Indoles - Science topic

What can be used to block INS which help in IAA synthesis

Cuando los estudiantes se encuentran elaborando sus tesis de grado, se enfrentan a desafíos de diversa índole: personales, institucionales, curriculares, dominio de competencias discursivas, digitales entre otras ¿Cuál de estos desafíos son lo más que más afectan la elaboración de la tesis y cómo logran superarlos?

Hello, fellow researchers,

We are currently investigating the role of gut microbiota-derived tryptophan metabolite indole in attenuating inflammation in epithelial cells. Our preliminary findings suggest that indole conjugated to BSA (indole-BSA) interacts with specific cell surface receptors. We aim to identify these receptors by treating cells with indole-BSA, followed by membrane protein isolation and immunoprecipitation.

Challenge and Request for Advice: We are considering the critical step of crosslinking indole-BSA to the membrane receptors before extraction, ensuring that the interactions are preserved during the isolation process. However, we are in need of guidance on the most effective method for crosslinking in this context. Here are our specific questions:

We are open to suggestions, improvements, and any insights that could help refine our approach. We would greatly appreciate your expertise and experiences in similar methodologies or relevant studies.

Thank you in advance for your time and input.

I have designed 100 derivatives of indole and conducted molecular docking, MD simulation studies, ADMET analysis, and physicochemical analysis. Can this data be published as a research article? I would appreciate your suggestions on this matter.

I need to substitute N position with ethyl or methyl groups. How can I achieve this with good yield?

Hi Respected RG member,

I have a question. How can I synthesize 4-bromoindole and 4-methylindole? Thanks!

El ejercicio de la docencia en general, requiere y demanda capacidades o habilidades de índole socioemocional, porque se trata de una actividad de vinculación e interacción humana.

Dear All,

I am trying to analyse targeted metabolites i.e Indole-3-acetic acid, IPA and ILA from fecal samples by HPLC. I have came across several extraction protocols for GC-MS but nothing on HPLC. Any help would be greatly appreciated.

Through my reading, I noticed many papers noted that an indole test for C. acnes appears positive, however, I am not getting the pink layer that's associated with an indole positive test. Is there any reason why this might be the case?

I want to run a casscf calculation for indole (following J. Am. Chem. Soc. 1996, 118, 185-195) with a different basis set in molpro. I am facing this kind of error

ITE MIC NCI NEG ENERGY(VAR) ENERGY(PROJ) ENERGY CHANGE GRAD(0) GRAD(ORB) GRAD(CI) STEP TIME

? Error

? Error in spin contamination check

? The problem occurs in mu_casci_spin_check

GLOBAL ERROR fehler on processor 0

How to solve this issue?

I would like to study the impact of the diet on fecal odor in Beagles.

But I don't really sure that phenol, ammoniac, indole are the only species responsible of fecal odor. Moreover it is difficult to assay them because they are not stable. What is the best way.

Thank for your help

while examining naphthalene dioxygenase enzyme by indole assay ( with the appropriate conc of indole), there was no blue color formed. Although I screened dioxygenase enzyme qualitatively and make sure for its presence.

Hi!

I am looking for a recipe for a type of clear soil to see roots formation, but that would also resist/slightly resist fungal/bacterial contamination. It is a project for kids at a science center/museum.

I tried agar (no nutrient/bacteriological grade, 1% gel) with iba-k indole butyric acid, but the result is not clear enough to see through when we pour into a glass cup (it gets more translucent than clear). I tried Carbopol 940 with iba-k indole butyric acid, but this gives a very thick gel that cannot be poured, and traps a lot of huge bubbles when mixing/making it, making roots not very easy to see, although it is a very clear medium.

Any plant specialist out there have a suggestion?

Thank you very much!

Helene

I am doing a research using transcriptome co-expression analysis of enzymes involved in indole synthesis. who is interested in that topic so that can help doing some planned experiments in Arabidopsis?

I would like to ask about indole production medium composition... I add casein enzymatic hydrolysate or tryptone as tryptophan source... I found both sources were added, for sure one of them separately., but the results were different. Positive result when using casein and negative results using tryptone. So which one of them is true?

I'm testing bacterial isolates for motility, H2S and indole production using the semi-solid SIM medium. Some isolates produced red ring on the surface without the addition of Kovac's reagent. Any explanation for this? I suspect it is pigment production rather than tryptophane hydrolysis.

Biochemical tests are the tests used for the identification of bacteria species based on the differences in the biochemical activities. There are at 21 tests such as Indole, MR, VP, Citrate and so on... As my interest on Aeromonas hydrophila (Ah); Do I confirm Ah by performing 1/2 test? Please suggest-

What is the best way to evaporate diethyl ether from a mouse plasma extaraction? I am trying to extract indole from the mouse serum, using diethyl ether, and my sample size is very small (< 1 mL). Would it be possible to evaporate off the diethy ether by just putting it under a fume hood?

