0000000000093138
AUTHOR
Phillip Watts
Additional file 4: of Fibroblasts from bank voles inhabiting Chernobyl have increased resistance against oxidative and DNA stresses
The trapping locations of the bank voles used in this study for fibroblast isolation. The green circles present the location at Kiev control area (average site radiation 0.2 μSv/h) where the control voles were trapped and the red circle denotes the site where Chernobyl voles were caught (average site radiation 21 μSv/h). Black dashed line indicates the 30 km Chernobyl exclusion zone. CNPP with a red triangle shows the location of the Chernobyl nuclear power plants. A map of Ukraine as an inset show by a red square the location of Chernobyl area. Map was created with ESRI ArcGIS 10.0. Satellite imagery © CNES/Airbus DS, Earthstar Geographics. Source: Esri, DigitalGlobe, GeoEye, i-cubed, Eart…
Additional file 7: of Skin and gut microbiomes of a wild mammal respond to different environmental cues
Measures of alpha diversity for the skin microbiota of bank voles inhabiting areas that differ in levels of environmental radiation. Box-and-whisker plots represent the median and interquartile range of alpha diversity estimates (i.e. number of observed OTUs, Shannon index). Each box plot represent alpha diversity of the skin microbiome of bank vole females and males from contaminated (CH) and uncontaminated (CL) with radionuclides areas within the Chernobyl Exclusion Zone and uncontaminated area near Kyiv (KL), Ukraine. (PDF 8â kb)
Additional file 2: of Skin and gut microbiomes of a wild mammal respond to different environmental cues
Individual dosimetry supplementary information: measurements of the 137Cs activity and external radiation dose estimates for sampled bank voles. (DOCX 15â kb)
Additional file 12: of Skin and gut microbiomes of a wild mammal respond to different environmental cues
Measures of alpha diversity for the skin and gut microbiome of bank voles inhabiting areas that differ in levels of environmental radiation. Box-and-whisker plots represent the median and interquartile range of alpha diversity estimates (i.e. number of observed OTUs, Shannon index). Each point represent a single sample from contaminated (CH) and uncontaminated (CL) with radionuclides areas within the Chernobyl Exclusion Zone and uncontaminated area near Kyiv (KL), Ukraine. (PDF 39â kb)
Additional file 2: of Fibroblasts from bank voles inhabiting Chernobyl have increased resistance against oxidative and DNA stresses
The repair efficiency of nicked, oxidized, or linear plasmids is similar in control and Chernobyl bank vole fibroblasts. For host-cell reactivation assay, 5000 cells were plated on 96 well plate, treated next day with 20 μM etoposide for 8 hours, and then transfected with pGL3 (Promega) plasmid treated either with Nb.BsmI that nicked the plasmid coding sequence three times, with HindIII that linearized the plasmid after promoter sequence, or with 50 μM FeSO4 and 1 mM H2O2, which created oxidative damage on the plasmid. To control transfection efficiency cells were transfected also with pNL1.1 nano-luc vector. Luciferase expression was analysed 24 h after transfection with Nano-Glo Dual-Luci…
Additional file 13: of Skin and gut microbiomes of a wild mammal respond to different environmental cues
Community dissimilarity between gut and skin microbiomes within each replicate site. Box-and-whisker plots represent the median and interquartile range of Bray-Curtis distance between samples. Each box plot represent contaminated (CH1-3) and uncontaminated (CL1-2) with radionuclides study areas within the Chernobyl Exclusion Zone and uncontaminated area near Kyiv (KL1-2), Ukraine. (PDF 43â kb)
Intergenerational fitness effects of the early life environment in a wild rodent
The early life environment can have profound, long‐lasting effects on an individual's fitness. For example, early life quality might (a) positively associate with fitness (a silver spoon effect), (b) stimulate a predictive adaptive response (by adjusting the phenotype to the quality of the environment to maximize fitness) or (c) be obscured by subsequent plasticity. Potentially, the effects of the early life environment can persist beyond one generation, though the intergenerational plasticity on fitness traits of a subsequent generation is unclear. To study both intra‐ and intergenerational effects of the early life environment, we exposed a first generation of bank voles to two early life…
Additional file 9: of Skin and gut microbiomes of a wild mammal respond to different environmental cues
Differences in bank vole skin microbiome beta diversity associated with environmental radiation exposure. PCoA on unweighted UniFrac distances between bank vole skin microbiome profiles among the three study areas that differ in levels of environmental radioactivity are shown along the first two PC axes. Each point represents a single sample, shape indicate host sex, coloured according to study area: CH, red (n = 64); CL, blue (n = 44); KL, green (n = 43). Ellipses represent a 95% CI around the cluster centroid. (PDF 12 kb)
Additional file 13: of Skin and gut microbiomes of a wild mammal respond to different environmental cues
Community dissimilarity between gut and skin microbiomes within each replicate site. Box-and-whisker plots represent the median and interquartile range of Bray-Curtis distance between samples. Each box plot represent contaminated (CH1-3) and uncontaminated (CL1-2) with radionuclides study areas within the Chernobyl Exclusion Zone and uncontaminated area near Kyiv (KL1-2), Ukraine. (PDF 43â kb)
