cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.nvx0k6dnw
title: Weda, a new genus with two new species of Euphorbiaceae-Crotonoideae from Halmahera (North Moluccas, Indonesia) and phylogenetic relationships of the Australasian tribe Ricinocarpeae

description: Two unknown Euphorbiaceae were discovered during the environmental impact
 study for a proposed nickel mine behind Weda Bay on Halmahera in the North
 Moluccas (Maluku Utara Province) of Indonesia. Morphological comparisons
 and molecular phylogenetic analyses using four markers (plastid trnL-F and
 rbcL, and nuclear ribosomal ITS and ETS) indicated they should be
 recognized as constituting a new, distinct genus of two species, which are
 described and illustrated here as Weda fragarioides and W. lutea. The new
 taxa are members of the Australasian tribe Ricinocarpeae in subfamily
 Crotonoideae, and most closely related to Alphandia. In contrast with the
 otherwise mostly sclerophyllous Ricinocarpeae, Weda possesses stellate to
 dendritic hairs, large, long-petiolate, glandular leaves, and
 inflorescences with a pair of large, leafy, subopposite bracts. The two
 narrowly distributed species are distinguished from each other by
 vegetative and floral features, molecular data, and elevational
 preferences. Leaf elemental analysis of Weda indicated manganese but not
 nickel accumulation. Newly resolved generic relationships and potential
 morphological synapomorphies within Crotonoideae are discussed, and the
 circumscription of Ricinocarpeae is expanded from 7 to 11 genera.
description: Data matrix is based on fluorescent Sanger sequencing of 4
 genetic markers (<i>t</i><i>rnL-F</i>,
 <i>rbcL</i>, ITS, ETS) and 102 tips, which depending on marker
 were aligned with MAFFT ver.7.452 or inserted into a modified existing
 alignment (i.e., Wurdak et al., 2005).
description: Deletion sets (masking) and partitions are specified in the
 interleaved matrix, along with additional notes. The full data matrix can
 be executed with PAUP* to automatically exclude a 567 bp deletion set
 which was used for the main analyses.
DOI: 10.5061/dryad.18931zcss
title: δ15N of nitric oxide produced under aerobic or anaerobic conditions from seven soils and their associated N isotope fractionations

description: Measuring the nitrogen isotope compositions (δ15N) of nitric oxide (NO)
 from different sources helps to quantify the relative contributions of
 atmospheric NOx. Soil is one of the most important sources of atmospheric
 NOx, but only limited measurements on the δ15N of soil emitted NO exist,
 hampering our ability to partition sources to air pollution. Here we
 conducted soil incubations to measure the δ15N-NO under defined aerobic or
 anaerobic conditions, favoring either nitrification or denitrification.
 Soils were collected from seven sites spanning three ecosystems in
 northern China (two agricultural, two forest, and three grassland sites).
 We found that the δ15N-NO and their associated N isotope fractionations
 were significant different between anaerobic and aerobic conditions in
 seven soils. Under aerobic condition, the δ15N-NO ranged from -62‰ to -50‰
 (averaged -56 ± 4‰), being significantly more negative (by 23‰) than those
 under anaerobic condition (-45‰ to -23‰, averaged -33 ± 7‰). The apparent
 N isotope fractionation for NO production under aerobic condition
 (15εaerobic = 61 ± 3‰) was significantly higher (by 26‰) than under
 anaerobic condition (15εanaerobic = 35 ± 6‰), with a small variability
 among ecosystem types. Our study demonstrates that the δ15N-NO from
 different soils are very different from fuel combustions (mainly from 0 to
 +20‰), supporting that measuring 15N is a useful tool to partition the
 contributions of soil NO to atmospheric NOx. Our results also imply
 δ15N-NO produced by nitrification and denitrification distinctly
 different, as these two processes are dominant processes producing NO
 under aerobic and anaerobic conditions, respectively.
description: We conducted laboratory incubation experiments with three types
 of soils collected from seven sites, including two temperate forest
 (QY-LF,QY-MF), two agricultural (SY, JL) and three grassland soils (EG,
 HB,DL) under anaerobic or aerobic conditions. We set 5 sampling times, on
 days 0, 1, 3, 5, and 7. For each sampling time, we determined the
 concentration and isotope compositions of cumulative nitric oxide (NO)
 produced and the remaining soil KCl-extractable
 NH<sub>4</sub><sup>+</sup> and
 NO<sub>3</sub><sup>-</sup>, we also calculated the
 isotope fractionations during NO producing.
DOI: 10.5061/dryad.x69p8czf4
title: Data from: Strong selective effects of mitochondrial DNA on the nuclear genome

