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Sequencing of Cecal Content Samples for Shotgun Metagenome Analysis Tender, USA - 99207290

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AGRICULTURE, DEPARTMENT OF has floated a tender for Sequencing of Cecal Content Samples for Shotgun Metagenome Analysis. The project location is USA and the tender is closing on 01 Apr 2024. The tender notice number is 1121730-SS, while the TOT Ref Number is 99207290. Bidders can have further information about the Tender and can request the complete Tender document by Registering on the site.

Procurement Summary

Country : USA

Summary : Sequencing of Cecal Content Samples for Shotgun Metagenome Analysis

Deadline : 01 Apr 2024

Other Information

Notice Type : Tender

TOT Ref.No.: 99207290

Document Ref. No. : 1121730-SS

Competition : ICB

Financier : Self Financed

Purchaser Ownership : Public

Tender Value : Refer Document

Purchaser's Detail

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Tender Details

Description

Sources Sought #1121730-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 Diet Genomics and Immunology Laboratory (DGIL) at Beltsville Human Nutrition Center (BHNRC) in Maryland requires whole-genome shotgun sequencing services for 137 intestinal content samples and short chain fatty acid (SCFA) determination in 94 of these samples.

Requirements

The requirement is to generate Shotgun metagenomic sequencing using libraries derived from intestinal contents DNA and bioinformatic report that includes quantification of microbes and associated functions. In addition, determination of SCFA concentration is also required for part of the same intestinal content samples used for sequencing.

The contractor will perform DNA extraction and library preparation for 137 intestinal content samples providing quality control data. Sequencing of libraries will be performed using Illumina platform with 2 x150 base pair-end reads and the Illumina Novaseq2 instrument for whole-genome shotgun sequencing with a mean depth of at least 9 million sequences per sample. Contractor will process and analyze 94 intestinal content samples for measuring short chain fatty acid (SCFA) concentration including: acetic, propionic, butyric, valeric, isovaleric, caproic and heptanoic acids using Gas Chromatography with flame Ionization detector (GC-FID) instrument. Contractor will generate Bioinformatic report including microbiome analysis of alpha and beta diversity, determination of most abundant taxonomic groups as well as the functional profile in each sample using SUPERFOCUS platform and UNIREF including different gene ontologies for functional assessment.

The Contractor Shall:

This Sources Sought is only for the purpo...
Active Contract Opportunity Notice ID 1121730-SS Related Notice Department/Ind. Agency AGRICULTURE, DEPARTMENT OF Sub-tier AGRICULTURAL RESEARCH SERVICE Office USDA ARS NEA AAO ACQ/PER PROP
General Information
Contract Opportunity Type: Sources Sought (Original)
All Dates/Times are: (UTC-04:00) EASTERN STANDARD TIME, NEW YORK, USA
Original Published Date: Mar 21, 2024 03:33 pm EDT
Original Response Date: Apr 01, 2024 02:00 pm EDT
Inactive Policy: 15 days after response date
Original Inactive Date: Apr 16, 2024
Initiative: None

Classification
Original Set Aside: Total Small Business Set-Aside (FAR 19.5)
Product Service Code:
NAICS Code:
Place of Performance: Beltsville, MD USA