Dataset Information

Whole Genome Metabolism - Ustilago maydis (strain 521 / FGSC 9021)

ABSTRACT:

Whole Genome Metabolism of "Ustilago maydis (strain 521 / FGSC 9021)"

This is a whole genome metabolism model of Ustilago maydis (strain 521 / FGSC 9021).

This model has been automatically generated by the SuBliMinaL Toolbox and libAnnotationSBML using information coming from from KEGG (release 66, April 2013, accessed via the resource's web services interface) and, where relevant, augmented with metabolic pathway information extracted from MetaCyc (version 17.0, March 2013).

This model has been produced by the path2models project and is currently hosted on BioModels Database and identified by: BMID000000141258 .

Other models with the same genus include BMID000000014942 BMID000000014943 BMID000000014944 BMID000000014945 BMID000000014946 BMID000000014947 BMID000000014948 BMID000000014949 BMID000000014950 BMID000000014951 BMID000000014952 BMID000000014953 BMID000000014954 BMID000000014955 BMID000000014956 BMID000000014957 BMID000000014958 BMID000000014959 BMID000000014960 BMID000000014961 BMID000000014962 BMID000000014963 BMID000000014964 BMID000000014965 BMID000000014966 BMID000000014967 BMID000000014968 BMID000000014969 BMID000000014970 BMID000000014971 BMID000000014972 BMID000000089968 BMID000000089969 BMID000000089970 BMID000000089971 BMID000000089972 BMID000000089973 BMID000000089974 BMID000000089975 BMID000000089976 BMID000000089977 BMID000000089978 BMID000000089979 BMID000000089980 BMID000000089981 BMID000000089982 BMID000000089983 BMID000000089984 BMID000000089985 BMID000000089986 BMID000000089987 BMID000000089988 BMID000000089989 BMID000000089990 BMID000000089991 BMID000000089992 BMID000000089993 BMID000000089994 BMID000000089995 BMID000000089996 BMID000000089997 BMID000000089998 BMID000000089999 BMID000000090000 BMID000000090001 BMID000000090002 BMID000000090003 BMID000000090004 BMID000000090005 BMID000000090006 BMID000000090007 BMID000000090008 BMID000000090009 BMID000000090010 BMID000000090011 BMID000000090012 BMID000000090013 BMID000000090014 BMID000000090015 BMID000000090016 BMID000000090017 BMID000000090018 BMID000000090019 BMID000000090020 BMID000000090021 BMID000000090022 BMID000000090023 BMID000000090024 BMID000000090025 BMID000000090026 BMID000000090027 BMID000000090028 BMID000000090029 BMID000000090030 BMID000000090031 BMID000000090032 BMID000000090033 BMID000000090034 BMID000000090035 BMID000000090036 BMID000000090037 BMID000000090038 BMID000000090039 BMID000000090040 BMID000000090041 BMID000000090042 .

To the extent possible under law, all copyright and related or neighbouring rights to this encoded model have been dedicated to the public domain worldwide. Please refer to CC0 Public Domain Dedication for more information.

SUBMITTER: Path2Models project

PROVIDER: BMID000000141258 | biostudies-other |

SECONDARY ACCESSION(S): 24180668

REPOSITORIES: biostudies-other

ACCESS DATA

Publications

Insights from the genome of the biotrophic fungal plant pathogen Ustilago maydis.