Additional file 3: of Fibroblasts from bank voles inhabiting Chernobyl have increased resistance against oxidative and DNA stresses
Etoposide induces apoptosis in bank vole fibroblasts. We treated the cells with DMSO or 20 μM of etoposide for 24 h, replaced the media, and collected samples 72 h post-treatment for propidium iodide and Annexin V flow cytometry with eBioscience Annexin V apoptosis Detection kit FITC as recommended by the manufacturer. The figure shows one control and one Chernobyl cell line. The percentage of healthy cells are shown in the lower-left corner, necrotic cells in the upper-left corner, and apoptotic cells at right. (PDF 66 kb)
Additional file 1: of Fibroblasts from bank voles inhabiting Chernobyl have increased resistance against oxidative and DNA stresses
Chernobyl and control fibroblasts are able to adjust to constant exposure to small concentrations of oxidant. The oxidant was added every other day for four times before scoring the wells that were 100% confluent a day after the last exposure. The results are from three separate experiments using the eight Chernobyl (N = 24) and eight control cell lines (N = 24). Variation is shown by standard deviation. (PDF 28 kb)
Additional file 7: of Skin and gut microbiomes of a wild mammal respond to different environmental cues
Measures of alpha diversity for the skin microbiota of bank voles inhabiting areas that differ in levels of environmental radiation. Box-and-whisker plots represent the median and interquartile range of alpha diversity estimates (i.e. number of observed OTUs, Shannon index). Each box plot represent alpha diversity of the skin microbiome of bank vole females and males from contaminated (CH) and uncontaminated (CL) with radionuclides areas within the Chernobyl Exclusion Zone and uncontaminated area near Kyiv (KL), Ukraine. (PDF 8â kb)
Additional file 5: of Skin and gut microbiomes of a wild mammal respond to different environmental cues
Correlations (Spearman’s correlation analysis) between the SK microbiome alpha diversity estimates (Number of observed OTUs and Shannon index) and (a, b) the whole-body 137Cs radionuclide burden, and (c, d) the external radiation doses of sampled bank voles. All correlations were not significant. (PDF 287 kb)
Additional file 10: of Skin and gut microbiomes of a wild mammal respond to different environmental cues
Permutational MANOVA (PERMANOVA) statistical tests on unweighted UniFrac (unwUniFrac) distances and Bray-Curtis dissimilarity for skin microbial communities of bank voles inhabiting areas that differ in environmental radiation levels. (XLSX 11â kb)
Additional file 4: of Skin and gut microbiomes of a wild mammal respond to different environmental cues
Summary of skin microbiota of the Phyla, Classes, Orders, Families and Genera for wild-caught bank voles (Myodes glareolus), with significantly different relative abundances (Kruskal–Wallis tests using Dunn’s post hoc test and followed by a Benjamini-Hochberg False Discovery Rate (FDR) correction) among the study areas (e.g. CL, KL and CH). (XLSX 97 kb)
Additional file 1: of Skin and gut microbiomes of a wild mammal respond to different environmental cues
16S rRNA gene sequencing metadata. (XLSX 35â kb)
Additional file 11: of Skin and gut microbiomes of a wild mammal respond to different environmental cues
Summary of predictive accuracy of Random Forest modelling for skin and gut microbial communities of bank voles inhabiting areas that differ in environmental radiation levels. (XLSX 10â kb)
Additional file 8: of Skin and gut microbiomes of a wild mammal respond to different environmental cues
Final GLMs that show significant predictors of alpha diversity estimates within the skin microbiota of bank voles inhabiting the area within the Chernobyl Exclusion Zone (CEZ) and areas near Kyiv, Ukraine. Only significant models are shown, with significant P-values shown in bold. AIC fit criterion is given for each full model. (XLSX 12â kb)
Additional file 6: of Skin and gut microbiomes of a wild mammal respond to different environmental cues
Statistical comparison of alpha diversity estimates by Kruskal–Wallis tests using Dunn’s post hoc test and followed by a Benjamini-Hochberg False Discovery Rate (FDR) correction. (XLSX 14 kb)
Additional file 3: of Skin and gut microbiomes of a wild mammal respond to different environmental cues
Relative abundance (average of taxonomic groups abundance within each sample) of Phyla, Classes, Orders, Families or Genera for skin microbiome of wild-caught bank voles (Myodes glareolus) from contaminated (CH) and uncontaminated (CL) areas with radionuclides within the Chernobyl Exclusion Zone and uncontaminated area near Kyiv (KL), Ukraine. (XLSX 91â kb)
Lisämateriaali artikkeliin "Exposure to environmental radionuclides is associated with altered metabolic and immunity pathways in a wild rodent".
Electronic material for Kesäniemi J, Jernfors T, Lavrinienko A, Kivisaari K, Kiljunen M, Mappes T & Watts PC. 2019. Exposure to environmental radionuclides is associated with altered metabolic and immunity pathways in a wild rodent. Molecular Ecology 28: 4620–4635. Contains transcriptome annotation data and output of differential expression and gene ontology enrichment analyses. Parts of the dataset originally published in DRYAD (https://doi.org/10.5061/dryad.j3c6r69).