Questions related to Fungal Taxonomy
the difference:genus of fungi and symptoms and how can Differentiate between two in field
I am no expert in fungi. However I need to identify few fungal growth on sabouraud agars. Are there any easy to read and recommended book that has both the culture growth images and the microscopic images? Thank you.
I have been reading various articles concerning fungi and Fusarium classification in particular. The more I read the more I get to know less of what the future of Fusarium classification shall be. I have now landed these two very interesting articles that could form a very concrete basis for this discussion:-
The attached images are of endosymbiontic actinobacteria from a marine sponge. It shows long rods as well as short rods with spore like structures within hyphae. I am confused why does is show such a morphology. The gram stain and the colony development photos are of 3 days old colony while the streak is of >7 days old.
The forward and reverse sequences obtained from the PCR products are not identical at all.
Can I still make the contigs for doing BLASTn?
Individually both sequences are showing the same species in BLASTn.
Together, by placing one sequence after another they are showing a different species.
Kindly suggest a way to identify the organism by using both forward and reverse sequences.
I am interested in the different tools that can be used to create custom databases for targeted sequencing and how to trim the databases based on the amplicon size? Also, should custom databases contain species not assigned to a species level?
So far I have not been able to find a camera lucida that fits a low range microscope.
In some papers of microbial ecology, I found that all the microbial names from phylum to species are italic, but there were also some papers just presenting the genus or species names in italic. So, what's the standard rules of names' writing of taxonomic names? Should all be in italic from phylum to species or just parts of them?
i have a fluid sample of a plant extract that over the weekend grew a massive contamination (lab bench - room temperature).
So to find out which of the used ingredients (dry substances or water) might have caused this it would be great to know what genera this could be - as this info may be used to track back the origin.
I am aware of the difficulties of specie identification from macroscopic pictures only, but this is unfortunately all we have.
Is it possible to separate (distinguish) different AMF morphotypes which may possibly represent different taxa just by looking spores under a stereo microscope of say, 60x?
In my project, I am inoculating seeds with AMF fungi and I am interested in to see how AMF colonisation could alter rhizosphere communities, bacteria and fungi. I am bit confused in selection of fungal region. So I would like to ask which region is best for this analysis ITS or 18S rRNA.
Thanks in advance
The polymerase chain reaction (PCR) technique has created new ways of revealing DNA polymorphisms among closely related genotypes.Molecular markers which have been applied to Colletotrichum sp. diversity studies include internal transcribed spacer (ITS) regions, restriction fragment length polymorphism (RFLP), random amplified polymorphic DNA (RAPD) and inter simple sequence repeat (ISSR) markers.
DNA extraction protocol using Chelex-100 is cheap and very useful technique. However, the protocol varies between lab to lab, or people to people.
My lab is fungal taxonomy lab, so DNA is frequently from lab-grown fungal colony.
Currently in my lab, the protocol is:
1. Prepare 10% of Chelex-100 solution with ddH2O, stored at 10'C convective fridge.
2. aliquote 300λ of Chelex sol. to 1.5mL tube, harvest fungal colony (about (0.5mm)^3), from media, mix it by inverting or vortex mildly.
3. Pre-heat samples 56'C with Heating block for 15 min.
4. Load the tubes into floater, boil at 100'C for 10 min.
5. Vortex tube vigorously.
6. Again, Boil the tubes at 100'C for 8 min.
7. Centrifuge at 101g, 4'C, for 10 min.
So far there were no problems yet, but I'm looking for ways to improve yield or purity of the DNA.
Would this protocol be changed or fixed?
Waiting for the Answers from the best :)
Dear fellow scientists,
I am looking for a collection (can be a private one... your own catalogued images, etc.) of micro fungi optical microscope images, i need different images for each genus / species...
Do you know of any site/repository (preferably curated) that has links for different species and corresponding images / image sets ?
Would appreciate some help here ;)
I suppose it belongs to Microphysidae family, Myrmedobia genus. I would be very thankful for any suggestion of identification key for this group? I found a lot of specimens of this species in the litter of coniferous forest.
Thanking in anticipation
I am carrying identification of fungi by using microscopic examination, and i need more explanation about differentiation between species.
I would like to ask for help in identifying a mold culture I recently isolated from a sample in the lab. Would like to get alternative opinions regarding this matter.
Briefly, I was able to culture this unknown mold in PDA with rose bengal and streptomycin. The mold grows as black compact fibrous colonies which could be tough and crusty and embeds well in the agar plate. From this plate, I did slide culture on a PDA agar block to check for fruiting bodies and vegetative structures.
I narrowed down my putative ID's to either Stachybortys or Sporothrix but I would like to getalternative perspectives on this. Since I'm only depending on microscopy data for preliminary identification.
I am attaching some photos of the colony from the plate as well as some microscopic images. I hope someone can give insights.
Thank you so much!
I have sequenced 4 plant taxa belonging to the same genus. I sequenced the trnH-psbA and ITS markers. Could anyone give me a detailed procedure of how I could confirm the idintification of those taxa using available sequences? i.e I need the instructions of the DNA barcoding technique used for authentication of a plant species.
Thank you all
Some fungus-like materials were found in the deep dermal inflammation tissue from a 76-year-old lady's right hand. She presented with soft tissue swelling with redness on her right hand after antibiotic treatment failure. She said she has high blood sugar when she tested herself with a blood glucose test kit. But she was not properly diagnosed or treated for that.
What kind of fungus should I include in the differential diagnosis?
(phaeohyphomycosis?) Is this definitely fungal infection? if not, what this would be?
Any ideas are welcome!
Attached pics are PAS stained slide taken at x1K
I am a PhD candidate in mycology. I need the key to identify cunninghamella species. Could anybody help me?
We have found this fungus on the twigs of blackcurrent (Ribes nigrum). Clavate asci, formed in cleistothecium, ascospores with one septum.
Recently, some novel or interesting helminthosporioid fungi and black yeast-like taxa were isolated from soil and plants of the Atacama desert. Among the latter group, one species genetically close to Knufia peltigerae was identified. I would like to compare the morphology of the Chilean fungus with that species in order to assess its identity. Thanks in advance!.
In morphology, Macrocystidia is supposed to be a close relative genus of Lactocollybia (Singer 1986) as both have gloeocystidia in the context of pileus, stipe, lamellae, etc., but blast searched results of the nrLSU/ITS sequences of Lactocollybia/Macrocystidia did not find each other as the closest genus (within first 100 matched species). Thanks for your attention.
I believe I have isolated a fungus and need to identify it before moving forward with my research. When cultured in SDA it's white, but in the special agar I am using it's mostly green. It grows slowly, taking about a week to cover a petri dish. In the special agar the growing edge is white, then green, then the other coloured growths appear ON the green after three or four days. Microscopic analysis show that all coloured types are part of the same fungus (only about 90% sure)
I have attached pictures of both cultures, as well as microscope shots. I lost the more detailed microscope shots and can't redo them now. I hope these will be sufficient.
I really need this and would be grateful for any and all assistance.