Published September 29, 2023 | Version 1.0.0
Dataset Open

16S V4-V4 taxonomy classifier

Creators

  • 1. University of New Hampshire
  • 2. Northern Gulf Institute and NOAA AOML

Description

16S metabarcoding databases and naive-bayes classifier specific to the V4-V5 region. Built from the Silva 138.1 SSU Ref NR 99 database using Qiime2 (version 2021.2).

Primers used:

EMP 16S 515f: GTGYCAGCMGCCGCGGTAA

EMP 16S 926r: CCGYCAATTYMTTTRAGTTT

File description
File Description
silva-138-99-seqs.qza Full length Silva 138.1 SSU 99 sequences
silva-138-99-tax.qza Taxa for full length Silva 138.1 SSU 99 database
refseqs_V4-V5.qza Sequences for 16S V4-V5 (primers 515f, 926r), extracted from Silva 138.1 SSU 99, generated by qiime2-2021.2 (forward compatible)
classifier_V4-V5.qza Unweighted (uniform) naive-bayes classifier for 16S V4-V5 (primers 515f, 926r) extracted from Silva 138.1 SSU 99, generated by qiime2-2021.2 
 

Notes

"This work was supported by award 21392 to the Northern Gulf Institute from NOAA/OAR Ocean Acidification Program."

Files

Files (266.3 MB)

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md5:6efa6a3be132e928524fa0d317161995
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md5:fbb7ab003ef4ada9e263367d1f30e640
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md5:de8886bb2c059b1e8752255d271f3010
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md5:f12d5b78bf4b1519721fe52803581c3d
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Additional details

References

  • Quast C, Pruesse E, Yilmaz P, Gerken J, Schweer T, Yarza P, Peplies J, Glöckner FO (2013) The SILVA ribosomal RNA gene database project: improved data processing and web-based tools. Nucl. Acids Res. 41 (D1): D590-D596.
  • Yilmaz P, Parfrey LW, Yarza P, Gerken J, Pruesse E, Quast C, Schweer T, Peplies J, Ludwig W, Glöckner FO (2014) The SILVA and "All-species Living Tree Project (LTP)" taxonomic frameworks. Nucl. Acids Res. 42:D643-D648
  • Bokulich NA, Kaehler BD, Rideout JR, Dillon M, Bolyen E, Knight R, Huttley GA, Caporaso JG. 2018. Optimizing taxonomic classification of marker gene sequences. Microbiome 6(1): 90. doi: https://doi.org/10.1186/s40168-018-0470-z.