cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.30651508.v1
title: Substance use among deaf and hard of hearing individuals: a scoping review of prevalence and patterns

description: In substance use research, there is a lack of understanding regarding the prevalence and patterns of use among deaf and hard of hearing (DHH) individuals, and how these may differ from those in the hearing population. A scoping review of 37 studies was conducted to map what is known in the scientific literature about the prevalence and patterns of substance use among DHH individuals, as well as the research methods employed. Studies were analyzed both narratively and thematically. The existing body of research on substance use among DHH individuals is predominantly quantitative and largely based in the United States. While some studies report no significant differences in substance use between DHH and hearing individuals, others do identify notable disparities. The literature is highly heterogeneous in terms of study design and findings. This scoping review reveals considerable knowledge gaps concerning the prevalence and patterns of substance use among DHH individuals and shows that the research methods used are often poorly tailored to this population. There is an urgent need for more methodologically rigorous and population-sensitive research in this field.
DOI: 10.6084/m9.figshare.29821092
title: Transcriptomic and metabolomic analysis of the main stress-related pathways in the DNA methylation-defective <i>ddc</i> mutant of <i>Arabidopsis thaliana</i> exposed to cadmium

description: Plant growth and development strongly depend on environmental conditions and can be frequently hindered by several abiotic and biotic stress factors. To counteract these factors plants evolved complex defence strategies, including epigenetic modifications, to appropriately regulate gene expression. This study extends our previous investigations on the role of DNA methylation in cadmium (Cd) stress tolerance using the <i>Arabidopsis thaliana drm1 drm2 cmt3</i> (<i>ddc</i>) mutant, defective in both <i>de novo</i> and maintenance DNA methylation. It is known that Cd toxicity is related to oxidative stress induction and cellular homeostasis disruption, impairing growth and metabolism. Through transcriptomic analysis we investigated Cd-induced modulation of genetic pathways (GPs) specifically related to defence mechanisms against metal-toxicity, such as antioxidant and detoxification pathways and mitogen-activated protein kinase (MAPK) signalling. To understand the whole metabolic shift under Cd stress, targeted metabolomic analysis was also performed. A global genotype-specific downregulation of analysed GPs and metabolic profiles was detected in both <i>ddc</i> and wild type plants, in line with Cd detrimental but differential effects on their growth. By integrating the present and our previous findings we discuss the important role of epigenetic regulation in modulating Cd stress adaptation.
DOI: 10.6084/m9.figshare.29821092.v1
title: Transcriptomic and metabolomic analysis of the main stress-related pathways in the DNA methylation-defective <i>ddc</i> mutant of <i>Arabidopsis thaliana</i> exposed to cadmium

description: Plant growth and development strongly depend on environmental conditions and can be frequently hindered by several abiotic and biotic stress factors. To counteract these factors plants evolved complex defence strategies, including epigenetic modifications, to appropriately regulate gene expression. This study extends our previous investigations on the role of DNA methylation in cadmium (Cd) stress tolerance using the <i>Arabidopsis thaliana drm1 drm2 cmt3</i> (<i>ddc</i>) mutant, defective in both <i>de novo</i> and maintenance DNA methylation. It is known that Cd toxicity is related to oxidative stress induction and cellular homeostasis disruption, impairing growth and metabolism. Through transcriptomic analysis we investigated Cd-induced modulation of genetic pathways (GPs) specifically related to defence mechanisms against metal-toxicity, such as antioxidant and detoxification pathways and mitogen-activated protein kinase (MAPK) signalling. To understand the whole metabolic shift under Cd stress, targeted metabolomic analysis was also performed. A global genotype-specific downregulation of analysed GPs and metabolic profiles was detected in both <i>ddc</i> and wild type plants, in line with Cd detrimental but differential effects on their growth. By integrating the present and our previous findings we discuss the important role of epigenetic regulation in modulating Cd stress adaptation.
DOI: 10.6084/m9.figshare.29856125
title: Genome-wide identification and characterization of R2R3-MYB gene family and functional exploration on MYB34 in <i>Isatis indigotica</i>

