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User:Schia1

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My Annotations

StatusPageDate/TimeGO Term (Aspect)ReferenceEvidenceNotesLinks
acceptableSTRPY:B3VA602012-10-04 21:58:34 CDTGO:0045892 negative regulation of transcription, DNA-dependent (P)PMID:15175307ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 2. In the absence of covR, sagA and sda transcripts were upregulated 8.9 fold and 5.3 fold respectively.

challenge
updatedbyinstructorLISM4:A0A0H3GD842012-10-04 23:41:18 CDTGO:0009405 pathogenesis (P)PMID:10639481ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 3. shows that LLO-negative bacteria are trapped in the host's vacuoles, unable to complete cell-to-cell spread.

challenge
acceptableSTRPY:HASA2012-10-04 23:46:46 CDTGO:0090609 single-species submerged biofilm formation (P)PMID:16135223ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 5. shows that HasA mutants were unable to form biofilm.

challenge
acceptableCLOPE:Q8XKA02012-10-06 00:50:32 CDTGO:0010628 positive regulation of gene expression (P)PMID:8626316ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 5. shows the diminished expression of pfoA, pfoR, colA, and plc virulence genes in TS133 virR mutant strain.

challenge
acceptableCLOPS:Q0SS112012-10-06 14:38:06 CDTGO:0034301 endospore formation (P)PMID:15063491ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 3. shows that spo0A knock-out mutant is unable to form endospores.

challenge
acceptableSTRPY:Q711B02012-10-06 16:25:37 CDTGO:0009405 pathogenesis (P)PMID:9119474ECO:0000314 direct assay evidence used in manual assertion

Figure 6. shows electron microscopic analysis of SfbI coated

latex bead uptake by HEp-2 cells.

challenge
acceptableHELPX:Q6UK762012-10-17 20:40:46 CDTGO:0009405 pathogenesis (P)PMID:8039935ECO:0000315 mutant phenotype evidence used in manual assertion

Table 1. Shows that strain HPT73, transformed by plasmid pHPT54 that includes a disruption of ureB gene by kanamycin resistance determinant insertion, had significantly reduced ability to colonize nude mouse stomach.

challenge
acceptableECOLI:MREB2012-10-17 22:18:18 CDTGO:0051782 negative regulation of cell division (P)PMID:2656641ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 4A. shows filamentous cell growth in strains carrying additional copies of mreB gene, a result of inhibition of cell division.

Table 1. shows overproduction of cell division gene ftsI in mreB mutant cells.

challenge
acceptableCLOPE:I1SBA92012-10-18 09:24:02 CDTGO:0045893 positive regulation of transcription, DNA-dependent (P)PMID:8626316ECO:0000315 mutant phenotype evidence used in manual assertion

Table 2. shows that virS mutation in strain JIR4000 reduced transcription of genes plc, pfoA, and colA. Table 2. also shows that this reduced transcription could be rescued by plasmid-encoded virR and virS genes.

challenge
requireschangesECOLI:CARB2012-10-18 15:49:10 CDTGO:0042710 biofilm formation (P)PMID:22359582ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 1. Congo red binding tests show that carB deletion mutant is unable to produce curli, fibers that are important components of biofilm matrix.

challenge
requireschangesECOLI:PUR92012-10-19 07:41:00 CDTGO:0042710 biofilm formation (P)PMID:22359582ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 4A. shows lack of Congo red binding by strains deficient in purH deletion mutant.

Figure 4B. shows a significant reduction of csgDEFG transcript levels in purH mutant. csgDEFG are genes encoding proteins responsible for curli assembly and transport.

challenge
updatedbyinstructorLISMO:PRFA2012-11-16 19:59:25 CSTGO:0009405 pathogenesis (P)PMID:1729245ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 6. shows that prfA mutant strains EGD prfAI and SLCC 53 prfA were less virulent and exhibited reduced growth in host tissue.

challenge
acceptableENTFL:Q0MUV32012-11-16 20:45:06 CSTGO:0009405 pathogenesis (P)PMID:11401975ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 5. shows decreased CFU counts in the urine, bladder, and kidneys of mice challenged with Esp-deficient E.faecalis.

challenge
acceptableSTREE:Q2XU262012-11-16 21:39:43 CSTGO:0009405 pathogenesis (P)PMID:2731982ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 3. shows increased survival times for mice challenged with pneumolysin inactivated strains of S. pneumoniae.

challenge
acceptableECO27:EAE2012-11-16 23:36:27 CSTGO:0009405 pathogenesis (P)PMID:2172966ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 2. shows reduced lesions and presence of bacteria in sections treated with mutant strains.

challenge
acceptableECO57:EAE2012-11-17 09:27:09 CSTGO:0009405 pathogenesis (P)PMID:8376595ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 4. shows largely intact host cells with a normal microvillus border of piglet when treated with eae mutant strain UMD619. There is no observed intimate attachment of bacteria to epithelial cells and no visible effacing of microvilli.

challenge
requireschangesECO57:EAE2012-11-17 09:36:13 CSTGO:0009405 pathogenesis (P)PMID:7642319ECO:0000315 mutant phenotype evidence used in manual assertion

Table 1. shows that eaeA negative strains were nonadherent in vitro to HEp-2 cells and unable to cause A/E lesions.

challenge
acceptableECO27:EAE2012-11-17 09:45:31 CSTGO:0009405 pathogenesis (P)PMID:8376594ECO:0000315 mutant phenotype evidence used in manual assertion

