Info • Zymoseptoria tritici IP0323 v2.0

Status

The finished version of Zymoseptoria tritici IP0323 (former Mycosphaerella graminicola) contains 21 chromosomes, 20 of which are represented telomere to telomere with 5 gaps and a total genome size of 39.7 Mbp. The chromosomes have been numbered 1-21, largest to smallest. A total of 13,414 gene models were predicted by INRAE (INRAE_GeneModels) from a collection of gene sets predicted by different labs (CURTIN, JGI, MPI, and RRES) and functionally annotated using the JGI annotation pipeline. Gene model tracks from different sources are available for comparison:

- CURTIN_GeneModels (Centre for Crop & Disease Management Curtin University, Australia gene Models)

- JGI_GeneModels (Joint Genome Institute gene models published in Goodwin et al, 2011)

- MPI_GeneModels (Max Planck Institute gene models published in Grandaubert et al, 2015)

- RRES_GeneModels (Rothamsted Research Experimental Station gene models)

 

Genome Assembly
Genome Assembly size (Mbp) 39.69
Sequencing read coverage depth 8.9x
# of contigs 23
# of scaffolds 21
# of scaffolds >= 2Kbp 21
Scaffold N50 6
Scaffold L50 (Mbp) 2.67
# of gaps 2
% of scaffold length in gaps 0.0%
Three largest Scaffolds (Mbp) 6.09, 3.86, 3.51


Gene Models INRAE_GeneModels
length (bp) of: average median
gene 1900 1635
transcript 1804 1536
exon 782 431
intron 75 59
description:
protein length (aa) 429 347
exons per gene 2.31 2
# of gene models 13414


Collaborators

Genome Reference(s)

Please cite the following publication(s) if you use the data from this genome in your research:

Lapalu Nicolas, Lamothe Lucie, Petit Yohann, Genissel Anne, Delude Camille, Feurtey Alice, Abraham Leen N., Smith Dan, King Robert, Renwick Alison, Appertet Mélanie, Sucher Justine, Steindorff Andrei S., Goodwin Stephen B., Grigoriev Igor V., Hane James, Rudd Jason, Stukenbrock Eva, Croll Daniel, Scalliet Gabriel, Lebrun Marc-Henri
Improved gene annotation of the fungal wheat pathogen<i>Zymoseptoria tritici</i>based on combined Iso-Seq and RNA-Seq evidence
biorxiv.org

Goodwin Stephen B., Ben M'Barek Sarrah, Dhillon Braham, Wittenberg Alexander H. J., Crane Charles F., Hane James K., Foster Andrew J., Van der Lee Theo A. J., Grimwood Jane, Aerts Andrea, Antoniw John, Bailey Andy, Bluhm Burt, Bowler Judith, Bristow Jim, van der Burgt Ate, Canto-Canché Blondy, Churchill Alice C. L., Conde-Ferràez Laura, Cools Hans J., Coutinho Pedro M., Csukai Michael, Dehal Paramvir, De Wit Pierre, Donzelli Bruno, van de Geest Henri C., van Ham Roeland C. H. J., Hammond-Kosack Kim E., Henrissat Bernard, Kilian Andrzej, Kobayashi Adilson K., Koopmann Edda, Kourmpetis Yiannis, Kuzniar Arnold, Lindquist Erika, Lombard Vincent, Maliepaard Chris, Martins Natalia, Mehrabi Rahim, Nap Jan P. H., Ponomarenko Alisa, Rudd Jason J., Salamov Asaf, Schmutz Jeremy, Schouten Henk J., Shapiro Harris, Stergiopoulos Ioannis, Torriani Stefano F. F., Tu Hank, de Vries Ronald P., Waalwijk Cees, Ware Sarah B., Wiebenga Ad, Zwiers Lute-Harm, Oliver Richard P., Grigoriev Igor V., Kema Gert H. J.
Finished Genome of the Fungal Wheat Pathogen Mycosphaerella graminicola Reveals Dispensome Structure, Chromosome Plasticity, and Stealth Pathogenesis
PLoS Genet. 2011;7(6):e1002070. doi: 10.1371/journal.pgen.1002070

Funding

This project was not sequenced at the JGI.