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Environmental Sample Preparation and Sequencing Facility

The Environmental Sample Preparation and Sequencing Facility at Argonne National Laboratory is a state-of-the-art facility for nucleic acid extraction, library preparation, and ultra-high throughput sequencing.

The ESPSF was originally established in 2007 at Argonne National Laboratory and is housed in Argonne’s Computing, Environment and Life Sciences (CELS) directorate, providing world-class computation power, software, and expertise critical to the acquisition, analysis, and interpretation of the unprecedented volume of genetic information being generated on next generation DNA sequencing platforms. The facility provides resources and services to Argonne and to the broader scientific community (both US and abroad). ESPSF is involved in a wide range of scientific research from the sequencing of metagenomic samples to both 16S and 18S rRNA amplicon sequencing for microbial community analysis, and ITS sequencing for fungal community analysis. In recent years the ESPSF has also established expertise sequencing pathogens from wastewater. The ESPSF team helps users determine the most efficient and cost effective approach to meet their research needs.

The ESPSF currently supports the Illumina NextSeq 2000 and Illumina MiSeq for high-throughput sequencing. The Illumina NextSeq 2000 offers anywhere from 100 million-1.2 billion reads at 50bp, 100bp, 150bp, or 300bp in length per read. The Illumina MiSeq generates over 24 million reads at 50bp, 150 bp, 250bp or 300bp in length per read. Applications on both the Illumina NextSeq 2000 and MiSeq include shotgun metagenome sequencing, metatranscriptome sequencing, rRNA-based amplicon library sequencing, and genome sequencing and resequencing.

Contact us to discuss which platform and sequencing depth is best suited for your project. Please email for an official quote.


Shotgun sequencing for microbial community metagenomes

  • Recommended platform: Illumina NextSeq 2000

Amplicon library sequencing

  • Recommended platform: Illumina MiSeq. Results are best when 200-600 samples are sequenced in a single pool

Amplicon library preparation  

  • Required material: 1-50ng/ul of DNA, 20ul volume in 96-well full-skirted PCR plate 

Genome sequencing

  • Recommended platform: Illumina NextSeq 2000 or Illumina MiSeq

Metatranscriptomic Sequencing

  • Recommended platform: Illumina NextSeq 2000