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dc.contributor.authorDassanayake, Maheshi
dc.contributor.authorOh, Dongha
dc.contributor.authorHaas, Jeffrey S.
dc.contributor.authorHernández, Álvaro Gonzalez
dc.contributor.authorHong, Hyewon
dc.contributor.authorAli, Shahjahan
dc.contributor.authorYun, Daejin
dc.contributor.authorBressan, Ray Anthony
dc.contributor.authorZhu, Jian-Kang
dc.contributor.authorBohnert, Hans Jürgen
dc.contributor.authorCheeseman, John McP
dc.date.accessioned2015-08-03T09:32:04Z
dc.date.available2015-08-03T09:32:04Z
dc.date.issued2011-08-07
dc.identifier.issn10614036
dc.identifier.pmid21822265
dc.identifier.doi10.1038/ng.889
dc.identifier.urihttp://hdl.handle.net/10754/561836
dc.description.abstractThellungiella parvula is related to Arabidopsis thaliana and is endemic to saline, resource-poor habitats, making it a model for the evolution of plant adaptation to extreme environments. Here we present the draft genome for this extremophile species. Exclusively by next generation sequencing, we obtained the de novo assembled genome in 1,496 gap-free contigs, closely approximating the estimated genome size of 140 Mb. We anchored these contigs to seven pseudo chromosomes without the use of maps. We show that short reads can be assembled to a near-complete chromosome level for a eukaryotic species lacking prior genetic information. The sequence identifies a number of tandem duplications that, by the nature of the duplicated genes, suggest a possible basis for T. parvula's extremophile lifestyle. Our results provide essential background for developing genomically influenced testable hypotheses for the evolution of environmental stress tolerance. © 2011 Nature America, Inc. All rights reserved.
dc.description.sponsorshipWe thank M. P. D'Urzo (Purdue University, West Lafayette, Indiana, USA) for providing plant materials and J.-H. Mun (National Academy of Agricultural Science, Suwon, Korea) for providing the B. rapa chromosome sequence. We also gratefully acknowledge M. Vaughn (University of Texas, Austin, Texas, USA), S. Jackman, M. Krzywinski (Michael Smith Genome Sciences Center, Vancouver, British Columbia, Canada) and SeqAnswers online forum (see URLs) for advice on genome assembly and visualization. Funding has been provided by King Abdullah University of Science and Technology, Thuwal, Saudi Arabia, by the World Class by recording the numbers of genes included or not included in a subcategory for each species and ranking the statistical significance of the differences.
dc.publisherSpringer Nature
dc.relation.urlhttp://www.ncbi.nlm.nih.gov/pmc/articles/PMC3586812
dc.titleThe genome of the extremophile crucifer Thellungiella parvula
dc.typeArticle
dc.contributor.departmentBioscience Core Lab
dc.contributor.departmentBiological and Environmental Sciences and Engineering (BESE) Division
dc.contributor.departmentDesert Agriculture Initiative
dc.contributor.departmentCore Labs
dc.identifier.journalNature Genetics
dc.identifier.pmcidPMC3586812
dc.contributor.institutionDepartment of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, IL, United States
dc.contributor.institutionOffice of Networked Information Technology, School of Integrative Biology, University of Illinois at Urbana-Champaign, Urbana, IL, United States
dc.contributor.institutionCenter for Comparative and Functional Genomics, University of Illinois at Urbana-Champaign, Urbana, IL, United States
dc.contributor.institutionDivision of Applied Life Science, BK21 Program, Gyeongsang National University, Jinju, South Korea
dc.contributor.institutionDepartment of Horticulture and Landscape Architecture, Purdue University, West Lafayette, IN, United States
dc.contributor.institutionDepartment of Crop Sciences, University of Illinois at Urbana-Champaign, Urbana, IL, United States
kaust.personAli, Shahjahan
kaust.personBressan, Ray Anthony
kaust.personZhu, Jian-Kang
kaust.personBohnert, Hans Jürgen


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