Log of Annotation Updates

2887 annotation updates returned 12345678910..29Next
Ordered by Locus Tag , ascending

Download options

Date Locus Tag Strain Description Submitter
Apr 30, 2018 ACI79_RS06660 Burkholderia gladioli NGJ1 New product name: T3SS-secreted prophage tail-like protein. New product name confidence: Class 1. New subcellular localization: Host Associated (Class 1). New subcellular localization evidence code (ECO): ECO:0000112. New subcellular localization PMID: 28864820. New PubMed ID: 28864820. New comment: Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS06430 Burkholderia dolosa AU0158 New gene name: bceU. New product name: acyltransferase BceU. New product name confidence: Class 2. New PubMed ID: 19948863. New comment: Since bceU is found in the genome sequences of all Bcc strains as well as in B. thailandensis, B. oklahomensis, and B. pseudomallei strains, the authors of PMID:19948863 considered it to belong as part of bce-II gene cluster.. New comment: Member of the bce-II gene cluster.Annotation transferred from: BGD:Bcep1808_4480. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS06435 Burkholderia dolosa AU0158 New gene name: bceT. New product name confidence: Class 2. New PubMed ID: 19948863. New comment: Member of the bce-II gene cluster.Annotation transferred from: BGD:Bcep1808_4479. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS06440 Burkholderia dolosa AU0158 New gene name: bceS. New product name: acyltransferase BceS. New product name confidence: Class 2. New PubMed ID: 19948863. New comment: Note that another gene (BCAM1494) for a two-component sensor kinase in B. cenocepacia J2315 was also assigned the name bceS at a later date (PMID:25519693).. New comment: Member of the bce-II gene cluster.Annotation transferred from: BGD:Bcep1808_4477. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS06445 Burkholderia dolosa AU0158 New gene name: bceR. New product name confidence: Class 2. New PubMed ID: 19948863. New comment: Disruption of the bceQ and bceR genes, in B. cepacia IST408 (PMID:19948863) resulted in the abolishment of cepacian biosynthesis. . New comment: Note that another gene (BCAM1493) for a two-component response regulator in B. cenocepacia J2315 was also assigned the name bceR at a later date (PMID:25519693).. New comment: Member of the bce-II gene cluster.Annotation transferred from: BGD:Bcep1808_4476. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS06450 Burkholderia dolosa AU0158 New gene name: bceQ. New product name confidence: Class 2. New PubMed ID: 19948863. New comment: Disruption of the bceQ and bceR genes, in B. cepacia IST408 (PMID:19948863) resulted in the abolishment of cepacian biosynthesis. New comment: Member of the bce-II gene cluster.Annotation transferred from: BGD:Bcep1808_4475. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS06455 Burkholderia dolosa AU0158 New gene name: bceP. New product name confidence: Class 2. New PubMed ID: 19948863. New comment: Member of the bce-II gene cluster.Annotation transferred from: BGD:Bcep1808_4474. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS06460 Burkholderia dolosa AU0158 New gene name: bceO. New product name: acyltransferase BceO. New product name confidence: Class 2. New PubMed ID: 19948863. New comment: Member of the bce-II gene cluster.Annotation transferred from: BGD:Bcep1808_4473. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS06465 Burkholderia dolosa AU0158 New gene name: bceN. New product name: GDP-D-mannose 4,6-dehydratase BceN. New product name confidence: Class 2. New PubMed ID: 23460819. New PubMed ID: 19948863. New comment: Member of the bce-II gene cluster.Annotation transferred from: BGD:BCAM1004. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS06470 Burkholderia dolosa AU0158 New gene name: bceM. New product name: GDP-6-deoxy-D-lyxo-4-hexulose reductase BceM. New PubMed ID: 19948863. New comment: Member of the bce-II gene cluster.Annotation transferred from: BGD:Bcep1808_4471. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS07100 Burkholderia dolosa AU0158 New gene name: bceK. New product name: BceK. New product name confidence: Class 2. New PubMed ID: 19948863. New PubMed ID: 22919582. New comment: Member of the bce-I gene cluster.Annotation transferred from: BGD:Bcep1808_4210. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS07105 Burkholderia dolosa AU0158 New gene name: bceJ. New product name: BceJ. New product name confidence: Class 2. New PubMed ID: 19948863. New PubMed ID: 22919582. New comment: Member of the bce-I gene cluster.Annotation transferred from: BGD:Bcep1808_4209. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS07110 Burkholderia dolosa AU0158 New gene name: bceI. New product name: BceI. New product name confidence: Class 2. New PubMed ID: 14637140. New PubMed ID: 19948863. New comment: Member of the bce-I gene cluster.Annotation transferred from: BGD:Bcep1808_4208. