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Table 6 Comparative diversity analysis

From: Estimation of bacterial diversity using next generation sequencing of 16S rDNA: a comparison of different workflows

 

Control

GTZ

Glyphosate

 

t1

t2

t1

t2

t1

t2

CROP

812

286

414

625

454

477

ESPRIT

1631

1053

1227

922

1951

1102

MAFFT+JC

1936

1087

1025

975

1977

1088

MAFFT+MAFFT

2792

1588

1971

1329

3296

1577

MAFFT+Mothur

2112

1215

1655

1163

2646

1326

Mothur+JC

3464

1622

3842

823

5024

1090

Mothur+MAFFT

2789

1589

1969

1328

3323

1574

Mothur+Mothur

1730

1128

1310

982

2122

1209

Mothur+PreC+JC

2479

1460

1958

826

3134

1498

Mothur+PreC+MAFFT

2471

1459

1961

1252

3135

1495

Mothur+PreC+Mothur

2063

1143

1890

1010

2516

1221

MUSCLE+JC

1762

1247

1257

950

2020

1238

MUSCLE+MAFFT

2790

1587

1970

1330

3296

1577

MUSCLE+Mothur

2278

1352

1800

1059

2772

1477

Otupipe

1314

881

938

795

1428

948

RDP

1762

1106

1236

901

1932

1094

  1. OTUs observed with each of the workflows analysed. For simplicity, only results at 3% dissimilarity are shown from pooled samples collected at two different times from control, GTZ and glyphosate treated soils [32]. Full data at 3, 5 and 10% is provided in the comprehensive OTU results table of the Additional file 1, Tables S1.1, S1.2 and S1.3.
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BMC Bioinformatics

ISSN: 1471-2105

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