B08.03 W9132T24Q0037 Amendment 0001.pdf

W81EWF41430334

AMENDMENT OF SOLICITATION/MODIFICATION OF CONTRACT

Except as provided herein, all terms and conditions of the document referenced in Item 9A or 10A, as heretofore changed, remains unchanged and in full force and effect.

15A. NAME AND TITLE OF SIGNER (Type or print)

30-105-04EXCEPTION TO SF 30

APPROVED BY OIRM 11-84

STANDARD FORM 30 (Rev. 10-83) Prescribed by GSA

FAR (48 CFR) 53.243

Update to requirements in Sections C.3.b & C.3.c. based on questions from interested vendors Section 8.a. extension of offer due date and time

1. CONTRACT ID CODE PAGE OF PAGES

J 1 5

16A. NAME AND TITLE OF CONTRACTING OFFICER (Type or print)

16C. DATE SIGNED

BY 01-Aug-2024

16B. UNITED STATES OF AMERICA15C. DATE SIGNED15B. CONTRACTOR/OFFEROR

(Signature of Contracting Officer)(Signature of person authorized to sign)

8. NAME AND ADDRESS OF CONTRACTOR (No., Street , County, State and Zip Code) X W9132T24Q0037

X 9B. DATED (SEE ITEM 11)

25-Jul-2024

10B. DATED (SEE ITEM 13)

9A. AMENDMENT OF SOLICITATION NO.

11. THIS ITEM ONLY APPLIES TO AMENDMENTS OF SOLICITATIONS

X The above numbered solicitation is amended as set forth in Item 14. The hour and date specified for receipt of Offer X is extended, is not extended.

Offer must acknowledge receipt of this amendment prior to the hour and date specified in the solicitation or as amended by one of the following methods:

(a) By completing Items 8 and 15, and returning 1 copies of the amendment; (b) By acknowledging receipt of this amendment on each copy of the offer submitted;

or (c) By separate letter or telegram which includes a reference to the solicitation and amendment numbers. FAILURE OF YOUR ACKNOWLEDGMENT TO BE RECEIVED AT THE PLACE DESIGNATED FOR THE RECEIPT OF OFFERS PRIOR TO THE HOUR AND DATE SPECIFIED MAY RESULT IN

REJECTION OF YOUR OFFER. If by virtue of this amendment you desire to change an offer already submitted, such change may be made by telegram or letter, provided each telegram or letter makes reference to the solicitation and this amendment, and is received prior to the opening hour and date specified.

12. ACCOUNTING AND APPROPRIATION DATA (If required)

13. THIS ITEM APPLIES ONLY TO MODIFICATIONS OF CONTRACTS/ORDERS.

IT MODIFIES THE CONTRACT/ORDER NO. AS DESCRIBED IN ITEM 14.

A. THIS CHANGE ORDER IS ISSUED PURSUANT TO: (Specify authority) THE CHANGES SET FORTH IN ITEM 14 ARE MADE IN THE

CONTRACT ORDER NO. IN ITEM 10A.

B. THE ABOVE NUMBERED CONTRACT/ORDER IS MODIFIED TO REFLECT THE ADMINISTRATIVE CHANGES (such as changes in paying office, appropriation date, etc.) SET FORTH IN ITEM 14, PURSUANT TO THE AUTHORITY OF FAR 43.103(B).

C. THIS SUPPLEMENTAL AGREEMENT IS ENTERED INTO PURSUANT TO AUTHORITY OF:

D. OTHER (Specify type of modification and authority)

E. IMPORTANT: Contractor is not, is required to sign this document and return copies to the issuing office.

14. DESCRIPTION OF AMENDMENT/MODIFICATION (Organized by UCF section headings, including solicitation/contract subject matter where feasible.)

10A. MOD. OF CONTRACT/ORDER NO.

