Questions related to Microorganism Identification
I do a microbe culture from waste metalworking fluid using blood agar medium at 37C, and I found a colony as like as the picture in the attachment.
Any one can help me to figure out what is it?
nb: the reddish dot will appear after 24-48hr incubation, and the white colony appear after 3 days.
While extracting MPs from sediment samples of Peruvian sandy beaches, I found a transparent film with dark brown dots (see pictures attached). Could those be colonies of marine microorganisms? If so, what are the possible species or families? Consider this sample coming from Lima, Peru (SE Pacific).
The movie is real-time video (not timelapse). Phase contrast, 40X objective, 0.6 NA. Field of view is ~200 microns in width. Organisms were found in isolated regions of a primary neuronal culture and seem to oscillate mainly in place without any net linear displacement. It is unclear whether they are proliferating if at all. They can be found day after day in roughly the same location and with the same fast movement. Solid lines in background are neuronal processes.
I am exploring the possibility of buying of a Maldi-Tof MS instrument for my lab. I am familiar only with Bruker Maldi-ToF MS. My main application is characterization of novel peptides so accuracy is extremely important. However, I am also interested in the microorganism identification. So, Autoflex (high resolution reflectron mode) from Bruker looks as a good option. Another option could be the MALDI 8020 from Shimatzu.
Could you please share your experiences with this instruments?
I am searching for a protein (or transcription factor) that can interact with a short DNA sequence (that is NOT promoter or some part of promoter for another gene) and this interaction results in producing signal that control the expression of another transcription factor. Can someone suggest such a regulatory network in plants, animals or other organisms?
Hi, I am characterizing the transcriptional regulator of Mycobacteirum tuberculosis .
Because we don't have facility for M.tuberculosis culture, I am trying to over express (using PVV16 which has Hsp60 promoter) it in M.smegmatis. but I never got colonies though the clone and vector back bone are fine. So I thought over expression might be toxic to M.smegmatis. so to check its toxicity I did frame shift mutations and found its over expression is not lethal.
However for the same protein Chip-seq data available in MTB Network Portal. By going through their publication in NAR, I realised they over expressed corresponding transcription factors in M.tuberculosis using Tet-inducible system and did Chip-seq analysis.
My question is, is over expression of my protein not toxic to M.tuberculosis but toxic to M.smegmatis or am I simply doing something wrong?
How can I get a over expression strain of M.smegmatis?
for the identification of soil microorganisms, Please can any one help me with the protocol for nitrifiers denitrifying ammonifiers and azotobacter of the soil
I need to carry out classification of some bacterial pathogens based on whether they are extra- or intra- cellular.
i am trying to isolate microorganisms from tobacco callus but i didn't find any microbial growth in nutrient agar,PDA with and without antibiotic.
are calluses free from microorganisms or there are some different media used for isolation of microorganisms from calluses.
can anybody have an idea about it.
has someone ever done characterization of filamentous bacteria from frozen samples?
I would like to do the identification of the floc from frozen samples while ago but I haven't found any references about. I know the "standard" procedure working with fresh sludge but I don't know how the frozen process could interfere with the analytical results.
Thanks in advance.
I would like to know if there are any microbes (specifically fungi) are able to hyperaccumulate or mycoremediate nickel, however, I do not know methodology on how to test this ability.
In the attached photo is an microrganism that shown up in my cell culture flask one day after an massive cell death event. I think that probably this microrganism is a fungus however I've never seen one so well organized. I hope you could help me to identify it.
I sincerely appreciate your help!
I want to start this thread to discuss some possible ways to simultaneously quantify multiple (20+) microorganisms (phylogenetically unrelated). qPCR or ddPCR basically can only target one or a few (as multiplex is challenging). Microarrays can detect a lot, but seems only produce qualitative results with limited sensitivity. I am more than happy to hear different ideas and learn. Thanks in advance.
The length of this worm is about 1cm and it's really flexible. I tried to make a slide but I failed because it's fragile.
I think you are right, because I found only several worms in many fishes. And thank you everyone who answered this question. : )
Someone has experience in molecular identification by multiple real-time PCR of germs of interest in medicine, do you know some kit or model article.
It was very abundant in hypersaline waters from South Spain (150g/l approximately); it is over 0.5mm long and of black colour. We wonder if it is a ciliate species...
I have found organism at the picture, in the digestive system of the Carassius gibelio species. The fish was very young (most probably 0+ aged). I know that the picture is not very clear due to I did not have a camera. It looks like to me like some kind of Nematode?
This was recovered from the small intestine of a field rat. Can anyone please identify this tapeworm? The first two pictures are the segments and the last two pictures are eggs from the crushed segment. Thank you very much for your help.
