cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.3qm6v
title: Data from: New taxa and a case of ephemeral spore production in Lecideaceae from western North America

description: Cyclohymenia epilithica is a newly described genus and species from Oregon
 and Washington, U.S.A. It occurs on noncalcareous rock in the oceanic
 forests west of the crest of the Cascade Range. Unlike most other North
 American species in the Lecideaceae, it is restricted to shady habitats in
 cool, wet, temperate climates. It is distinguished from other members of
 the family by its thick, pale gray green, epilithic thallus; immersed
 apothecia that superficially appear like perithecia or pycnidia; and
 ascocarps that usually contain a central sterile column surrounded by a
 ring-shaped hymenium. The structure and position of the ascocarp appear to
 be unique among Lecideaceae and related families. The species is also
 unusual in producing short-lived asci; most collections have barren
 apothecia. Lecidea atrobrunnea subsp. deplanaica is raised to the species
 level. The taxon deserves specific rank, not just from its distinctive
 chemistry, but also from morphology, distribution, and ecology that differ
 from L. atrobrunnea s.str. The newly described Lecidea uniformis from
 Oregon and Washington, mainly west of the Cascade crest, is similar in
 many ways to L. fuscoatra, but the areoles are uniformly brown and do not
 have a differentiated gray, blackish, or whitish edge. DNA sequence data
 support the taxa Cyclohymenia epilithica and L. uniformis.
description: LecideaceaeMcCuneEtAl2017-ITSDNA sequence data, ITS, alignment.LecideaceaeMcCuneEtAl2017-nuLSUDNA sequence data, nuLSU, alignment
DOI: 10.5061/dryad.m8d1c
title: Data from: Uropygial gland size and composition varies according to experimentally modified microbiome in Great tits

description: Background: Parasites exert important selective pressures on host life
 history traits. In birds, feathers are inhabited by numerous
 microorganisms, some of them being able to degrade feathers or lead to
 infections. Preening feathers with secretions of the uropygial gland has
 been found to act as an antimicrobial defence mechanism, expected to
 regulate feather microbial communities and thus limit feather abrasion and
 infections. Here, we used an experimental approach to test whether Great
 tits (Parus major) modify their investment in the uropygial gland in
 response to differences in environmental microorganisms. Results: We found
 that males, but not females, modified the size of their gland when exposed
 to higher bacterial densities on feathers. We also identified 16 wax
 esters in the uropygial gland secretions. The relative abundance of some
 of these esters changed in males and females, while the relative abundance
 of others changed only in females when exposed to greater bacterial loads
 on feathers. Conclusion: Birds live in a bacterial world composed of
 commensal and pathogenic microorganisms. This study provides the first
 experimental evidence for modifications of investment in the defensive
 trait that is the uropygial gland in response to environmental
 microorganisms in a wild bird.
description: Jacob et al _ BMC _
 Feather_bacterial_compositionARISA data of feather
 bacterial communitiesJacob et al _ BMC _
 Feather_bacterial_densitiesDensities of cultivable
 bacteria on feathersJacob et al _ BMC _
 Gland compositionData of chemical
 compounds contained in the grand (see Table S1 for
 identification)Jacob et al _ BMC _
 Gland volumeGreat tit uropygial
 gland and metadataJacob et al _ BMC _
 Nest_bacterial_compositionARISA data for nest
 bacterial communitiesJacob et al _ BMC _
 Nest_bacterial_densitiesDensities of cultivable
 bacteria in nests
DOI: 10.15468/jmsnwg
title: KUBI Ichthyology Tissue Collection

description: The University of Kansas Ichthyology frozen tissue collection continues to expand rapidly and has broad representation of both marine and freshwater fish diversity - 11,000 individual tissue samples from 2384 taxa (297 families and 1077 genera) and 38 countries (Australia, Belize, Ethiopia, Fiji, Nepal, Seychelles, South Africa and Tonga etc., as well as oceanic localities). The collections and the scope of research activities in the division continue to grow due to the ongoing activities of ichthyology staff and students.
 The collection is used by national and international researchers as well as by state and federal agencies. The Division of Ichthyology is designated as a Regional Center in the Midwest and Great Plains Regions (Collette & Lachner 1976, Copeia 1976: 625-642; Poss and Collette 1995, Copeia 1995: 48-70) and is among the top twenty ichthyological collections in the country. Almost 60% of the specimens in the collection are from the Great Plains Region. The collection is an important resource for anyone interested in the region's fishes. The data concerning these faunas are not extensively duplicated by other ichthyological collections.
 The tissue collection comprises tissue samples originally collected in liquid nitrogen, DMSO and ethanol and stored in state-of-the-art liquid nitrogen dewars at -170°C. The tissues are made up mostly of muscle tissue but also includes, liver and other internal organs, fin clips and whole specimens. A large proportion of our collection has vouchers held either at KU or at other collections. The provenance of these vouchers is indicated in the database.
DOI: 10.15468/mgjasg
title: KUBI Ichthyology Collection

