Data from: Genomic reconstruction of 100 000-year grassland history in a forested country: population dynamics of specialist forbs
Data files
May 31, 2019 version files 90.40 GB
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RAD-seq raw reads Dianthus_site12-1.zip
1.18 GB
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RAD-seq raw reads Dianthus_site15-1.zip
1.16 GB
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RAD-seq raw reads Dianthus_site19-1.zip
1.23 GB
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RAD-seq raw reads Dianthus_site2-1.zip
1.35 GB
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RAD-seq raw reads Dianthus_site21-1.zip
1.33 GB
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RAD-seq raw reads Dianthus_site23-1.zip
1.02 GB
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RAD-seq raw reads Dianthus_site24-1.zip
718.79 MB
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RAD-seq raw reads Dianthus_site5-1.zip
926.51 MB
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RAD-seq raw reads Dianthus_site5-2.zip
633.49 MB
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RAD-seq raw reads Dianthus_site8-1.zip
1.21 GB
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RAD-seq raw reads Dianthus_site9-1.zip
1.24 GB
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RAD-seq raw reads Patrinia_site11-1.zip
1.18 GB
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RAD-seq raw reads Patrinia_site11-2.zip
974.77 MB
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RAD-seq raw reads Patrinia_site11-3.zip
814.17 MB
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RAD-seq raw reads Patrinia_site15-1.zip
1.33 GB
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RAD-seq raw reads Patrinia_site15-2.zip
934.58 MB
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RAD-seq raw reads Patrinia_site15-3.zip
1.08 GB
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RAD-seq raw reads Patrinia_site17-1.zip
995.92 MB
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RAD-seq raw reads Patrinia_site17-2.zip
1.22 GB
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RAD-seq raw reads Patrinia_site17-3.zip
872.25 MB
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RAD-seq raw reads Patrinia_site20-1.zip
1.11 GB
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RAD-seq raw reads Patrinia_site20-2.zip
1.20 GB
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RAD-seq raw reads Patrinia_site20-3.zip
949.73 MB
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RAD-seq raw reads Patrinia_site23-1.zip
1.09 GB
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RAD-seq raw reads Patrinia_site23-2.zip
997.55 MB
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RAD-seq raw reads Patrinia_site25-1.zip
949.11 MB
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RAD-seq raw reads Patrinia_site25-2.zip
1.02 GB
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RAD-seq raw reads Patrinia_site3-1.zip
992.68 MB
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RAD-seq raw reads Patrinia_site3-2.zip
689.50 MB
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RAD-seq raw reads Patrinia_site6-1.zip
782.43 MB
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RAD-seq raw reads Patrinia_site6-2.zip
620.32 MB
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RAD-seq raw reads Patrinia_site7-1.zip
1.38 GB
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RAD-seq raw reads Patrinia_site7-2.zip
761.86 MB
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RAD-seq raw reads Patrinia_site7-3.zip
658.16 MB
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RAD-seq raw reads Patrinia_site9-1.zip
1.11 GB
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RAD-seq raw reads Patrinia_site9-2.zip
961.44 MB
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RAD-seq raw reads Swertia_site10-1.zip
1.19 GB
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RAD-seq raw reads Swertia_site10-2.zip
1.01 GB
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RAD-seq raw reads Swertia_site10-3.zip
560.22 MB
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RAD-seq raw reads Swertia_site13-1.zip
950.57 MB
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RAD-seq raw reads Swertia_site13-2.zip
1.01 GB
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RAD-seq raw reads Swertia_site13-3.zip
633.89 MB
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RAD-seq raw reads Swertia_site14-1.zip
1.10 GB
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RAD-seq raw reads Swertia_site14-2.zip
1.17 GB
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RAD-seq raw reads Swertia_site14-3.zip
1.11 GB
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RAD-seq raw reads Swertia_site18-1.zip
1.36 GB
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RAD-seq raw reads Swertia_site18-2.zip
1.29 GB
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RAD-seq raw reads Swertia_site18-3.zip
1.29 GB
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RAD-seq raw reads Swertia_site21-1.zip
1.18 GB
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RAD-seq raw reads Swertia_site21-2.zip
