User:Grandhis

My Annotations

Status	Page	Date/Time	GO Term (Aspect)	Reference	Evidence	Notes	Links
requireschanges	PSEA8:B7V5F1	2012-04-12 13:45:58 CDT	GO:0043107 type IV pilus-dependent motility (Fig. 3: MUTANT PHENOTYPE: Mutations in algR result in either complete loss or severe retardation of twitching motility. Fig 4: ELISA ASSAY: AlgR mutant essentially lack surface fimbriae as shown by ELISA, which is a sensitive quantitative assay.)	PMID:8790418	IMP: Inferred from Mutant Phenotype		challenge
acceptable	PSEAI:P77568	2012-04-12 13:51:35 CDT	GO:0043107 type IV pilus-dependent motility (P)	PMID:8790418	ECO:0000315 mutant phenotype evidence used in manual assertion	Fig. 3: MUTANT PHENOTYPE: Mutations in fimS result in either complete loss or severe retardation of twitching motility. Fig 4: ELISA ASSAY: fimS mutant essentially lacks surface fimbriae as shown by ELISA, which is a sensitive quantitative assay.	challenge
requireschanges	PSEA8:B7V5F1	2012-04-14 14:55:03 CDT	GO:0006355 regulation of transcription, DNA-dependent (Table 1 & Fig. 2, lane 5 show reduced algD expression: 17-fold in the algR mutant FRD810. )	PMID:7928961	IMP: Inferred from Mutant Phenotype		challenge
acceptable	PSEAE:ALGC	2012-04-14 16:57:42 CDT	GO:0009243 O antigen biosynthetic process (P)	PMID:7515870	ECO:0000315 mutant phenotype evidence used in manual assertion	(Fig. 1A: The LPS from the algC mutants, PAO1 algC::tet and PAClR algC::tet did not produce the wildtype laddering pattern of smooth LPS. The laddering is because of O-antigen.) Fig 1B: CONFIRMATION THAT LADDERING IS DUE TO EXPRESSION OF O-ANTIGENIC LPS: Polyclonal rabbit antisera raised to purified P. aeruginosa serotype 05 or serotype 03 LPS did not react to LPS recovered from the algC::tet mutant strains, while strong reactions occurred to LPS from the parental and complemented strains.	challenge
requireschanges	PSEPA:Q60FX1	2012-04-15 16:21:25 CDT	GO:0018487 vanillate O-demethylase (anaerobic) activity (F)	PMID:15743951	ECO:0000315 mutant phenotype evidence used in manual assertion	Fig. 6A: The vanillate conversion rate of the cell extract of DKLM (ligM mutant) incubated with vanillate was strikingly reduced. ligM plays a major role in the O demethylation of vanillate.	challenge
requireschanges	PSEPA:Q7WST1	2012-04-15 17:03:06 CDT	GO:0018487 vanillate O-demethylase (anaerobic) activity (F)	PMID:15743951	ECO:0000315 mutant phenotype evidence used in manual assertion	Fig. 6A: While the vanillate conversion rate of the cell extract of DKLM incubated with vanillate was strikingly reduced, DDAM (ligM and desA double mutant) cells no longer showed any such activity. These results indicated that only ligM and desA are involved in vanillate O demethylation.	challenge
acceptable	AZOVI:ALGF	2012-04-15 17:41:12 CDT	GO:0051979 alginic acid acetylation (P)	PMID:10352233	ECO:0000315 mutant phenotype evidence used in manual assertion	Table 2: Strain AJ34 carrying the algF::ΩTc insertion in the non-polar orientation produced unacetylated alginate. Strain AJ21 carrying the algF::ΩTc mutation in the polar orientation did not produce alginate. Plasmid pRSA55 carrying the A. vinelandii algL-A region was transferred by conjugation to strain AJ34. This plasmid restored wild-type mucoid phenotype and alginate acetylation to AJ34 mutant.	challenge

acceptable:3
unacceptable:0
requires_changes:4
flagged:0

Annotations challenged by Grandhis

Status	Author,Group	Page	GO Term (Aspect)	Reference	Evidence	Links	Page history
requireschanges	Cavana55, Team KEGGerators	ECOLI:PROA	GO:0047443 - 4-hydroxy-4-methyl-2-oxoglutarate aldolase activity (F)	PMID:11826967	ECO:0000314 direct assay evidence used in manual assertion	challenge	C: 1

0 annotations fixed by Grandhis

My Annotations

Status	Page	Date/Time	GO Term (Aspect)	Reference	Evidence	Notes	Links
requireschanges	STAAE:ESXB	2012-03-29 11:48:43 CDT	GO:0009405 pathogenesis (P)	PMID:15657139	ECO:0000315 mutant phenotype evidence used in manual assertion	Fig 5 indicates that mutations in the secretion of EsxB cause a 2- to 4-log reduction in the ability of these mutant staphylococci to establish abscesses in infected mice--EsxA and EsxB represent an important virulence strategy in S. aureus.	challenge
updatedbyinstructor	CAEEL:RHY1	2012-03-29 12:35:52 CDT	GO:1900038 negative regulation of cellular response to hypoxia (P)	PMID:16980385	ECO:0000315 mutant phenotype evidence used in manual assertion	Fig 5: Confirms that rhy-1 inhibits the expression of HIF-1 target genes in a real-time RT-PCR assay monitoring the expression levels of two endogenous mRNAs, K10H10.2 and F22B5.4. Mutation of rhy-1 significantly increased the expression of both genes.	challenge

acceptable:0
unacceptable:0
requires_changes:1
flagged:0

Annotations challenged by Grandhis

Status	Author,Group	Page	GO Term (Aspect)	Reference	Evidence	Links	Page history
requireschanges	Cavana55, Team KEGGerators	ECOLI:PROA	GO:0047443 - 4-hydroxy-4-methyl-2-oxoglutarate aldolase activity (F)	PMID:11826967	ECO:0000314 direct assay evidence used in manual assertion	challenge	C: 1

0 annotations fixed by Grandhis