description: The University of Kansas Ichthyology collection contains more than 680,000 specimens of fishes from around the world and is the basis of the research and educational activities of the Division of Ichthyology. The collection has an emphasis on freshwater fishes of the central United States and also has significant marine and estuarine collections. The fish collection has representation from 3171 taxa (297 families and 1262 genera) and 79 countries including Ecuador, Fiji, Mexico, Nepal, Nicaragua, and various marine localities. The collections and the scope of research activities in the division continue to grow due to the ongoing activities of ichthyology staff and students.<br><br>
 The collection is used by national and international researchers as well as by state and federal agencies. The Division of Ichthyology is designated as a Regional Center in the Midwest and Great Plains Regions (Collette and Lachner 1976, Copeia 1976: 625-642; Poss and Collette 1995, Copeia 1995: 48-70) and is among the top twenty ichthyological collections in the country. Almost 60% of the specimens in the collection are from the Great Plains Region. The collection is an important resource for anyone interested in the region's fishes. The data concerning these faunas are not extensively duplicated by other ichthyological collections.<br><br>
 The Ichthyology collection comprises whole, wet, voucher specimens in 70% ethanol (98%), specimens maintained as dry skeletons (0.3%), and cleared and stained preparations in glycerine (1.7%). Other ancillary collections include a large slide and digital image collection of specimens and locations (some of which are linked to specimen records through the database), a large field note collection, and a map collection.<br><br>
 The wet specimens are housed in a state-of-the-art fluid collection facility, opened in 1996. The facility has 2,400 square feet of collection storage space on four floors and is shared with Herpetology, Mammalogy, Ornithology, Entomology, and Invertebrate Zoology. The collection storage environment is maintained at 65°F year-round by an HVAC system. Specimens are housed in state-of-the-art glassware and stainless steel tanks and protected by a sprinkler fire suppression system and UV-shielded lighting. The division has both morphological research facilities and a shared molecular systematic laboratory.
DOI: 10.5061/dryad.745t0
title: Data from: Lack of evidence for selection favouring MHC haplotypes that combine high functional diversity

description: High rates of gene duplication and the highest levels of functional
 allelic diversity in vertebrate genomes are the main hallmarks of the
 major histocompatibility complex (MHC), a multigene family with a
 primordial role in pathogen recognition. The usual tight linkage among MHC
 gene duplicates may provide an opportunity for the evolution of haplotypes
 that associate functionally divergent alleles and thus grant the
 transmission of optimal levels of diversity to coming generations. Even
 though such associations may be a crucial component of disease resistance,
 this hypothesis has been given little attention in wild populations. Here,
 we leveraged pedigree data from a barn owl (Tyto alba) population to
 characterize MHC haplotype structure across two MHC class I (MHC-I) and
 two MHC class IIB (MHC-IIB) duplicates, in order to test the hypothesis
 that haplotypes’ genetic diversity is higher than expected from randomly
 associated alleles. After showing that MHC loci are tightly linked within
 classes, we found limited evidence for shifts towards MHC haplotypes
 combining high diversity. Neither amino acid nor functional
 within-haplotype diversity were significantly higher than in random sets
 of haplotypes, regardless of MHC class. Our results therefore provide no
 evidence for selection towards high-diversity MHC haplotypes in barn owls.
 Rather, high rates of convergent evolution may constrain the evolution of
 high-diversity haplotypes at MHC-I, while, in contrast, for MHC-IIB, fixed
 differences among loci may provide barn owls with already optimized
 functional diversity. This suggests that at the MHC-I and MHC-IIB,
 respectively, different evolutionary dynamics may govern the evolution of
 within-haplotype diversity.
description: Family information, MHC
 genotypes and MHC haplotypesThe file includes three
 sheets: (i) family information for 140 families (columns: ID_family,
 Status, ID_individual, Sex); (ii) MHC genotypes (columns: ID_individual
 and genotypes for each locus); (iii) MHC haplotypes (columns: ID_family,
 ID_parent, Sex, Haplotype)Families_genotypes_haplotypes.xlsx
DOI: 10.5281/zenodo.18382675
title: Saccharification Index Data for MyDFF Study - Supplementary Figure S5

description: This dataset contains Saccharification Index (SI) values from a randomized crossover dietary fiber intervention trial. The data supports Figure S5 in the supplementary materials of the manuscript titled "A personalized microbiota screening platform for optimizing individual volatile fatty acid production - A proof-of-concept study", submitted to the journal Microbiome.

