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PMID: 24801344 Published · ppublish English Journal Article Review

Genomic variation in Arabidopsis: tools and insights from next-generation sequencing.

Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology ·Vol. 22 ·No. 2 ·2014-06-00 ·Pages 103-15

Hollister JD

Abstract

The release of a reference genome for Arabidopsis thaliana in 2000 has been an enormous boon for the study of plant genetics. Less than a decade later, however, a revolution in sequencing technology had enabled rapid and inexpensive re-sequencing of whole A. thaliana genomes. Large-scale efforts to characterize natural genomic variation in A. thaliana have revealed remarkable intra-specific variation in this species, ranging from single-nucleotide differences to large structural rearrangements. The partitioning of this variation by geography and local adaptation has been described using powerful new methods and tools. Simultaneously, an ambitious research agenda has emerged to sequence 1001 A. thaliana lines from around the world, while sequencing of related species is enabling powerful evolutionary genomic analyses. In this review, I summarize recent progress in genomic analysis of natural variation in A. thaliana and its close relatives. This progress has set the stage for the emergence of Arabidopsis as a model genus for evolutionary and functional genomics.

MeSH Terms
Arabidopsis/genetics DNA, Plant/genetics Epigenomics Evolution, Molecular Genome, Plant Genomics/methods Haplotypes High-Throughput Nucleotide Sequencing/methods Phylogeography Polymorphism, Single Nucleotide Sequence Analysis, DNA
Chemicals
DNA, Plant
Authors & Affiliations
1 authors, click to expand affiliations / ORCID
Hollister Jesse D
Department of Ecology and Evolutionary Biology, University of Toronto, 25 Willcocks Street, Toronto, ON, M5S 1G8, Canada, [email protected].
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Article Info
Journal
Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology
Abbr.
Chromosome Res
ISSN
1573-6849
DOI
10.1007/s10577-014-9420-1
Email
[email protected]
Published
2014-06-00
Pages
103-15
Language
English
Region
Netherlands
NLM ID
9313452
Subset
IM
External Links
PubMed source DOI: 10.1007/s10577-014-9420-1 View journal details
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