2. AMENDMENT/MODIFICATION NO. 5. PROJECT NO.(If applicable)

6. ISSUED BY

3. EFFECTIVE DATE

01-Aug-2024

CODE

ERDC CONTRACTING OFFICE

CHAMPAIGN OFFICE

P O BOX 9005

CHAMPAIGN IL 61826-9005

W9132T 7. ADMINISTERED BY (If other than item 6)

4. REQUISITION/PURCHASE REQ. NO.

CODE

See Item 6

FACILITY CODECODE

EMAIL:TEL:

W9132T24Q0037

SECTION SF 30 BLOCK 14 CONTINUATION PAGE

SUMMARY OF CHANGES

SECTION A - SOLICITATION/CONTRACT FORM

The required response date/time has changed from 05-Aug-2024 11:59 AM to 07-Aug-2024 11:59 AM.

SECTION C - DESCRIPTIONS AND SPECIFICATIONS

The following have been modified:

PERFORMANCE WORK STATEMENT

PERFORMANCE WORK STATEMENT (PWS)

Lichen RNA Extraction, Sequencing, and Bioinformatic Analysis

C.1. INTRODUCTION: The Engineer Research and Development Center – Construction Engineering Research Laboratory (ERDC-CERL) has been funded by the Army Basic Research Program to understand how lichens possess the genetic machinery to confer adaptations to survive extreme environments. To conduct this research, we have collected lichens adapted to specific stress tolerances. To identify genetic mechanisms of environmental stress tolerance, these lichens and their component parts will be subjected to gradients of UV and pH exposure, following which they will be subjected to analyses to determine which genes are differentially expressed in response to these stressors.

C.2. OBJECTIVE: The objective of this effort is to identify lichen mycobiont and photobiont genes that are differentially expressed in response to specific environmental stressors that they will be subjected to in laboratory conditions.

C.3. MAJOR REQUIREMENTS: In order to accomplish the above objective, the Contractor shall complete the following tasks:

C.3.a. Task 1. Transport of Biological Samples. The contractor shall ensure successful transport of irreplaceable samples to the contractor’s facility under conditions that will preserve RNA integrity, including next-day shipping on dry ice with updates on shipping status, confirmation of samples received, and estimated sequencing timeframe communicated back to ERDC-CERL upon receipt of samples.

C.3.b. Task 2. RNA Extraction and Library Preparation. The contractor shall extract high-quality RNA from 72 lichen algal biont tissue samples and assess the quality of the RNA (e.g., purity, fragment size) using appropriate methods for subsequent RNA-seq. These samples will be pure cultures, not microbial communities, so transcriptopmics (vs. metatranscriptomics) shall be appropriate. The contractor shall prepare RNA-seq libraries from PolyA selected RNA and provide a report detailing all quality control procedures and results. The per million read data requirement per library is sufficient at 50 million reads per sample. Extracted RNA shall be stored at -80C immediately following extraction and until sequencing;

all samples shall be extracted and sequenced as a single batch.

C.3.c. Task 3. RNA Sequencing. The contractor shall sequence RNA libraries from Task 2 using Illumina NovaSeq X platform with the 10B flowcell, paired-reads, and 2x150 bp reagent chemistry, following additional preparatory steps, e.g., titration. All resulting sequencing reads shall be demultiplexed by the contractor and provided to ERDC-CERL with a report detailing results (general statistics, read counts, quality scores, read lengths, adapter content, etc.). The 72 samples shall be spread across one (1) full 10B flow cell dedicated to the project, however it is not required to generate the total reads (20 billion) that this sequencing technology is capable of.

C.3.d. Task 4. Bioinformatic Analysis. The contractor shall perform necessary adapter and quality trimming on sequencing reads generated in Task 3, followed by alignment to functionally annotated genomes (previously annotated using MAKER or Braker2 algorithms) provided by ERDC-CERL researchers. Alignment shall be performed using STAR and shall be followed by gene counting and salmon transcript quantification. The contractor shall then perform a statistical analysis of RNA-seq data to include quality control, normalization, and statistical testing for differentially expressed genes. All data produced and a report detailing the procedures and outcomes of each step in the process shall be provided to ERDC-CERL researchers.

