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Category:Team Niraali

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StatusPageUserDate/TimeGO Term (Aspect)ReferenceEvidenceNotesLinks
unacceptableNOSS1:NRTAPancholi, Team Niraali2013-11-10 17:16:03 CSTGO:0015093 ferrous iron transmembrane transporter activity (F)PMID:20647000ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 5: Figure 5: From the growth behavior of wild-type Anabaena sp. it can be suggested that uptake of iron provided as FeACi or FeCl3 is distinct. Further, the comparison of the growth behavior of the mutants and Anabaena sp. shows that manipulation of iacT alters the metal sensitivity.

challenge
unacceptableNOSS1:NRTAPancholi, Team Niraali2013-11-10 17:14:37 CSTGO:0015706 nitrate transport (P)PMID:20647000ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 5: Figure 5: From the growth behavior of wild-type Anabaena sp. it can be suggested that uptake of iron provided as FeACi or FeCl3 is distinct. Further, the comparison of the growth behavior of the mutants and Anabaena sp. shows that manipulation of iacT alters the metal sensitivity

challenge
unacceptableNOSS1:NRTAPancholi, Team Niraali2013-11-10 17:10:03 CSTGO:0043158 heterocyst differentiation (P)PMID:20647000ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 5: From the growth behavior of wild-type Anabaena sp. it can be suggested that uptake of iron provided as FeACi or FeCl3 is distinct. Further, the comparison of the growth behavior of the mutants and Anabaena sp. shows that manipulation of iacT alters the metal sensitivity

challenge
requireschangesSHEON:Q8EG33Semanchik, Team Niraali2013-11-10 16:39:56 CSTGO:0022904 respiratory electron transport chain (P)PMID:22360295ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 1C: the surface density of cells of the (-)omcA mutant attributable to hematite-specific cell accumulation (A) decreased to 45% of Amax

challenge
requireschangesAZOBR:GLNBMwwood2, Team Niraali2013-11-10 16:23:11 CSTGO:0006808 regulation of nitrogen utilization (P)PMID:23144248ECO:0000314 direct assay evidence used in manual assertion

Figure 1. Preincubation of the Fe protein with DraT in the presence of increasing concentrations of GlnB resulted in Fe protein inhibition in a GlnB-dependent manner

challenge
acceptableACEWO:C4N8U2Semanchik, Team Niraali2013-11-10 16:17:54 CSTGO:0005886 plasma membrane (C)PMID:19222539ECO:0000314 direct assay evidence used in manual assertion

Figure 3. Western blot with antisera against RnfG yielded identical band patterns for cellular extract and membrane

challenge
acceptableACEWO:C4N8U0Semanchik, Team Niraali2013-11-10 16:10:56 CSTGO:0005886 plasma membrane (C)PMID:19222539ECO:0000314 direct assay evidence used in manual assertion

Figure 3. Western blot with antisera against RnfC; samples from cell extract and membranes match

challenge
updatedbyinstructorSTRMU:Q8DS13Nlad, Team Niraali2013-11-10 15:54:40 CSTGO:0045892 negative regulation of transcription, DNA-dependent (P)PMID:12399506ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 5: Comparing CtsR-deficient and wild-type strains of S. mutans, Northern Blot analysis showed that groEL, clpE, and clpP mRNAs were present in greater amounts in the mutant strain.

challenge
unacceptableSTRMU:CH60Nlad, Team Niraali2013-11-10 15:52:30 CSTGO:0032269 negative regulation of cellular protein metabolic process (P)PMID:12399506ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 5: Comparing CtsR-deficient and wild-type strains of S. mutans, Northern Blot analysis showed that groEL, clpE, and clpP mRNAs were present in greater amounts in the mutant strain.

challenge
updatedbyinstructorSTRMU:Q8DVD0Nlad, Team Niraali2013-11-10 15:50:04 CSTGO:0045892 negative regulation of transcription, DNA-dependent (P)PMID:12399506ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 5: Comparing CtsR-deficient and wild-type strains of S. mutans, Northern Blot analysis showed that groEL, clpE, and clpP mRNAs were present in greater amounts in the mutant strain.

challenge
updatedbyinstructorSTRMU:CLPPNlad, Team Niraali2013-11-10 15:48:17 CSTGO:0045892 negative regulation of transcription, DNA-dependent (P)PMID:12399506ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 5: Comparing CtsR-deficient and wild-type strains of S. mutans, Northern Blot analysis showed that groEL, clpE, and clpP mRNAs were present in greater amounts in the mutant strain.

