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The genome of Draba nivalis shows signatures of adaptation to the extreme environmental stresses of the Arctic

Main Authors: Nowak, Michael, Birkeland, Siri, Mandáková, Terezie, Choudhury, Rimjhim Roy, Guo, Xinyi, Gustafsson, Lovisa, Gizaw, Abel, Schrøder-Nielsen, Audun, Fracassetti, Marco, Brysting, Anne, Rieseberg, Loren, Slotte, Tanja, Parisod, Christian, Lysak, Martin, Brochmann, Christian
Format: info dataset eJournal
Terbitan: , 2020
Subjects:
chromosome-scale assembly
Brassicaceae
Online Access: https://zenodo.org/record/3998834
ctrlnum 3998834
fullrecord <?xml version="1.0"?> <dc schemaLocation="http://www.openarchives.org/OAI/2.0/oai_dc/ http://www.openarchives.org/OAI/2.0/oai_dc.xsd"><creator>Nowak, Michael</creator><creator>Birkeland, Siri</creator><creator>Mand&#xE1;kov&#xE1;, Terezie</creator><creator>Choudhury, Rimjhim Roy</creator><creator>Guo, Xinyi</creator><creator>Gustafsson, Lovisa</creator><creator>Gizaw, Abel</creator><creator>Schr&#xF8;der-Nielsen, Audun</creator><creator>Fracassetti, Marco</creator><creator>Brysting, Anne</creator><creator>Rieseberg, Loren</creator><creator>Slotte, Tanja</creator><creator>Parisod, Christian</creator><creator>Lysak, Martin</creator><creator>Brochmann, Christian</creator><date>2020-08-24</date><description>The Arctic is one of the most extreme terrestrial environments on the planet. Here we present the first complete genome assembly of a plant adapted to the high Arctic, Draba nivalis (Brassicaceae), an attractive model species for studying plant adaptation to the stresses imposed by this harsh environment. We used an iterative scaffolding strategy with data from short-reads, single-molecule long reads, proximity ligation data, and a genetic map to produce a 302 Mb assembly that is highly contiguous with 91.6% assembled into eight chromosomes (the base chromosome number). To identify candidate genes and gene families that may have facilitated adaptation to Arctic environmental stresses, we performed comparative genomic analyses with nine non-Arctic Brassicaceae species. We show that the D. nivalis genome contains expanded suites of genes associated with drought and cold stress (e.g. related to the maintenance of oxidation-reduction homeostasis, meiosis, and signaling pathways). The expansions of gene families associated with these functions appear to be driven in part by the activity of transposable elements. Tests of positive selection identify suites of candidate genes associated with meiosis and photoperiodism, as well as cold, drought, and oxidative stress responses. Our results reveal a multifaceted landscape of stress adaptation in the D. nivalis genome, offering avenues for the continued development of this species as an Arctic model plant.</description><description>Please see ReadMe.txt for a full description of each file.</description><identifier>https://zenodo.org/record/3998834</identifier><identifier>10.5061/dryad.pg4f4qrm4</identifier><identifier>oai:zenodo.org:3998834</identifier><relation>url:https://zenodo.org/communities/dryad</relation><rights>info:eu-repo/semantics/openAccess</rights><rights>https://creativecommons.org/publicdomain/zero/1.0/legalcode</rights><subject>chromosome-scale assembly</subject><subject>Brassicaceae</subject><title>The genome of Draba nivalis shows signatures of adaptation to the extreme environmental stresses of the Arctic</title><type>Other:info:eu-repo/semantics/other</type><type>Other:dataset</type><recordID>3998834</recordID></dc>
format Other:info:eu-repo/semantics/other
Other
Other:dataset
Journal:eJournal
Journal
author Nowak, Michael
Birkeland, Siri
Mandáková, Terezie
Choudhury, Rimjhim Roy
Guo, Xinyi
Gustafsson, Lovisa
Gizaw, Abel
Schrøder-Nielsen, Audun
Fracassetti, Marco
Brysting, Anne
Rieseberg, Loren
Slotte, Tanja
Parisod, Christian
Lysak, Martin
Brochmann, Christian
title The genome of Draba nivalis shows signatures of adaptation to the extreme environmental stresses of the Arctic
publishDate 2020
topic chromosome-scale assembly
Brassicaceae
url https://zenodo.org/record/3998834
contents The Arctic is one of the most extreme terrestrial environments on the planet. Here we present the first complete genome assembly of a plant adapted to the high Arctic, Draba nivalis (Brassicaceae), an attractive model species for studying plant adaptation to the stresses imposed by this harsh environment. We used an iterative scaffolding strategy with data from short-reads, single-molecule long reads, proximity ligation data, and a genetic map to produce a 302 Mb assembly that is highly contiguous with 91.6% assembled into eight chromosomes (the base chromosome number). To identify candidate genes and gene families that may have facilitated adaptation to Arctic environmental stresses, we performed comparative genomic analyses with nine non-Arctic Brassicaceae species. We show that the D. nivalis genome contains expanded suites of genes associated with drought and cold stress (e.g. related to the maintenance of oxidation-reduction homeostasis, meiosis, and signaling pathways). The expansions of gene families associated with these functions appear to be driven in part by the activity of transposable elements. Tests of positive selection identify suites of candidate genes associated with meiosis and photoperiodism, as well as cold, drought, and oxidative stress responses. Our results reveal a multifaceted landscape of stress adaptation in the D. nivalis genome, offering avenues for the continued development of this species as an Arctic model plant.
Please see ReadMe.txt for a full description of each file.
id IOS17403.3998834
institution Universitas PGRI Palembang
institution_id 189
institution_type library:university
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library Perpustakaan Universitas PGRI Palembang
library_id 587
collection Marga Life in South Sumatra in the Past: Puyang Concept Sacrificed and Demythosized
repository_id 17403
city KOTA PALEMBANG
province SUMATERA SELATAN
repoId IOS17403
first_indexed 2022-07-26T02:31:54Z
last_indexed 2022-07-26T02:31:54Z
recordtype dc
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