Table 1. shows that lower frequency of developing diarrhea, vomiting, malaise, and anorexia for individuals who received eaeA deletion mutant in comparison to wild-type.

challenge
requireschangesECO57:EAE2012-11-17 10:44:00 CSTGO:0009405 pathogenesis (P)PMID:7642299ECO:0000315 mutant phenotype evidence used in manual assertion

Table 1. shows that pigs innoculated with UMD619 eaeA deletion strain had no observable A-E lesions in any of the animals.

challenge
updatedbyinstructorSTRMU:Q8DW042012-11-17 11:21:26 CSTGO:0090609 single-species submerged biofilm formation (P)PMID:12450853ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 2. shows significantly reduced biofilm formation of comB deletion mutant.

challenge
requireschangesSTRMG:I6T5X72012-11-17 11:34:26 CSTGO:0090609 single-species submerged biofilm formation (Figure 2. lytR deletion mutant showed significantly reduced biofilm formation.)PMID:12450853IMP: Inferred from Mutant Phenotype
challenge
updatedbyinstructorSTRMU:Q8DW052012-11-17 11:40:32 CSTGO:0090609 single-species submerged biofilm formation (P)PMID:12450853ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 3. shows decreased biofilm formation in comA deletion mutant in comparison to wild-type GS-5 strain.

challenge
updatedbyinstructorSTRMU:Q8DS942012-11-17 11:43:01 CSTGO:0090609 single-species submerged biofilm formation (P)PMID:12450853ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 3. shows reduced biofilm formation in comD deletion mutant.

challenge
acceptableECO44:D3H5392012-11-17 11:57:35 CSTGO:0090609 single-species submerged biofilm formation (P)PMID:11555281ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 4. shows that strain with TnphoA inserted into aafA gene was biofilm negative.

challenge
acceptableECO44:D3GYQ22012-11-17 11:59:32 CSTGO:0090609 single-species submerged biofilm formation (P)PMID:11555281ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 4. shows that fis mutant was biofilm negative.

challenge
acceptableSTAAU:SARA2012-11-17 15:38:28 CSTGO:0090609 single-species submerged biofilm formation (P)PMID:12819120ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 3. shows reduction in capacity to form biofilm in six of eight sarA mutant strains.

challenge
acceptableECOLI:CPXA2012-11-17 15:55:09 CSTGO:0043708 cell adhesion involved in biofilm formation (P)PMID:10483736ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 1. shows that cpxA negative mutants showed a polystyrene adherence defect.

challenge
acceptableLISMO:LUXS2012-11-17 20:47:32 CSTGO:1900232 negative regulation of single-species biofilm formation on inanimate substrate (P)PMID:16885324ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 5. shows that luxS mutant strain exhibited increased, thicker biofilm formation after three days.

challenge
acceptableBACSU:YABG2012-11-18 09:08:53 CSTGO:0043593 endospore coat (C)PMID:10714992ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 5. shows SDS-PAGE results that show a significant difference in the protein profile of yabG mutant spores and wild-type spores. This led researchers to infer that yabG is sporulation specific and involved in coat protein composition.

challenge
acceptableBACSU:SP0A2012-11-18 09:15:23 CSTGO:0032022 multicellular pellicle formation (P)PMID:11572999ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 4A. shows that mutants lacking Spo0A failed to form pellicles.

challenge

acceptable:20
unacceptable:0
requires_changes:5
flagged:0

Annotations challenged by Schia1

StatusAuthor,GroupPageGO Term (Aspect)ReferenceEvidenceLinksPage history
unacceptableCourtney.kast,
Team Team
HUMAN:KDM1AGO:0070076 - histone lysine demethylation (P)PMID:18440794ECO:0000315 mutant phenotype evidence used in manual assertionchallengeC: 3
acceptableKelsi.Carlson,
Team Shenanigans
HUMAN:ARBK1GO:0046718 - viral entry into host cell (P)PMID:23029581ECO:0000315 mutant phenotype evidence used in manual assertionchallengeC: 1
unacceptableMeghan.Flannery,
Team Shenanigans
HUMAN:DEDD2GO:0006915 - apoptotic process (P)PMID:11741985ECO:0000316 genetic interaction evidence used in manual assertionchallengeC: 2
unacceptableAlana.Cheplowitz,
Team Gene Hackman
STRCO:Q9Z584GO:0043581 - obsolete mycelium development (P)PMID:22753061ECO:0000315 mutant phenotype evidence used in manual assertionchallengeC: 1
correctedthroughchallengesI.bargsley,
Team Don't be anno-hating
IBDV:Q5MJR2GO:0006917 - induction of apoptosis (P)PMID:23056444ECO:0000314 direct assay evidence used in manual assertionchallengeC: 1
requireschangesMwhitton,
Team BTHO PubMed!
STRAW:MDHGO:0030060 - L-malate dehydrogenase activity (F)PMID:20845078ECO:0000314 direct assay evidence used in manual assertionchallengeC: 1
acceptableDanielle.ocallaghan,
Team DC2
BPT4:RLIGGO:0098004 - virus tail fiber assembly (P)PMID:333436ECO:0000315 mutant phenotype evidence used in manual assertionchallengeC: 1
unacceptableCurtis.baker4500,
Team Dihydrojasmone
STRCO:Q9X7U2GO:0043581 - obsolete mycelium development (P)PMID:19682261ECO:0000315 mutant phenotype evidence used in manual assertionchallengeC: 2

0 annotations fixed by Schia1