Study Design:- Randomized crossover trial with 8 healthy Japanese adults (aged 34-62 years)- Three phases per participant: Baseline (weeks 1-3), L-PDF intervention (weeks 4-6 or 7-9), M-PDF intervention (weeks 7-9 or 4-6)- Daily supplementation with 6g personalized dietary fiber during intervention phases- 9 fecal samples per participant (3 per phase) = 72 total longitudinal samples

Data Collection:SI values were measured from in vitro fermentation of fecal microbiota samples collected across three study phases. Participants 1-3 were screened with 17 dietary fiber products; participants 4-8 were screened with 13 products (4 products were discontinued during the study). Each participant received personalized Most Prebiotic Dietary Fiber (M-PDF) and Least Prebiotic Dietary Fiber (L-PDF) based on individual MyDFF screening results.

Each SI measurement represents the mean of triplicate fermentation experiments and is calculated as:SI = (pH_control - pH_sample) / (pH_control - pH_glucose)

Files Included:- FigS5_Intervention_SI_Data.csv: Plain text CSV file with all SI measurements (72 samples × 17 fiber products)- FigS5_Intervention_SI_Data.xlsx: Excel workbook with formatted data and detailed notes- README.md: Comprehensive documentation of the intervention study and dataset

Study Registration: Japan Registry of Clinical Trials (jRCTs051220163)
DOI: 10.57760/sciencedb.j00124.00393
title: Research paper dataset of Effect of phosphorus and transition metal-modified ZSM-5 on the catalytic pyrolysis performance of C7 hydrocarbons with different structures
title: 磷和过渡金属改性ZSM-5对不同C7烃催化裂解反应性能的影响论文数据集

description: The modified zeolites were evaluated using a fixed-bed micro-reactor, yielding their gaseous and liquid products. By analyzing the product composition, the product distribution of different zeolites was obtained. The physicochemical properties were characterized using XRD, N2 adsorption-desorption, and pyridine infrared spectroscopy, yielding corresponding analytical results.
description: The modified zeolites were evaluated using a fixed-bed micro-reactor, yielding their gaseous and liquid products. By analyzing the product composition, the product distribution of different zeolites was obtained. The physicochemical properties were characterized using XRD, N2 adsorption-desorption, and pyridine infrared spectroscopy, yielding corresponding analytical results.
DOI: 10.5061/dryad.nb1hc
title: Data from: Analysis of VEGFA variants and changes in VEGF levels underscores the contribution of VEGF to polycystic ovary syndrome

description: Background. Vascular endothelial growth factor (VEGF) contributes to the
 pathogenesis of polycystic ovary syndrome (PCOS), and genetic variations
 in VEGFA gene were suggested to contribute to VEGF secretion and PCOS.
 Aim. To evaluate the association of altered VEGF levels, stemming from the
 presence of specific VEGFA variants, with altered risk of PCOS. Subjects
 and Methods. Retrospective case-control study, performed between
 2012-2015. Study subjects comprised 382 women with PCOS, and 393 control
 subjects. ELISA measured VEGF levels; genotyping of VEGFA variants was
 done by allelic exclusion. Results. Among the 12 tested VEGFA SNPs, minor
 allele frequency of only rs3025020 was significantly higher in PCOS cases
 than control women. Increased and reduced PCOS risk was seen with
 rs3025020 and rs2010963 genotypes, respectively. Increases and reduction
 in VEGF levels were associated with rs3025020 and rs2010963, respectively.
 Increased fasting insulin and HOMA-IR, and bioactive testosterone were
 linked with rs3025020, while carriage of rs2010963 was linked with
 reduction in fasting insulin, and free and bioactive testosterone. Of the
 12 VEGFA variants, 9 were in LD, thus allowing construction of 9-locus
 haplotypes. Increased frequency of CAACAGCGA haplotype was seen in PCOS
 cases, after controlling for BMI, free and bioactive testosterone, SHBG,
 free insulin and HOMA-IR. Conclusion. This study confirms the contribution
 of altered VEGF secretion, resulting from genetic variation in VEGFA gene
 into the pathogenesis of PCOS. This supports a role for VEGF as PCOS
 candidate locus.
description: Almawi PLoS One
 dataVEGF SNP analysis in 382
 women with PCOS and 393 control women. Genotyping was done by real-time
 PCR (ABI StepOne Plus).
DOI: 10.5281/zenodo.18382674
title: Saccharification Index Data for MyDFF Study - Supplementary Figure S5

