STATEMENT OF WORK.docx
DOCX document 33 KB Posted
- Attached to
- Sequencing Services for Soybean Samples Federal contract opportunity
- Solicitation number
- 1116725-SS
About this file
This statement of work and sources sought notice outline requirements for sequencing services for 440 soybean samples to support genetic research. The United States Department of Agriculture Agricultural Research Service seeks a contractor to provide whole genome sequencing of at least 20x coverage and variant calling for each sample, with a minimum data output of 20 gigabytes per sample and 85% or higher quality scores. The resulting sequence data will enable analysis of genes related to crop traits such as disease resistance, yield, and nutrition. Responses to the sources sought notice are due by January 19, 2023 and must demonstrate the ability to meet requirements within 60 working days of sample receipt and quality control. Interested parties should identify as a large or small business and provide contact information in their response via email.
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Text version
STATEMENT OF WORK (SERVICES) (SOW)
GENERAL INFORMATIONTitle of Project:
Characterization and Utilization of Genetic Diversity in Soybean and Common Bean and Management and Utilization of the National Rhizobium Genetic Resource Collection.
Statement of Need and Purpose:
The purpose of this request is to purchase sequencing services which will be used to help facilitate further genotyping of soybean and common bean populations and breeding lines created by soybean and common bean collaborators and our lab for the purposes to map genes/genomic regions controlling protein and oil content and to characterize breeding lines.
Background Information and Objective:
Soybean and common bean are among the most important crops in the U.S., with an annual value of $34 and $2 billion, respectively. These crops are important sources of protein for animal feed or human food. Soybean is also an important source of oil and a top U.S. export commodity. To cope with biotic and abiotic stress that cause >20% yield loss and demands for enhanced quality, breeders need to discover genes from new resources and develop approaches to accelerate the breeding processes. Molecular genotyping and sequencing of populations and individuals is critical to determine the novelty and positions of genes in the genome and assist selection. This research and goals are relevant to the NP301 Action Plan, Component 1. Crop Genetic Improvement; Problem Statement 1A: Trait discovery, analysis, and superior breeding methods.
Period of Performance:
Work must be done within 60 working days after receiving and QC of samples. The vendor shall delivery the assays electronically as a compressed file in “.tar” format.
SCOPE OF WORKGeneral Requirements:
Sequencing of our 440 soybean samples must have a minimum of 20 Gb of data for each sample, which is about 20x coverage of the WGS, SNP + InDel + SV calls among all samples, i.e by aligning the WGS of each sample to the reference genome individually, then combine all the aligned file to call variants, guarantee library preparation, and data quality (Q30 for ≥ 85%) for each sample that passes QC. These sequences will allow us to detect genes or other genetic factors that control resistance to disease and insects, productivity and the nutritional quality of soybean. Work must be done within 60 working days after receiving and QC of samples.
Specific Requirements:
None
LEVEL OF EFFORT:
n/a
GOVERNMENT RESPONSIBILITIES
n/a
DELIVERY OR DELIVERABLES
Assays and related reagents
REPORTING REQUIREMENTS
n/a.
OTHER CONSIDERATIONS
Data Rights:
If applies ADD Section 508—Electronic and Information Technology Standards:
n/a
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