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS07110 Burkholderia dolosa AU0158 New PubMed ID: 14637140. New PubMed ID: 19948863. Annotation transferred from: BGD:Bcep1808_4208. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS07115 Burkholderia dolosa AU0158 New gene name: bceH. New product name: BceH. New product name confidence: Class 2. New PubMed ID: 19948863. New comment: Member of the bce-I gene cluster.Annotation transferred from: BGD:Bcep1808_4207. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS07120 Burkholderia dolosa AU0158 New gene name: bceG. New product name: BceG. New product name confidence: Class 2. New PubMed ID: 14637140. New PubMed ID: 19948863. New comment: Member of the bce-I gene cluster.Annotation transferred from: BGD:Bcep1808_4206. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS07125 Burkholderia dolosa AU0158 New gene name: bceF. New product name: tyrosine kinase BceF. New product name confidence: Class 2. New PubMed ID: 17114319. New PubMed ID: 23435894. New PubMed ID: 25486990. New PubMed ID: 26590274. New PubMed ID: 19948863. New comment: Member of the bce-I gene cluster.Annotation transferred from: BGD:Bcep1808_4205. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS07130 Burkholderia dolosa AU0158 New gene name: bceE. New product name: BceE. New product name confidence: Class 2. New PubMed ID: 19948863. New comment: Member of the bce-I gene cluster.Annotation transferred from: BGD:Bcep1808_4204. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS07135 Burkholderia dolosa AU0158 New gene name: bceD. New product name: phosphotyrosine phosphatase BceD. New product name confidence: Class 2. New PubMed ID: 17114319. New PubMed ID: 19948863. New PubMed ID: 26590274. New PubMed ID: 25486990. New comment: Member of the bce-I gene cluster.Annotation transferred from: BGD:Bcep1808_4203. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS07140 Burkholderia dolosa AU0158 New gene name: bceC. New product name: UDP-Glucose Dehydrogenase BceC. New product name confidence: Class 2. New PubMed ID: 19948863. New PubMed ID: 21602353. New PubMed ID: 20208157. New comment: Member of the bce-I gene cluster.Annotation transferred from: BGD:Bcep1808_4202. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS07145 Burkholderia dolosa AU0158 New gene name: bceB. New product name: undecaprenyl-phosphate glycosyl-1-phosphate transferase BceB. New product name synonym: priming glucosyltransferase BceB. New product name confidence: Class 2. New PubMed ID: 19948863. New PubMed ID: 15995219. New PubMed ID: 18667584. New comment: Member of the bce-I gene cluster.Annotation transferred from: BGD:Bcep1808_4201. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS07150 Burkholderia dolosa AU0158 New gene name: bceA. New product name: BceA. New product name confidence: Class 2. New PubMed ID: 19948863. New PubMed ID: 17184737. New PubMed ID: 18668237. New comment: Member of the bce-I gene cluster.Annotation transferred from: BGD:Bcep1808_4200. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS08380 Burkholderia dolosa AU0158 New gene name: rpfR. New product name: cis-2-dodecenoic acid receptor RpfR. New product name confidence: Class 2. New PubMed ID: 22949660. New PubMed ID: 28956352. New PubMed ID: 28463102. New PubMed ID: 23815566. New comment: .Annotation transferred from: BGD:BCAM0580. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS08900 Burkholderia dolosa AU0158 New gene name: fixK. New product name: FixK. New product name confidence: Class 2. New PubMed ID: 28046077. New comment: .Annotation transferred from: UniProtKB:P13295. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS09175 Burkholderia dolosa AU0158 New product name: putative (R)-specific oxepin-CoA hydratase. New product name synonym: PaaZ-ECH. New product name confidence: Class 2. New PubMed ID: 21296885. New comment: in E coli, paaZ encodes a bifunctional protein consisting of an N-terminal NADP-dependent aldehyde dehydrogenase domain and a C-terminal MaoC-like (R)-specific enoyl-CoA hydratase domain. In Burkholderia genomes, a gene incorrectly annotated as paaZ (e.g WQ49_RS11500) encodes only one of the two domains found in E.coli paaZ (the domain with semialdehyde dehydrogenase activity) and so is renamed PacL (PMID:21296885) but was also referred to as PaaZ-ALDH in the manuscript. In the same study , a separate A. aromaticum, protein (UniProtKB:Q5P232) with the (R)-hydratase activity was annotated as Ech-Aa and the Burkholderia ortholog was annotated as PaaZ-ECH. . Annotation transferred from: UniProtKB:Q5P232. Geoff Winsor, Simon Fraser University. Transferred annotation from the B. cenocepacia annotation provided by D. Lavellee and S. Cardona.
