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User:Lrodgers

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My Annotations

StatusPageDate/TimeGO Term (Aspect)ReferenceEvidenceNotesLinks
acceptableSYNE7:SASA2011-09-23 15:57:58 CDTGO:0000155 two-component sensor activity (F)PMID:16882723ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 1, 2, 3. Table 1

SasA-RpaA acts as a 2-component regulatory system that uses a signal from phosphorylated kaiC.

challenge
acceptableSYNE7:KAIC2011-09-23 16:25:47 CDTGO:0070297 regulation of two-component signal transduction system (phosphorelay) (P)PMID:16882723ECO:0000314 direct assay evidence used in manual assertion

Figure 3a,b

challenge
acceptableCRYGA:B3FTL12011-09-25 08:28:20 CDTGO:0003825 alpha,alpha-trehalose-phosphate synthase (UDP-forming) activity (F)PMID:19651856ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 2, Table 3. Trehalose production is completely suppressed in tps1 mutants. Additionally the intermediate T6P is found in the wt but not in the tps1 mutants. Mutants of the second gene in the biosynthetic pathway tps2 have accumulated T6P levels indicating that the previous tps1 step is creating T6P.

challenge
acceptableCRYGA:B3FTL22011-10-08 16:40:35 CDTGO:0004805 trehalose-phosphatase activity (F)PMID:19651856ECO:0000314 direct assay evidence used in manual assertion

Figure 2, Table 3

challenge
updatedbyinstructorCRYNH:Q059G62011-10-08 16:43:43 CDTGO:0004805 trehalose-phosphatase activity (F)PMID:19651856ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 2, Table 3

challenge
requireschangesSYNE7:KAIC2011-10-09 09:40:37 CDTGO:0070297 regulation of two-component signal transduction system (phosphorelay) (P)PMID:21788479ECO:0000314 direct assay evidence used in manual assertion

SI Appendix Fig. S6

challenge
acceptableBACSU:CLPP2011-10-19 21:07:45 CDTGO:0004176 ATP-dependent peptidase activity (F)PMID:14763982ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 1a, 1b, 2, 3

challenge
acceptableCRYNJ:PACC2011-10-19 21:33:03 CDTGO:0006351 transcription, DNA-dependent (P)PMID:20174553ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 1A, 1B, Table 2.

challenge
acceptableCRYNJ:PACC2011-10-19 21:34:28 CDTGO:0005634 nucleus (C)PMID:20174553ECO:0000314 direct assay evidence used in manual assertion

Figure 3

challenge
acceptableCRYNE:Q9HFW02011-10-19 22:00:15 CDTGO:0042306 regulation of protein import into nucleus (P)PMID:20174553ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 3. Rim101 localization is dependent on PKA

challenge
acceptableCRYNJ:PALA2011-10-19 22:05:01 CDTGO:0042306 regulation of protein import into nucleus (P)PMID:20174553ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 3. Rim101 localization in the nucleus is dependent on Rim20

challenge
acceptableMAGGR:Q875L72011-10-30 21:27:20 CDTGO:0006111 regulation of gluconeogenesis (P)PMID:12514128ECO:0000315 mutant phenotype evidence used in manual assertion

Table 1 shows tps1 KO mutants are unable to grow on glucose, sucrose, fructose, maltose, or trehalose. Additionally this strain could not grow on acetate or fatty acids.

challenge
acceptableMAGGR:Q875L72011-10-30 21:36:19 CDTGO:0075039 establishment of turgor in appressorium (P)PMID:12514128ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 2c shows Appressorium turgor of tps1 KO mutants was significantly decreased compared to the WT.

challenge
acceptableCRYNV:Q197G02011-10-31 20:58:33 CDTGO:0045227 capsule polysaccharide biosynthetic process (P)PMID:16835458ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 3. nrg1 mutants show reduced capsule synthesis over WT

challenge
unacceptableECOLI:CRP2011-10-31 21:11:57 CDTGO:0009409 response to cold (P)PMID:21926233ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 6 shows crp mutants show reduced cell growth compared to the WT at 15C.

