Dataset Information

Whole Genome Metabolism - Erythrobacter litoralis (strain HTCC2594)

ABSTRACT:

Whole Genome Metabolism of "Erythrobacter litoralis (strain HTCC2594)"

This is a whole genome metabolism model of Erythrobacter litoralis (strain HTCC2594).

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: BMID000000141176 .

Other models with the same genus include BMID000000004448 BMID000000004449 BMID000000004450 BMID000000004451 BMID000000004452 BMID000000004453 BMID000000004454 BMID000000004455 BMID000000004456 BMID000000004457 BMID000000004458 BMID000000004459 BMID000000004460 BMID000000004461 BMID000000004462 BMID000000004463 BMID000000046435 BMID000000046436 BMID000000046437 BMID000000046438 BMID000000046439 BMID000000046440 BMID000000046441 BMID000000046442 BMID000000046443 BMID000000046444 BMID000000046445 BMID000000046446 BMID000000046447 BMID000000046448 BMID000000046449 BMID000000046450 BMID000000046451 BMID000000046452 BMID000000046453 BMID000000046454 BMID000000046455 BMID000000046456 BMID000000046457 BMID000000046458 BMID000000046459 BMID000000046460 BMID000000046461 BMID000000046462 BMID000000046463 BMID000000046464 BMID000000046465 BMID000000046466 BMID000000046467 BMID000000046468 BMID000000046469 BMID000000046470 BMID000000046471 BMID000000046472 BMID000000046473 BMID000000046474 BMID000000046475 BMID000000046476 BMID000000046477 BMID000000046478 BMID000000046479 BMID000000046480 BMID000000046481 BMID000000046482 BMID000000046483 BMID000000046484 BMID000000046485 BMID000000046486 BMID000000046487 BMID000000046488 BMID000000046489 BMID000000046490 BMID000000046491 BMID000000046492 BMID000000046493 BMID000000046494 BMID000000046495 BMID000000046496 BMID000000046497 BMID000000046498 BMID000000046499 BMID000000046500 BMID000000046501 BMID000000046502 BMID000000046503 BMID000000046504 BMID000000046505 BMID000000046506 BMID000000046507 BMID000000046508 BMID000000046509 BMID000000046510 BMID000000046511 BMID000000046512 .

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: BMID000000141176 | biostudies-other |

SECONDARY ACCESSION(S): 24180668

REPOSITORIES: biostudies-other

ACCESS DATA

Publications

Complete genome sequence of Erythrobacter litoralis HTCC2594.

Oh Hyun-Myung HM Giovannoni Stephen J SJ Ferriera Steve S Johnson Justin J Cho Jang-Cheon JC

Journal of bacteriology 20090123 7

Erythrobacter litoralis has been known as a bacteriochlorophyll a-containing, aerobic, anoxygenic, phototrophic bacterium. Here we announce the complete genome sequence of E. litoralis HTCC2594, which is devoid of phototrophic potential. E. litoralis HTCC2594, isolated by dilution-to-extinction culturing from seawater, could not carry out aerobic anoxygenic phototrophy and lacked genes for bacteriochlorophyll a biosynthesis and photosynthetic reaction center proteins. ...[more]

PMID: 19168610

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 - Erythrobacter litoralis (strain HTCC2594)

Publications

Complete genome sequence of Erythrobacter litoralis HTCC2594.

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