Apr 30, 2018 AK34_RS13280 Burkholderia dolosa AU0158 New gene name: rqpR. New product name: two-component regulatory system, response regulator RqpR. New product name confidence: Class 2. New PubMed ID: 29363827. New comment: .Annotation transferred from: BGD:I35_RS15645. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS13285 Burkholderia dolosa AU0158 New gene name: rqpS. New product name: two-component regulatory system, sensor histidine kinase RqpS. New product name confidence: Class 2. New PubMed ID: 29363827. New comment: .Annotation transferred from: BGD:I35_RS15640. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS17810 Burkholderia dolosa AU0158 New gene name: fixJ. New product name: FixJ. New product name synonym: two-component response regulator FixJ. New product name confidence: Class 1. New PubMed ID: 28046077. New comment: .Annotation transferred from: UniProtKB:P10958. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS17815 Burkholderia dolosa AU0158 New gene name: fixL. New product name: FixL. New product name synonym: two-component sensor protein FixL. New product name confidence: Class 1. New PubMed ID: 28046077. New PubMed ID: 24316980. New comment: .Annotation transferred from: UniProtKB:P10955. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 AK34_RS25965 Burkholderia dolosa AU0158 New gene name: pacL. New product name: PacL. New product name synonym: putative 3-oxo-5,6-dehydrosuberyl-CoA semialdehyde dehydrogenase. New product name confidence: Class 2. New PubMed ID: 21296885. New PubMed ID: 18776009. New comment: in E coli, paaZ encodes a bifunctional protein consisting of an N-terminal NADP-dependent aldehyde dehydrogenase domain and a C-terminal MaoC-like (R)-specific enoyl-CoA hydratase domain. In Burkholderia genomes, a gene incorrectly annotated as paaZ (e.g WQ49_RS11500) encodes only one of the two domains found in E.coli paaZ (the domain with semialdehyde dehydrogenase activity) and so is renamed PacL (PMID:21296885) but was also referred to as PaaZ-ALDH in the manuscript. In the same study , a separate A. aromaticum, protein (UniProtKB:Q5P232) with the (R)-hydratase activity was annotated as Ech-Aa and the Burkholderia ortholog was annotated as PaaZ-ECH.. Annotation transferred from: UniProtKB:Q5P3J4. Geoff Winsor, Simon Fraser University. Transferred annotation from the B. cenocepacia annotation provided by D. Lavellee and S. Cardona.
Sep 15, 2008 Bamb_0008 New gene name: ecfB. New product name: sigma factor 70 EcfB. New product name confidence: Class 1. New homology: 86% identity to ecfB[B. cenocepacia J2315]. New evidence reference (PMID): 17784948. Literature review. Based on article by Cournoyer, B. Universite Lyon, France.
Sep 15, 2008 Bamb_0012 New gene name: ecfM. New product name: sigma factor 70 EcfM. New product name confidence: Class 1. New homology: 84% identity to ecfM [B. cenocepacia J2315]. New evidence reference (PMID): 17784948. Literature review. Based on article by Cournoyer, B. Universite Lyon, France.
Sep 15, 2008 Bamb_0185 New gene name: sigK. New product name: sigma factor 70 SigK. New product name confidence: Class 1. New homology: 96% identity ot SigK[B. cenocepacia J2315]. New evidence reference (PMID): 17784948. Literature review. Based on article by Cournoyer, B. Universite Lyon, France.
Sep 15, 2008 Bamb_0240 New gene name: hppD. New product name: 4-hydroxyphenylpyruvic acid dioxygenase HppD. New product name confidence: Class 1. New homology: 96% identity to HppD [B. cenocepacia J2315]. New evidence reference (PMID): 17933889. Literature review. Based on article by Valvano, M. A. University of Western Ontario, London, Ontario.
Sep 15, 2008 Bamb_0544 New gene name: fur. New product name: ferric uptake regulator Fur. New product name confidence: Class 2. New homology: 99% identity to Fur[B. cenocepacia J2315]. New evidence reference (PMID): 18057135. Literature review. Based on article by Dennis, J. J. Department of Biological Sciences, University of Alberta, Edmonton, Alberta..
