Any suggestions on the inconsistency between blast and phylogenetic tree?

02 March 2015 9,727 13 View

Any suggestions on full sequencing of 16S rRNA gene?

I am trying to get full sequence of 16S rRNA gene from actinomycete isolates. I have tried 8F and 1492R set prime but I have got 1384 bps and is still lower than about 1490 bps. I was wondering if...

01 February 2015 5,840 5 View

Could anyone tell me if sequences derived from Actinobacteria primers are suitable for drawing phylogenetic trees?

I used the specific primers S-C-Act-0235-a-S-20 and S-C-Act-0878-a-A-18 in order to Identify actinomycetes. Do you think those sequence are enough to draw phylogenetic tree or I should use 8F and...

07 August 2014 8,341 2 View

Which primer set is the best one for the identification of Actinobacteria to the species level?

I used this primer set: SC-Act-235aS20, SC-Act-878aA19, but the results are good to the genus level but not to the species level.

02 March 2014 3,534 8 View

Do you think TSA could be a suitable media for purification of presumptive actinobacteria?

I isolated presumptive Actinobacteria from 3 media (Kuster agar, SCA, AIA) then put them in BHI broth at -80 . I am going to purify them on TSA.Do you think that could be a suitable media for all...

01 February 2014 7,749 7 View

What is the most effective and simplest method for isolation of DNA from presumptive Actinobacteria?

I am planning to extract DNA from presumtive Actinobacteria without using kit. Could anybody give me any idea of the most effective way to do that in order to get as much DNA as possible?

01 February 2014 6,019 4 View

Anyone know of what affect Cysteine-HCl has on culture media?

I added Cysteine-HCl to MRS and Colombia Blood Agar to reduce O2 of the media. could any body tell me should I store the media under anaerobic chamber because of Cysteine-HCl or it does not make...

31 December 2013 4,462 11 View

What is a suitable fermentation broth for Actinomycete?

I am going to use three different media (Actinomycete isolation agar, Starch Casein Agar, Glycerol Arginine Agar) for isolation of Actinobacteria from a freshwater ecosystem. Does anybody have any...

10 November 2013 4,653 31 View

How to store the presumptive isolation of Actinobacteria at -20?

Appropriate broth and percentage of Glycerol?

10 November 2013 4,514 4 View

MD MOE RMSD

How to calculate the RMSD values for a MD simulation using MOE?

07 August 2021 0 0 View

MD MOE RMSD

How to calculate the RMSD values for a MD simulation using MOE?

07 August 2021 0 0 View

fatal error

When I tried to energy minimization my system, I got fatal error as below. Fatal error: Atomtype opls_116 not found Although I've already added this line: ; include water #include "oplsaa.ff/spc.itp" to [molecultype] directive in my topology.

16 June 2021 0 0 View

fatal error

When I tried to energy minimization my system, I got fatal error as below. Fatal error: Atomtype opls_116 not found Although I've already added this line: ; include water #include "oplsaa.ff/spc.itp" to [molecultype] directive in my topology.

16 June 2021 0 0 View

fatal error

When I tried to energy minimization my system, I got fatal error as below. Fatal error: Atomtype opls_116 not found Although I've already added this line: ; include water #include "oplsaa.ff/spc.itp" to [molecultype] directive in my topology.

16 June 2021 0 0 View

fatal error

When I tried to energy minimization my system, I got fatal error as below. Fatal error: Atomtype opls_116 not found Although I've already added this line: ; include water #include "oplsaa.ff/spc.itp" to [molecultype] directive in my topology.

16 June 2021 0 0 View

What kind of fluid could I use for a pitfall trap that also does not invalidate molecular testing?

Hi, I want to start testing pitfall trap to obtain ants samples, but I need to conduct molecular analysis on those insects. So, what kind of fluid can I use? Ethanol expires too early and I need...

03 March 2021 5,978 5 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

No title

02 March 2021 3,060 3 View

How to normalise data on OPM package from R Studio ?

Good afternoon, I recently used OmniLog from BIOLOG for my experimentations : I tested the metabolism of different strains on 2 types of plates. I have 16 strains of 3 different groups...

02 March 2021 3,584 1 View