C04a Specification Document 1232SA26Q0504.pdf

Specification Document

Project: Purchase reagents to sequence 116 cattle samples using 10X Genomics single cell platform

GENERAL INFORMATION

1.0 Background:

USDA ARS NEA BARC AGIL collected ~2000 samples from cattle with various phenotypes and genotypes. USDA ARS Dairy Forage Research Center (DFRC at 1925

Linden Dr, Madison, Wisconsin 53706, United States) will perform single-cell or single-nucleus profiling across cattle samples. Samples will be processed using single-nucleus Multiome (n=36), single-microbiome RNA-seq (smRNA-seq n=32), and 5’ single-cell gene expression (scRNA-seq) with BCR/TCR repertoire enrichment (n=48) to characterize gene regulation, chromatin accessibility, and adaptive immune diversity in cattle. Single-cell omics analyses of cattle samples are critical for advancing germplasm conservation, functional genomics, and national livestock improvement programs.

2.0 Objectives:

Purchase reagents to sequence 116 cattle samples using 10X Genomics single cell platform

3.0 Scope:

This request is supply only purchase, including reagents and kits required for planned workflows.

4.0 Technical Requirements/Tasks:

The contractor must provide the following:

A. For single-nucleus Multiome workflow for 36 samples:

1 x Single Index Kit N Set A, 1 xGEM-X Epi Multiome, 4 samples;

2 x GEM-X Epi Multiome, 16 samples;

3 x GEM-X Epi multiome Chip Kit, 4 chips

B. For single-cell microbiome RNAseq adaptable to BacDrop bacterial applications:

2 x Chromium Next GEM Single Cell ATAC Kit v2, 16 rxns;

2 x Chromium Next GEM Chip H Single Cell Kit, 48 rxns;

C. For 5’ single-cell gene expression with BCR/TCR repertoire enrichment (n=48):

3 x GEM-X Universal 5' Gene Expression v3 4-plex (16 samples).

3 x GEM-X Universal 5' Gene

1 x Dual Index Kit TT Set A, 96 rxn.

5.0 Deliverables or Delivery Schedule

The contractor performs the delivery. The service will ensure the instrument operates at the original, factory level performance.

6.0 Government Furnished: Government will receive the reagents and kits and review the integrity of the delivered products. The facility is located at 1925 Linden Dr.

Madison, WI. It is open Monday-Friday, from 8-4PM.

7.0 Deliverables / Schedule:

All reagents must be delivered before Sept 30, 2026.

8.0 Travel: If travel is required for the service repair, the contractor will be responsible for all the travel expenses.

9.0 Place of performance: These samples will be processed in USDA ARS Dairy

Forage Research Center (DFRC) from Sept 30, 2026, to September 29, 2027. All library preparation and downstream analyses will be performed internally at USDA ARS facilities.

10.0 Key Personnel Requirement: NA

11.0 Security Requirements: NA

12.0 Data Rights: NA

10.0 Section 508 – Electronic and Information Technology Standards: NA

Attachment: NA