Attachment A - Statement of Work 0001

Statement of Work – Next Generation Sequencing Services: Metagenomics, Whole Genome Sequencing, and RNA-sequencing

GENERAL INFORMATION

A. INTRODUCTION

The USGS Upper Midwest Water Science Center’s (UMid-WSC) Michigan Bacteriological Research Laboratory (MI-BaRL) conducts state-of-the-art microbiology research in association with the Great Lakes Restoration Initiative (GLRI) and USGS Programs such as the Environmental Health Program and the National Water Quality Program. The MI-BaRL needs an experienced next generation sequencing provider for metagenomics, whole genome sequencing (WGS), and whole transcriptome shotgun sequencing or RNA-sequencing (RNA-seq) services to continue to produce consistent, quality, cutting-edge science.

B. PROJECT BACKGROUND

The MI-BaRL is involved in microbial research on a variety of topics including bacterial pathogens, harmful algal blooms (HABs), microbial ecology of contaminated environments, antibiotic resistance, and microbial source tracking. Several of MI-BaRL’s research studies incorporate next-generation sequencing methods to better understand the microbial community and its response in contaminated environments and with harmful bloom formation. USGS microbiologists are incorporating metagenomic profiling (shotgun metagenomic sequencing) and/or whole genome sequencing (WGS) to address not only “who’s there?” but also what these bacteria (isolates with WGS, and communities with metagenomics) may be doing (metabolic capabilities and function). Other projects plan to use whole transcriptome shotgun sequencing or RNA-sequencing to delve deeper and assess gene regulation of key genes associated with nutrient cycling, antimicrobial resistance, pathogenicity, cell protection, and cell lysis.

C. SCOPE

Services, non-personal, to provide all equipment, labor, travel, and supplies and materials (unless otherwise provided herein) necessary to provide shotgun metagenomics sequencing, whole genome sequencing, and RNA sequencing services.

D. PROJECT SPECIFICATIONS AND ASSOCIATED COSTS

The MI-BaRL staff will be responsible for extracting DNA and RNA from all samples, quantifying DNA and RNA concentrations as appropriate, and submitting all administrative paperwork and samples to the contractor (next generation sequencing provider). The MI-BaRL has several ongoing projects that require next generation sequencing services. These projects vary with sample size, number of sequencing runs needed, and type of sequencing technology required (Illumina; AVITI;