Our rotovap can fit 45 mL tubes at the smallest and it's not under a fume hood so I'd prefer to not have to use it. Would I need to evaporate under a flow of nitrogen?

Indole butyric acid 4000ppm enhanced rooting on air layering in plum when temperature and humidity is high (25-35"c, 80-90 rh, than lower temp and humidity. What is the reason behind this happening?

Dear fellows,

I am minimizing with MM a set of structures before QM (Gaussian) calculations.

Some of those contain an indoline ring (reduced indole on the 5 membered ring part). Thus the nitrogen is still conjugated to the benzyl ring, which remained aromatic.

Surprisingly for me, the minimization with all force fields (done in Avogadro) make the nitrogen behave like sp3, and then goes out of planarity. However, UFF force field preserves the planarity. I always read that MMFF94 is much better for small molecules than UFF, so I wonder what should I believe. Is the sp2/sp3 hybridization contained in those force fields ?

Dear All,

I would like if someone can send me a standard curve of IAA (Indol 3 acetic acid)

Thank you

We are detecting Indole acetic acid (IAA) producing actinobacteria according to Bano and Musarrat (2003) method.

The summary of the method is:-

Inoculation of the isolates in LB medium (supplemented with 0.5% glucose and 500 μg/mL tryptophan) -----> Incubation at 28 ◦C for 48 h -----> Centrifugation of the cultures at 10000 rpm for 15 min ----> 2 mL of the supernatant were transferred to a fresh tube to which 100 μL of 10 mM ortho-phosphoric acid and 4 mL of the Salkowski reagent (1 mL of 0.5 M ferrous chloride in 50 mL of 35% perchloric acid) were added ------>incubation of the mixture at room temperature for 25 min and the absorbance of pink color development read at 530 nm -----> Calculation of the IAA concentration in cultures.

Is there any method better than this one? or if any modification?

I'm researching nitrogenous compounds in essential oils, like indole, and notice that serotonin is also an indole... wondering what the smell is like, if anyone has ever had any in a laboratory?

Hello,

I am a novice in quantum calculation.My system of interest is substituted Indole. From literature it is known that there are various excited electronic states like La Lb Ba Bb etc.I want to determine which among them is the most stable excited state for my system or is there any coupling or not.I have done the TD-DFT calculation. Please provide me the detail procedure.

Thanks

Hello

I want to simulate Indole which is my system of interest in different alcoholic medium of different pH.I want to use one Indole molecule in presence of 4000 solvent molecules to maintain my desired concentration.Please tell me how can I change the pH of the medium while simulating my system.

Thanks

We have resolved a structure of epimerase that catalyzes the epimerization of β-methyl-indolepyruvate. A Histidine has been identified as a proton acceptor and the indole ring of substrate makes it non-rotatable in the pocket. However, there is not any other residue could be enlisted as proton donor in the pocket. Is it possible that water molecule could be employed as proton donor for substrate reprotonation?

I’m trying to run a multiplex PCR with E. coli genomic DNA. I streak stool sample onto MacConkey agar plate. Next day I choose random 10 pink colonies and I’m using Boil lysis method of DNA isolation. Picking up a single colony with sterile toothpick, suspend into 50 µL of sterile nuclease free water and boil them in water bath in 100”c for 10 min, centrifuge them in 13000 rpm for 5 min, and use 2 µL of supernatant as template DNA. My positive control DNAs are isolated by Phenol-cholorofom method, which I used to run in each PCR. Every time I’m getting perfect bands in positive control but there’s either no band or few of the sample shows band (sample 2,3,7 for example). Bands in positive control depicts the reagents are fine, the PCR protocol is running absolutely okay.

Initially I thought the problem with MacConkey agar media, may contains such ingredients that inhibiting PCR. For that, I started making a replica plate with each representative colony onto Luria Agar plate by streaking with same toothpick used for making bacterial suspension. Next day I used to repeat PCR with all the 10 samples. Again the problem persists as it results a failure in amplification. There’s a batch to batch variation I’m getting, just I got sample 2, 3, 4 in day 1, I got bands in 4, 5, 10 on day 2 and 2, 3, 10 on day 3. I confirm whether the colonies are of E. coli or not by doing Indole and Oxidase test, and it shows all 20 colonies picked up are of E. coli as they show Indole positive and Oxidase negative.