description: This dataset contains Saccharification Index (SI) values from a randomized crossover dietary fiber intervention trial. The data supports Figure S5 in the supplementary materials of the manuscript titled "A personalized microbiota screening platform for optimizing individual volatile fatty acid production - A proof-of-concept study", submitted to the journal Microbiome.

Study Design:- Randomized crossover trial with 8 healthy Japanese adults (aged 34-62 years)- Three phases per participant: Baseline (weeks 1-3), L-PDF intervention (weeks 4-6 or 7-9), M-PDF intervention (weeks 7-9 or 4-6)- Daily supplementation with 6g personalized dietary fiber during intervention phases- 9 fecal samples per participant (3 per phase) = 72 total longitudinal samples

Data Collection:SI values were measured from in vitro fermentation of fecal microbiota samples collected across three study phases. Participants 1-3 were screened with 17 dietary fiber products; participants 4-8 were screened with 13 products (4 products were discontinued during the study). Each participant received personalized Most Prebiotic Dietary Fiber (M-PDF) and Least Prebiotic Dietary Fiber (L-PDF) based on individual MyDFF screening results.

Each SI measurement represents the mean of triplicate fermentation experiments and is calculated as:SI = (pH_control - pH_sample) / (pH_control - pH_glucose)

Files Included:- FigS5_Intervention_SI_Data.csv: Plain text CSV file with all SI measurements (72 samples × 17 fiber products)- FigS5_Intervention_SI_Data.xlsx: Excel workbook with formatted data and detailed notes- README.md: Comprehensive documentation of the intervention study and dataset

Study Registration: Japan Registry of Clinical Trials (jRCTs051220163)
DOI: 10.5061/dryad.2fn1k
title: Data from: Switching among natal and auxiliary hosts increases vulnerability of Spodoptera exigua (Hübner) (Lepidoptera: Noctuidae) to insecticides

description: The role of insecticidal application and host plant resistance in managing
 Spodoptera exigua has been well documented, but the effect of different
 host plants, on which the pest cycles its population in the field, has
 seldom been investigated. Therefore, we have studied the vulnerability of
 S. exigua against commonly used insecticides (cypermethrin, chlorpyrifos,
 lufenuron, and emamectin benzoate) with different mode of actions when it
 switches its generations from natal to auxiliary hosts and vice versa.
 Different field populations being established on different host plants
 including castor, cauliflower, cotton, okra, and spinach were collected
 and reared in the laboratory before insecticidal bioassays. The role of
 larval diet and host plant switching on their response to tolerate applied
 insecticides was studied using leaf-dip bioassay methods. Host switching
 demonstrated a significant role in altering the vulnerability of S. exigua
 populations to tested insecticides. Spodoptera exigua sourced from castor,
 when switched host to okra and spinach, exhibited 50% higher mortality
 when treated with emamectin benzoate. This trend in mortality was
 consistent upon complete host switch cycle (natal—auxiliary—natal host).
 However, the highest increase (92%) in vulnerability was recorded when the
 larvae were shifted to spinach from cotton. In general, chlorpyrifos and
 lufenuron had highest efficacies in terms of larval mortality. The
 findings of present studies provide insights to a better understanding the
 behavior of polyphagous pests and the role of different host plants in
 altering the susceptibility of these pests against applied insecticides.
 Ultimately the results warrant that due consideration should be given to
 cropping patterns and time of host switching by pest population during
 planning and executing chemical control.
description: Data Archive Copy Dryad
 repository
DOI: 10.5061/dryad.cq91s
title: Data from: Mangrove outwelling is a significant source of oceanic exchangeable organic carbon

