English
 
Help Privacy Policy Disclaimer
  Advanced SearchBrowse

Item

ITEM ACTIONSEXPORT

Released

Journal Article

The maize W22 genome provides a foundation for functional genomics and transposon biology

MPS-Authors
/persons/resource/persons3982

Köllner,  Tobias G.
Department of Biochemistry, Prof. J. Gershenzon, MPI for Chemical Ecology, Max Planck Society;

External Resource
Fulltext (restricted access)
There are currently no full texts shared for your IP range.
Fulltext (public)

GER512.pdf
(Publisher version), 2MB

Supplementary Material (public)

GER512s1.pdf
(Supplementary material), 2MB

Citation

Springer, N. M., Anderson, S. N., Andorf, C. M., Ahern, K. R., Bai, F., Barad, O., et al. (2018). The maize W22 genome provides a foundation for functional genomics and transposon biology. Nature Genetics, 50, 1282-1288. doi:10.1038/s41588-018-0158-0.


Cite as: http://hdl.handle.net/21.11116/0000-0001-DCDB-1
Abstract
The maize W22 inbred has served as a platform for maize genetics since the mid twentieth century. To streamline maize genome analyses, we have sequenced and de novo assembled a W22 reference genome using short-read sequencing technologies. We show that significant structural heterogeneity exists in comparison to the B73 reference genome at multiple scales, from transposon composition and copy number variation to single-nucleotide polymorphisms. The generation of this reference genome enables accurate placement of thousands of Mutator (Mu) and Dissociation (Ds) transposable element insertions for reverse and forward genetics studies. Annotation of the genome has been achieved using RNA-seq analysis, differential nuclease sensitivity profiling and bisulfite sequencing to map open reading frames, open chromatin sites and DNA methylation profiles, respectively. Collectively, the resources developed here integrate W22 as a community reference genome for functional genomics and provide a foundation for the maize pan-genome.