Data from: The history of tree and shrub taxa on Bol'shoy Lyakhovsky Island (New Siberian Archipelago) since the last interglacial uncovered by sedimentary ancient DNA and pollen data
Ecosystem boundaries, such as the Arctic-Boreal treeline, are strongly coupled with climate and were spatially highly dynamic during past glacial-interglacial cycles. Only a few studies cover vegetation changes since the last interglacial, as most of the former landscapes are inundated and difficult...
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ftzenodo:oai:zenodo.org:4086230 2023-05-15T15:15:07+02:00 Data from: The history of tree and shrub taxa on Bol'shoy Lyakhovsky Island (New Siberian Archipelago) since the last interglacial uncovered by sedimentary ancient DNA and pollen data Zimmermann, Heike H. Raschke, Elena Epp, Laura S. Stoof-Leichsenring, Kathleen R. Schirrmeister, Lutz Schwamborn, Georg Herzschuh, Ulrike 2020-09-23 https://zenodo.org/record/4086230 https://doi.org/10.5061/dryad.866t1g1p5 unknown doi:10.1594/PANGAEA.878888 doi:10.3390/genes8100273 https://zenodo.org/communities/dryad https://zenodo.org/record/4086230 https://doi.org/10.5061/dryad.866t1g1p5 oai:zenodo.org:4086230 info:eu-repo/semantics/openAccess https://creativecommons.org/publicdomain/zero/1.0/legalcode info:eu-repo/semantics/other dataset 2020 ftzenodo https://doi.org/10.5061/dryad.866t1g1p510.1594/PANGAEA.87888810.3390/genes8100273 2023-03-10T16:28:04Z Ecosystem boundaries, such as the Arctic-Boreal treeline, are strongly coupled with climate and were spatially highly dynamic during past glacial-interglacial cycles. Only a few studies cover vegetation changes since the last interglacial, as most of the former landscapes are inundated and difficult to access. Using pollen analysis and sedimentary ancient DNA (sedaDNA) metabarcoding, we reveal vegetation changes on Bol'shoy Lyakhovsky Island since the last interglacial from permafrost sediments. Last interglacial samples depict high levels of floral diversity with the presence of trees (Larix, Picea, Populus) and shrubs (Alnus, Betula, Ribes, Cornus, Saliceae) on the currently treeless island. After the Last Glacial Maximum, Larix re-colonised the island but disappeared along with most shrub taxa. This was probably caused by Holocene sea-level rise, which led to increased oceanic conditions on the island. Additionally, we applied two newly developed larch-specific chloroplast markers to evaluate their potential for tracking past population dynamics from environmental samples. The novel markers were successfully re-sequenced and exhibited two variants of each marker in last interglacial samples. SedaDNA can track vegetation changes as well as genetic changes across geographic space through time and can improve our understanding of past processes that shape modern patterns. Here, we provide the raw paired-end sequencing data received from Fasteris as gz-compressed fastq files (forward reads: 161028_SND405_A_L005_HUA-6_R1.fastq.gz; reverse reads: 161028_SND405_A_L005_HUA-6_R2.fastq.gz). Data processing, which includes assignment of the sequencing reads to the different samples with a tagfile (tagfile_L14.txt), denoising and taxonomic assignment of reads, was performed with the OBITools pipeline (https://pythonhosted.org/OBITools/welcome.html). The script containing the commands used to process the data is provided (log.L14.txt). Furthermore, we provide the annotated obitools output as tab-separated txt-files ... Dataset Arctic permafrost Zenodo Arctic Ribes ENVELOPE(-60.633,-60.633,-62.650,-62.650) |
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description |
