Dataset Information

Whole Genome Metabolism - Acholeplasma laidlawii (strain PG-8A)

ABSTRACT:

Whole Genome Metabolism of "Acholeplasma laidlawii (strain PG-8A)"

This is a whole genome metabolism model of Acholeplasma laidlawii (strain PG-8A).

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: BMID000000141641 .

Other models with the same genus include BMID000000023661 BMID000000023662 BMID000000023663 BMID000000023664 BMID000000023665 BMID000000023666 BMID000000023667 BMID000000023668 BMID000000023669 BMID000000023670 BMID000000023671 BMID000000023672 BMID000000023673 BMID000000023674 BMID000000125326 BMID000000125327 BMID000000125328 BMID000000125329 BMID000000125330 BMID000000125331 BMID000000125332 BMID000000125333 BMID000000125334 BMID000000125335 BMID000000125336 BMID000000125337 BMID000000125338 BMID000000125339 BMID000000125340 BMID000000125341 BMID000000125342 BMID000000125343 BMID000000125344 BMID000000125345 BMID000000125346 BMID000000125347 BMID000000125348 BMID000000125349 BMID000000125350 BMID000000125351 BMID000000125352 BMID000000125353 BMID000000125354 BMID000000125355 BMID000000125356 BMID000000125357 BMID000000125358 BMID000000125359 BMID000000125360 BMID000000125361 BMID000000125362 BMID000000125363 BMID000000125364 BMID000000125365 BMID000000125366 BMID000000125367 BMID000000125368 BMID000000125369 BMID000000125370 BMID000000125371 BMID000000125372 BMID000000125373 BMID000000125374 BMID000000125375 BMID000000125376 BMID000000125377 BMID000000125378 BMID000000125379 BMID000000125380 BMID000000125381 BMID000000125382 BMID000000125383 BMID000000125384 .

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: BMID000000141641 | biostudies-other |

SECONDARY ACCESSION(S): 24180668

REPOSITORIES: biostudies-other

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Publications

Complete genome and proteome of Acholeplasma laidlawii.

Lazarev V N VN Levitskii S A SA Basovskii Y I YI Chukin M M MM Akopian T A TA Vereshchagin V V VV Kostrjukova E S ES Kovaleva G Y GY Kazanov M D MD Malko D B DB Vitreschak A G AG Sernova N V NV Gelfand M S MS Demina I A IA Serebryakova M V MV Galyamina M A MA Vtyurin N N NN Rogov S I SI Alexeev D G DG Ladygina V G VG Govorun V M VM

Journal of bacteriology 20110722 18

We present the complete genome sequence and proteogenomic map for Acholeplasma laidlawii PG-8A (class Mollicutes, order Acholeplasmatales, family Acholeplasmataceae). The genome of A. laidlawii is represented by a single 1,496,992-bp circular chromosome with an average G+C content of 31 mol%. This is the longest genome among the Mollicutes with a known nucleotide sequence. It contains genes of polymerase type I, SOS response, and signal transduction systems, as well as RNA regulatory elements, r ...[more]

PMID: 21784942

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 - Acholeplasma laidlawii (strain PG-8A)

Publications

Complete genome and proteome of Acholeplasma laidlawii.

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