challenge
updatedbyinstructorARATH:GATP2011-11-02 18:15:38 CDTGO:0003867 4-aminobutyrate transaminase activity (F)PMID:12859897ECO:0000315 mutant phenotype evidence used in manual assertion

Table 1. In mutant pop2, GABA elevated 100-fold. GABA transaminases convert GABA to succinic semialdehyde and oxidized to succinic acid. In pop2 mutants the succinic acid levels are unchanged.

challenge
requireschangesECOBW:C4ZT832011-11-19 14:18:17 CSTGO:0006355 regulation of transcription, DNA-dependent (Figure 2. EMSA of arcA and arcA-P binding to aldA promoter. This figure shows arcA binds to the aldA promoter but Table 2 is needed to show that this binding regulates transcription.

Table 2. The arcA binding region of the aldA promoter was mutated. This mutation relieved the aldA promoter from arcA repression during anaerobic conditions.

)
PMID:10071223IDA: Inferred from Direct Assay
challenge

acceptable:12
unacceptable:1
requires_changes:2
flagged:0

Annotations challenged by Lrodgers

StatusAuthor,GroupPageGO Term (Aspect)ReferenceEvidenceLinksPage history
acceptableLrodgers,
Team KremlinOnTheCrum
CRYGA:B3FTL1GO:0003825 - alpha,alpha-trehalose-phosphate synthase (UDP-forming) activity (F)PMID:19651856ECO:0000315 mutant phenotype evidence used in manual assertionchallengeC: 2
acceptableBionzc,
Team Denitrifiers
CUPNE:Q44012GO:0050421 - nitrite reductase (NO-forming) activity (F)PMID:9023961ECO:0000315 mutant phenotype evidence used in manual assertionchallengeC: 2
acceptableEmlarkin03,
Team Angry Squirrels
MOUSE:ASIPGO:0048023 - positive regulation of melanin biosynthetic process (P)PMID:21949658ECO:0000316 genetic interaction evidence used in manual assertionchallengeC: 1
acceptableNrache1,
Team Polymerase Chain Re-awesome
9BACT:Q1Q0T3GO:0044222 - anammoxosome (C)PMID:19558586ECO:0000314 direct assay evidence used in manual assertionchallengeC: 2
unacceptableNrache1,
Team Polymerase Chain Re-awesome
9BACT:Q30JB5GO:0009055 - electron transfer activity (F)PMID:16216446ECO:0000247 sequence alignment evidence used in manual assertionchallengeC: 2
acceptableJolive15,
Team Denitrifiers
EMENI:NIRAGO:0003700 - DNA-binding transcription factor activity (F)PMID:1922075ECO:0000314 direct assay evidence used in manual assertionchallengeC: 1
updatedbyinstructorLrodgers,
Team KremlinOnTheCrum
ARATH:GATPGO:0003867 - 4-aminobutyrate transaminase activity (F)PMID:12859897ECO:0000315 mutant phenotype evidence used in manual assertionchallengeC: 2
acceptableLrodgers,
Team KremlinOnTheCrum
MAGGR:Q875L7GO:0006111 - regulation of gluconeogenesis (P)PMID:12514128ECO:0000315 mutant phenotype evidence used in manual assertionchallengeC: 2
acceptableAcalic1,
Team Step 1 Nitrification
AZOVI:NIFKGO:0009399 - nitrogen fixation (P)PMID:2644218ECO:0000315 mutant phenotype evidence used in manual assertionchallengeC: 1
acceptableLrodgers,
Team KremlinOnTheCrum
BACSU:CLPPGO:0004176 - ATP-dependent peptidase activity (F)PMID:14763982ECO:0000315 mutant phenotype evidence used in manual assertionchallengeC: 2

0 annotations fixed by Lrodgers