Best practice after sequencing rDNA ?

More Arvind Behal's questions See All

Can anyone help with DNA sequencing result analysis?

I was doing NCBI BLAST for a sequence and I found that in BLAST result it was matching as Reverse & Complimentary. Is it normal that DNA is matching this way? When we sequence the DNA with 27F...

06 July 2014 489 11 View

What are the effects of the type of light source used for the growth of microorganisms?

A bacterium has been suggested to be grown using a Tungsten lamp with a light intensity of 2,000-3,000 lux. Will it make any difference if the bacteria is grown in light by CFL lamp? What will be...

05 June 2014 1,447 3 View

What are the suggested measures for determining bacterial growth OD in the case of pigment generation?

What are the suggested methods for measuring bacterial growth OD in case bacteria starts secreting pigment in broth during growth?

04 May 2014 9,861 6 View

How to store anaerobic bacteria in Glycerol stock?

Is the method of storage anaerobic bacteria at -80 in Glycerol stock same as that of aerobic bacteria? Will Glycerol prepared in degassed water be able to save bacteria?

04 May 2014 3,841 8 View

No title

02 March 2021 3,060 3 View

What do you know about biotechnology art?

02 March 2021 1,653 3 View

Which is the best place in the world for the plant biotechnology research?

I am searching for a good place for the Post Doc,

02 March 2021 4,053 3 View

Is CD44 degraded in lysosome together with hyaluronan after CD44 mediated endocytosis of hyaluronic acid?

Also when RHAMM binds hyaluronic acid, they get internalized, will RHAMM also be degraded? Or both CD44 and RHAMM will be transferred back to the cell membrane? Asking for breast cancer cell line...

01 March 2021 8,169 2 View

How was your experience with Biomedical and Biotechnology Journal?

How was your publication experience with BBRJ in terms of peer review and reviewer comments. Did you find it fair and transparent ?

23 February 2021 3,810 6 View

Are the topics below viable research in plant biotechnology?

1. Chemically induced mutagenesis in seed and qPCR detection and amplification of desired trait. 2. Site-directed mutagenesis in qualitative traits of a multiline seed.

04 February 2021 9,069 3 View

Is receiving Invitation to submit a article from the journal is big deal ???

I have recently received a invitation from the journal "Current Pharmaceutical Bio-technology" to submit a research article. As i didn't received any invitation before. so, is it normal to to...

04 February 2021 4,596 23 View

Why is Fermented Plant Juice (FPJ) always diluted with water? Could it be diluted with other solvents such as rice water?

I am currently making a research paper with my classmates in Philippine Science High School and we are trying to find references that mixed Fermented Plant Juice with other solvents instead of...

17 January 2021 5,099 4 View

What steps should one take to address post-harvest disease problems in a supply chain?

If I were to receive an import of a new fruit species in the country and, upon arrival, the whole lot was diseased, what steps do I take to diagnose and solve the problem? Is there a general...

10 January 2021 1,649 7 View

Why negative controls also showing the specific bands of promotor and other regions (GUS, GFP etc.)?

Dear Researchers, I did a transformation of an empty vector (pCAMBIA1301/1302) into my passion fruit plants, for the optimization of the transformation protocol. After transformation; DNA...

06 January 2021 8,465 99 View

Preeti Aahir

Take out the sequences which are homologous to your sequences by blast and also put your gene sequences. Run phylip, view it in tree view and observe where are they falling close to.

Ajay Saini

Hi Arvind..

From your query it appears you are interested in molecular phylogenetic analysis of your sequences and other closely related organisms...As suggested by Preeti above ....get the sequences closest to you seqeunce or of the organisms in which you are interested...Do a good multiple sequence alignment first and then infer phyogeny..using any of the established and well quoted software, many of which are freely available from the authors....Phylip is good and commonly used..but it is 'command line' interfac based and all the modules of the progarm are not integrated...you have to run them one by one....If you still want to use it....'get the printout of the Manual, go through it and then do the analysis'...Doing it with knowing the parameters and capabilities of the programs you may make mistakes and data some times maye be difficult to interpret...

Other good interfaced program is MEGA (now 4-version is running)...which I also have used in my papers ...is really good, well integrated GUI babsed progarms and is also very well quoted in publications..

Arvind Behal

thanks Ajay

I have used Phylip and I am not happy with it coz there are many problems with it. I tried MEGA but did not know how to use it, so now I will try it.

actually i was trying for distance on tree to make it publishable, which is not easy with phylip.

Hi Arvind...

MEGA is not so difficult ...with additional advantage of GUI interface....let me know what kindl of problem you are facing...I may be able to help you out....or else you can also send me your aligned file and I would try to generate the tree in a way you would like to have it...