Looking through the microscope preparation of Gyromitra fastigiata for me, I found something strange. It looked like fruitbodies of fungi that grew on some membrane. A single "fruiting body" had height approx. 12 m. The parasite?
I tried hairy root culture in a medicinal plant. The plant roots are infected with agrobacterium rhizogenes ATCC 15834 and sub cultured in basal MS medium, after 10 to 15 days the black colour micro organism grow in infected plant parts, so I would like to want to know about that micro organism and how do control this in plant root culture. Please anybody help me.
Isolation Medium: Nutrient Agar (pH 7.2)
Isolated from: Singara (a light snack sold in a roadside shop)
Colony Characters: Shape- Circular, Pigmentation- Off White, Elevation- Convex, Margin- Entire, Surface- Smooth, Optical Characters- Opaque, Colony Diameter- 3 mm.
Gram reaction: Positive
Aerobic in nature.
Resistant to most antibiotics viz. Chloramphenicol , Neomycin, Doxycyclin, Erythromycin, Gentamycin, Kanamycin etc.
We've had a major problem with contamination in our tissue culture lab. Attached are the microscopy pics of media left inside microbiological hoods after cleaning... expert opinion needed please!
We've also swabbed everywhere (hoods, incubator, bench, floor) onto LB broth agars, but nothing have grown thus far (3 days post cleaning).
Sometimes I find the members of this genus in clinical material (especially with otitis media or by. externa) and I do not know their clinical significance and even I do not have adequate and reliable diagnostic scheme.
I used MP-5 medium and cetrimide agar for pectinolytic activity. for this firstly, I prepared MP5 medium and spotted on plates from cultures, after incubation added %1 cetrimide agar. Finally I didn't see clear zone arround the microorganisms. I don't know to solve this problem. Can you help me?
The tests I used..Citrate- negative, FTM- facultative anaerobe, oxidase- positive, Urease- negative, skim milk- negative, starch agar- negative, nitrate broth- positive, catalase- positive, phenylalanine- negative, lysine- positive, and litmus- negative, also carb fermentation positive for mannitol,dextrose, and maltose. It is also a gram negative rod... any help is much appreciated.
1- Soil is sandy loam.
2- Jatropha leaves are buried in soil inside leaf bags.
3- Jatropha leaf litter around Jatropha trees.
Can you recommend databases to find out about morphological and physiological characteristics of micro-organisms.
My THP-1 cell is contaminated with microorganism. It's not very visible during the first subculture from thaw cell line but the number increased after every subculture. The attached photo is the 4th time passage from the thaw cell line.
The media color remain orange reddish through out the whole week, and plating the media on Trypticase Soy Agar (TSA) gave negative result. Plating media on Sabouraud agar after 3 days also show no result.
Is it fungi contamination or other possible reasons of contamination?
Can I rescue the thaw cell line with little contamination to used?
Please let me know which biochemical test is suitable to determine necessity of sodium ion for bacterial grow (special for differentiation between Vibrio spp. and Aeromonas spp.). Also, which culture medium should be used in this case?
I will work in a program of VSD disease management on cacao. There are many obstacles to isolate the fungus pathogen causing the disease. I hope to find a way to isolate the fungus easily.
Most methods are time consuming or refer to an already existing database of known strains. Are there any methods for fast identification of micro-organisms which do not exist in the database yet?
One of the difficult things I realized during the process of removing yeast cells from cultures was how to be able to tell whether I was dealing with one species or multiple species of contaminating yeast cells. This can be important to determine later on if new cultures get contaminated with one strain or other. Similarly, the removal can be successful but it is hard to tell whether spores were also removed.
Conference Paper A Method To Clear Fungal Contamination From Malaria Cultures
I'm planning to sample several environments looking for Staphylococci species specifically. Is there any protocol permitting to select them efficiently? For example, which medium is the most selective? What are the biochemical tests which are reliable and discriminatory, easy to perform? Even if the selection is not perfect, I am looking for reducing the number of strains to sequence (for identity confirmation).
Using 16S rRNA sequence, it is difficult to differentiate certain species and subspecies of lactobacilli
We have been trying to identify some of our bacterial isolates using the Biolog Identification system. Two of the isolates, which vary in their physiological fingerprints to an extent, have been assigned the same genus and species by the Biolog. Any clues?
We are currently handling a good collection of lactic acid bacteria and yeast isolates associated with various stages of an indigenous fermentation process for production of fermented bamboo shoot. Most of them are fairly identified by ARDRA and rRNA gene sequencing (similarity range 97-99%). However, being an untapped ecological niche which is not explored deeply, we are expecting this niche might harbour new novel species.