Vacancy of manager of bioinformatics in USA, are you interested?

Hi,

I am very new to Bioinformatics. Recently, I have the project that aims to perform taxonomic anlysis on raw reads from mixed samples taken from environment.

For example, we perfromed NGS (whole genome) on a insect and we want to identify the taxonomic of every symbiotic bacteria in the raw reads.

Currently, I can use Kraken2 to perform the analysis. However, I have following few questions.

1. How can I focus only on the bacteria and remove the rest of data and make a summary table or visualization (the percentage of each bacteria strain).

2. Because in the future, we will switch to the mixed environmental samples and focused on 16s rRNA, I would like to know how to perform the taxonomic analysis by identifying 16s rRNA first from the raw reads and make analysis that focuses only on 16s rRNA. Because mixed environmental samples will contain not only bacteria but also other eukaryotic DNA reads, I want to identify them and analyze them later to reduce the process time.

Followed by that, what process and tools shoud I use?

I found the tutorial: " 16S Microbial Analysis with mothur (with galaxy)" however, I tried with the current data of NGS data on insects, it took so much time on making contigs of non bacterial reads. I am wandering if there is any methods that can get rid of reads that is non bacterial in the first hand.

Additionally, I found other tools such as RNAmmer, barrnap, prokka. However, these tools seems to be only accepting bacterial whole genome but not mixed reads.

If you can share some experience and good workflow or tools to try, I will very appreiate that.

Thank you very much for your great help.

Dear ResearchGate network,

Recently I received an invitation to act as Associate Section Editor for Bentham Science for Current Bioinformatics for a period of 2 years, depending on de performance. Due I don’t have sufficient experience as editor, So, they requested me to given a name of a senior researcher with a h-index of 15 at least and knowledge in Bioinformatics to act together with me as a Section Editor (coeditor). As role of this coeditor is to propose at least one issue per year of a relevant theme for a special edition In Bioinformatics. Anyone here have knowledge from anyone who fits to this profile and could indicatr he/she for me, please?

I thank you in advance.

Pedro Paulo Gattai Gomes, PhD

The question asks about the timeframe for running gel electrophoresis after nuclease-free water has been added to DNA samples.

Hi,

I am trying to run EvolveAGene4 program, I can open the program, creating path, commands are working, however; I am getting this error message:

"The sequence must be a coding sequence whose length is a multiple of 3"

I tried aligned, non-aligned, equal length, non equal length DNA sequences or protein, fasta or nexus formats etc, but nothing worked.

Is there anyone knowing the solution or has an example file?

Thanks in advance everyone.

Please share your experience with the DNA isolation and the interpretation of this system

when I insert my primers in primer blast site and push the button "get primers" I just reach different errors and I don't know what the problem is!