Dataset Information

Whole Genome Metabolism - Stenotrophomonas maltophilia (strain K279a)

ABSTRACT:

Whole Genome Metabolism of "Stenotrophomonas maltophilia (strain K279a)"

This is a whole genome metabolism model of Stenotrophomonas maltophilia (strain K279a).

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: BMID000000141348 .

Other models with the same genus include BMID000000015033 BMID000000015034 BMID000000015035 BMID000000015036 BMID000000015037 BMID000000015038 BMID000000015039 BMID000000015040 BMID000000015041 BMID000000015042 BMID000000015043 BMID000000015044 BMID000000015045 BMID000000015046 BMID000000015047 BMID000000015048 BMID000000015049 BMID000000090307 BMID000000090308 BMID000000090309 BMID000000090310 BMID000000090311 BMID000000090312 BMID000000090313 BMID000000090314 BMID000000090315 BMID000000090316 BMID000000090317 BMID000000090318 BMID000000090319 BMID000000090320 BMID000000090321 BMID000000090322 BMID000000090323 BMID000000090324 BMID000000090325 BMID000000090326 BMID000000090327 BMID000000090328 BMID000000090329 BMID000000090330 BMID000000090331 BMID000000090332 BMID000000090333 BMID000000090334 BMID000000090335 BMID000000090336 BMID000000090337 BMID000000090338 BMID000000090339 BMID000000090340 BMID000000090341 BMID000000090342 BMID000000090343 BMID000000090344 BMID000000090345 BMID000000090346 BMID000000090347 BMID000000090348 BMID000000090349 BMID000000090350 BMID000000090351 BMID000000090352 BMID000000090353 BMID000000090354 BMID000000090355 BMID000000090356 BMID000000090357 BMID000000090358 BMID000000090359 BMID000000090360 BMID000000090361 BMID000000090362 BMID000000090363 BMID000000090364 BMID000000090365 BMID000000090366 BMID000000090367 BMID000000090368 BMID000000090369 BMID000000090370 BMID000000090371 BMID000000090372 BMID000000090373 BMID000000090374 BMID000000090375 BMID000000090376 BMID000000090377 BMID000000090378 BMID000000090379 BMID000000090380 BMID000000090381 BMID000000090382 BMID000000090383 BMID000000090384 BMID000000090385 BMID000000090386 BMID000000090387 BMID000000090388 BMID000000090389 BMID000000090390 BMID000000090391 BMID000000090392 BMID000000022432 BMID000000022433 BMID000000022434 BMID000000022435 BMID000000022436 BMID000000022437 BMID000000022438 BMID000000022439 BMID000000022440 BMID000000022441 BMID000000022442 BMID000000022443 BMID000000022444 BMID000000022445 BMID000000022446 BMID000000022447 BMID000000022448 BMID000000120496 BMID000000120497 BMID000000120498 BMID000000120499 BMID000000120500 BMID000000120501 BMID000000120502 BMID000000120503 BMID000000120504 BMID000000120505 BMID000000120506 BMID000000120507 BMID000000120508 BMID000000120509 BMID000000120510 BMID000000120511 BMID000000120512 BMID000000120513 BMID000000120514 BMID000000120515 BMID000000120516 BMID000000120517 BMID000000120518 BMID000000120519 BMID000000120520 BMID000000120521 BMID000000120522 BMID000000120523 BMID000000120524 BMID000000120525 BMID000000120526 BMID000000120527 BMID000000120528 BMID000000120529 BMID000000120530 BMID000000120531 BMID000000120532 BMID000000120533 BMID000000120534 BMID000000120535 BMID000000120536 BMID000000120537 BMID000000120538 BMID000000120539 BMID000000120540 BMID000000120541 BMID000000120542 BMID000000120543 BMID000000120544 BMID000000120545 BMID000000120546 BMID000000120547 BMID000000120548 BMID000000120549 BMID000000120550 BMID000000120551 BMID000000120552 BMID000000120553 BMID000000120554 BMID000000120555 BMID000000120556 BMID000000120557 BMID000000120558 BMID000000120559 BMID000000120560 BMID000000120561 BMID000000120562 BMID000000120563 BMID000000120564 BMID000000120565 BMID000000120566 BMID000000120567 BMID000000120568 BMID000000120569 BMID000000120570 BMID000000120571 BMID000000120572 BMID000000120573 BMID000000120574 BMID000000120575 BMID000000120576 BMID000000120577 BMID000000120578 BMID000000120579 BMID000000120580 BMID000000120581 BMID000000120582 BMID000000141139 BMID000000141498 BMID000000142252 .

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: BMID000000141348 | biostudies-other |

SECONDARY ACCESSION(S): 24180668

REPOSITORIES: biostudies-other

ACCESS DATA

Publications

The complete genome, comparative and functional analysis of Stenotrophomonas maltophilia reveals an organism heavily shielded by drug resistance determinants.

Crossman Lisa C LC Gould Virginia C VC Dow J Maxwell JM Vernikos Georgios S GS Okazaki Aki A Sebaihia Mohammed M Saunders David D Arrowsmith Claire C Carver Tim T Peters Nicholas N Adlem Ellen E Kerhornou Arnaud A Lord Angela A Murphy Lee L Seeger Katharine K Squares Robert R Rutter Simon S Quail Michael A MA Rajandream Mari-Adele MA Harris David D Churcher Carol C Bentley Stephen D SD Parkhill Julian J Thomson Nicholas R NR Avison Matthew B MB

Genome biology 20080417 4

<h4>Background</h4>Stenotrophomonas maltophilia is a nosocomial opportunistic pathogen of the Xanthomonadaceae. The organism has been isolated from both clinical and soil environments in addition to the sputum of cystic fibrosis patients and the immunocompromised. Whilst relatively distant phylogenetically, the closest sequenced relatives of S. maltophilia are the plant pathogenic xanthomonads.<h4>Results</h4>The genome of the bacteremia-associated isolate S. maltophilia K279a is 4,851,126 bp an ...[more]

PMID: 18419807

Publication: 1/2

Similar Datasets

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 - Stenotrophomonas maltophilia (strain K279a)

Publications

The complete genome, comparative and functional analysis of Stenotrophomonas maltophilia reveals an organism heavily shielded by drug resistance determinants.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets