports zircon U–Pb geochronological, whole–rock and Nd isotopic data for Guyong, Houqiao and Menglong granites in the Tengchong terrane. Our data show that the three plutons crystallized at 70.4 ± 0.3Ma, 64.4 ± 0.3Ma and 47.6 ± 0.2Ma. Guyong monzogranites show an I–type affinity and may have experienced fractional crystallization of plagioclase, biotite and sphene. Negative ε<sub>Nd</sub>(t) values (−9.19 to −11.01) with two-stage model ages (T<sub>2DM</sub> = 1.59–1.78 Ga) indicate that Guyong monzogranites are derived from a predominantly Paleoproterozoic crustal source with little involvement of mantle–derived materials in an extensional setting. Lower ε<sub>Nd</sub>(t) (−9.33 to −11.63) and negative correlations of HREE, LREE, Th, and Y vs. SiO<sub>2</sub> indicate that Houqiao plutons are S–type granites derived from a pure crustal source during crustal thickening. Low Zr/Hf and Nb/Ta ratios, zircon saturation temperature (T<sub>Zr</sub> = 750°C–786°C) and negative δEu (0.11–0.40) of Menglong biotite granites indicate that they have experienced fractional crystallization of plagioclase, biotite and sphene. Relatively high ε<sub>Nd</sub>(t) (−6.81 to −7.07) values indicate that they are products of felsic magma mixed with mafic magma, which is also supported by numerous coeval mafic–intermediate rocks (Eocene) such as metagabbros, diorites and MMEs (mafic microgranular enclaves) in the western Tengchong terrane. A process of slab rollback and slab breakoff may have triggered the late Cretaceous–Eocene magmatism and the compositional variation of associated granitoids in the Tengchong terrane.
DOI: 10.4121/998296ec-7696-4180-8d7e-9af8588b1182
title: Data for Interdependence and Trust Analysis (ITA): a Framework for Human-Machine Team Design

description: This data includes the analysed transcripts of the second phase of evaluation's focus group. It includes an excel file with the coding scheme, the double coding results, and the anonymised utterances with their respective final codes/labels.
DOI: 10.4121/998296ec-7696-4180-8d7e-9af8588b1182.v1
title: Data for Interdependence and Trust Analysis (ITA): a Framework for Human-Machine Team Design

description: This data includes the analysed transcripts of the second phase of evaluation's focus group. It includes an excel file with the coding scheme, the double coding results, and the anonymised utterances with their respective final codes/labels.