How to assemble bacterial genomes accounting for plasmids?

More Luigi Marongiu's questions See All

How to assess the osmotic power of a substance?

Hello, I suspect that a molecule I am using is causing bacteria to experience osmotic shock. What chemical properties should I look for to compare this capability with those of other substances?...

06 August 2024 977 1 View

How to stain bacterial surface for electron microscopy?

I would like to investigate the surface of bacteria using electron microscopy to assess changes in specific conditions. Is there an established protocol for that? Thank you.

15 July 2024 2,338 2 View

How to assess bacterial permeability?

Is there an established protocol to measure the permeability of bacterial membranes? Thank you

30 June 2024 6,614 3 View

How to immobilize bacteria without morphology alterations?

I have a set of bacteria that I stained with fluorescent dyes to check for viability. The protocol suggests to place 5 ul of the suspension on a slide, cover with a cover glass, and observe on a...

16 June 2024 9,382 1 View

How to transfect environment bacteria?

I would like to transfect bacteria with some plasmids. However, the bacteria are not competent but either isolated from the environment or purchased reference strains. Can I transfect these...

16 June 2024 9,384 6 View

How to describe statistical values in words?

After performing statistical analysis, there is the need to report the p-values in the text. Is there an accepted (published) stratification range? For instance, is 0.04 'slightly' significant?...

28 May 2024 7,724 3 View

How to assess if Kd values (constant of dissociation) are meaningful?

I used Microscale thermophoresis(MST, from Nanotemper) to determine the constant of dissociation (Kd) between a protein (20 nM) and a ligand (1:2 serial dilution from 50 μM to 1.5 nM). I ran the...

04 May 2024 2,066 0 View

How to stain live bacteria for real time tracking?

I would like to track in real time the growth of bacteria using fluorescent miscoscopy. I remember there was at least one plasmid that could be used: transfected bacteria would emit a red or green...

29 April 2024 7,095 3 View

What magnification for organoid imaging?

Hello, I would like to take some publication-quality pictures of organoids. What magnification shall I use? Do I need a 60x or is a 40x enough? Thank you

15 April 2024 8,471 1 View

How to sterilize pipette without autoclave?

Hello, I think I am using a 5 mL pipette that is contaminated with bacteria. Nothing serious, just the usual environmental microbes. The problem is that the tips for the 5 mL pipette are without...

07 April 2024 6,716 1 View

How to confirm the site-directed mutagenesis result without performing NGS?

I'm cloning a fragment of 3200 nts into plasmid. The cloning was successful, however, 02 amino acids were mutated. Now I want to fix these 02 aa by site-directed mutagenesis technique using...

08 August 2024 4,645 2 View

Is there any way to quantify bacterial and fungal cells in their mixed culture?

I am working in fungal fermentation of soybean meal and there is bacterial growth in them at times. I am trying to quantify fungal cell counts and bacterial cells; but I haven't been able to do at...

07 August 2024 7,535 4 View

How do I replace a file with a more recent version of a paper that was uploaded to ResearchGate?

The paper in question is "Interpolation of Nitrogen Fertilizer Use in Canada from Fertilizer Use Surveys". This paper was very recently published by Agronomy (MDPI). Agronomy has, in the last day...

07 August 2024 9,934 3 View

How to solve g_mmpbsa error?

Program: g_mmpbsa, version 2024.1 Source file: extrn_apbs.cxx (line 152) Fatal error: Failed to execute command: $APBS pybYcUWA.in --output-file=pybYcUW.out

07 August 2024 6,066 0 View

How do you delete a duplicate pdf for the same paper on ResearchGate?

The first pdf file I uploaded had an error. So I uploaded an updated, corrected pdf of that paper with a different pdf name. I dpon't want the old copy to be download or read.

07 August 2024 9,508 1 View

AUX gas reading problem on QE with full MS and PRM method in one run?

Dear QE-users, In the method where full MS positive mode and PRM mode are used, we always get an incorrect auxiliary gas reading (41 instead of 25). This only happens in this method; other...

06 August 2024 4,953 0 View

Where should the ARS sequence be introduced on a plasmid?

Hi all, I need to introduce an ARS (autonomously replicating sequence) in my plasmid but I'm not sure which position would be the best. Does anyone have any suggestion? A picture of the plasmid...

05 August 2024 1,573 4 View

Why after performing site directed mutagenesis ,I don't see any colony after transformation?

I want to introduce a point mutation (change in one nucleotide) into my gene of interest (DNA binding domain) I have designed primers as recommended on the Data sheet of the kit : -Both primers...

05 August 2024 9,059 3 View

Why my colony PCR results of my recombinant bacterial not showing any results?

I am performing ligation of the plasmid and a target gene. The steps I have taken are: 1. Double digestion of the plasmid and target gene 2. Ligation of the plasmid with the target gene 3....

05 August 2024 2,570 3 View

JCPDS 65-7246 file please?

Dear Researchers Kindly share JCPDS 65-7246 file Thanks in advance

04 August 2024 5,613 1 View