Assembly and validation of the genome of the nonmodel basal angiosperm Amborella

Srikar Chamala, Andre S. Chanderbali, Joshua P. Der, Tianying Lan, Brandon Walts, Victor A. Albert, Claude W. DePamphilis, Jim Leebens-Mack, Steve Rounsley, Stephan C. Schuster, Rod A. Wing, Nianqing Xiao, Richard Moore, Pamela S. Soltis, Douglas E. Soltis, W. Brad Barbazuk

Research output: Contribution to journalArticle

59 Scopus citations

Abstract

Genome sequencing with next-generation sequence (NGS) technologies can now be applied to organisms pivotal to addressing fundamental biological questions, but with genomes previously considered intractable or too expensive to undertake. However, for species with large and complex genomes, extensive genetic and physical map resources have, until now, been required to direct the sequencing effort and sequence assembly. As these resources are unavailable for most species, assembling high-quality genome sequences from NGS data remains challenging. We describe a strategy that uses NGS, fluorescence in situ hybridization, and whole-genome mapping to assemble a high-quality genome sequence for Amborella trichopoda, a nonmodel species crucial to understanding flowering plant evolution. These methods are applicable to many other organisms with limited genomic resources.

Original languageEnglish (US)
Pages (from-to)1516-1517
Number of pages2
JournalScience
Volume342
Issue number6165
DOIs
StatePublished - 2013

ASJC Scopus subject areas

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    Chamala, S., Chanderbali, A. S., Der, J. P., Lan, T., Walts, B., Albert, V. A., DePamphilis, C. W., Leebens-Mack, J., Rounsley, S., Schuster, S. C., Wing, R. A., Xiao, N., Moore, R., Soltis, P. S., Soltis, D. E., & Barbazuk, W. B. (2013). Assembly and validation of the genome of the nonmodel basal angiosperm Amborella. Science, 342(6165), 1516-1517. https://doi.org/10.1126/science.1241130