Classify the phylum of d__Eukaryota;__

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Thanks a lot for your answer

I also conduct the analysis for my 16s amplicon (V1-V9) data using the same procedure
With minor adjustment to suit the 16s data

  • Primer: 27F & 1492R
  • fastp = * Length required = 200 & Maximum length = 800

MultiQC in Galaxy before quality control

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image1487×639 111 KB

MultiQC in Galaxy after quality control

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image1485×638 58.8 KB

Here is the taxa bar plot

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I use the same SILVA database and closed reference at 90%

So here are my questions:

  1. I assume that I can apply the same method of BLAST and filtering data to eliminate the "d__Bacteria;__"?
  2. All of the samples are soil rhizosphere sample, is it normal have almost 90% of d__Bacteria;p__Proteobacteria? I look at some other literatures that using the same kind of sample, it have a huge portion of proteobacteria, but as high as mine. Somehow I am not very confident with my data.
  3. As I have a huge numbers of sequence to be BLAST manually, is there any way to run BLAST for all the "d__Bacteria;__" in one time?

Thanks a lot