The Invitrogen™ PureLink™ Microbiome DNA Purification Kit enables rapid isolation of high-quality microbial and host DNA from a wide variety of sample types, including challenging samples such as stool and soil. The kit uses proven PureLink spin column technology for robust yields of purified DNA from bacteria or fungi, ready for downstream applications such as PCR and sequencing. The highly efficient triple-lysis approach, fast removal of inhibitors, and versatility of this DNA extraction procedure make it the ultimate kit for microbiome research projects as well as programs aimed at rapid detection of pathogenic bacteria in various samples.


The PureLink Microbiome DNA Purification Kit offers:

  • Efficient lysis of all microorganisms (including durable species with thick and complex cell walls) by a combination of heat, chemical, and mechanical disruption with specialized beads
  • Elimination of inhibitory compounds by precipitation using a novel cleanup buffer
  • Streamlined protocols for a variety of biological samples
  • Recovery of highly pure DNA compatible with PCR, sequencing, and many other types of downstream analysis

One kit to isolate microbial and host DNA from a diversity of sample types

The PureLink Microbiome DNA Purification Kit eliminates the need to order “specialized” kits because it has been optimized for use with a wide range of biological samples. This versatile kit enables microbial (and host, where applicable) DNA purification from the following samples:

  • Stool
  • Urine
  • Saliva
  • Soil
  • Swabs (vaginal, buccal, skin, rectal, environmental)
  • Transport media
  • Growth media

Video: How to purify microbial and host DNA from stool samples
Learn how to isolate microbial DNA that accurately reflects the diverse microbes in the community sampled. This video will provide an outline of stool microbial DNA isolation, plus some tips and tricks. In addition to stool, the PureLink™ Microbiome DNA Purification Kit can be used to isolate DNA from urine, saliva, swabs, transport media, microbial culture, and soil.

View all PureLink Microbiome DNA Purification Kit product user guides

Video: Bringing bacteria out of hiding: Understanding the microbiome.
Dr. Watts, the co-director of the Genomics Shared Service at the University of Arizona Cancer Center, focuses on understanding the human microbiome and its role in disease onset and progression. In particular, they are employing 16S RNA sequencing to help correctly identify all of the bacteria present in individuals with diabetic foot ulcers.

Supporting experimental data

Figure 1. Purification of microbial and host DNA from human stool. DNA was isolated from 0.2 g stool samples (in triplicate) obtained from three donors (D1–D3) with the PureLink™ Microbiome DNA Purification Kit (PL) and a leading competitor kit (MB). 

(A) Concentration of DNA as measured by a Thermo Scientific™ NanoDrop™ spectrophotometer and Invitrogen™ Qubit™ fluorometer, and DNA purity (A260/A230, A260/A280). Elution volume: 100 µL for both kits. The PureLink kit recovered 2–5 times more DNA than the competitor kit. 

(B) Analysis of DNA on a 0.8% agarose gel. M: 1 kb ladder. The PureLink kit recovered a substantially larger amount of DNA, of high integrity, than the competitor kit. 

(C) qPCR analysis of three bacterial targets—Bifidobacterium, E. coli, and Bacteroides/Prevotella—with corresponding Applied Biosystems™ TaqMan™ assays. The samples produced with the PureLink kit had lower threshold cycles (Ct) than those produced with the competitor kit, indicating better PCR amplification. Both a higher amount of DNA template and lower levels of inhibitors contribute to the efficiency of PCR amplification.


Figure 2. Purification of bacterial DNA from culture media. E. coli DNA was isolated from 0.2, 0.4, and 1 mL culture samples (in triplicate) with the PureLink™ Microbiome DNA Purification Kit. 

(A)  Concentrations of DNA as measured by a Thermo Scientific™ NanoDrop™ spectrophotometer (blue bars) and Invitrogen™ Qubit™ fluorometer (red bars) are shown. For all preparations DNA was highly pure: A260/A280 = 1.9, A260/A230 = 2.1–2.3.

(B)  qPCR analysis with an E. coli–specific TaqMan™ assay. Threshold cycles (Ct) are displayed for isolations performed with three sample input volumes.

For Research Use Only. Not for use in diagnostic procedures.