I used the PCR machine for making boil template instead of water bath, where I’m suspending colonies into PCR tube in 20 ul of water, pre-hit the PCR machine in 95 ‘c and put all 10 PCR tubes in in 95’c for 15 min, followed by snapcheal in 4’c. I’ve not changed the centrifugation protocol. Now either there’s a batch variation or I don’t get any band any sample, even in those which shows Indole positive, Oxidase negative.

Should I try a different method of DNA isolation? Some said, the tricks of colony PCR is taking very small amount of colony by toothpick by barely touching the tip of toothpick, but frankly, amount of colony didn’t make any difference or solved my problem.

I searched for methods of indole synthesis but most of them need difficult conditions to be obtained. i found fischer indole synthesis method but i didn't found the general procedure. so, i ask for the procedure for fischer indole method or any other simple methods for indole synthesis.

In routine diagnosis in hospital laboratory by conventional methods , the most common biotype of Klebsiella is Klebsiella pneumoniae and some times Klebsiella oxytoca ( indole positive ). Are we missing other biotypes by not doing all the biochemical identification tests for all the isolates. Aminoacid decarboxylation tests are not rotinely used unless it is required for genus level and change of spectrum of antibiotics.

In Vitek it is possible to identify till species level .

Is there any less costlier method which is better than conventional method for diagnostic purpose.

i have tried to do it in different solvent systems as well but no gain

indole 3 carboxaldehyde with nitroaniline

for example:

we have Poly indole and carbon black ( 18 w/v%), so how to calculate quantities of both??

Please explain in details...

Thanks

Hi!

I'm trying to synthesize a small molecule using fermentation in a bioreactor. I got a pretty good yield, but unfortunately I have a lot of indole in my extracted sample.

How can I prevent bacteria from producing Indole?

Thx!

How to calculate distance between descriptor position and any atom of lead compound?

For example i have made an reliable 3D- QSAR model for indole moiety and the model shows increase the hydrophobicity at 311 position (xyz) in the range of 0.235 to 1.226. [ H (311) 0.235 1.226]. So how to find exact this location on 3D- diagram?

Borrowed a sample of "99%" indole from a neighboring lab. bottle was old, and the indole inside had a pinkish haze to it. is this an oxidation product, impurity, or does pure indole sometimes appear pinkish?

my indole sample is almost the color of 3-IAA, but a little more yellow, if that helps. Cheers.

Why mice get aversion towards IPA supplemented in water? 

Is there any protocols for extraction and quantification (UV Vis or HPLC) that do not require KCN? Thanks

Hi guys! I am facing a serious issue regarding the NMR spectrum of two different compounds. One among them is an organic compound named Indole-3-butyric acid (IBA) and another is the copolymer of polyhydroxyehtyl methacrylate and polyindole methacrylate (PHEMA-co-PIMA). In case of IBA, the NH peak coming at 10.75 with having a singlet peak. But in case of the polymer, why the amine proton peak is coming as a type of doublet (among doublet one peak is more intense than the other one)?

I am giving some links of these paper where it had been reported the NMR results of polyindole but they didn't clarify why such doublet form of amine peaks are coming. (DOI: 10.5897/IJPS12.107)

Kindly I am looking forward for your answers. If possible kindly give some references as well. Looking to hear you at your earlier convenience.

I've been told that after adding Kovac's Reagent (in this case to HiCrome agar) for an indole test it is not possible to then autoclave the plate due to the contents of the Kovacs'.

Is this correct, and if so what other options are available for safely disposing of the plate?

Thanks

Please anyone upload input files of the steps to calculate theoretical fluorescence spectra using Gaussian. It may be for indole.... 

My protein has two tryptophans. The indole resonance of one disappears while unfolding and then reappears when the protein completely unfolds. What could be the possible reasons?  

I got three peaks in the GC-MS data after running hexane extract of biphenyl degradation culture.

first peak: 6H-[1,2,4]Triazolo[1,5-a]indole, 4a,5,7,8,8a,9-hexahydro-9-methylene, Phenol 2-(5-methyl-3-isoxazolyl), Quinazolin-4(3H)-one 2,3-dimethyl 

second peak: Biphenyl

third peak: 2-Propenoic acid pentadecyl ester

How do I generate pathway

We recently isolated a coccus from a hot spring in Iran. Its phenotypic characteristics include Gram positive, non motile, catalase , oxidase , citrate , Indole, and Voges Proskauer positive. Its colony appears raised, convex and wet without any pigment. Can someone helps me? 

Anyone know of good BM3 p450 substrates that have fluorescent or colored products? I've used indole and coumarin, but both only work for one enzyme variant each.

I want to couple 3-substitued indole via 2nd position with aryl diazonium salts.

