Illumina Genome Sequencing   2

Sources Sought #1132287-SS

This is a Sources Sought notice Only. This is NOT a solicitation for proposals, proposal abstracts, or quotations. This Sources Sought is issued for information and planning purposes only as part of USDA ARS market research and does not itself constitute an RFQ.

Background

The USDA ARS NCCCWA requires 30X coverage of whole genome sequencing of 96 DNA samples of rainbow trout (Genome size ~2.4Gb).

Contractor shall provide all services, supplies, equipment and facilities necessary to provide sequencing of 96 genomic DNA samples in accordance with the required performance elements and benchmarks.

Schedule of Line Items:

Line Item 01 96 Samples

All 96 DNA samples will be provided within 60 days after the contract is awarded.

Required performance elements and benchmarks:

Amount of DNA provided by the government per sample will be a minimum of 2,000 ng of rainbow trout genomic DNA. DNA sample quantification and QC will include Qubit and Nano Drop;

Quality check of DNA samples by vendor using Qubit or similar instruments;

Standard Illumina shotgun genomic DNA PCR-free library preparation performed by the vendor (Mean insert size shall be about 500bp);

Platform and configuration: Illumina technology, PE 150 cycles;

Read Length: 2 x 150 nucleotides (paired-end);

Data Output: A minimum of 72 Gbases output DNA sequence per sample from 480M paired-end reads (240M reads in each direction). For each read, greater than 85% of bases shall have QC 30. The output data files are in standard fastq format;

Vendor must have in place a series of quality control (QC) steps during libraries preparation and genomic DNA sequencing.

Deliverables:

Completion and return of all deliverables are required within 30 days from receipt of all 96 DNA samples. The order number shall be included on all documentation and shipments.

Includes the DNA sequencing data for all samples, and a Final Project Report describing library preparation, QC procedures and sequencing methods. All data must be provided via secure portal download OR in external hard drives to:

USDA-ARS-NCCCWA

11861 Leetown Road

Kearneysville, WV 25430

Completion and return of all deliverables is required within 30 days from receipt of all 96 DNA samples. The order number shall be included on all documentation and shipments.

The Contractor Shall:

This Sources Sought is only for the purpose of identifying potential sources as part of USDA ARS market research. The Government does not intend to make an award based on responses to this inquiry. This notice does not constitute a commitment by the Government.

Responses to the information requested will assist the Government in determining the appropriate acquisition method, including whether a set-aside is possible.

The purpose of this notice is to obtain information regarding the availability and capability of qualified sources including any Small Businesses; HUBZone small business; service-disabled, veteran-owned small business; 8(a) small business; veteran-owned small business; woman-owned small business; or small disadvantaged businesses. Please state if you are a large business or a small business according to the NAICS code listed in this Sources Sought.

All information submitted in response to this announcement is voluntary, and the Government will not pay for information requested nor will it compensate any respondent for any cost incurred in developing information provided to the Government.

Any organization responding to this notice should ensure that its response defines how it can specifically meet the specifications for the items requested. Respondents are advised that the Government is under no obligation to acknowledge receipt of the information received or provide feedback to respondents with respect to any information submitted. After reviewing the responses received, a Combined Synopsis solicitation notice may be published on Sam.gov.

Submit the Following:

• Capability Statement and/or product descriptions that demonstrate your ability to meet all of the specific requirements, including Company Contact Info.
• SAM.gov UEI Number.
• Identify if you are a large business or a small business with NACIS 541380.

Original Point of Contact: All responses to this Sources Sought Notice must be received by July 3, 2024, by 2:00 PM EST, the specified due date and time to be considered.

Email responses to Rebecca Lumpkin at Rebecca.Lumpkin@usda.gov.

Responses will not be returned. Responders are solely responsible for all expenses associated with responding to this Inquiry.

Do not submit pricing information in response to this Request.