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Table 1 The taxonomic classification for 16S rRNA gene sequences improves with the addition of custom databases

From: The effect of training set on the classification of honey bee gut microbiota using the Naïve Bayesian Classifier

Taxonomic Level

Congruent Classifications (No. sequences)

Incongruent across all three training sets

Congruent Classifications with HBDB

Kingdom

4,480

0

4,480

Phylum

4,465

0

4,478

Class

4,453

4

4,479

Order

2,579

1,335

4,669

Family

1,870

2,784

4,216

Genus

595

2,552

--*

  1. *HBDB sequences were not taxonomically assigned to genus so this level of taxonomic classification was excluded.
  2. The number of 16S rRNA gene sequences from honey bee guts with identical or completely divergent classifications across three widely used training sets (RDP, Greengenes, SILVA) is shown. As the taxonomic levels become more fine, there is an increase in the discordance/errors in taxonomic placement across all three datasets. The addition of honey bee specific sequences greatly improves the congruence across all datasets (last column).
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BMC Microbiology

ISSN: 1471-2180

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