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  • 2015-2019  (124)
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  • 1
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    Data from a long term experimental approach on eco-evolutionary coupling in an experimental phytoplankton community exposed to ambient and high CO2 (2018)
    PANGAEA
    Details
    Publication Date: 2023-04-25
    Description: Ecological and evolutionary processes both determine how species and communities will react to climate change, but how they interact is poorly understood. We studied adaptation in two bloom forming and globally co-occurring phytoplankton species, Emiliania huxleyi and Chaetoceros affinis, in response to long-term exposure to increased CO2 while competing with one another. Here we show that over approximately 200 generations, the interactions of C. affinis and E. huxleyi changed strongly, converting the initial winner C. affinis to the loser species and vice versa. Surprisingly, these changes were associated with rapid and reproducible genotype sorting that left a single remaining genotype among the initial nine genotypes in both species. Most likely, the experimental conditions with a nutrient limited stationary phase represented a selection regime overriding the intended CO2 and two-species treatments. Paradoxically, the reciprocal emergence of a single genotype as winner for both species across all treatments caused a change at the interspecies level, demonstrating that eco-evolutionary coupling alters the dynamics in the simplest possible two-species phytoplankton "community" Our results call for an inclusion of more realistic experimental evolution conditions including multi-species settings and nutrient limitation in future studies.
    Type: Dataset
    Format: application/zip, 3 datasets
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  • 2
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    Experiment on E. huxleyi and C. affinis exposed to increased CO2: Nutrient uptake (2018)
    PANGAEA
    Details
    Publication Date: 2023-04-25
    Keywords: Bottle number; Nitrate and Nitrite; Number of batch; Phosphate; Silicate; Time in days; Treatment; Type
    Type: Dataset
    Format: text/tab-separated-values, 400 data points
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  • 3
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    Experimental assessment of sediment burial in eelgrass Zostera marina in Kiel Bight (2015)
    PANGAEA
    In:  Supplement to: Munkes, Britta; Schubert, Philipp; Karez, Rolf; Reusch, Thorsten B H (2015): Experimental assessment of critical anthropogenic sediment burial in eelgrass Zostera marina. Marine Pollution Bulletin, 100(1), 144-153, https://doi.org/10.1016/j.marpolbul.2015.09.013
    Details
    Publication Date: 2023-01-13
    Description: Seagrass meadows, one of the world's most important and productive coastal habitats, are threatened by a range of anthropogenic actions. Burial of seagrass plants due to coastal activities is one important anthropogenic pressure leading to the decline of local populations. In our study, we assessed the response of eelgrass Zostera marina to sediment burial from physiological, morphological, and population parameters. In a full factorial field experiment, burial level (5-20cm) and burial duration (4-16 weeks) were manipulated. Negative effects were visible even at the lowest burial level (5 cm) and shortest duration (4 weeks), with increasing effects over time and burial level. Buried seagrasses showed higher shoot mortality, delayed growth and flowering and lower carbohydrate storage. The observed effects will likely have an impact on next year's survival of buried plants. Our results have implications for the management of this important coastal plant.
    Keywords: Kiel_Falckenstein; Z.marina-meadow
    Type: Dataset
    Format: application/zip, 5 datasets
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  • 4
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    Genomic data of marine three-spined sticklebacks (2019)
    PANGAEA
    In:  Supplement to: Heckwolf, Melanie; Meyer, Britta S; Häsler, Robert; Höppner, Marc P; Eizaguirre, Christophe; Reusch, Thorsten B H (2020): Two different epigenetic information channels in wild three-spined sticklebacks are involved in salinity adaptation. Science Advances, 6(12), eaaz1138, https://doi.org/10.1126/sciadv.aaz1138
    Details
    Publication Date: 2023-01-13
    Description: While environmentally inducible epigenetic marks are discussed as one mechanism of transgenerational plasticity, environmentally stable epigenetic marks emerge randomly. When resulting in variable phenotypes, stable marks can be targets of natural selection analogous to DNA sequence-based adaptation processes. We studied both postulated pathways in natural populations of three-spined sticklebacks (Gasterosteus aculeatus) and sequenced their methylomes and genomes across a salinity cline. Consistent with local adaptation, populations showed differential methylation (pop-DMS) at genes enriched for osmoregulatory processes. In a two-generation experiment, 62% of these pop-DMS were insensitive to salinity manipulation, suggesting that they could be stable targets for natural selection. Two-thirds of the remaining inducible pop-DMS became more similar to patterns detected in wild populations from the corresponding salinity, and this pattern accentuated over consecutive generations, indicating a mechanism of adaptive transgenerational plasticity. Natural DNA methylation patterns can thus be attributed to two epigenetic pathways underlying the rapid emergence of adaptive phenotypes in the face of environmental change.
    Keywords: Baltic Sea; Local adaptation; population genomics; three-spined stickleback; Whole genome sequencing
    Type: Dataset
    Format: application/zip, 4 datasets
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  • 5
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    Experiment on phenotypic effects of transgenerational salinity change in sticklebacks: mortality (2018)
    PANGAEA
    Details
    Publication Date: 2023-01-13
    Keywords: Gasterosteus aculeatus eggs; Identification; Origin; Proportion of survival; Species; Time point, descriptive; Treatment
    Type: Dataset
    Format: text/tab-separated-values, 6240 data points
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  • 6
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    High quality G-to-A SNPs from the genomes of 96 wild caught three-spine sticklebacks (2019)
    PANGAEA
    Details
    Publication Date: 2023-01-13
    Description: To improve the methylation estimates in our study, we corrected for SNPs, which could have led to a wrong methylation call. The excluded positions were derived with custom written perl scripts from C-to-T and G-to-A-SNPs with genotype quality of 20 and a minimum allele frequency of 0.005 from the 96 wild caught three-spined sticklebacks with a combination of custom written Perl and R-scripts using packages from methylkit and GenomicRanges. This BED-file contains the G-to-A-SNPs, in which the first field is the name of the chromosome; the second describes the start position and the third the end position of the feature in standard chromosomal coordinates.
