Find research datasets worth reusing

opencc-by-4.0May 2022View details →

Figure 2 in Terrestrial Parasitengona mites (Trombidiformes) of Denmark - new data on parasite-host associations and new country records

Figure 2 Trombidiid larvae (Parasitengona: Trombidiidae) parasitizing various hosts: A – Paratrombium egregrium* on Pachyneuron groenlandicum(Hymenoptera: Pteromalidae); B –Trombidium holosericeum on Pinalitus viscicola(Hemiptera: Miridae); C –T. holosericeum* on

Figure 5. Female genitalia. A in Taxonomic review on Acrocercopinae, Gracillariinae and Ornixolinae from Shandong, China, with new data on distribution and host associations (Lepidoptera: Gracillariidae)

Figure 5. Female genitalia. A. Calybites phasianipennella, slide no. JYR17048. B. Caloptilia (Caloptilia) chrysolampra, slide no. JYR17054. C. Acrocercops transecta, slide no. LIU0027. D. Spulerina parthenocissi, slide no. LIU16010. E. Telamoptilia grewiae, slide no. JYR17052. F. Eteoryctis picrasmae, slide no. JYR17053. G. Epicephala relictella, slide no. JYR17046. H. Conopomorpha flueggella, slide no. LIU0041. Scale bars = 0.5 mm.

Figure 3. Male genitalia. A in Taxonomic review on Acrocercopinae, Gracillariinae and Ornixolinae from Shandong, China, with new data on distribution and host associations (Lepidoptera: Gracillariidae)

Figure 3. Male genitalia. A. Calybites phasianipennella, slide no. LIU0031. B. Calybites securinella, slide no. LIU0036. C. Caloptilia (Caloptilia) celtidis, slide no. LIU0037. D. Caloptilia (C.) chrysolampra, slide no. LIU0035. E. Caloptilia (C.) sapporella, slide no. LIU0038. F. Acrocercops transecta, slide no. LIU15001. Scale bars = 0.2 mm.

Figure 4. Male genitalia. A in Taxonomic review on Acrocercopinae, Gracillariinae and Ornixolinae from Shandong, China, with new data on distribution and host associations (Lepidoptera: Gracillariidae)

Figure 4. Male genitalia. A. Spulerina parthenocissi, slide no. LIU16009. B. Telamoptilia grewiae, slide no. LIU0033. C. Eteoryctis picrasmae, slide no. LIU0034. D. Liocrobyla lobata, slide no. LIU0028. E. Epicephala relictella, slide no. JYR17055. F. Conopomorpha flueggella, slide no. LIU0041. Scale bars = 0.2 mm.

Figure 1. Adult habitus. A in Taxonomic review on Acrocercopinae, Gracillariinae and Ornixolinae from Shandong, China, with new data on distribution and host associations (Lepidoptera: Gracillariidae)

Figure 1. Adult habitus. A. Calybites phasianipennella, male, registration no. SDNU.YT170707. B. Calybites securinella, male, registration no. SDNU.Ent150632. C. Caloptilia (Caloptilia) celtidis, male, registration no. SDNU.Ent170235. D. Caloptilia (C.) chrysolampra, male, registration no. SDNU.BZ160807. E. Caloptilia (C.) sapporella, male, SDNU.Ent170088. F. Acrocercops transecta, male, registration no. SDNU.LS150701. Scale bars = 2.0 mm.

Figure 2. Adult habitus. A in Taxonomic review on Acrocercopinae, Gracillariinae and Ornixolinae from Shandong, China, with new data on distribution and host associations (Lepidoptera: Gracillariidae)

Figure 2. Adult habitus. A. Spulerina parthenocissi, male, registration no. SDNU.QD160704. B. Telamoptilia grewiae, male, registration no. SDNU.JN160818. C. Eteoryctis picrasmae, female, registration no. SDNU.YT170704.3. D. Liocrobyla lobata, male, registration no. SDNU.YT170702.6. E. Epicephala relictella, male, registration no. SDNU.Ent150763. F. Conopomorpha flueggella, female, registration no. SDNU.Ent161934. Scale bars = 2.0 mm.

opencc-zeroMay 2024View details →

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Data from: Costs of antibiotic resistance genes depend on host strain and environment and can influence community composition