C.3.e. Task 5. Troubleshooting. The contractor shall provide an interpretation and/or potential explanation for any sub-optimal results of any of the above tasks. Any such issues and their potential remedies shall be discussed with ERDC-CERL researchers via e-mail, phone, web conference, or in-person meetings.

C.4. GOVERNMENT-FURNISHED SUPPORT/INFORMATION/PROPERTY: The government will provide 72 biological samples (lichen biont tissues) to be processed by the contractors. To ensure the contractor has sufficient time to complete the requirements before the end of the period of performance, all samples will be provided within the first two months of the period of performance; samples may be provided in multiple batches over the course of the first two months or as one single batch, as determined by technical details (e.g., growth of biological samples to sufficient biomass) and discussions with the contractor.

Additionally, the project team members will be available to discuss any questions or needs that arise in the course of the analysis.

C.5 CONTRACTING OFFICER’S REPRESENTATIVE (COR): The ERDC CERL COR for this task order will be appointed in accordance with DFARS 252.201-7000, and a copy of the designation letter will be provided to the Contractor. Although other Government personnel may clarify technical points or supply relevant information to the Contractor regarding this task order, only a Contracting Officer has the authority to revise any requirements in these specifications, including those resulting from verbal clarification. Only a warranted Contracting Officer (either a Procuring Contracting Officer (PCO), or an Administrative Contracting Officer (ACO)), acting within their delegated limits, has the authority to issue modifications or otherwise change the terms and conditions of this contract. If an individual other than the Contracting Officer attempts to make changes to the terms and conditions of this contract, you shall not proceed with the change and shall immediately notify the Contracting Officer.

C.6. NON-PERSONAL SERVICES: The Government and the Contractor hereby understand and agree that the services to be delivered under this contract by the Contractor to the Government are non-personal services, and the parties recognize and agree that no employer-employee or master-servant relationships exist or will exist under this contract between the Government and the contractor's employees.

C.7. MEETINGS AND REVIEWS: The contractor shall attend the following:

a. A kick-off meeting, either in-person, web conference, or via telephone, shall be held no later than 30 working days after award.

b. Additional meetings and periodic communication as necessary to address any issues that may arise and to coordinate delivery of samples, reports, etc.

C.8. TRAVEL REQUIREMENTS: None

C.9. REPORTS/DELIVERABLES: The Contractor shall submit the following reports/deliverables to the

ERDC-CERL COR:

C.9.a. Data Report- A draft report describing all procedures completed in Tasks 1-5, their outcomes, and explanations for any suboptimal outcomes, shall be provided to the COR via email NLT the end of 5th month of the contract. This report shall be accompanied by all data generated in Tasks 1-5 for all 72 samples provided. The COR will review and provide comments, if any, within 2 weeks of receipt. The contract shall then provide a final version incorporating COR review comments no later than the end of the period of service.

C.10. PERIOD OF SERVICE: All work to be performed shall be completed no later than six (6) months after award.

C.11 PERFORMANCE REQURIEMENTS SUMMARY TABLE

REQUIREMENT

PARAGRAPH

NUMBER

STANDARD

MAX

ALLOWABLE

DEGREE OF

DEVIATION

FROM THE

STANDARD

METHOD OF

SURVEILLANCE

REMEDY FOR

NON

CONFORMANCE

DRAFT AND

FINAL DATA

REPORT

C.9.a

1) Submit by required deadline

2) will serve as a permanent record of the work accomplished under the contract. It will contain detail of all achievements made, any problems encountered, and the resolutions to those problems throughout the period of service

0%

REVIEW BY

COR

RE-

PERFORMANCE

/ NON

PAYMENT OF

FINAL INVOICE

(End of Summary of Changes)