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Taxonomic annotation errors incorrectly assign the family Pseudoalteromonadaceae to the order Vibrionales in Greengenes: Implications for microbial community assessments

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RT @BlakeStamps: https://t.co/ZGWmw4QjOv
RT @BlakeStamps: https://t.co/ZGWmw4QjOv
RT @BlakeStamps: https://t.co/ZGWmw4QjOv
https://t.co/ZGWmw4QjOv
192 days ago
RT @SciKeri: Very important for microbial ecology studies!! We analyzed how widespread these errors may have impacted #vibrio research. htt…
RT @SciKeri: Very important for microbial ecology studies!! We analyzed how widespread these errors may have impacted #vibrio research. htt…
RT @SciKeri: Very important for microbial ecology studies!! We analyzed how widespread these errors may have impacted #vibrio research. htt…
Very important for microbial ecology studies!! We analyzed how widespread these errors may have impacted #vibrio research. https://t.co/4CxdYNXoAE via @PeerJPreprints https://t.co/Rp3FWq6rXE
Hmm, another nail in the coffin of the greengenes database? I think the problem might be more widespread than stated though, as #Qiime uses greengenes taxonomy, even when you use the RDP classifier, which many don't realise. https://t.co/uG9n2dM9at
Check out my first preprint! “Taxonomic annotation errors incorrectly assign the family Pseudoalteromonadaceae to the order Vibrionales in Greengenes: Implications for microbial community assessments” #microbiology #vibrio @PeerJPreprints https://t.co/xSCV0YEwIO
200 days ago
Taxonomic annotation errors incorrectly assign the family Pseudoalteromonadaceae to the order Vibrionales in Greengenes: Implications for microbial community assessments https://t.co/EQX9mZy7A9
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Supplemental Information

Sequence search results in NCBI, RDP, and SILVA for all representative sequences in Greengenes 13_8 labeled within the family Pseudoalteromonadaceae

Tab 1 provides a summary of each Greengenes representative sequence and provides the taxonomic identities for search using NCBI, RDP, and SILVA. The other tabs indicate the raw data search results that are summarized in the first tab.

DOI: 10.7287/peerj.preprints.26824v1/supp-1

Additional Information

Competing Interests

The authors declare that they have no competing interests.

Author Contributions

Keri A Lydon conceived and designed the experiments, performed the experiments, analyzed the data, prepared figures and/or tables, authored or reviewed drafts of the paper, approved the final draft.

Erin K Lipp conceived and designed the experiments, performed the experiments, analyzed the data, prepared figures and/or tables, authored or reviewed drafts of the paper, approved the final draft.

Data Deposition

The following information was supplied regarding data availability:

N/A

Funding

This work was supported by NSF grant OCE-1357423 (to E.K.L). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.


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