1.13 GB
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RAD-seq raw reads Swertia_site21-3.zip
608.78 MB
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RAD-seq raw reads Swertia_site23-1.zip
1.35 GB
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RAD-seq raw reads Swertia_site23-2.zip
1.36 GB
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RAD-seq raw reads Swertia_site24-1.zip
1.11 GB
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RAD-seq raw reads Swertia_site24-2.zip
420 MB
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RAD-seq raw reads Swertia_site3-1.zip
910.44 MB
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RAD-seq raw reads Swertia_site3-2.zip
934.19 MB
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RAD-seq raw reads Swertia_site3-3.zip
822.37 MB
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RAD-seq raw reads Swertia_site6-1.zip
967.23 MB
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RAD-seq raw reads Swertia_site6-2.zip
1.20 GB
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RAD-seq raw reads Swertia_site9-1.zip
911.72 MB
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RAD-seq raw reads Swertia_site9-2.zip
1.17 GB
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RAD-seq raw reads Swertia_site9-3.zip
1.30 GB
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Sanguisorba_site1-1.zip
1.13 GB
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Sanguisorba_site1-2.zip
1.23 GB
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Sanguisorba_site11-1.zip
749.05 MB
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Sanguisorba_site11-2.zip
1.17 GB
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Sanguisorba_site12-1.zip
1.14 GB
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Sanguisorba_site12-2.zip
834.09 MB
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Sanguisorba_site15-1.zip
1.02 GB
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Sanguisorba_site15-2.zip
1.10 GB
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Sanguisorba_site15-3.zip
936.46 MB
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Sanguisorba_site15-4.zip
466.18 MB
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Sanguisorba_site16-1.zip
1.02 GB
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Sanguisorba_site16-2.zip
1.27 GB
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Sanguisorba_site16-3.zip
1.13 GB
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Sanguisorba_site22-1.zip
1.15 GB
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Sanguisorba_site22-2.zip
1.23 GB
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Sanguisorba_site22-3.zip
723.50 MB
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Sanguisorba_site23-1.zip
871.98 MB
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Sanguisorba_site23-2.zip
732.07 MB
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Sanguisorba_site23-3.zip
859.45 MB
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Sanguisorba_site25-1.zip
1.21 GB
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Sanguisorba_site25-2.zip
1.16 GB
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Sanguisorba_site4.zip
1.39 GB
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Sanguisorba_site9-1.zip
1.09 GB
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Sanguisorba_site9-2.zip
868.73 MB
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SjaRAD3_IPd012_ctgggccg-1.fastq.zip
710.61 MB
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SjaRAD3_IPd012_ctgggccg-2.fastq.zip
486.42 MB
Abstract
Grassland ecosystems worldwide have been extensively converted to other land uses and are globally imperiled. Because many grasslands have been maintained by human activities, understanding their origin and history is fundamentally important to better contemporary management. However, existing methods to reconstruct past vegetation can produce contrasting views on grassland history. Here, we inferred demographic histories of 40 populations of four grassland forb species throughout Japan using high-resolution genome sequences and model-flexible demographic simulation based on the site frequency spectrum. Although two species showed a slight decline in population size between 100 000–10 000 years ago, our results suggest that population sizes of studied species have been maintained within the range of 0.5–2.0 times the most recent estimates for at least 100 000 years across Japan. Our results suggest that greater than 90% declines in Japanese grasslands and subsequent losses of grassland species in the last 100 years are geologically and biologically important and will have substantial consequences for Japanese biota and culture. People have had critical roles in maintaining disturbance-dependent grassland ecosystems and biota in this warm and wet forested country. In these contexts, disturbances associated with forest harvesting and traditional extensive farming have the potential to maintain grassland ecosystems and can provide important opportunities to reconcile resource production and conservation of grassland biodiversity.