challenge
acceptableMYCS2:PATMwwood2, Team Niraali2013-11-10 15:07:15 CSTGO:0008080 N-acetyltransferase activity (F)PMID:21627103ECO:0000314 direct assay evidence used in manual assertion

Figure 6 shows that this particular GMAT protein acts as a protein acetyltransferase and specifically acetylates the ε-amino group of a highly conserved lysine residue in acetyl-CoA synthetase . This acetylation results in the inactivation of ACS activity. Lysine acetylation by MsPat is dependent on 3',5'-cyclic adenosine monophosphate (cAMP), an important second messenger, indicating that MsPat is a downstream target of the intracellular cAMP signaling pathway

challenge
acceptableMYCTU:GLNDSemanchik, Team Niraali2013-11-06 16:50:24 CSTGO:0070566 adenylyltransferase activity (F)PMID:23352854ECO:0000315 mutant phenotype evidence used in manual assertion

glnD deletion mutant was unable to adenylylate GlnK, while it was adenylylated in the wild type strain (Suppl. Figure S2).

challenge
unacceptableGEOMG:Q39Q67Mwwood2, Team Niraali2013-10-27 17:00:34 CDTGO:0009013 succinate-semialdehyde dehydrogenase [NAD(P)+] activity (F)PMID:22037946ECO:0000247 sequence alignment evidence used in manual assertion

Table 4 shows the similarities in sequence between the SSAR proteins from Geobacter sulfurreducens and Geobacter metallireducens as compared to Arabidopsis thaliana, showing 64% sequence similarity

challenge
updatedbyinstructorGEOMG:Q39Q67Mwwood2, Team Niraali2013-10-27 16:51:45 CDTGO:0009013 succinate-semialdehyde dehydrogenase [NAD(P)+] activity (F)PMID:22037946ECO:0000314 direct assay evidence used in manual assertion

Figure 3 shows the succinic semialdehyde reducing ability to reducing SSA and demonstrated that NADPH/NADP+ is the suitable co-factor for these enzymes.

challenge
requireschangesCAUCR:DNAKNlad, Team Niraali2013-10-13 17:53:45 CDTGO:0009408 response to heat (P)PMID:3782032ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 1: When C. crescentus cells (normally grown in 30 degrees Celsius) are transferred to a high temperature (40 degrees Celsius), the cell synthesizes 4 proteins sizes 28, 62, 70, and 83 kDa.

challenge
acceptableECOLI:CH10Mwwood2, Team Niraali2013-10-13 14:20:08 CDTGO:0006457 protein folding (P)PMID:2192863ECO:0000314 direct assay evidence used in manual assertion

Figure 2a shows the effect of addition of GroES and ATP to a arrested GroEL protein folding of pre-beta-lactamase. Enzyme function dramatically increases after addition,suggesting GroES is required for proper protein folding

challenge
unacceptableHUMAN:CH60Mwwood2, Team Niraali2013-10-13 13:51:37 CDTGO:0006457 protein folding (P)PMID:2528694ECO:0000314 direct assay evidence used in manual assertion

As seen in figure 4a, addition of ATP is required for proper release and folding into protease resistant conformation of protein from hsp60

challenge
updatedbyinstructorHUMAN:TRAP1Semanchik, Team Niraali2013-10-13 12:53:02 CDTGO:0009386 translational attenuation (P)PMID:24113185ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 1a: Control cells incorporate less radioactively labeled amino acids compared with TRAP1 KD cells (total lysates brief exposure), suggesting a role for TRAP1 in the global attenuation of translation.

challenge
updatedbyinstructorALIFS:LUXAMwwood2, Team Niraali2013-09-29 16:26:31 CDTGO:0008218 bioluminescence (P)PMID:10913092ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 2. Juvenile squid exposed to strain ESR1 showed the typical induction of luminescence, which becomes apparent between 12 and 24 h postinfection. However, animals colonized by either theluxA (luciferase) or the luxR or luxI(regulatory) mutant failed to produce detectable levels of luminescence.

challenge
updatedbyinstructorALIFS:LUXRMwwood2, Team Niraali2013-09-29 15:45:16 CDTGO:0045893 positive regulation of transcription, DNA-templated (P)PMID:1987152ECO:0000314 direct assay evidence used in manual assertion

Figure 2 shows the dual requirement for both IPTG and autoinducer to increase luciferase synthesis from pGS107 (lux R mutant strain) demonstrated that LuxR was able to activate transcription of operon lux in an autoinducer-dependent fashion.

challenge
updatedbyinstructorALIFS:LUXBNlad, Team Niraali2013-09-29 01:42:28 CDTGO:0008218 bioluminescence (P)PMID:6377310ECO:0000315 mutant phenotype evidence used in manual assertion