description: MYB gene family plays crucial roles in growth and development, hormone signal transduction and metabolite regulation in plants. In this study, the identification and characterization of R2R3-MYBs and exploration on MYB34 were investigated in <i>Isatis indigotica</i>. The results revealed that there were 105 <i>Ii</i>R2R3-MYB members, distributed across seven chromosomes. They were classified into 25 subfamilies, showing evolutionary and functional similarities to <i>Arabidopsis thaliana</i>. Moreover, 32 <i>Ii</i>R2R3-MYBs involved in secondary metabolism pathways, whose expression patterns in different organs and stages were further studied using qRT-PCR. Furthermore, the functions of <i>Ii</i>MYB34 were investigated. When <i>IiMYB34</i> was introduced in <i>Isatis indigotica</i>, a notable decrease was observed both in the content of glucosinolates (GSLs) and the expression levels of <i>IiCYP79F1</i> and <i>IiCYP83A1</i> involved in aliphatic GSL biosynthesis, and <i>IiCYP79B2</i>, <i>IiCYP83B1</i> and <i>IiSOT16</i> involved in indolic GSL biosynthesis. Besides, over-expression of <i>IiMYB34</i> in <i>Nicotiana benthamiana</i> resulted in an increased content of flavonoids and anthocyanins, and expression level of related enzyme genes. These findings contributed to the exploration on the regulatory mechanisms of MYBs involved in GSL biosynthesis and provided the potential molecular breeding strategies for <i>Isatis indigotica</i>.
DOI: 10.6084/m9.figshare.29856125.v1
title: Genome-wide identification and characterization of R2R3-MYB gene family and functional exploration on MYB34 in <i>Isatis indigotica</i>

description: MYB gene family plays crucial roles in growth and development, hormone signal transduction and metabolite regulation in plants. In this study, the identification and characterization of R2R3-MYBs and exploration on MYB34 were investigated in <i>Isatis indigotica</i>. The results revealed that there were 105 <i>Ii</i>R2R3-MYB members, distributed across seven chromosomes. They were classified into 25 subfamilies, showing evolutionary and functional similarities to <i>Arabidopsis thaliana</i>. Moreover, 32 <i>Ii</i>R2R3-MYBs involved in secondary metabolism pathways, whose expression patterns in different organs and stages were further studied using qRT-PCR. Furthermore, the functions of <i>Ii</i>MYB34 were investigated. When <i>IiMYB34</i> was introduced in <i>Isatis indigotica</i>, a notable decrease was observed both in the content of glucosinolates (GSLs) and the expression levels of <i>IiCYP79F1</i> and <i>IiCYP83A1</i> involved in aliphatic GSL biosynthesis, and <i>IiCYP79B2</i>, <i>IiCYP83B1</i> and <i>IiSOT16</i> involved in indolic GSL biosynthesis. Besides, over-expression of <i>IiMYB34</i> in <i>Nicotiana benthamiana</i> resulted in an increased content of flavonoids and anthocyanins, and expression level of related enzyme genes. These findings contributed to the exploration on the regulatory mechanisms of MYBs involved in GSL biosynthesis and provided the potential molecular breeding strategies for <i>Isatis indigotica</i>.
DOI: 10.5281/zenodo.15363588
title: Toward a Comprehensive Grid of Cepheid Models with MESA II. Uncertainties of the Elemental Abundances of Intermediate-Mass Stars.

description: MESA (version r.21.12.1 with MESA SDK 22.6.1) files used for the article: Toward a Comprehensive Grid of Cepheid Models with MESA II. Uncertainties of the Elemental Abundances of Intermediate-Mass Stars. submitted to ApJShistory_columns_cep.list - list of columns in history.data filesprofiles_columns_cep.list - list of columns in profile.data filesLOGS_res_A.tar.gz - full reference tracks with profiles (for kippenhahn diagrams); without overshootLOGS_res_A_ov.tar.gz - full reference tracks with profiles (for kippenhahn diagrams); with overshoottracks_SET.tar.gz - short evolutionary tracks without overshooting (MESA history.data files)tracks_SET_ov.tar.gz - short evolutionary tracks with main sequence core overshooting (MESA history.data files)dataforfigs.tar.gz:- fig5 - additional LOGS with dense profiles for fig.5     - LOGS_5_0.014     - LOGS_5_0.014_conv_B     - LOGS_5_0.014_MS     - LOGS_5_0.014_conv_B_MS

for fig.3- LOGS_5_0.014_A09_res_A - models with T_mixing_limit=1d6- LOGS_5_0.014_A09_res_A0 - models with T_mixing_limit=0for fig. 7- LOGS_6_0.004_A09_conv_C- LOGS_6_0.004_A09_res_Atables.tar.gz - surface and central abundances with and without overshoot; for 8 benchamark points

