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Table 3 Quantity and quality of DNA extracted using two DNA extraction methods

From: Optimizing 16S rRNA gene profile analysis from low biomass nasopharyngeal and induced sputum specimens

Control

DNA extraction kit

Buffer

Replicate

16S rRNA gene copy numbers (copies/ml of specimen input volume)

260/280 NanoDrop® ND-1000 ratio

Zymobiomics-Primestore-high

Kit-QS

Primestore

1

2.47E9

1.68

2

2.06E9

1.75

3

1.92E9

1.90

Kit-ZB

Primestore

1

2.14E9

2.09

2

1.99E9

1.34

3

1.61E9

1.19

Zymobiomics-Primestore-low

Kit-QS

Primestore

1

3.77E3

–

2

5.82E3

–

3

5.37E3

–

Kit-ZB

Primestore

1

2.08E5

–

2

2.72E5

–

3

3.43E5

–

Zymobiomics-STGG-high

Kit-QS

STGG

1

7.52E8

1.96

2

7.32E8

1.89

3

5.58E8

1.93

Kit-ZB

STGG

1

3.09E9

2.53

2

1.89E9

1.34

3

1.73E9

1.23

Zymobiomics-STGG-low

Kit-QS

STGG

1

2.79E5

–

2

3.58E5

–

3

5.10E5

–

Kit-ZB

STGG

1

1.89E5

–

2

2.85E5

–

3

2.76E5

–

  1. Zymobiomics-Primestore-high 900 μl of Zymobiomics-Cells suspended in 3600 μl Primestore, Zymobiomics-Primestore-low 1-in-104 fold dilution of Zymobiomics-Primestore-high, Zymobiomics-STGG-high, 900 μl of Zymobiomics-Cells suspended in 3600 μl STGG, Zymobiomics-STGG-low 1-in-104 fold dilution of Zymobiomics-STGG-high, Kit-QS DSP Virus/Pathogen Mini Kit® using QIAsymphony® SP instrument (catalogue no. 937036, Qiagen GmbH, Hilden, Germany), Kit; ZB ZymoBIOMICS DNA Miniprep Kit (catalogue no. ZR D4300, Zymo Research Corp., Irvine, CA, United States), Primestore PrimeStore® Molecular Transport medium (Longhorn Vaccines & Diagnostics Bethesda, MD, USA), STGG Storage medium containing skim milk, tryptone, glucose, and glycerine
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BMC Microbiology

ISSN: 1471-2180

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