Sep 15, 2008 Bamb_0694 New gene name: caiA. New product name confidence: Class 2. New homology: 94% identity to CaiA[B. cenocepacia J2315][accession number CAR53514.1]. New evidence reference (PMID): 17187664. Literature review. Based on article by Sokol, P. A. University of Calgary Health Sciences Centre, Calgary, Alberta.
Sep 15, 2008 Bamb_0765 New gene name: wbiI. New homology: 94% identity to wbiI[accession number AY523838]. New evidence reference (PMID): 15364998. Literature review. Based on article by Cournoyer, B. Universite Lyon, France.
Aug 25, 2008 Bamb_0841 New gene name: alkB. New product name: alkane hydroxylase AlkB. New product name confidence: Class 2. New homology: 86% identity to AlkB [B. cepacia RR10]. New evidence reference (PMID): 11418560. Literature Review. Rojom, Fernando. Centro Nacional de Biotecnologia, Madrid, Spain
Sep 15, 2008 Bamb_1003 New gene name: ecfA1. New product name: sigma factor 70 EcfA1. New product name confidence: Class 1. New homology: 89% identity to EcfA1[B. cenocepacia J2315]. New evidence reference (PMID): 17784948. Literature review. Based on article by Cournoyer, B. Universite Lyon, France.
Sep 15, 2008 Bamb_1501 New gene name: ssuR. New product name: transcription factor SsuR. New product name confidence: Class 1. New homology: 98% identity to SsuR [B. cenocepacia J2315]. New evidence reference (PMID): 16997956. Literature review. Based on article by Hryniewicz, M. M. Polish academy of Sciences, Warsaw, Poland.
Aug 1, 2008 Bamb_1529 New alternate gene name: orbS. New alternate product name: putative RNA polymerase sigma factor, OrbS. New homology: 96% identity to OrbS[B. cenocepacia J2315]. New evidence reference (PMID): 17295049. New evidence reference (PMID): 16672617. Literature review. Thomas, M. S. University of Sheffield, Sheffield, UK
Sep 15, 2008 Bamb_1529 New gene name: ecfI. New product name: sigma factor 70 EcfI. New product name confidence: Class 2. New homology: 89% identity to ecfI[B. cenocepacia J2315]. New evidence reference (PMID): 17784948. Literature review. Raymond C. Lo, Simon Fraser University
Aug 1, 2008 Bamb_1530 New product name confidence: Class 3. New alternate product name: OrbH. New homology: 96% identity to OrbH[B. cenocepacia J2315]. New evidence reference (PMID): 17295049. Literature review. Thomas, M. S. University of Sheffield, Sheffield, UK
Aug 1, 2008 Bamb_1531 New gene name: orbG. New product name: putative dioxygenase, OrbG. New product name confidence: Class 3. New homology: 95% identity to putative dioxygenase, OrbG[B. cenocepacia J2315]. New evidence reference (PMID): 17295049. New evidence reference (PMID): 16672617. Literature review. Thomas, M. S. University of Sheffield, Sheffield, UK
Aug 1, 2008 Bamb_1532 New product name: putative iron transport-related ATP-binding protein, OrbC. New product name confidence: Class 3. New homology: 92% identity to putative iron transport-related ATP-binding protein, OrbC [B. cenocepacia J2315]. New evidence reference (PMID): 17295049. Literature review. Thomas, M. S. University of Sheffield, Sheffield, UK
Aug 1, 2008 Bamb_1533 New product name: putative iron transport-related membrane protein, OrbD. New product name confidence: Class 3. New homology: 93% identity to putative iron transport-related membrane protein, OrbD[B. cenocepacia J2315]. New evidence reference (PMID): 17295049. Literature review. Thomas, M. S. University of Sheffield, Sheffield, UK
Aug 1, 2008 Bamb_1535 New product name: putative iron transport-related exported protein, OrbB. New product name confidence: Class 3. New homology: 94% identity to putative iron transport-related exported protein, OrbB [B. cenocepacia J2315]. New evidence reference (PMID): 17295049. Literature review. Thomas, M. S. University of Sheffield, Sheffield, UK
Aug 1, 2008 Bamb_1536 New product name: ornibactin biosynthesis ABC transport protein, OrbE. New product name confidence: Class 3. New homology: 95% identity to ornibactin biosynthesis ABC transport protein, OrbE[B. cenocepacia J2315]. New evidence reference (PMID): 17295049. Literature review. Thomas, M. S. University of Sheffield, Sheffield, UK