Ecosystem boundaries, such as the Arctic-Boreal treeline, are strongly coupled with climate and were spatially highly dynamic during past glacial-interglacial cycles. Only a few studies cover vegetation changes since the last interglacial, as most of the former landscapes are inundated and difficult to access. Using pollen analysis and sedimentary ancient DNA (sedaDNA) metabarcoding, we reveal vegetation changes on Bol'shoy Lyakhovsky Island since the last interglacial from permafrost sediments. Last interglacial samples depict high levels of floral diversity with the presence of trees (Larix, Picea, Populus) and shrubs (Alnus, Betula, Ribes, Cornus, Saliceae) on the currently treeless island. After the Last Glacial Maximum, Larix re-colonised the island but disappeared along with most shrub taxa. This was probably caused by Holocene sea-level rise, which led to increased oceanic conditions on the island. Additionally, we applied two newly developed larch-specific chloroplast markers to evaluate their potential for tracking past population dynamics from environmental samples. The novel markers were successfully re-sequenced and exhibited two variants of each marker in last interglacial samples. SedaDNA can track vegetation changes as well as genetic changes across geographic space through time and can improve our understanding of past processes that shape modern patterns. Here, we provide the raw paired-end sequencing data received from Fasteris as gz-compressed fastq files (forward reads: 161028_SND405_A_L005_HUA-6_R1.fastq.gz; reverse reads: 161028_SND405_A_L005_HUA-6_R2.fastq.gz). Data processing, which includes assignment of the sequencing reads to the different samples with a tagfile (tagfile_L14.txt), denoising and taxonomic assignment of reads, was performed with the OBITools pipeline (https://pythonhosted.org/OBITools/welcome.html). The script containing the commands used to process the data is provided (log.L14.txt). Furthermore, we provide the annotated obitools output as tab-separated txt-files ... |
format |
Dataset |
author |
Zimmermann, Heike H. Raschke, Elena Epp, Laura S. Stoof-Leichsenring, Kathleen R. Schirrmeister, Lutz Schwamborn, Georg Herzschuh, Ulrike |
spellingShingle |
Zimmermann, Heike H. Raschke, Elena Epp, Laura S. Stoof-Leichsenring, Kathleen R. Schirrmeister, Lutz Schwamborn, Georg Herzschuh, Ulrike Data from: The history of tree and shrub taxa on Bol'shoy Lyakhovsky Island (New Siberian Archipelago) since the last interglacial uncovered by sedimentary ancient DNA and pollen data |
author_facet |
Zimmermann, Heike H. Raschke, Elena Epp, Laura S. Stoof-Leichsenring, Kathleen R. Schirrmeister, Lutz Schwamborn, Georg Herzschuh, Ulrike |
author_sort |
Zimmermann, Heike H. |
title |
Data from: The history of tree and shrub taxa on Bol'shoy Lyakhovsky Island (New Siberian Archipelago) since the last interglacial uncovered by sedimentary ancient DNA and pollen data |
title_short |
Data from: The history of tree and shrub taxa on Bol'shoy Lyakhovsky Island (New Siberian Archipelago) since the last interglacial uncovered by sedimentary ancient DNA and pollen data |
title_full |
Data from: The history of tree and shrub taxa on Bol'shoy Lyakhovsky Island (New Siberian Archipelago) since the last interglacial uncovered by sedimentary ancient DNA and pollen data |
title_fullStr |
Data from: The history of tree and shrub taxa on Bol'shoy Lyakhovsky Island (New Siberian Archipelago) since the last interglacial uncovered by sedimentary ancient DNA and pollen data |
title_full_unstemmed |
Data from: The history of tree and shrub taxa on Bol'shoy Lyakhovsky Island (New Siberian Archipelago) since the last interglacial uncovered by sedimentary ancient DNA and pollen data |
title_sort |
data from: the history of tree and shrub taxa on bol'shoy lyakhovsky island (new siberian archipelago) since the last interglacial uncovered by sedimentary ancient dna and pollen data |
publishDate |
2020 |
url |
https://zenodo.org/record/4086230 https://doi.org/10.5061/dryad.866t1g1p5 |
long_lat |
ENVELOPE(-60.633,-60.633,-62.650,-62.650) |
geographic |
Arctic Ribes |
geographic_facet |
Arctic Ribes |
genre |
Arctic permafrost |
genre_facet |
Arctic permafrost |
op_relation |
doi:10.1594/PANGAEA.878888 doi:10.3390/genes8100273 https://zenodo.org/communities/dryad https://zenodo.org/record/4086230 https://doi.org/10.5061/dryad.866t1g1p5 oai:zenodo.org:4086230 |
op_rights |
info:eu-repo/semantics/openAccess https://creativecommons.org/publicdomain/zero/1.0/legalcode |
op_doi |
https://doi.org/10.5061/dryad.866t1g1p510.1594/PANGAEA.87888810.3390/genes8100273 |
_version_ |
1766345494678732800 |