EDIT: tables.tar.gz. was not complete. A new tables.zip archive was added containing all the tables.
DOI: 10.5281/zenodo.17643575
title: Toward a Comprehensive Grid of Cepheid Models with MESA II. Uncertainties of the Elemental Abundances of Intermediate-Mass Stars.

description: MESA (version r.21.12.1 with MESA SDK 22.6.1) files used for the article: Toward a Comprehensive Grid of Cepheid Models with MESA II. Uncertainties of the Elemental Abundances of Intermediate-Mass Stars. submitted to ApJShistory_columns_cep.list - list of columns in history.data filesprofiles_columns_cep.list - list of columns in profile.data filesLOGS_res_A.tar.gz - full reference tracks with profiles (for kippenhahn diagrams); without overshootLOGS_res_A_ov.tar.gz - full reference tracks with profiles (for kippenhahn diagrams); with overshoottracks_SET.tar.gz - short evolutionary tracks without overshooting (MESA history.data files)tracks_SET_ov.tar.gz - short evolutionary tracks with main sequence core overshooting (MESA history.data files)dataforfigs.tar.gz:- fig5 - additional LOGS with dense profiles for fig.5     - LOGS_5_0.014     - LOGS_5_0.014_conv_B     - LOGS_5_0.014_MS     - LOGS_5_0.014_conv_B_MS

for fig.3- LOGS_5_0.014_A09_res_A - models with T_mixing_limit=1d6- LOGS_5_0.014_A09_res_A0 - models with T_mixing_limit=0for fig. 7- LOGS_6_0.004_A09_conv_C- LOGS_6_0.004_A09_res_Atables.tar.gz - surface and central abundances with and without overshoot; for 8 benchamark points

EDIT: tables.tar.gz. was not complete. A new tables.zip archive was added containing all the tables.
DOI: 10.15468/dl.8cwa2v
title: Occurrence Download

description: A dataset containing 1083 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Plantae",
 "HasGeospatialIssue is false",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "Country is Germany",
 "DecimalLongitude is greater than or equal to 6.07132006335445",
 "DecimalLongitude is less than 6.07437961653885",
 "DecimalLatitude is greater than or equal to 47.27011",
 "DecimalLatitude is less than or equal to 55.05864"
 ]
}

 The dataset includes 1083 records from 9 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0042941-251025141854904/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.6084/m9.figshare.29821002
title: The impact of the symbiont genotype on the effect of arbuscular mycorrhizal symbiosis on grapevine growth and physiology

description: The challenge of maintaining grapevine yields and quality under unrelenting climate change is a priority in viticulture nowadays. This challenge can be addressed by investigating and utilizing sustainable agricultural practices that promote ecosystem services. Examples of eco-sustainable approaches to this challenge include the use of new eco-friendly management strategies (such as cover crops and beneficial microbes that restore soil biodiversity) and the selection of stress-adapted grapevine genotypes (such as rootstocks that confer stress tolerance traits to the grafted scion). Grapevine establishes mycorrhizal symbioses with arbuscular mycorrhizal fungi (AMF), which naturally occur in roots of most of the studied vineyards. The colonization of grapevine root system by AMF affects its architecture and functioning and leads to beneficial effects on host growth, nutrition and health. Here, three out of the most widespread rootstocks (110R, 1103P, Kober 5BB), exhibiting specific traits in terms of vigor, stress tolerance and adaptability to particular soil conditions, have been selected and evaluated for their ability to interact with different AMF (both commercial and custom inocula) to verify the efficiency of symbiosis. Results showed that all the tested inocula led to a root colonization on the selected rootstocks, although at different extent.
DOI: 10.6084/m9.figshare.29821002.v1
title: The impact of the symbiont genotype on the effect of arbuscular mycorrhizal symbiosis on grapevine growth and physiology