Aug 1, 2008 Bamb_1537 New product name: ornibactin biosynthesis non-ribosomal peptide, OrbI. New product name confidence: Class 3. New homology: 91% identity to ornibactin biosynthesis non-ribosomal peptide, OrbI[B. cenocepacia J2315]. New evidence reference (PMID): 17295049. New evidence reference (PMID): 16672617. Literature review. Thomas, M. S. University of Sheffield, Sheffield, UK
Aug 1, 2008 Bamb_1538 New product name: ornibactin biosynthesis non-ribosomal peptide, OrbJ. New product name confidence: Class 3. New homology: 91% identity to ornibactin biosynthesis non-ribosomal peptid, OrbJ[B. cenocepacia J2315]. New evidence reference (PMID): 17295049. New evidence reference (PMID): 16672617. Literature review. Thomas, M. S. University of Sheffield, Sheffield, UK
Aug 1, 2008 Bamb_1539 New product name: ornibactin biosynthesis protein, OrbK. New product name confidence: Class 3. New homology: 86% identity to ornibactin biosynthesis protein, OrbK[B. cenocepacia J2315]. New evidence reference (PMID): 17295049. Literature review. Thomas, M. S. University of Sheffield, Sheffield, UK
Aug 1, 2008 Bamb_1540 New product name: L-ornithine N5-oxygenase. New product name confidence: Class 2. New homology: 51% identity to L-ornithine N5-oxygenase, PvdA[P. aeruginosa PAO1]. New evidence reference (PMID): 17295049. Literature review. Thomas, M. S. University of Sheffield, Sheffield, UK
Aug 1, 2008 Bamb_1541 New gene name: orbA. New product name: ornibactin receptor precursor, OrbA. New product name confidence: Class 1. New subcellular localization confidence: Class 1. New evidence reference (PMID): 17295049. New evidence reference (PMID): 11083764. Literature review. Thomas, M. S. University of Sheffield, Sheffield, UK
Aug 1, 2008 Bamb_1542 New gene name: pvdF. New product name: pyoverdine synthetase F. New product name confidence: Class 2. New homology: 94.6% identity to PvdF[B. cenocepacia J2315]. New evidence reference (PMID): 17295049. Literature review. Thomas, M. S. University of Sheffield, Sheffield, UK
Sep 15, 2008 Bamb_1758 New homology: 84% idenitty to SigL[B. cenocepacia J2315]. New evidence reference (PMID): 17784948. Literature review. Based on article by Cournoyer, B. Universite Lyon, France.
Sep 15, 2008 Bamb_2304 New gene name: ecfD. New product name: sigma factor 70 EcfD. New product name confidence: Class 1. New homology: 97% identity to ecfD[B. cenocepacia J2315]. New evidence reference (PMID): 1774948. Literature review. Based on article by Cournoyer, B. Universite Lyon, France.
Sep 15, 2008 Bamb_2525 New gene name: cysB. New product name: transcription factor CysB. New product name confidence: Class 1. New homology: 99% identity to CysB [ B. cepacia IST408]. New evidence reference (PMID): 16997956. Literature review. Based on article by Hryniewicz, M. M. Polish academy of Sciences, Warsaw, Poland.
Sep 15, 2008 Bamb_2576 New gene name: fusA. New product name confidence: Class 2. New homology: 96% identity to FusA[ B. cenocepacia J2315][accession number CAR53040]. New evidence reference (PMID): 17187664. Literature review. Based on article by Sokol, P. A. University of Calgary Health Sciences Centre, Calgary, Alberta.
Sep 15, 2008 Bamb_2660 New gene name: coxG. New product name confidence: Class 2. New homology: 76% identity to CoxG[B. cenocepacia J2315]. New evidence reference (PMID): 17220310. Literature review. Based on article by Valvano, M. A. University of Western Ontario, Ontario.
Sep 15, 2008 Bamb_2663 New gene name: htrA. New product name: HtrA protease. New product name confidence: Class 2. New subcellular localization confidence: Class 2. New homology: 89% identity to HtrA [B. cenocepacia J2315]. New evidence reference (PMID): 17220310. Literature review. Based on article by Valvano, M. A. University of Western Ontario, Ontario.
Aug 25, 2008 Bamb_2702 New gene name: deh4p. New product name: putative haloacid permease, Deh4p . New product name confidence: Class 2. New homology: 79% identity to putative haloacid permease, Deh4p [B. cepacia MBA4]. New evidence reference (PMID): 17545323. Literature Review. Tsang, Jimmy S. H. The University of Hong Kong
Sep 15, 2008 Bamb_2851 New gene name: rpoN. New product name confidence: Class 1. New homology: 89% identity to RpoN [B. cenocepacia J2315]. New evidence reference (PMID): 18195023. Literature review. Based on article by Valvano, M. A. University of Western Ontario, London, Ontario.