Antibiotic resistance genes (ARGs) benefit host bacteria in environments containing corresponding antibiotics, but it is less clear how they are maintained in environments where antibiotic selection is weak or sporadic. In particular, few studies have measured the effect of ARGs on host fitness in the absence of direct selection or determined if any costs are fixed or depend on the host strain, perhaps marking some ARG-host combinations as reservoirs that can maintain ARGs in the absence of antibiotic selection. We quantified the fitness effects of six ARGs in 11 diverse Escherichia spp. strains. Three ARGs (blaTEM-116, cat, and dfrA5, encoding resistance to β-lactams, chloramphenicol, and trimethoprim, respectively) imposed an overall cost but all ARGs had an effect in at least one host strain, reflecting a significant strain interaction effect. A simulation predicts these interactions cause the success of ARGs to depend on available host strains, and, to a lesser extent, for successful host strains to depend on the ARGs present in a community. These results indicate the importance of considering ARG effects over different host strains, especially the potential of reservoir strains that allow resistance to persist in the absence of direct selection, in efforts to understand resistance dynamics.

opencc-by-4.0Nov 2023View details →

Supplementary Data for 'Crossing host boundaries: the evolutionary drivers and correlates of viral host jumps'

This version provides the raw maximum likelihood trees with ancestral host states annotated, as described in Tan et al. 2024 (https://doi.org/10.1038/s41559-024-02353-4).    Tip labels are formatted as {genbank accession}|{host}|{collection_date}|{country}. Nodel labels are formatted as follows: <ul> <li>rooted_trees_simplified: {node name}|{host}, where {host} is the most likely ancestral state (i.e., highest ancestral state likelihood)</li> </ul> <ul> <li>rooted_trees: {node name}|{host1}:{likelihood1}|{host2}:{likelihood2}...|{hostn}:{likelihoodn}, which provides the raw ancestral state likelihoods for each host state. </li> <li>All node names correspond to those provided in the Supplementary Tables in Tan et al. 2024.</li> </ul>

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Data from: A host-adapted auxotrophic gut symbiont induces mucosal immunodeficiency

The microbiome holds great promise as a source of novel therapeutic targets for many diseases. Mining for causative microorganisms that impact processes underlying disease states should utilize Koch's postulates. Here we show a functional screen for the bacterial microbiota of intestinal immunoglobulin A (IgA)-deficient mice; we identified a novel Gram-negative bacterium, proposed to be named as Tomasiella immunophila that induces and degrades IgA in mouse intestine. T. immunophila is auxotrophic for the bacterial cell wall amino sugar N-acetylmuramic acid (MurNAc). T. immunophila secretes IgA-degrading enzymes into outer membrane vesicles that preferentially degrade rodent antibodies with kappa but not lambda light chains. We propose this study uncovers a new paradigm for the role of symbionts in immunodeficiency that can ultimately be applied to human disease.

opencc-zeroJul 2024View details →

Data and code to reproduce: Host and parasite intervality in differentially human-modified habitats

Data and code in: Llopis-Belenguer, Feijen, Morand, Chaisiri, Ribas and Jokela (2024) Host and parasite intervality in differentially human-modified habitats. Oikos. DOI: 10.1111/oik.10446

opencc-by-4.0Feb 2024View details →

Data & Analysis Script for: Phylogenetic relatedness to native congeners drives insect abundance and diversity hosted by non-native trees

The dataset contains all necessary data to reproduce the findings presented in Schweiger et al. 2023 - Phylogenetic relatedness to native congeners drives insect abundance and diversity hosted by non-native trees (submitted). The code necessary to reproduce the findings is included within this repository. The code contains comments. Please note, if you want to reproduce the findings you will have to change file path information matching your personal computer to be able to re-run the code. This data includes the biodiversity raw data collected for the manuscript. It does not include data used to calculate geographic, climatic or phylogenetic distances, as these data are freely available and necessary information to reproduce calculations are given within the Material & Methods section. All data is provided within one Excel file. Please, pay attention to the provided ReadMe sheet containing metadata information on the dataset. Please carefully read provided information within ReadMe, Metadata and Code description.