In figure 1, complementing pairs of hybrid plasmids with lux mutations produced light, but non-complimenting pairs harbored little to no light.

challenge
updatedbyinstructorALIFS:LUXCNlad, Team Niraali2013-09-29 01:41:00 CDTGO:0008218 bioluminescence (P)PMID:6377310ECO:0000315 mutant phenotype evidence used in manual assertion

In figure 1, complementing pairs of hybrid plasmids with lux mutations produced light, but non-complimenting pairs harbored little to no light.

challenge
updatedbyinstructorALIFS:LUXDNlad, Team Niraali2013-09-29 01:37:27 CDTGO:0008218 bioluminescence (P)PMID:6377310ECO:0000315 mutant phenotype evidence used in manual assertion

In figure 1, complementing pairs of hybrid plasmids with lux mutations produced light, but non-complimenting pairs harbored little to no light.

challenge
updatedbyinstructorALIFS:LUXENlad, Team Niraali2013-09-29 01:36:15 CDTGO:0008218 bioluminescence (P)PMID:6377310ECO:0000315 mutant phenotype evidence used in manual assertion

In figure 1, complementing pairs of hybrid plasmids with lux mutations produced light, but non-complimenting pairs harbored little to no light.

challenge
updatedbyinstructorALIFS:Q9S3Z1Nlad, Team Niraali2013-09-29 01:33:15 CDTGO:0008218 bioluminescence (P)PMID:6377310ECO:0000315 mutant phenotype evidence used in manual assertion

In figure 1, complementing pairs of hybrid plasmids with lux mutations produced light, but non-complimenting pairs harbored little to no light.

challenge
acceptableRHOCA:RNFASemanchik, Team Niraali2013-09-28 09:34:22 CDTGO:0070111 organellar chromatophore (C)PMID:9154934ECO:0000314 direct assay evidence used in manual assertion

Figure 1B illustrates a high amount of alkaline phosphatase activity in the chromatophore fraction of R. capsulatus cells; therefore, a high amount of RnfA activity.

challenge
unacceptableVIBFM:B5FFH2Semanchik, Team Niraali2013-09-28 09:12:38 CDTGO:0045892 negative regulation of transcription, DNA-dependent (P)PMID:9353217ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 2 shows that hns- and hns-rpoS-mutants of MC4110/pW21A and MC4110/pHK555 strains rapidly developed high luminescence levels. In addition, Figure 4 illustrates that both novobiocin and nalidixic-acid, DNA gyrase inhibitors, increase the luminescence of MC4110 rpoS/ptv1073 cells more than 100-fold. Together, these data suggest that the H-NS protein inhibits transcription in E. Coli of the lux systems of all or most luminous bacteria.

challenge
acceptableNOSS1:XISAPancholi, Team Niraali2013-09-26 18:03:20 CDTGO:0004519 endonuclease activity (F)PMID:18023966ECO:0000314 direct assay evidence used in manual assertion

Table 4 shows specific activity for the 11 base pair target site in artificial substrate plasmid NG7. Endonuclease activity is demonstrated via the loss of substrate plasmid, but not the XisA plasmid, which does not contain a target site.

challenge
acceptableNOSS1:XISAPancholi, Team Niraali2013-09-14 19:31:29 CDTGO:0009399 nitrogen fixation (P)PMID:3144039ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 2: DW12-2.5 has a copy of the wild type XisA gene and the inactivated XisA gene, but uses the wild type XisA gene to perform DNA recombination. DW12-2.2 cannot make recombination happen because it only has an inactive XisA gene.

challenge
acceptableNOSS1:XISAPancholi, Team Niraali2013-09-14 01:23:23 CDTGO:0006310 DNA recombination (P)PMID:3144039ECO:0000315 mutant phenotype evidence used in manual assertion

Figure 2: DW12-2.5 has a copy of the wild type XisA gene and the inactivated XisA gene, but uses the wild type XisA gene to perform DNA recombination. DW12-2.2 cannot make recombination happen because it only has an inactive XisA gene.

challenge
acceptableRHOCA:RNFASemanchik, Team Niraali2013-09-13 20:36:33 CDTGO:0016021 integral to membrane (C)PMID:9154934ECO:0000314 direct assay evidence used in manual assertion

Figure 1B illustrates the PhoA activity of diazotrophically grown cells split into chromatophore and soluble fractions. The high PhoA activity in chromatophore fragments and low PhoA activity in soluble fragments suggests that RnfA has alternating hydrophobic and hydrophilic regions; thus, RnfA is a transmembrane protein.

challenge

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Pages in category "Team Niraali"

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