description: Oxidative phosphorylation, the primary source of cellular energy in
 eukaryotes, requires gene products encoded in both the nuclear and
 mitochondrial genomes. As a result, functional integration between the
 genomes is essential for efficient adenosine triphosphate (ATP)
 generation. Although within populations this integration is
 presumably maintained by coevolution, the importance of mitonuclear
 coevolution in key biological processes such as speciation and
 mitochondrial disease has been questioned. In this study, we crossed
 populations of the intertidal copepod Tigriopus californicus to disrupt
 putatively coevolved mitonuclear genotypes in reciprocal F2 hybrids. We
 utilized inter-individual variation in developmental rate among these
 hybrids as a proxy for fitness to assess the strength of selection imposed
 on the nuclear genome by alternate mitochondrial genotypes. Developmental
 rate varied among hybrid individuals, and in vitro ATP synthesis rates of
 mitochondria isolated from high fitness hybrids were approximately
 two-fold greater than those of mitochondria isolated from low fitness
 individuals. We then used Pool-seq to compare nuclear allele frequencies
 for high or low fitness hybrids. Significant biases for maternal alleles
 were detected on five (of 12) chromosomes in high fitness individuals of
 both reciprocal crosses, whereas maternal biases were largely absent in
 low fitness individuals. Therefore, the most fit hybrids were those with
 nuclear alleles that matched their mitochondrial genotype on these
 chromosomes, suggesting that mitonuclear effects underlie individual-level
 variation in developmental rate and that inter-genomic compatibility is
 critical for high fitness. We conclude that mitonuclear interactions can
 have profound impacts on both physiological performance and the
 evolutionary trajectory of the nuclear genome.
DOI: 10.5061/dryad.rjdfn2z74
title: Food sources of benthic communities at the Caiwei Guyot and Yap Trench, northwestern Pacific Ocean: inferences from carbon and nitrogen isotopes

description: To investigate nutritional resources for benthic communities at two sites
 in the northwestern Pacific Ocean (the Caiwei Guyot and the Yap Trench),
 stable isotopes of carbon and nitrogen (δ13C and δ15N) were measured in
 the tissues of megabenthic consumers (Porifera, Asteroidea, Crinoidea,
 Holothuroidea, Ophiuroidea, Gammaridea, and Actiniaria) as well as four
 potential food sources (suspended particles, sinking particles,
 zooplankton, and sedimentary organic matter, SOM). Fast-sinking particles
 are generally thought to be the primary food source for benthic consumers,
 but that paradigm does not seem to apply at these abyssal sites. Here, the
 δ13C and δ15N signatures of fast-sinking particles (as collected by
 sediment traps; δ13C = −24.1 to −22.6‰, δ15N = 1.4 to 5.4‰) were
 significantly lower than those of the megabenthos (δ13C = −20.1 to −16.1‰,
 δ15N = 10.2 to 17.9‰), indicating that these particles are not likely a
 direct food source for the animals. Buoyant particles (and slow-sinking
 particles), on the other hand, seem to be a significant direct food source
 for the megabenthos. Sedimentary organic matter and zooplankton are also
 important direct food sources. Trophic level analysis similarly indicates
 a diversity of food sources and suggests that for at least some animals,
 microbes (e.g., bacteria) may be a food source as well.
description: Excel spreadsheet contains five tabs:  Table
 1. Stable isotope values and trophic levels of megabenthic consumers in
 two study areas Table 2. Stable isotope values of SPOM
 in two study areas Table 3. Stable isotope values of
 sinking particles in two study areas Table 4. Stable
 isotope values of zooplankton in two study areas Table
 5. Stable isotope values of surface sediments in two study areas
DOI: 10.5061/dryad.pg4f4qrjz
title: Leaf-out in northern ecotypes of wide-ranging trees requires less spring warming, enhancing the risk of spring frost damage at cold range limits

