Question

Best reference database for 16S soil datasets?

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7.7 years ago

Lina F ▴ 200

Hi all,

I came across some interesting 16S datasets from soil. Can anyone recommend a good reference database? RDP vs Silva? The Greengenes webpage highlights the update from May 2013... so maybe a bit outdated.

Thanks for your suggestions!

metagenomics soil reference 16S • 2.5k views

ADD COMMENT • link updated 7.7 years ago by Denise CS ★ 5.2k • written 7.7 years ago by Lina F ▴ 200

score 1 · Answer 1 · 2017-03-28

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7.7 years ago

5heikki 11k

RDP and Silva are both fine. Silva is more restrictive in terms of its licence but it's fine for academic use..

ADD COMMENT • link 7.7 years ago by 5heikki 11k

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Great, I appreciate the input!!

ADD REPLY • link 7.7 years ago by Lina F ▴ 200

score 0 · Answer 2 · 2017-03-29

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7.7 years ago

Denise CS ★ 5.2k

May be worth throwing the EMBL-EBI metagenomics in the comparison mix. No issues with license.

ADD COMMENT • link 7.7 years ago by Denise CS ★ 5.2k

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Thanks for the link! However, these look like metagenomics samples, not necessarily reference databases for use in annotation taxonomies, or am I missing something?

ADD REPLY • link 7.7 years ago by Lina F ▴ 200