description: The challenge of maintaining grapevine yields and quality under unrelenting climate change is a priority in viticulture nowadays. This challenge can be addressed by investigating and utilizing sustainable agricultural practices that promote ecosystem services. Examples of eco-sustainable approaches to this challenge include the use of new eco-friendly management strategies (such as cover crops and beneficial microbes that restore soil biodiversity) and the selection of stress-adapted grapevine genotypes (such as rootstocks that confer stress tolerance traits to the grafted scion). Grapevine establishes mycorrhizal symbioses with arbuscular mycorrhizal fungi (AMF), which naturally occur in roots of most of the studied vineyards. The colonization of grapevine root system by AMF affects its architecture and functioning and leads to beneficial effects on host growth, nutrition and health. Here, three out of the most widespread rootstocks (110R, 1103P, Kober 5BB), exhibiting specific traits in terms of vigor, stress tolerance and adaptability to particular soil conditions, have been selected and evaluated for their ability to interact with different AMF (both commercial and custom inocula) to verify the efficiency of symbiosis. Results showed that all the tested inocula led to a root colonization on the selected rootstocks, although at different extent.
DOI: 10.6084/m9.figshare.29968124
title: Phylogenetic analysis and morphological evidence reveal a new genus <i>Motuoorchis</i> in subtribe Goodyerinae (Orchidaceae)

description: A new monotypic genus, <i>Motuoorchis</i> is created to accomodate <i>Rhomboda pulchra</i>. Description and illustrations are provided here along with the new combination <i>Motuoorchis pulchra</i>. Both morphological and molecular phylogenetic evidence (ITS, <i>mat</i>K and <i>trn</i>L-F) suggest that <i>Motuoorchis</i> is closely related to <i>Rhomboda</i> within the subtribe Goodyerinae (Orchidaceae: Cranichideae), but mainly differs in having strip-like appendages on the column as well as shorter and wider leaves.
DOI: 10.6084/m9.figshare.29968124.v1
title: Phylogenetic analysis and morphological evidence reveal a new genus <i>Motuoorchis</i> in subtribe Goodyerinae (Orchidaceae)

description: A new monotypic genus, <i>Motuoorchis</i> is created to accomodate <i>Rhomboda pulchra</i>. Description and illustrations are provided here along with the new combination <i>Motuoorchis pulchra</i>. Both morphological and molecular phylogenetic evidence (ITS, <i>mat</i>K and <i>trn</i>L-F) suggest that <i>Motuoorchis</i> is closely related to <i>Rhomboda</i> within the subtribe Goodyerinae (Orchidaceae: Cranichideae), but mainly differs in having strip-like appendages on the column as well as shorter and wider leaves.
DOI: 10.6084/m9.figshare.29980084
title: Odoardo Beccari’s Malesian herbarium in Florence: the disclosure of a hidden treasure. 2. Algae

description: Odoardo Beccari was one of the most important Italian naturalists in the second half of the nineteenth century, and a pioneer in Southeast Asia wildlife exploration. After a first contribution dealing with Zingiberales, here we provide the second one to the revision of his main scientific legacy, the Malesian Herbarium kept in Florence, dedicated to algae. After most of algae specimens was revised by the renowned Venetian phycologist Giovanni Zanardini, a new, accurate taxonomic analysis allowed the identification of 37 still unidentified specimens, 12 to the genus and 25 to the species level. The taxonomic diversity of the collection is relatively small in respect to the potential one known from the seas and the inland waters of the Indo-Malesian area. Nevertheless, it includes representatives of 107 taxa from seven phyla, 15 classes, 37 orders and 56 families. Sixty-four original specimens were found, for which 32 new names had been published. Together with the few found in other herbaria, this allowed us to designate 17 new lectotypes and complete the lectotypification of further 6 names. Finally, the loss of most specimens coming from Beccari’s travel in Papua and Maluku is discussed, as a likely result of contingent events around the Zanardini’s death and Beccari’s professional troubles in Florence.
DOI: 10.6084/m9.figshare.29980084.v1
title: Odoardo Beccari’s Malesian herbarium in Florence: the disclosure of a hidden treasure. 2. Algae

description: Odoardo Beccari was one of the most important Italian naturalists in the second half of the nineteenth century, and a pioneer in Southeast Asia wildlife exploration. After a first contribution dealing with Zingiberales, here we provide the second one to the revision of his main scientific legacy, the Malesian Herbarium kept in Florence, dedicated to algae. After most of algae specimens was revised by the renowned Venetian phycologist Giovanni Zanardini, a new, accurate taxonomic analysis allowed the identification of 37 still unidentified specimens, 12 to the genus and 25 to the species level. The taxonomic diversity of the collection is relatively small in respect to the potential one known from the seas and the inland waters of the Indo-Malesian area. Nevertheless, it includes representatives of 107 taxa from seven phyla, 15 classes, 37 orders and 56 families. Sixty-four original specimens were found, for which 32 new names had been published. Together with the few found in other herbaria, this allowed us to designate 17 new lectotypes and complete the lectotypification of further 6 names. Finally, the loss of most specimens coming from Beccari’s travel in Papua and Maluku is discussed, as a likely result of contingent events around the Zanardini’s death and Beccari’s professional troubles in Florence.
DOI: 10.6084/m9.figshare.29606068
title: The response of hydroponically grown vetch (<i>Vicia sativa</i>) plants to a short-term Cu excess