description: Aim. Trees need to avoid frost damage to their young leaves by
 leafing out after the occurrence of the last frost, yet they also need
 to start photosynthesis early in the season to achieve sufficient
 growth. This trade-off leads to the hypothesis that ‘safety
 margins’ against spring frost should become shorter, the longer the winter
 duration, perhaps reaching an asymptotic limit where frost damage would
 occur in most years. Physiologically, shorter safety margins in
 high-latitude ecotypes might be achieved by lower degree-day requirements
 for leaf-out, compared to low-latitude ecotypes.
 Location. Europe  Time period. 1902–2009 Major
 taxa studied. Temperate trees.  Methods. Using
 herbarium collections of Acer platanoides, Carpinus
 betulus, Fagus sylvatica, and Prunus
 spinosa made over 108 years at 40 to 60o N latitude, we
 related historic leaf-out dates to winter and spring temperatures
 (chilling and degree-days), winter duration, and date of last
 frost occurrence in the relevant years and locations. Results. In
 all species, frost safety margins decreased towards
 high-latitude regions with long winters,
 with each day increase in winter duration
 reducing frost safety margins by 0.48
 days in Fagus and 0.32–0.21 days
 in Prunus, Acer, andCarpinus. These latitudinal
 differences correlate with northern ecotypes’ shorter degree-day
 requirements for leaf-out. Main Conclusions. The decline in
 spring-frost safety margins in regions with long winters supports the new
 hypothesis that species may reach their geographic range limit where they
 ‘bump up’ against experiencing regular frost injury to their young leaves.
 Larger datasets are necessary to further corroborate our hypothesis and
 future efforts should thus be directed toward increasing the latitudinal
 range of existing phenological databases.
description: Leaf-out dates in <i>Acer platanoides</i>, <i>Carpinus betulus</i>, <i>Fagus sylvatica</i>, and <i>Prunus spinosa</i> were inferred from herbarium specimens in seven herbaria (Aarhus University herbarium, AAU; Berlin herbarium, B; Copenhagen herbarium, C; Florence herbarium, FLO; Munich herbarium, M; Herbarium Senckenbergianum Frankfurt, F; Stockholm herbarium, S). While all specimens of these species were photographed, only specimens in the initial leaf-out stage were used for further analysis, which was defined as (1) not all leaves entirely unfolded and (2) leaves not yet full sized (Everill et al., 2014; Zohner and Renner, 2014). For specimens that met these criteria, we recorded species name, collection date, and collection location. Only low-elevation sites (&lt;800 m a.s.l.) were included to remove climate variation due to elevational gradients. This resulted in a total of 392 leaf-out dates (84 <i>Fagus sylvatica</i>, 136 <i>Prunus spinosa</i>, 82 <i>Carpinus betulus</i>, and 90 <i>Acer platanoides</i>) covering the years 1902 to 2009 (data available in Supplementary Table 1).
DOI: 10.5061/dryad.qz612jmb2
title: Divergent strategies in faeces avoidance between two cercopithecoid primates

description: Parasites constitute a major selective pressure which has shaped animal
 behaviour through evolutionary time. One adaption to parasites consists of
 recognizing and avoiding substrates or cues that indicate their presence.
 Among substrates harbouring infectious agents, faeces are known to elicit
 avoidance behaviour in numerous animal species. However, the function and
 mechanisms of faeces avoidance in non-human primates has been largely
 overlooked by scientists. In this study, we used an experimental approach
 to investigate whether aversion to faeces in a foraging context is
 mediated by visual and olfactory cues in two cercopithecoid primates:
 mandrills (Mandrillus sphinx) and long-tailed macaques (Macaca
 fascicularis). Visual and olfactory cues of faeces elicited lower food
 consumption rates in mandrills and higher food manipulation rates in
 long-tailed macaques. Both results support the infection avoidance
 hypothesis and confirm similar tendencies observed in other primate
 species. More studies are now needed to investigate the divergence of
 avoidance strategies observed in non-human primates regarding food
 contamination.
DOI: 10.5281/zenodo.18394858
title: VIRAL HEPATITIS IN ONCOLOGY PATIENTS: CLINICAL COURSE, DIAGNOSIS, AND MANAGEMENT

description: Background: Viral hepatitis, particularly hepatitis B (HBV) and hepatitis C (HCV), is a common comorbidity in cancer patients. Immunosuppressive conditions associated with malignancy or anticancer therapies increase the risk of viral reactivation, leading to liver dysfunction and potential interruption of cancer treatment.

