Which are experimentally proved Best house keeping genes to study gene expression in Pseudomonas syringae?

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Why crystal like structures are formed on NGM plates cultured with E. coli OP50?

When I prepare NGM plate for the growth of C. elegans, the plates are clear. However, when I spread culture of E. coli OP50 on NGM plates and incubate at 37 C overnight, I observed crystal like...

10 November 2017 707 4 View

Any advice on the difference in the Ct value of reference gene in treated and control samples?

I am using 16S primers for qPCR. However I got different Ct values in may treated and control sample (30.08 and 28.85). Would it lead to considerable error in final results? In my opinion,...

06 July 2015 3,326 10 View

Is it necessary to dilute cDNA before qPCR? How much dilution should be made? How to determine best dilution factor?

Kindly explane importance of cDNA dilution before qPCR and how one can determine best dilution factor for cDNA samples? How it will effect results of qPCR? In other words, how much quantity of...

05 June 2015 1,350 22 View

Is it possibile to determine genomic DNA contamination in cDNA sample on the basis of qPCR results?

Is there any possible way to find out genomic DNA contamination/residues in cDNA by analyzing results of qPCR? Can we get any information related to genomic DNA by Ct value?

05 June 2015 738 4 View

How can I avoid contamination of Genomic DNA during RNA extraction?

It is observed that RNA samples are often contaminated with genomic DNA. How can this contamination be avoided? What are the possible causes for genomic DNA contamination during mRNA extraction.

31 December 2014 5,040 3 View

We want to remove the gaps/errors of our laboratory genomes with some reference genomes. Which software would be the best option?

09 October 2014 9,468 15 View

How can one convert genome sequence files of microsoft office into genbank format?

I have a genome sequence however, sequence is in microsoft word file and annotation is present in excel file. How can I convert/merge this information into genbank format. (sequence is not...

09 October 2014 6,644 6 View

Which are the best expression vectors for Pseudomonas syringae?

I need some good expression vectors for Pseudomonas syringae for over expression of proteins and for the construction of complementary strain. along with that, I also need the source/link from...

08 September 2014 5,360 4 View

What software/database could be used for identification of pan genome/core genome of user's own sequence data?

1) The sequence data is in contigs form. 2) Please suggest windows based tools. 3) Important literature/source would also be appreciated.

08 September 2014 8,349 18 View

What techniques are best to confirm construction of complementary strain?

After constructing a mutant bacterial strain, I have to construct complementary strain. How can I confirm expression of gene of interest in complementary strain? Which techniques can be used for...

05 June 2014 9,967 1 View

What is your perception on using visual analysis or quantitative approaches to evaluate data from single-case research designs (n of 1 trials)?

Results of single-case research designs (i.e., n-of-1 trials) are often evaluated by visually inspecting the time-series graph and computing quantitative indices. A question our research team is...

03 March 2021 687 1 View

In PRIMER, is it possible to downweight certain taxa in multivariate community datasets to reflect uncertainty around identification??

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

How do I increase the yield of my PCR product?

Hello, We would like to increase the yield of our PCR product. We are running a series of PCR reactions that is targeting ~1.1kb sequence. We begin each reaction with ~400pg of template DNA...

02 March 2021 4,029 3 View

How to quantitative analize the data of TNBS assay for gelatin?

Estemeed colleagues, I found some issues regarding the quantification of the data for TNBS assay. There are different protocols on how to perform that but it is clear to me the "fil rouge" that...

02 March 2021 2,616 1 View

Sample dilution for quantitative analysis using ELISA?

If the detection range is in ng/ml but the reference range is in ug/ml for a molecule or protein in serum or plasma .how to dilute and what is the initial volume to be taken for quantitative analysis

02 March 2021 7,670 3 View

PACYC PCR not working after several attempts. Would anyone have any suggestions?

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

Do you know good and user-friendly programs to measure plant quantitative traits?

For my research i will need to measure plant quantitative traits (especially leaves area and roots length, but would be nice to add some more information). I recently discovered...

01 March 2021 5,035 2 View

Does anyone know HRM channel in a 2 plex QIAGEN Rotor- Gene Q qPCR can be used as a separate channel?

I am going to have 3 different probes in my qPCR work that I am going to do. But I realized that the machine we have in the lab is a Rotor-Gene Q 2plex HRM Platform, saying it has green, yellow,...

01 March 2021 8,544 1 View

How to calculate the annealing temperature of a primer pair?

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

How to address this issue in the analysis of Real-Time PCR results?

To dear Researchers, I was analyzing a series of concentration for estimation of Real-Time PCR efficiency. The concentration was 1:10. I used MS-excel to evaluate Slope. The result of slope was -8...

01 March 2021 8,683 4 View

Cheng Zhan

Probably you can refer to this article "RNA-seq Analysis Reveals That an ECF σ Factor, AcsS, Regulates Achromobactin Biosynthesis in Pseudomonas syringae pv. syringae B728a".

Ana J. González

Dear Muhammad,

The article by Sarkar and Guttman covers this topic in P. syringae:

Evolution of the Core Genome of Pseudomonas syringae, a Highly Clonal, Endemic Plant Pathogen, in APPLIED AND ENVIRONMENTAL MICROBIOLOGY, Apr. 2004, p. 1999-2012.

I usually use rpoD and gyrB genes, whereas I have had trouble at times with gltA (cts).

Ana