description: Exchangeable dissolved organic carbon (EDOC) makes up a significant
 proportion of the oceanic dissolved organic carbon (DOC) pool, yet EDOC
 sources to the coastal ocean are poorly constrained. We measured the
 exchange of EDOC and concentrations of EDOC and DOC in mangrove waters
 over a 26° latitudinal gradient. A clear latitudinal trend was observed,
 with the highest EDOC concentrations in the tropics. EDOC exports to the
 coastal ocean were 4.7 ± 1.9 mmol m−2 d−1, equivalent to 11% of DOC
 exports (42.1 ± 6.7 mmol m−2 d−1). Pore-water and groundwater exchange
 were minor sources of EDOC. EDOC concentrations were equal to 13% ± 4% of
 DOC concentrations. Based on previous global DOC export estimates, and our
 EDOC : DOC ratios, mangroves outwell 3.1 Tg C yr−1 as EDOC, equivalent to
 ∼ 60% of the global EDOC flux from the ocean to the atmosphere. However,
 seasonality of mangrove EDOC cycling requires further research.
description: Supplementary EDOC
 dataContains EDOC, DOC and
 VOC flux data for all sites. Also contains additional data for each site
 such as water temp etc.Supplementary
 data.xlsx
DOI: 10.5061/dryad.b6f4n81
title: Data from: A global meta-analysis of the ecological impacts of alien species on native amphibians

description: The exponential increase in species introductions during the Anthropocene
 has brought about a major loss of biodiversity. Amphibians have suffered
 large declines, with more than 16% considered to be threatened by invasive
 species. We conducted a global meta-analysis of the impacts of alien
 species on native amphibians to determine which aspects of amphibian
 ecology are most affected by plant, invertebrate, fish, amphibian, reptile
 or mammal introductions. Measures of fitness were most strongly affected;
 amphibian performance was consistently lower in the presence of alien
 species. While exposure to alien species caused a significant decrease in
 amphibian behavioural activity when compared to a no species control, this
 response was stronger towards a control of native impacting species. This
 indicates a high degree of prey naïveté towards alien species and
 highlights the importance of using different types of controls in
 empirical studies. Alien invertebrates had the greatest overall impact on
 amphibians. This study sets a new agenda for research on biological
 invasions, highlighting the lack of studies investigating impacts of alien
 species on amphibian terrestrial life-history stages. It also emphasises
 the strong ecological impacts that alien species have on amphibian fitness
 and suggests that future introductions or global spread of alien
 invertebrates could strongly exacerbate current amphibian declines.
description: Nunes et
 al_Data_Amphibians meta-analysisData extracted from
 several papers that was used for this meta-analysisFinal data
 Dryad.xlsx
DOI: 10.5061/dryad.sn638
title: Data from: The effect of hydroperiod and predation on the diversity of temporary pond zooplankton communities

description: In temporary pond ecosystems, it is hypothesized that the two dominant
 structuring forces on zooplankton communities are predation and
 demographic constraints due to wetland drying. Both of these forces are
 deterministic processes that act most strongly at opposing ends of a
 hydroperiod gradient. Our objective was to test how these two processes
 affect α- and β-diversity of zooplankton communities derived from a
 diverse temporary pond system. We hypothesized that decreased hydroperiod
 length and the presence of salamander larvae as predators would decrease
 β-diversity and that intermediate hydroperiod communities would have the
 greatest species richness. Our 1-year mesocosm experiment (n = 36)
 consisted of two predation treatments (present/absent) and three
 hydroperiod treatments (short/medium/long) fully crossed, seeded from the
 resting egg bank of multiple temporary ponds. In total, we collected 37
 species of microcrustacean zooplankton from our mesocosms. A reduction in
 hydroperiod length resulted in lower α-diversity, with short-hydroperiod
 treatments affected most strongly. Endpoint community dissimilarity
 (β-diversity) was greatest in the medium-hydroperiod treatment with regard
 to species presence/absence, but was greatest in the long-hydroperiod
 treatment when abundances were included. Predation by salamander larvae
 led to reduced β-diversity with respect to species presence/absence, but
 not among abundant species, and had no effect on α-diversity. Our results
 suggest that environmental changes that reduce hydroperiod length would
 result in reduced α-diversity; however, intermediate hydroperiod length
 appear to enhance β-diversity within a group of wetlands.
description: Mesocosm_sample_datacontains the abundance and identity of each taxon collectedMesocosm_water_conditionscontains water condition data from each mesocosm collected at every sampling dateMesocosm_treatmentsidentifies the experimental treatments imposed on each mesocosm