Рис. 1. ФиΛогенетические Αеревья хантавируса AMRV и его прироΑного носитеΛя восточноазиатской мыши Apodemus peninsulae Thomas, 1906. А. ФиΛогенетическое Αерево восточноазиатской мыши Apodemus peninsulae, построенное метоΑом «максимаΛьного правΑопоΑобия» (ML) и поΛученное на основе анаΛиза участка гена цитохрома b мтΔНК (744 п.н.). В узΛах ветвΛения указаны бутстреп-поΑΑержки, рассчитанные ΑΛя 1000 повторов. Цветными Λиниями обозначены фиΛогенетические Λинии: Αве Китайские (зеΛеный), Корейская «Korea» (синий), Амурская «Amur» (красный). ПоΛужирным шрифтом выΑеΛены собственные образцы. Названия образцов из GenBank/NCBI быΛи сокращены; B. ФиΛогенетическое Αерево из работы Α. Н. Яшиной с ΑопоΛнениями, построенное метоΑом «бΛижайшего сосеΑа» (NJ) на основе посΛеΑоватеΛьностей фрагмента М-сегмента (2737–2980 н.п.) генома хантавирусов. В узΛах ветвΛения указаны бутстреппоΑΑержки, рассчитанные ΑΛя 1000 повторов. Жирным выΑеΛены иссΛеΑованные РНК изоΛяты (Яшина 2012; Яшина и Αр. 2019) Fig. 1. Phylogenetic trees of AMRV and its natural reservoir host — the Korean field mouse Apodemus peninsulae Thomas, 1906. A. Phylogenetic tree of the Korean field mouse Apodemus peninsulae constructed by the "maximum likelihood" method (ML). The data are obtained from the analysis of the cytochrome b mtDNA gene fragments (744 bp). Bootstrap supports calculated for 1,000 repeats are indicated in the branching nodes. Colored lines indicate phylogenetic lines: two Chinese (green), Korea (blue), and Amur (red). Own samples are highlighted in bold. The names of the samples from GenBank/NCBI have been shortened; B. Phylogenetic tree from L. N. Yashina's work with additions constructed by the neighbour joining method (NJ). It is based on the sequences of an M-segment fragment (2737–2980 bp) of the hantavirus genome. Bootstrap supports calculated for 1,000 repeats are indicated in the branching nodes. The researched RNA isolates are highlighted in bold (Yashina 2012; Yashina et al. 2019) in Variability of the gene cyt b in the Korean field mouse Apodemus peninsulae Thomas, 1906 - a reservoir host of AMRV in the Khasansky District of Primorsky Krai

Рис. 1. ФиΛогенетические Αеревья хантавируса AMRV и его прироΑного носитеΛя восточноазиатской мыши Apodemus peninsulae Thomas, 1906. А. ФиΛогенетическое Αерево восточноазиатской мыши Apodemus peninsulae, построенное метоΑом «максимаΛьного правΑопоΑобия» (ML) и поΛученное на основе анаΛиза участка гена цитохрома b мтΔНК (744 п.н.). В узΛах ветвΛения указаны бутстреп-поΑΑержки, рассчитанные ΑΛя 1000 повторов. Цветными Λиниями обозначены фиΛогенетические Λинии: Αве Китайские (зеΛеный), Корейская «Korea» (синий), Амурская «Amur» (красный). ПоΛужирным шрифтом выΑеΛены собственные образцы. Названия образцов из GenBank/NCBI быΛи сокращены; B. ФиΛогенетическое Αерево из работы Α. Н. Яшиной с ΑопоΛнениями, построенное метоΑом «бΛижайшего сосеΑа» (NJ) на основе посΛеΑоватеΛьностей фрагмента М-сегмента (2737–2980 н.п.) генома хантавирусов. В узΛах ветвΛения указаны бутстреппоΑΑержки, рассчитанные ΑΛя 1000 повторов. Жирным выΑеΛены иссΛеΑованные РНК изоΛяты (Яшина 2012; Яшина и Αр. 2019) Fig. 1. Phylogenetic trees of AMRV and its natural reservoir host — the Korean field mouse Apodemus peninsulae Thomas, 1906. A. Phylogenetic tree of the Korean field mouse Apodemus peninsulae constructed by the "maximum likelihood" method (ML). The data are obtained from the analysis of the cytochrome b mtDNA gene fragments (744 bp). Bootstrap supports calculated for 1,000 repeats are indicated in the branching nodes. Colored lines indicate phylogenetic lines: two Chinese (green), Korea (blue), and Amur (red). Own samples are highlighted in bold. The names of the samples from GenBank/NCBI have been shortened; B. Phylogenetic tree from L. N. Yashina's work with additions constructed by the neighbour joining method (NJ). It is based on the sequences of an M-segment fragment (2737–2980 bp) of the hantavirus genome. Bootstrap supports calculated for 1,000 repeats are indicated in the branching nodes. The researched RNA isolates are highlighted in bold (Yashina 2012; Yashina et al. 2019)

