Dataset Information

Whole Genome Metabolism - Aeromonas veronii (strain B565)

ABSTRACT:

Whole Genome Metabolism of "Aeromonas veronii (strain B565)"

This is a whole genome metabolism model of Aeromonas veronii (strain B565).

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: BMID000000140657 .

Other models with the same genus include BMID000000016989 BMID000000016990 BMID000000016991 BMID000000016992 BMID000000016993 BMID000000016994 BMID000000016995 BMID000000016996 BMID000000016997 BMID000000016998 BMID000000016999 BMID000000017000 BMID000000017001 BMID000000017002 BMID000000017003 BMID000000017004 BMID000000017005 BMID000000098083 BMID000000098084 BMID000000098085 BMID000000098086 BMID000000098087 BMID000000098088 BMID000000098089 BMID000000098090 BMID000000098091 BMID000000098092 BMID000000098093 BMID000000098094 BMID000000098095 BMID000000098096 BMID000000098097 BMID000000098098 BMID000000098099 BMID000000098100 BMID000000098101 BMID000000098102 BMID000000098103 BMID000000098104 BMID000000098105 BMID000000098106 BMID000000098107 BMID000000098108 BMID000000098109 BMID000000098110 BMID000000098111 BMID000000098112 BMID000000098113 BMID000000098114 BMID000000098115 BMID000000098116 BMID000000098117 BMID000000098118 BMID000000098119 BMID000000098120 BMID000000098121 BMID000000098122 BMID000000098123 BMID000000098124 BMID000000098125 BMID000000098126 BMID000000098127 BMID000000098128 BMID000000098129 BMID000000098130 BMID000000098131 BMID000000098132 BMID000000098133 BMID000000098134 BMID000000098135 BMID000000098136 BMID000000098137 BMID000000098138 BMID000000098139 BMID000000098140 BMID000000098141 BMID000000098142 BMID000000098143 BMID000000098144 BMID000000098145 BMID000000098146 BMID000000098147 BMID000000098148 BMID000000098149 BMID000000098150 BMID000000098151 BMID000000098152 BMID000000098153 BMID000000098154 BMID000000098155 BMID000000098156 BMID000000098157 BMID000000098158 BMID000000098159 BMID000000098160 BMID000000098161 BMID000000098162 BMID000000098163 BMID000000098164 BMID000000098165 BMID000000140875 BMID000000017430 BMID000000017431 BMID000000017432 BMID000000017433 BMID000000017434 BMID000000017435 BMID000000017436 BMID000000017437 BMID000000017438 BMID000000017439 BMID000000017440 BMID000000017441 BMID000000017442 BMID000000017443 BMID000000017444 BMID000000017445 BMID000000017446 BMID000000100107 BMID000000100108 BMID000000100109 BMID000000100110 BMID000000100111 BMID000000100112 BMID000000100113 BMID000000100114 BMID000000100115 BMID000000100116 BMID000000100117 BMID000000100118 BMID000000100119 BMID000000100120 BMID000000100121 BMID000000100122 BMID000000100123 BMID000000100124 BMID000000100125 BMID000000100126 BMID000000100127 BMID000000100128 BMID000000100129 BMID000000100130 BMID000000100131 BMID000000100132 BMID000000100133 BMID000000100134 BMID000000100135 BMID000000100136 BMID000000100137 BMID000000100138 BMID000000100139 BMID000000100140 BMID000000100141 BMID000000100142 BMID000000100143 BMID000000100144 BMID000000100145 BMID000000100146 BMID000000100147 BMID000000100148 BMID000000100149 BMID000000100150 BMID000000100151 BMID000000100152 BMID000000100153 BMID000000100154 BMID000000100155 BMID000000100156 BMID000000100157 BMID000000100158 BMID000000100159 BMID000000100160 BMID000000100161 BMID000000100162 BMID000000100163 BMID000000100164 BMID000000100165 BMID000000100166 BMID000000100167 BMID000000100168 BMID000000100169 BMID000000100170 BMID000000100171 BMID000000100172 BMID000000100173 BMID000000100174 BMID000000100175 BMID000000100176 BMID000000100177 BMID000000100178 BMID000000100179 BMID000000100180 BMID000000100181 BMID000000100182 BMID000000100183 BMID000000100184 BMID000000100185 BMID000000100186 BMID000000100187 BMID000000100188 BMID000000100189 BMID000000100190 BMID000000100191 BMID000000100192 BMID000000141012 BMID000000020455 BMID000000020456 BMID000000020457 BMID000000020458 BMID000000020459 BMID000000020460 BMID000000020461 BMID000000020462 BMID000000020463 BMID000000020464 BMID000000020465 BMID000000020466 BMID000000020467 BMID000000020468 BMID000000020469 BMID000000020470 BMID000000111569 BMID000000111570 BMID000000111571 BMID000000111572 BMID000000111573 BMID000000111574 BMID000000111575 BMID000000111576 BMID000000111577 BMID000000111578 BMID000000111579 BMID000000111580 BMID000000111581 BMID000000111582 BMID000000111583 BMID000000111584 BMID000000111585 BMID000000111586 BMID000000111587 BMID000000111588 BMID000000111589 BMID000000111590 BMID000000111591 BMID000000111592 BMID000000111593 BMID000000111594 BMID000000111595 BMID000000111596 BMID000000111597 BMID000000111598 BMID000000111599 BMID000000111600 BMID000000111601 BMID000000111602 BMID000000111603 BMID000000111604 BMID000000111605 BMID000000111606 BMID000000111607 BMID000000111608 BMID000000111609 BMID000000111610 BMID000000111611 BMID000000111612 BMID000000111613 BMID000000111614 BMID000000111615 BMID000000111616 BMID000000111617 BMID000000111618 BMID000000111619 BMID000000111620 BMID000000111621 BMID000000111622 BMID000000111623 BMID000000111624 BMID000000111625 BMID000000111626 BMID000000111627 BMID000000111628 BMID000000111629 BMID000000111630 BMID000000111631 BMID000000111632 BMID000000111633 BMID000000111634 BMID000000111635 BMID000000111636 BMID000000111637 BMID000000111638 BMID000000111639 BMID000000111640 BMID000000111641 BMID000000111642 BMID000000111643 BMID000000111644 BMID000000111645 BMID000000111646 BMID000000111647 BMID000000111648 BMID000000111649 .

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: BMID000000140657 | biostudies-other |

SECONDARY ACCESSION(S): 24180668

REPOSITORIES: biostudies-other

ACCESS DATA

Publications

Complete genome sequence of Aeromonas veronii strain B565.

Li Yanxia Y Liu Yuchun Y Zhou Zhemin Z Huang Huoqing H Ren Yan Y Zhang Yuting Y Li Guannan G Zhou Zhigang Z Wang Lei L

Journal of bacteriology 20110506 13

Aeromonas veronii strain B565 was isolated from aquaculture pond sediment in China. We present here the complete genome sequence of B565 and compare it with 2 published genome sequences of pathogenic strains in the Aeromonas genus. The result represents an independent stepwise acquisition of virulence factors of pathogenic strains in this genus. ...[more]

PMID: 21551296

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 - Aeromonas veronii (strain B565)

Publications

Complete genome sequence of Aeromonas veronii strain B565.

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