In taxonomy bar plot, I have some Archaea domains while I used bacterial 16S rRNA primer sets. How possible to justify it?
Many 16S primers will amplify some of Archea taxa, but are not usually as inclusive across the Archea as they are across bacteria (see https://mbio.asm.org/content/mbio/8/6/e00824-17.full.pdf )
Hi, In the fiollowing paper I would like to know what is the meaning of mix in dsrB forward primer? Diversity analysis of sulfite- and sulfate-reducing microorg... DSR1762F2 DSR1728FmixB dsrB...
10 November 2019 8,653 4 View
I have two treatment groups of sample plus a group control. Each treatment and control have own three replicates. I am using Qiime2 for data analysis. I am in dilemma to the following ways below....
01 January 1970 4,468 4 View
Hello Dear Friends, Hope you are doing well! I have a question regarding the two phrases: 1. reference sequence 2. reference taxonomy What is the difference between them? What makes them...
01 January 1970 2,785 1 View
Could you please tell me for what reasons we should use a cloned DNA segement as a standard to find out how much a certain gene expressed? If you need an example, take a look the Quantitative PCR...
01 January 1970 8,706 4 View
I need to creat a standard curve for a qPCR assay by plasmid, after plasmid extraction, I run electrophorasis assay to check its quality. I visualized small nucleic acids in the lower layers...
01 January 1970 3,196 1 View
Dear researchers, As you know, it might be some ambiguity nucleotides in primer oligos appeared. For example, in my case, which I took the forward and reverse primers from a paper, there are some...
01 January 1970 4,515 2 View
I could not find the PCR amplicon length by a primer set mentioned in a paper. I googled and followed the references, but not worked. Have you got any suggestion?
01 January 1970 7,694 5 View
I was trying to find alpha, beta and gamma diversities in the Brock biology of microorganisms book, but there is no such info in. Similarly, I could not find evenness and richness phrases. I have...
01 January 1970 1,880 8 View
I was asked to provide the 16S rRNA gene primer's name. I designed the primer for 16S rRNA gene with these details. 926F and 1392R primer Pair I googled its name but I did not catch anything....
01 January 1970 8,138 4 View
I have a dataset with about 80 different species. As usual, some species are very easy to identify with certainty whereas others are more difficult, which means that I am less certain of my...
03 March 2021 8,066 4 View
So, I have been trying to run a pACYC PCR which will be used later on for a Gibson Assembly. However the PCR is not working. I have already tried gradient PCR and changing extension time; however...
02 March 2021 1,146 2 View
Dear All, I have access to some rodent fecal samples that have been stored at -20C instead of -80C. Anyone have experience with the impact of stowage condition on comparative metagenomic analysis...
01 March 2021 2,512 1 View
I have to amplify a gene and my primers just reached. The Tm for Forward primer is 64.2, and that of reverse primer is 65.5. Can some one suggest how to get the best annealing temperature? Thanks...
01 March 2021 360 7 View
I am trying to identify these 3 genes among some tomato cultivar collections and after aligning some sequences from NCBI, I couldn't find unique sequences to target for specific primers. There...
28 February 2021 606 3 View
hello everyone, I need to do standard curves for my qPCR, what is the ideal efficiency range? I tried a primer (Mglu2 receptor) that gave an efficiency of 90.2%. Is it accepted?
28 February 2021 1,254 3 View
Dear All, mirna primer showing some problem in the melting curve? any idea why? As attached is the melting curve. The forward sequence is obtained from miRBase and reverse primer is universal.
28 February 2021 5,008 4 View
There is huge pressure of getting good impact factor on scholars now a days. On the other hand Taxonomy is a very dry subject and the concerned papers can only get citation in same group of organism.
26 February 2021 5,851 1 View
Hi I am a bit confused. They are asking me to find out the volume of DNA required in ul (a total of 30-100 ng for genomic DNA) from the DNA concentration in the nanodrop reading which was 404.8...
26 February 2021 5,029 2 View
Hi everyone, Illumina provides a list of primers to amplify with high taxonomic coverage the ITS1 region for further fungal sequencing, but I cannot find the exact amount necessary of each...
25 February 2021 6,969 3 View