Sep 15, 2008 Bamb_2875 New gene name: sigM. New product name: sigma factor 70 SigM. New homology: 92% identity to SigM[B. cenocepacia J2315]. New evidence reference (PMID): 17784948. Literature review. Based on article by Cournoyer, B. Universite Lyon, France.
Sep 15, 2008 Bamb_3257 New gene name: sigE. New product name: sigma factor 70 SigE . New product name confidence: Class 1. New homology: 85% idenity to sigE[B. cenocepacia J2315]. New evidence reference (PMID): 17784948. Literature review. Based on article by Cournoyer, B. Universite Lyon, France.
Sep 15, 2008 Bamb_3543 New gene name: sigJ. New product name: sigma factor 70 SigJ. New product name confidence: Class 1. New homology: 76% idenity to sigJ[B. cenocepacia J2315]. New evidence reference (PMID): 17784948. Literature review. Based on article by Cournoyer, B. Universite Lyon, France.
Sep 15, 2008 Bamb_3917 New gene name: ecfH. New product name: sigma factor 70 EcfH. New product name confidence: Class 1. New homology: 75% identity to ecfH[B. cenocepacia J2315]. New evidence reference (PMID): 17784948. Literature review. Based on article by Cournoyer, B. Universite Lyon, France.
Sep 15, 2008 Bamb_4115 New gene name: mgtC. New homology: 91% identity to MgtC [B. cenocepacia J2315]. New evidence reference (PMID): 16988222. Literature review. Based on article by Valvano, M. A. University of Western Ontario, London, Ontario.
Sep 15, 2008 Bamb_4116 New gene name: cepR. New product name: transcriptional regulator CepR. New product name confidence: Class 1. New homology: 94% identity to CepR[B. cepacia K56-2]. New evidence reference (PMID): 11402012. Literature review. Based on article by Sokol, P. A. University of Calgary Health Sciences Center, Calgary, Alberta.
Sep 15, 2008 Bamb_4118 New gene name: cepI. New product name: autoinducer synthase CepI. New product name confidence: Class 1. New homology: 96% identity to CepI[B. cepacia K56-2] [accession number AF019654]. New evidence reference (PMID): 11402012. Literature review. Raymond C. Lo, Simon Fraser University
Sep 15, 2008 Bamb_4118 New homology: 94% identity to CepI[B. vietnamiensis G4]. New evidence reference (PMID): 17277056. Literature review. Sokol, P. A. University of Calgary Health Sciences Centre, Calgary, Alberta
Sep 15, 2008 Bamb_4475 New gene name: zmpB. New product name: zinc metalloprotease ZmpB. New product name confidence: Class 1. New subcellular localization: Extracellular. New subcellular localization confidence: Class 1. New homology: 77% identity to ZmpB[B. cenocepacia J2315]. New evidence reference (PMID): 16790782. Literature review. Based on article by Sokol, P. A. University of Calgary, Calgary, Alberta.
Aug 25, 2008 Bamb_4726 New gene name: prnA. New product name: tryptophan halogenase, PrnA. New product name confidence: Class 2. New homology: 90% identity to tryptophan halogenase, PrnA [B. cepacia LT-4-12W]. New evidence reference (PMID): 17905875. Literature Review. Raaijmakers, Jos M. Wageningen University, Wageningen, The Netherlands
Aug 25, 2008 Bamb_4727 New gene name: prnB. New product name confidence: Class 2. New homology: 85% identity to PrnB [B. cepacia LT-4-12W]. New evidence reference (PMID): 17905875. Literature Review. Raaijmakers, Jos M. Wageningen University, Wageningen, The Netherlands
Aug 25, 2008 Bamb_4728 New gene name: prnC. New product name: PrnC. New product name confidence: Class 2. New homology: 93% identity to PrnC [B. cepacia LT-4-12W]. New evidence reference (PMID): 17905875. Literature Review. Raaijmakers, Jos M. Wageningen University, Wageningen, The Netherlands
Aug 25, 2008 Bamb_4729 New gene name: prnD. New product name: PrnD. New product name confidence: Class 2. New homology: 89% identity to PrnD [B. cepacia LT-4-12W]. New evidence reference (PMID): 17905875. Literature Review. Raaijmakers, Jos M. Wageningen University, Wageningen, The Netherlands
Sep 15, 2008 Bamb_4966 New gene name: parB. New product name: chromosome partitioning protein ParB. New product name confidence: Class 1. New homology: 92% identity to parB[B. Cenocepacia AU 1054]. New evidence reference (PMID): 18328098. New evidence reference (PMID): 16452432. Literature review. Based on article by Mahenthiralingam, E. Warwick University, Coventry, UK; Lane, D. Centre National de Recherche Scientifique, France.