Aim: To review the clinical course, diagnostic strategies, and management approaches for viral hepatitis in oncology patients, emphasizing preventive antiviral interventions.

Methods: Comprehensive review of current literature, international guidelines, and illustrative clinical cases related to HBV and HCV in cancer patients.

Results: HBV reactivation can occur in up to 50% of high-risk patients receiving chemotherapy or immunosuppressive therapy without antiviral prophylaxis. HCV infection may accelerate liver fibrosis and compromise chemotherapy tolerance. Early screening, continuous monitoring, and prompt antiviral therapy are essential to maintain safe and effective cancer treatment.
DOI: 10.5281/zenodo.18394857
title: VIRAL HEPATITIS IN ONCOLOGY PATIENTS: CLINICAL COURSE, DIAGNOSIS, AND MANAGEMENT

description: Background: Viral hepatitis, particularly hepatitis B (HBV) and hepatitis C (HCV), is a common comorbidity in cancer patients. Immunosuppressive conditions associated with malignancy or anticancer therapies increase the risk of viral reactivation, leading to liver dysfunction and potential interruption of cancer treatment.

Aim: To review the clinical course, diagnostic strategies, and management approaches for viral hepatitis in oncology patients, emphasizing preventive antiviral interventions.

Methods: Comprehensive review of current literature, international guidelines, and illustrative clinical cases related to HBV and HCV in cancer patients.

Results: HBV reactivation can occur in up to 50% of high-risk patients receiving chemotherapy or immunosuppressive therapy without antiviral prophylaxis. HCV infection may accelerate liver fibrosis and compromise chemotherapy tolerance. Early screening, continuous monitoring, and prompt antiviral therapy are essential to maintain safe and effective cancer treatment.
DOI: 10.15468/dl.nzcqdn
title: Occurrence Download

description: A dataset containing 3266 species occurrences available in GBIF matching the query:
{
 "TaxonKey" : [
 "is Proctolaelaps"
 ]
}

 The dataset includes 3266 records from 61 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0002221-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.mw6m905tf
title: Synergistic effects of anti-PDL-1 with ablative radiation comparing to other regimens with same biological effect dose based on different immunogenic response

description: Introduction Irradiation can induce multiple inhibitory and stimulatory
 effects on the immune system. In recent studies, it has been noted that
 administration of radiation with various doses and fractionation plans may
 influence on immune responses in microenvironment of tumor. But in
 radiobiology, the Biologically Effective Dose (BED) formula has been
 designed for calculating isoeffect doses in different regimens of daily
 clinical practice. In other words, BED has also been used to predict the
 effects of fractionation schedules on tumor cells. Methods  In
 our study, three different regimens with BEDs of 40 gray (Gy) were
 analyzed in BALB/c mice. These included conventional fractionated
 radiotherapy (RT) (3Gyx10), high-dose hypofractionated RT (10Gyx2), and
 single ablative high-dose RT (15Gyx1). Results As BED predicts, all three
 similarly decreased tumor volumes and increased survival times relative to
 controls, but after high dose exposure in ablative group, the expression
 of IFNγ was increased following high infiltration of CD8 cells into the
 tumor microenvironment. When anti-PDL-1 was combined with RT, single
 ablative high-dose radiation enhanced antitumor activity by increasing
 IFNγ in tumors and CD8+ tumor-infiltrating lymphocytes; as a result, this
 combining therapy had enhanced antitumor activity and lead to control
 tumor volume effectively and improve significantly survival rate and
 finally the recurrence of tumor was not observed. Conclusion Results show
 distinct radiation doses and fractionation schemes with same BED have
 different immunogenic response and these findings can provide data helping
 to design regimens of radiation combined with immune checkpoint blockers
 (ICBs).
DOI: 10.5061/dryad.kh189322m
title: Palms and trees resist extreme drought in Amazon forests with shallow water tables