Kämper Jörg J Kahmann Regine R Bölker Michael M Ma Li-Jun LJ Brefort Thomas T Saville Barry J BJ Banuett Flora F Kronstad James W JW Gold Scott E SE Müller Olaf O Perlin Michael H MH Wösten Han A B HA de Vries Ronald R Ruiz-Herrera José J Reynaga-Peña Cristina G CG Snetselaar Karen K McCann Michael M Pérez-Martín José J Feldbrügge Michael M Basse Christoph W CW Steinberg Gero G Ibeas Jose I JI Holloman William W Guzman Plinio P Farman Mark M Stajich Jason E JE Sentandreu Rafael R González-Prieto Juan M JM Kennell John C JC Molina Lazaro L Schirawski Jan J Mendoza-Mendoza Artemio A Greilinger Doris D Münch Karin K Rössel Nicole N Scherer Mario M Vranes Miroslav M Ladendorf Oliver O Vincon Volker V Fuchs Uta U Sandrock Björn B Meng Shaowu S Ho Eric C H EC Cahill Matt J MJ Boyce Kylie J KJ Klose Jana J Klosterman Steven J SJ Deelstra Heine J HJ Ortiz-Castellanos Lucila L Li Weixi W Sanchez-Alonso Patricia P Schreier Peter H PH Häuser-Hahn Isolde I Vaupel Martin M Koopmann Edda E Friedrich Gabi G Voss Hartmut H Schlüter Thomas T Margolis Jonathan J Platt Darren D Swimmer Candace C Gnirke Andreas A Chen Feng F Vysotskaia Valentina V Mannhaupt Gertrud G Güldener Ulrich U Münsterkötter Martin M Haase Dirk D Oesterheld Matthias M Mewes Hans-Werner HW Mauceli Evan W EW DeCaprio David D Wade Claire M CM Butler Jonathan J Young Sarah S Jaffe David B DB Calvo Sarah S Nusbaum Chad C Galagan James J Birren Bruce W BW

Nature 20061101 7115

Ustilago maydis is a ubiquitous pathogen of maize and a well-established model organism for the study of plant-microbe interactions. This basidiomycete fungus does not use aggressive virulence strategies to kill its host. U. maydis belongs to the group of biotrophic parasites (the smuts) that depend on living tissue for proliferation and development. Here we report the genome sequence for a member of this economically important group of biotrophic fungi. The 20.5-million-base U. maydis genome as ...[more]

PMID: 17080091

Publication: 1/2

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Project description:tRNAs are encoded by a large gene family, usually with several isogenic tRNAs interacting with the same codon. Mutations in the anticodon region of other tRNAs can overcome specific tRNA deficiencies. Phylogenetic analysis suggests that such mutations have occurred in evolution, but the driving force is unclear. We show that in yeast suppressor mutations in other tRNAs are able to overcome deficiency of the essential TRT2-encoded tRNAThrCGU at high temperature (40°C). Surprisingly, these tRNA suppressor mutations were obtained after whole-genome transformation with DNA from thermotolerant Kluyveromyces marxianus or Ogataea polymorpha strains, but from which the mutations did apparently not originate. We suggest that transient presence of donor DNA in the host facilitates proliferation at high temperature and thus increases the chances for occurrence of spontaneous mutations suppressing defective growth at high temperature. Whole-genome sequence analysis of three transformants revealed only four to five non-synonymous mutations of which one causing TRT2 anticodon stem stabilization and two anticodon mutations in non-threonyl-tRNAs, tRNALysCUU and tRNAeMetCAU, were causative. Both anticodon mutations suppressed lethality of TRT2 deletion and apparently caused the respective tRNAs to become novel substrates for threonyl-tRNA synthetase. LC-MS/MS data could not detect any significant mistranslation and RT-qPCR results contradicted induction of the unfolded protein response. We suggest that stress conditions have been a driving force in evolution for the selection of anticodon-switching mutations in tRNAs as revealed by phylogenetic analysis. Importance of the work In this work we have identified for the first time the causative elements in a eukaryotic organism introduced by applying whole-genome transformation and responsible for the selectable trait of interest, i.e. high temperature tolerance. Surprisingly, the whole-genome transformants contained just a few SNPs, which were unrelated to the sequence of the donor DNA. In each of three independent transformants, we have identified a SNP in a tRNA, either stabilizing the essential tRNAThrCGU at high temperature or switching the anticodon of tRNALysCUU or tRNAeMetCAU into CGU, which is apparently enough for in vivo recognition by threonyl-tRNA synthetase. LC-MS/MS analysis indeed indicated absence of significant mistranslation. Phylogenetic analysis showed that similar mutations have occurred throughout evolution and we suggest that stress conditions may have been a driving force for their selection. The low number of SNPs introduced by whole-genome transformation may favor its application for improvement of industrial yeast strains.

Dataset Information

Whole Genome Metabolism - Ustilago maydis (strain 521 / FGSC 9021)

Publications

Insights from the genome of the biotrophic fungal plant pathogen Ustilago maydis.

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