description: Vetch (<i>Vicia sativa</i>) is frequently used for phytoremediation purposes, but its response to elevated Cu concentrations has been studied only in germinating seeds. Our aim was to investigate the response of hydroponically grown vetch to a short-term Cu excess. The amount of Cu in the roots and shoots increased with Cu concentration in the medium. Vetch plants accumulated Cu predominantly in the roots, where its toxicity manifested itself as a reduction in dry weight and water content. Both root and shoot cell walls of control plants demonstrated high Cu-binding capacity. By contrast, this parameter was reduced in roots of the plants treated with 100 µM Cu and in shoots of the plants treated with 10 µM Cu. Another response of <i>V. sativa</i> to the Cu excess was exudation of triterpene glycosides (saponins) from roots in a Cu concentration–dependent manner. We propose that the high accumulation of Cu in vetch roots is a result of high Cu-binding capacity of root cell walls, which serve as a sink for excess Cu in the root. The observed decrease in cation exchange capacity of the cell walls and the exudation of saponins may represent defense mechanisms against a Cu excess in the medium.
DOI: 10.6084/m9.figshare.29606068.v1
title: The response of hydroponically grown vetch (<i>Vicia sativa</i>) plants to a short-term Cu excess

description: Vetch (<i>Vicia sativa</i>) is frequently used for phytoremediation purposes, but its response to elevated Cu concentrations has been studied only in germinating seeds. Our aim was to investigate the response of hydroponically grown vetch to a short-term Cu excess. The amount of Cu in the roots and shoots increased with Cu concentration in the medium. Vetch plants accumulated Cu predominantly in the roots, where its toxicity manifested itself as a reduction in dry weight and water content. Both root and shoot cell walls of control plants demonstrated high Cu-binding capacity. By contrast, this parameter was reduced in roots of the plants treated with 100 µM Cu and in shoots of the plants treated with 10 µM Cu. Another response of <i>V. sativa</i> to the Cu excess was exudation of triterpene glycosides (saponins) from roots in a Cu concentration–dependent manner. We propose that the high accumulation of Cu in vetch roots is a result of high Cu-binding capacity of root cell walls, which serve as a sink for excess Cu in the root. The observed decrease in cation exchange capacity of the cell walls and the exudation of saponins may represent defense mechanisms against a Cu excess in the medium.
DOI: 10.6084/m9.figshare.28271062
title: Changes in mood states during inpatient rehabilitation after spinal cord injury

description: Retrospective observational study. To analyze changes in mood states during the acute phase of inpatient rehabilitation for spinal cord injury (SCI) and the factors associated with worse mood states and less improvement. Spinal unit in Italy. The study included people with SCI admitted between 2014 and 2019 and treated for psychological problems with a focus on ‘emotion processing’ and ‘emotional adjustment’. The sample included 170 patients (71.8% male, mean age 47.1 ± 16, range 17–78), 46.5% with tetraplegia and 50% with comorbidities. The Profile of Mood States (POMS) questionnaire was used to assess mood states at baseline and at the end of treatment. Multiple linear regression models were used to identify factors associated with changes in mood states during treatment. At baseline, patients with distress related to SCI diagnosis reported lower levels of vigor, whereas those with distressing life events reported higher levels of anger and confusion-bewilderment. POMS subscales improved significantly by at least 4 points. ASIA Impairment Scale (AIS) C score, living with family of origin, comorbidities and critical events during hospitalization were associated with greater improvements, whereas higher education was associated with less improvement in depressive mood. In tetraplegic patients, higher improvements in depressive mood were associated with greater independence at discharge, whereas in patients with paraplegia, higher improvements in anxiety and vitality were associated with better mobility. Our results indicate that mood states improved in people with SCI receiving a psychological treatment. Socio-demographic and SCI-related characteristics associated with a greater effect of psychological treatment should be considered in order to tailor the intervention.