Project funding: National Science Foundation Plant Genome Research Program (#1026200) for the Oryza Genome Evolution (OGE) Project. These pre-publication data are being released under guidelines of the Fort Lauderdale Agreement, which reaffirms the balance between fair use (i.e. no pre-emptive publication) and early disclosure. You are encouraged use these data to advance your research on individual loci but are asked to respect the rights of the investigators who generated these data to publish the whole-genome level description of O. meridionalis in a peer-reviewed journal. This description includes whole-genome comparative analyses, genome size evolution, gene family evolution, gene organisation and movement, heterochromatin, centromere evolution. This genome falls under the scope of the I-OMAP (International Oryza Map Alignment Project) consortium. The I-OMAP consortium is an internationally coordinated effort to create high-quality reference assemblies representing the diversity of wild and crop-progenitor species in the genus Oryza (Jacquemin et al, 2012). For enquiries and information on how to cite these data please contact Dr. Rod Wing.

About Oryza meridionalis

Oryza meridionalis is a wild rice found in Australia, one of the wild rice species included in the OMAP project. It belongs to the AA genome group. It has 12 chromosomes with a nuclear genome size of 435 Mb (flow cytometry). It is found at edges of freshwater lagoons, temporary pools, and swamps in 15-20 cm of water and grows in black, clay soil in open habitats. This work was part of the Oryza Genome Evolution project funded by NSF Award #1026200 and in collaboration with Olivier Panaud and Robert Henry.

Taxonomy ID 40149

Data source Oryza Genome Evolution Project

More information and statistics

Gene annotation

What can I find? Protein-coding and non-coding genes, splice variants, cDNA and protein sequences, non-coding RNAs.

More about this genebuild

Download genes, cDNAs, ncRNA, proteins - FASTA - GFF3

Update your old Ensembl IDs

Variation

This species currently has no variation database. However you can process your own variants using the Variant Effect Predictor:

Variant Effect Predictor

Regulation

What can I find? Microarray annotations.

More about the Ensembl Plants microarray annotation strategy

Gramene/Ensembl Genomes Annotation

Additional annotations generated by the Gramene and Ensembl Plants project include:

  • Gene phylogenetic trees with other Gramene species.
  • LastZ Whole Genome Alignment to Arabidopsis thaliana, Oryza sativa Japonica (IRGSP v1) and other Oryza AA genomes.
  • Orthologue based DAGchainer synteny detection against other AA genomes.
  • Mapping to the genome of multiple sequence-based feature sets using Gramene BLAT pipeline.
  • Identification of various repeat features by programs such as RepeatMasker with MIPS and AGI repeat libraries, and Dust, TRF.

Links

About this species