I have tried many procedures but not able to get compound of desired purity.

So what will be the exact procedure for this coupling?

We are working on Fisher Indole synthesis, but we are getting 15-20% impurity and some dimers also observed. During workup to purify these the yield will dropped upto 50 %

Any one please suggest me good procedure for knoevenagel condensation for N-boc-3-Acetyl indole with ethylcyanoacetate.

what are the color of indole derivatives; indole-3-acetonitrile, indole-3-pyruvic acid, indole-3-acetamide, and tryptamine in their solid state (crystalline structure)? Any idea?

How to convert indol acetic acid to indol alkaloid ?

Will someone explain how to detect the indole-3-acetamide,indole-3-acetaldehyde, indole-3-pyruvic acid, indole-3-acetonitrile, and tryptamine in a solution by using color producing reactions? I know indole-3-acetic acid can be tested using Salkowski's reagent but don't know about others.

I need to perform colorimetric tests (qualitative/quantitative) for the detection and estimation of these derivatives.

I want to user Standard Succinate Media (SSM) but I don't know how to prepare it? What are the components for that media? Please explain me.

the use and preparation of this medium have been described in a paper given below that I can't access.

Reference: Malhotra, M., Srivastava, S., 2006. Targeted engineering of Azospirillum brasilense strain SM with indole acetamide pathway for IAA  overexpression. Can. J. Microbiol. 52, 1078-1084

I have been preparing N-benzylated Indolyl chalcones. First i have tried a mild base but its not working. Then i tried  with piperidine but the result is same . Acetophenones & my aldehyde has same rf value. Though i get pink spot on charring with conc. H2SO4. NMr is showing both aldehyde peaks and acetophone peaks plus chalcone peaks. What shall i do?

Why we keep bacterial suspension in dark condition for IAA?

What is the extinction coefficient of 3 hydroxy indole at 385 nm in methanol or phosphate buffer?

doing substitution reaction at C3, so for that need to protect C2 which can be removed later so that further transformation can be done at C2 

How can residues of indole be removed from a reaction mixture without using column chromatography?

I have synthesized an indole moiety with NH2 group benzylated(protected).

When i screened these compounds 4 antioxidant activity (DPPH) they didnt show significant result. When concentration of indole moieties were incerased to 150-500 mM they showed very less activity and even precipitated.

I wanted to know what could be reason behind this?

Please share your views 

how can i form indole from phenylhydrazone?

What are biochemical reactions of Propionibacterium acnes and how they are done?

i am growing a bacteria in TB medium and i suspect presence of one coloured compound to be an indole's derivative. is there any recommended method to extract this compound in order to obtain better absorption scanning on spectrophotometry ?

Indometacine and its derivatives have shown great COX1 as well as COX2 inhibitory activity. COOH group create an acidic centre and is separated from indole ring by a CH2 group. what will be the effect on COX 1 and COX2 inhibitory activity if the Hydrogens of the very CH2 groups have been replaced by heavier group like phenyl or Cyclohexyl ring

I am working on quantification of indole 3acetic ACID produced by endophytic bacteria, buy HPLC, it's resolved on reverse phase C18, with a solvent gradient program:

solution A: 10% methanol , 0.3 % acetic acid 

B: 90% methanol ; 0.3 %  acetic acid 

time 0min ; 40%A    60%B

         5min: 40%A 60%B

        20min 0% A 100%B

I detect my peak before the gradient eluants, with a retention time of 3.5min? What is the explanation? I need help.

I want to synthesize indole-3-carbinol from isotope-labelled indole and wonder if anyone has any suggestions how. The literature seem very scanty on this issue.

Thank you

I am working on IAA production by  endophytic bacteria , after a extraction from the growth medium and quantification , I need a protocol for GC analysis ?Any suggestions? Thanks

Dear all

I am looking for maximum infrared molar absorptivity coefficients of the following compounds:

succinimide, maleimide, glutarimide, caprolactam, 2-Pyrrolidinone, Anthracene, Indole.

Does anyone know any websites or book for this kind of data. I am just looking for the numbers.

Kindly please help me.

I want to alkylate indole NH of harmine hydrochloride salt with methyl bromoacetate and sodium hydride.

Any suggestions on how to neutralize the indole NH hydrochloride salt and use it for the alkylation using sodium hydride as base?

I am experimenting on the effects of Indole 3-acetic acid and Geberrelic acid on germination and growth on Helichrysum Taxa.  Thank you. 

To evaluate whether a bacterial strain produces indole, Kovac's reagent is introduced in a test tube containing suspension culture.

I want to know if anyone attempted incorporating Kovac's reagent in agar petri dishes and visualizing indole production from growing colonies.