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Analysis of 454 sequences of honey bee pathogens

I am learning bioinformatics; I have 454 sequences which I dont know how to interpret/understand/analyse, please help.

I used RNA from adult bees and brood to detect the pathogens circulating in honey bee colonies, used GS FLX.

How do I post an example of my sequence?

next-gen
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updated by Ram Ram • written by ironya2000 • ironya2000

Can you edit post with example of your data?

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written by PoGibas PoGibas

1 answer

You haven't said what type of data/experiment you've done, but I think you might have microbial amplicon seq. If that's the case you should check out qiime: http://qiime.org/tutorials/tutorial.html

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updated by Ram Ram • written by Daniel Daniel

I extracted RNA from bee brood and adult bees, did cDNA sythesis using superscript II and converted cDNA to DsDNA using Klenow reaction, then did amplification, GS FLX Titanium sequencing, got resultant sequences.

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written by ironya2000 • ironya2000

Then the simplest/quickest thing to do is to map your 454 reads to known honeybee parasite genomes sequenced to date.

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written by Adrian Pelin Adrian Pelin

Thanks, sorry for bothering you, this is a grey area to me, please assist me on how to do mapping.

since there are more that one pathogen identified, how do I pick the refernce sequences?

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written by ironya2000 • ironya2000

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