Sep 15, 2008 Bamb_4967 New gene name: repA. New product name: replication protein RepA. New product name confidence: Class 1. New homology: 97% identity to repA[B. cenocepacia AU 1054]. New evidence reference (PMID): 18328098. Literature review. Based on article by Mahenthiralingam, E. Warwick University, Coventry, UK.
Sep 15, 2008 Bamb_5145 New gene name: atsR. New product name: adherence and T6 secretion system regulator AtsR. New product name confidence: Class 1. New homology: 77% identity to AtsR [B. cenocepacia J2315]. New evidence reference (PMID): 18316384. Literature review. Based on article by Schell, M. A. University of Georgia, Athens, Georgia.
Aug 25, 2008 Bamb_5345 New gene name: tftC. New product name confidence: Class 2. New alternate product name: TftC. New homology: 42% identity to TftC [B. cepacia AC1100]. New evidence reference (PMID): 12700257. Literature Review. Xun, L. Washington State University, Pullman, Washington
Sep 15, 2008 Bamb_5540 New gene name: ecfL. New product name: sigma factor 70 EcfL. New product name confidence: Class 1. New homology: 76% identity to ecfL[B. cenocepacia J2315]. New evidence reference (PMID): 17784948. Literature review. Based on article by Cournoyer, B. Universite Lyon, France.
Sep 15, 2008 Bamb_5548 New gene name: bceD. New product name: phosphotyrosine phosphatase BceD. New product name confidence: Class 1. New homology: 88% identity to BceD[ B. cepacia IST408]. New evidence reference (PMID): 17114319. Literature review. Based on article by Moreira, L. M. Instituto Superior Tecnico, Av. Rovisco Pais, Portugal.
Sep 15, 2008 Bamb_5550 New gene name: bceF. New product name: tyrosine autokinase BceF. New product name confidence: Class 1. New homology: 89% identity to BceF[B. cepacia IST408]. New evidence reference (PMID): 17114319. Literature review. Based on article by Moreira, L. M. Instituto Superior Tecnico, Av. Rovisco Pais, Portugal.
Sep 15, 2008 Bamb_6150 New gene name: afcA. New product name: putative amino acid activating protein. New product name confidence: Class 1. New homology: 86% identity to AfcA [B.cepacia BC11]. New evidence reference (PMID): 9758823. Literature review. Based on article by Schell, M. A. University of Georgia, Athens, Georgia.
Sep 15, 2008 Bamb_6159 New homology: 50% idenity to sigI[B. cenocepacia J2315]. New evidence reference (PMID): 17784948. Literature review. Based on article by Cournoyer, B. Universite Lyon, France.
Apr 30, 2018 BAMB_RS03910 Burkholderia ambifaria AMMD New gene name: kdoO. New product name: Kdo 3-hydroxylase KdoO. New product name confidence: Class 1. New PubMed ID: 21178073. New PubMed ID: 25204504. New comment: Responsible for Ko formation with Kdo2-lipid A as a substrate Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 BAMB_RS15650 Burkholderia ambifaria AMMD New gene name: rqpS. New product name: two-component regulatory system, sensor histidine kinase RqpS. New product name confidence: Class 2. New PubMed ID: 29363827. New comment: .Annotation transferred from: BGD:I35_RS15640. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 BAMB_RS15655 Burkholderia ambifaria AMMD New gene name: rqpR. New product name: two-component regulatory system, response regulator RqpR. New product name confidence: Class 2. New PubMed ID: 29363827. New comment: .Annotation transferred from: BGD:I35_RS15645. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 BAMB_RS16930 Burkholderia ambifaria AMMD New gene name: bceM. New product name: GDP-6-deoxy-D-lyxo-4-hexulose reductase BceM. New PubMed ID: 19948863. New comment: Member of the bce-II gene cluster.Annotation transferred from: BGD:Bcep1808_4471. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 BAMB_RS16935 Burkholderia ambifaria AMMD New gene name: bceN. New product name: GDP-D-mannose 4,6-dehydratase BceN. New product name confidence: Class 2. New PubMed ID: 23460819. New PubMed ID: 19948863. New comment: Member of the bce-II gene cluster.Annotation transferred from: BGD:BCAM1004. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 BAMB_RS16940 Burkholderia ambifaria AMMD New gene name: bceO. New product name: acyltransferase BceO. New product name confidence: Class 2. New PubMed ID: 19948863. New comment: Member of the bce-II gene cluster.Annotation transferred from: BGD:Bcep1808_4473. