I'm relatively new to the field of microbiome research and could use some guidance regarding a general question I have. I have a set of 15 samples consisting of pure bacteria sequences along a quality average score and length of contig for each sample sequence, and I'm interested in determining their respective phyla. I was wondering if someone could provide insight into the appropriate analysis and methods to accomplish this. Additionally, I would like to know if Qiime is a suitable tool for this task.
Any help or suggestions would be greatly appreciated!
Thank you in advance.
what type of bacterial sequences do you have? Is it shotgun or amplicon sequencing?
Hello, Soxs genes of E coli.
I was chatting with Chloe about this. I'm a little confused about your goals here. Can you tell us more?
This sounds cool!
Because you are working with bacterial isolates, it should be easy to do genomic sequencing and then assemble these into genomes with either shotgun or long-read sequencing. Or both!
How did you pick out this gene? Is there a paper you can share with us?
This is data from our lab (I am given) and I am sorry I dont have any paper to share.
I understand. I have also been given many old data sets and ask to help process them.
Do you know why they chose the E. coli Soxs genes to amplify and sequence?
Thanks for your time. Now it is clear that they only need a simple blast search and allignment to compare all together.
Thanks and Best Regards,
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