description: 1. The intensity and frequency of severe droughts in the Amazon region has
 increase in recent decades. These extreme events are associated with
 changes in forest dynamics, biomass and floristic composition. However,
 most studies of drought response have focused on upland forests with deep
 water tables, which may be especially sensitive to drought. Palms, which
 tend to dominate the less well-drained soils, have also been neglected.
 The relative neglect of shallow water tables and palms is a significant
 concern for our understanding of tropical drought impacts, especially as
 one third of Amazon forests grow on shallow water tables (&lt;5m
 deep). 2. We evaluated the drought response of palms and trees in forests
 distributed over a 600 km transect in central-southern Amazonia, where the
 landscape is dominated by shallow water table forests. We compared
 vegetation dynamics before and following the 2015-16 El Nino drought, the
 hottest and driest on record for the region (-214 mm of cumulative water
 deficit). 3. We observed no change in stand mortality rates and no biomass
 loss in response to drought in these forests. Instead, we observed an
 increase in recruitment rates, which doubled to 6.78% y-1 ± 4.40 (mean ±
 SD) during 2015-16 for palms and increased by half for trees (to 2.92% y-1
 ± 1.21), compared to rates in the pre-El-Nino interval. Within these
 shallow water table forests, mortality and recruitment rates varied as a
 function of climatic drought intensity and water table depth for both
 palms and trees, with mortality being greatest in climatically and
 hydrologically wetter environments and recruitment greatest in drier
 environments. Across our transect there was a significant increase over
 time in tree biomass. 4. Synthesis: Our results indicate that forests
 growing over shallow water tables – relatively under-studied vegetation
 that nonetheless occupies one-third of Amazon forests - are remarkably
 resistant to drought. These findings are consistent with the hypothesis
 that local hydrology and its interactions with climate strongly constrain
 forest drought effects, and has implications for climate change feedbacks.
 This work enhances our understanding of integrated drought effects on
 tropical forest dynamics and highlights the importance of incorporating
 neglected forest types into both the modeling of forest climate responses
 and into public decisions about priorities for conservation.
description: Metadata tab of each spreadsheet defines the variables.
DOI: 10.5061/dryad.866t1g1n3
title: Genetic diversity and thermal performance in invasive and native populations of African fig flies

description: During biological invasions, invasive populations can suffer losses of
 genetic diversity that are predicted to negatively impact their
 fitness/performance. Despite examples of invasive populations harboring
 lower diversity than conspecific populations in their native range, few
 studies have linked this lower diversity to a decrease in fitness. Using
 genome sequences, we show that invasive populations of the African fig
 fly, Zaprionus indianus, have less genetic diversity than conspecific
 populations in their native range and that diversity is proportionally
 lower in regions of the genome experiencing low recombination rates. This
 result suggests that selection may have played a role in lowering
 diversity in the invasive populations. We next use interspecific
 comparisons to show that genetic diversity remains relatively high in
 invasive populations of Z. indianus when compared to other closely related
 species. By comparing genetic diversity in orthologous gene regions, we
 also show that the genome-wide landscape of genetic diversity differs
 between invasive and native populations of Z. indianus, indicating that
 invasion not only affects amounts of genetic diversity, but also how that
 diversity is distributed across the genome. Finally, we use parameter
 estimates from thermal performance curves measured for 13 species of
 Zaprionus to show that Z. indianus has the broadest thermal niche of
 measured species, and that performance does not differ between invasive
 and native populations. These results illustrate how aspects of genetic
 diversity in invasive species can be decoupled from measures of fitness,
 and that a broad thermal niche may have helped facilitate Z. indianus’s
 range expansion.
description: Data used to generate genome annotations was generated by
 extracting whole RNA from groups of ~5 adult flies (24 hours after
 eclosion). Transcripts were assembed using Trinity (Grabherr et al. 2011;
 Hass et al. 2013) and annotations were generated using the MAKER pipeline
 (v3.01.02; Holt and Yandell 2011; Campbell et al. 2014). 
 Data on thermal performance we generated in the lab under
 controlled conditions. All scripts used to fit thermal performance curves
 are given in this Dryad deposit. Software available for the method used
 are available at github.com/silastittes/performr.