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 BAMB_RS16945 Burkholderia ambifaria AMMD New gene name: bceP. New product name confidence: Class 2. New PubMed ID: 19948863. New comment: Member of the bce-II gene cluster.Annotation transferred from: BGD:Bcep1808_4474. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 BAMB_RS16950 Burkholderia ambifaria AMMD New gene name: bceQ. New product name confidence: Class 2. New PubMed ID: 19948863. New comment: Disruption of the bceQ and bceR genes, in B. cepacia IST408 (PMID:19948863) resulted in the abolishment of cepacian biosynthesis. New comment: Member of the bce-II gene cluster.Annotation transferred from: BGD:Bcep1808_4475. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 BAMB_RS16960 Burkholderia ambifaria AMMD New gene name: bceR. New product name confidence: Class 2. New PubMed ID: 19948863. New comment: Disruption of the bceQ and bceR genes, in B. cepacia IST408 (PMID:19948863) resulted in the abolishment of cepacian biosynthesis. . New comment: Note that another gene (BCAM1493) for a two-component response regulator in B. cenocepacia J2315 was also assigned the name bceR at a later date (PMID:25519693).. New comment: Member of the bce-II gene cluster.Annotation transferred from: BGD:Bcep1808_4476. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 BAMB_RS16965 Burkholderia ambifaria AMMD New gene name: bceS. New product name: acyltransferase BceS. New product name confidence: Class 2. New PubMed ID: 19948863. New comment: Note that another gene (BCAM1494) for a two-component sensor kinase in B. cenocepacia J2315 was also assigned the name bceS at a later date (PMID:25519693).. New comment: Member of the bce-II gene cluster.Annotation transferred from: BGD:Bcep1808_4477. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 BAMB_RS16975 Burkholderia ambifaria AMMD New gene name: bceT. New product name confidence: Class 2. New PubMed ID: 19948863. New comment: Member of the bce-II gene cluster.Annotation transferred from: BGD:Bcep1808_4479. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 BAMB_RS16980 Burkholderia ambifaria AMMD New gene name: bceU. New product name: acyltransferase BceU. New product name confidence: Class 2. New PubMed ID: 19948863. New comment: Since bceU is found in the genome sequences of all Bcc strains as well as in B. thailandensis, B. oklahomensis, and B. pseudomallei strains, the authors of PMID:19948863 considered it to belong as part of bce-II gene cluster.. New comment: Member of the bce-II gene cluster.Annotation transferred from: BGD:Bcep1808_4480. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 BAMB_RS26405 Burkholderia ambifaria AMMD New gene name: rpfR. New product name: cis-2-dodecenoic acid receptor RpfR. New product name confidence: Class 2. New PubMed ID: 22949660. New PubMed ID: 28956352. New PubMed ID: 28463102. New PubMed ID: 23815566. New comment: .Annotation transferred from: BGD:BCAM0580. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 BAMB_RS27645 Burkholderia ambifaria AMMD New gene name: bceA. New product name: BceA. New product name confidence: Class 2. New PubMed ID: 19948863. New PubMed ID: 17184737. New PubMed ID: 18668237. New comment: Member of the bce-I gene cluster.Annotation transferred from: BGD:Bcep1808_4200. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 BAMB_RS27650 Burkholderia ambifaria AMMD New gene name: bceB. New product name: undecaprenyl-phosphate glycosyl-1-phosphate transferase BceB. New PubMed ID: 19948863. New PubMed ID: 15995219. New PubMed ID: 18667584. New comment: Member of the bce-I gene cluster Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
Apr 30, 2018 BAMB_RS27655 Burkholderia ambifaria AMMD New gene name: bceC. New product name: UDP-Glucose Dehydrogenase BceC. New product name confidence: Class 2. New PubMed ID: 19948863. New PubMed ID: 21602353. New PubMed ID: 20208157. New comment: Member of the bce-I gene cluster.Annotation transferred from: BGD:Bcep1808_4202. Literature review. Geoff Winsor, Brinkman Lab, Simon Fraser University, Canada
2887 annotation updates returned 12345678910..29Next