    Keywords: Baltic Sea; BED; Local adaptation; methylation call; population genomics; SNP; three-spined stickleback; Whole genome sequencing
    Type: Dataset
    Format: application/zip, 5.8 MBytes
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  • 7
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    High quality C-to-T SNPs from the genomes of 96 wild caught three-spine sticklebacks (2019)
    PANGAEA
    Details
    Publication Date: 2023-01-13
    Description: To improve the methylation estimates in our study, we corrected for SNPs, which could have led to a wrong methylation call. The excluded positions were derived with custom written perl scripts from C-to-T and G-to-A-SNPs with genotype quality of 20 and a minimum allele frequency of 0.005 from the 96 wild caught three-spined sticklebacks with a combination of custom written Perl and R-scripts using packages from methylkit and GenomicRanges. This BED-file contains the C-to-T SNPs, in which the first field is the name of the chromosome; the second describes the start position and the third the end position of the feature in standard chromosomal coordinates.
    Keywords: Baltic Sea; BED; Local adaptation; methylation call; population genomics; SNP; three-spined stickleback; Whole genome sequencing
    Type: Dataset
    Format: application/zip, 5.8 MBytes
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  • 8
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    Genomic data of three-spined sticklebacks from Kiel (KIE), Germany and Nynäshamn (NYN), Sweden around inducible differentially methylated sites in decreasing salinity (2019)
    PANGAEA
    Details
    Publication Date: 2023-01-13
    Description: This vcf file is generated from genomic data of three-spined sticklebacks from Kiel (KIE), Germany and Nynäshamn (NYN), Sweden. The individuals from Kiel are S3, S4, S19, S20, S33, S34, S47, S48, S49, S50, S63, S64, S77, S78, S89, S90. The individuals from NYN are S5, S6, S21, S22, S35, S36, S37, S38, S51, S52, S65, S66, S79, S80, S85, S86. It contains high quality biallelic positions (GQ=20) and is filtered for minor allele frequencies of maf = 0.05, allows 40 % of missing data (13 individuals) and a read depth of 〉=5. Further this vcf file is subset to the inducible differentially methylated sites (DMS) (198sites) in decreasing PSU (_6PSU) with 5 kilobases (kb) before and after DMS. With this file further calculations were performed to estimate the genetic differentiation (i.e. Fst) between the different populations (see manuscript indicated below).
    Keywords: Baltic Sea; Local adaptation; population genomics; three-spined stickleback; VCF; Whole genome sequencing
    Type: Dataset
    Format: application/zip, 1.6 MBytes
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  • 9
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    Genomic data of three-spined sticklebacks from Kiel (KIE) and Sylt (SYL), Germany around inducible differentially methylated sites in increasing salinity (2019)
    PANGAEA
    Details
    Publication Date: 2023-01-13
    Description: This vcf file is generated from genomic data of three-spined sticklebacks from Kiel (KIE) and Sylt (SYL), Germany. The individuals from Kiel are S3, S4, S19, S20, S33, S34, S47, S48, S49, S50, S63, S64, S77, S78, S89, S90. The individuals from SYL are S9, S10, S17, S18, S31, S32, S45, S46, S59, S60, S61, S62, S73, S74, S87, S88. It contains high quality biallelic positions (GQ=20) and is filtered for minor allele frequencies of maf = 0.05, allows 40 % of missing data (13 individuals) and a read depth of 〉=5. Further this vcf file is subset to the inducible differentially methylated sites (DMS) (148sites) in increasing PSU (_33PSU) with 5 kilobases (kb) before and after DMS. With this file further calculations were performed to estimate the genetic differentiation (i.e. Fst) between the different populations (see manuscript indicated below).
    Keywords: Baltic Sea; Local adaptation; population genomics; three-spined stickleback; VCF; Whole genome sequencing
    Type: Dataset
    Format: application/zip, 1.2 MBytes
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  • 10
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    Genotypes of Bathymodiolus vent mussels from the Mid-Atlantic Ridge using SNP and mitochondrial markers (2016)
    PANGAEA
    In:  Supplement to: Breusing, Corinna; Vrijenhoek, Robert C; Reusch, Thorsten B H (2017): Widespread introgression in deep-sea hydrothermal vent mussels. BMC Evolutionary Biology, 17(1), https://doi.org/10.1186/s12862-016-0862-2
    Details
    Publication Date: 2023-01-13
    Description: The provided file archive contains genotype data from mid-Atlantic hydrothermal vent mussels (genus Bathymodiolus) at 18 SNP loci and the mitochondrial ND4 gene (BMAR_Baz_Bpu_genotypes.txt). The subfolders denote statistical programs used in the multilocus genotyping study and contain input files and scripts that were used in the respective analyses. Our analyses indicate that B. azoricus and B. puteoserpentis hybridize introgressively across a large geographic area without evidence for general hybrid incompatibilities. While these findings shed new light onto the genetic structure of this hybrid zone, many aspects about its nature still remain obscure. Our study sets a baseline for further research that should primarily focus on the acquisition of additional mussel samples and environmental data, a detailed exploration of vent areas and hidden populations as well as genomic analyses in both mussel hosts and their bacterial symbionts.
    Type: Dataset
    Format: application/zip, 29.4 kBytes
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