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Table 3 Number of inferred OTUs using oclust PW on PacBio CCS and MiSeq reads

From: Improved OTU-picking using long-read 16S rRNA gene amplicon sequencing and generic hierarchical clustering

 

PacBio CCS reads

MiSeq 2 × 250 bp reads (full)

MiSeq 2 × 250 bp reads (sub-sampled)a

Similarity threshold (%)

# OTUs (≥1 reads)b

# OTUs (≥10 reads)

# OTUs (≥1 reads)b

# OTUs (≥10 reads)

# OTUs (≥1 reads)b

# OTUs (≥10 reads)

1

4569 (3103)

237

11,362 (3634)

106

6636 (2412)

25

2

2282 (922)

171

6604 (725)

304

3938 (514)

103

3

1109 (237)

187

3397 (180)

1223

2056 (128)

616

4

532 (73)

186

1502 (62)

948

967 (50)

557

5

271 (22)

141

567 (25)

371

388 (23)

224

6

131 (9)

88

240 (12)

154

167 (11)

93

  1. aSequencing reads were sub-sampled to the same number of reads as PacBio CCS reads (n = 15,959)
  2. bNumber of singleton OTUs is specified within parenthesis
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Microbiome

ISSN: 2049-2618

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