Combine multilple genome to one genome
0
0
Entering edit mode
7.9 years ago
l0o0 ▴ 220

I have a question about how to combine multiple genomes from different rice species to one genome. These rice species have close genetic relationship. I knon this question sounds weird, but I really want to find ways to combine these genomes.

At first glance of this question, I will blast A genome sequence with B genome. According the blast result, the unmatch sequence may be different with B genome and insert these unmatch sequences in A genome. But I don't know the insert position. This is a simple idea in my mind now. I would be very grateful if you can give me some suggestions.

genome • 2.1k views
ADD COMMENT
2
Entering edit mode

I have just one question: Why?

ADD REPLY
0
Entering edit mode

Now I have 5 genomes from different rice specie. If there would be a combination of genome, it will easy and fast to find some interesting region. It is just a lazy way.

ADD REPLY
0
Entering edit mode

No, it's an indication that to make a job technically "easier", the bigger picture has been forgotten. I don't think this is a valid approach.

ADD REPLY
0
Entering edit mode

There may be other, simpler ways to approach the question you're interested in. For evolutionary studies, you may want to consider reconstructing an ancestral genome. Otherwise, to combine genomes, I think the genome graph representation would be the best approach.

ADD REPLY
0
Entering edit mode

Thank you for your advice, I will find some resources about genome graph representation.

ADD REPLY
0
Entering edit mode

Would a multiple sequence alignment make sense, followed by calling consensus?

ADD REPLY
0
Entering edit mode

Yes, I will try to make a genome consensus sequence by alignments ;)

ADD REPLY

Login before adding your answer.

Traffic: 1305 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6