Host Data from: [O II] as an Effective Indicator of the Dependence Between the Standardised Luminosities of Type Ia Supernovae and the Properties of their Host Galaxies

Spectral properties of the Foundation Host Galaxies presented in the paper: [O II] as an Effective Indicator of the Dependence Between the Standardised Luminosities of Type Ia Supernovae and the Properties of their Host Galaxies. Spectra were taken using the WiFeS instrument on the ANU 2.3m Telescope.

opencc-by-4.0Apr 2019View details →

A Comprehensive Assessment of Demographic, Environmental and Host Genetic Associations with Gut Microbiome Diversity in Healthy Individuals (16S rRNA gene sequencing data)

Microbiome data accompanying manuscript "A Comprehensive Assessment of Demographic, Environmental and Host Genetic Associations with Gut Microbiome Diversity in Healthy Individuals". Data is available for alpha- and beta- diversity, as well as for individual taxa both in binary and quantitative phenotypic representation. Data is available for 827 individuals that gave consent for their data to be shared outside of the Milieu intérieur consortium.

opencc-by-4.0Feb 2021View details →

Figure 1 in Molecular data on Phyllodistomum macrocotyle (Digenea: Gorgoderidae) from an intermediate host Dreissena polymorpha (Bivalvia: Dreissenidae) in the Northern Dvina River Basin, Northwest Russia

Figure 1. Map of the study area: A) Geographic position of the research area (red color frame and red color point); B) The Northern Dvina River Basin (red color flags indicate points where zebra mussels infected with Phyllodistomum macrocotyle were found); C) Habitat of zebra mussel, the Yuras River; D) Trematode sporocysts located within the gills of Dreissena polymorpha.

opencc-by-4.0Feb 2021View details →

Figure 2 in Molecular data on Phyllodistomum macrocotyle (Digenea: Gorgoderidae) from an intermediate host Dreissena polymorpha (Bivalvia: Dreissenidae) in the Northern Dvina River Basin, Northwest Russia

Figure 2. Maximum likelihood phylogeny of Phyllodistomum macrocotyle based on the nuclear dataset (28S rDNA gene fragment). Numbers near nodes are bootstrap support (BS) values of IQ-TREE. Scale bar indicates the branch lengths. The red color indicates our sequence from Northwest Russia.

opencc-by-4.0Aug 2024View details →

Fig. 2 in Remarks on Eimeria spp. (Apicomplexa: Eimeriidae) from Kobus spp. (Bovidae: Reduncini), with supplementary morphological data of Eimeria congolensis Ricci-Bitti et al., 1973 from a new host subspecies, the common waterbuck Kobus ellipsiprymnus ellipsiprymnus (Ogilbyi, 1833)

Fig. 2. Photomicrographs of sporulated oocysts of Eimeria congolensis from common waterbucks Kobus ellipsiprymnus ellipsiprymnus in a safari park of Portugal. Note the inner layer (il) and rough outer layer (rol) of the oocyst wall, micropyle (m), nucleous (n), polar granule (pg), refractile body (rb), sporocyst residuum (sr), Stieda (sb) and sub-stieda (ssb) bodies. Scale bar: 10 μm.

opencc-by-4.0Aug 2024View details →

Fig. 1 in Remarks on Eimeria spp. (Apicomplexa: Eimeriidae) from Kobus spp. (Bovidae: Reduncini), with supplementary morphological data of Eimeria congolensis Ricci-Bitti et al., 1973 from a new host subspecies, the common waterbuck Kobus ellipsiprymnus ellipsiprymnus (Ogilbyi, 1833)

Fig. 1. Composite line drawing of the sporulated oocyst of Eimeria congolensis from common waterbucks Kobus ellipsiprymnus ellipsiprymnus in a safari park of Portugal. Scale-bar: 10 μm.

Data for: Tip of the Red Giant Branch Distances with JWST. II. I−band Measurements in a Sample of Hosts of 10 SN Ia Match HST Cepheids

Data for: "Tip of the Red Giant Branch Distances with JWST. II. I−band Measurements in a Sample of Hosts of 10 SN Ia Match HST Cepheids". The photometry provided is after DOLPHOT quality cuts, foreground extinction corrections, and spatial cuts.