Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
. 2023 May 12;13(5):825.
doi: 10.3390/biom13050825.

Analysis of CDR3 Sequences from T-Cell Receptor β in Acute Respiratory Distress Syndrome

Sara Hey  1 , Dayjah Whyte  1 , Minh-Chau Hoang  1 , Nick Le  1 , Joseph Natvig  1 , Claire Wingfield  1 , Charles Onyeama  2 , Judie Howrylak  3 , Inimary T Toby  1
Affiliations

Analysis of CDR3 Sequences from T-Cell Receptor β in Acute Respiratory Distress Syndrome

Sara Hey et al. Biomolecules. .

Abstract

Acute Respiratory Distress Syndrome (ARDS) is an illness that typically develops in people who are significantly ill or have serious injuries. ARDS is characterized by fluid build-up that occurs in the alveoli. T-cells are implicated as playing a role in the modulation of the aberrant response leading to excessive tissue damage and, eventually, ARDS. Complementarity Determining Region 3 (CDR3) sequences derived from T-cells are key players in the adaptive immune response. This response is governed by an elaborate specificity for distinct molecules and the ability to recognize and vigorously respond to repeated exposures to the same molecules. Most of the diversity in T-cell receptors (TCRs) is contained in the CDR3 regions of the heterodimeric cell-surface receptors. For this study, we employed the novel technology of immune sequencing to assess lung edema fluid. Our goal was to explore the landscape of CDR3 clonal sequences found within these samples. We obtained more than 3615 CDR3 sequences across samples in the study. Our data demonstrate that: (1) CDR3 sequences from lung edema fluid exhibit distinct clonal populations, and (2) CDR3 sequences can be further characterized based on biochemical features. Analysis of these CDR3 sequences offers insight into the CDR3-driven T-cell repertoire of ARDS. These findings represent the first step towards applications of this technology with these types of biological samples in the context of ARDS.

Keywords: Acute Respiratory Distress Syndrome; Complementarity Determining Region 3; T-cell receptor; biochemical properties and clonality; immune sequencing; sequence analysis.

PubMed Disclaimer

Conflict of interest statement

The authors declare no conflict of interest.

Figures

Figure 1
Figure 1
Simpson Clonality equation utilized for the calculation of clonality.
Figure 2
Figure 2
(A) CDR3 length distribution across non-ARDS samples. (B) CDR3 length distribution across ARDS samples.
Figure 3
Figure 3
CDR3 Simpson Clonality Score across all Samples.
Figure 4
Figure 4
Multiple Sequence Alignment (MSA) of shared CDR3 sequences.
See this image and copyright information in PMC

References

    1. Quintanilla E., Diwa K., Nguyen A., Vu L., Toby I.T. A Data Report on the Curation and Development of a Database of Genes for Acute Respiratory Distress Syndrome. Front. Genet. 2021;12:750568. doi: 10.3389/fgene.2021.750568. - DOI - PMC - PubMed
    1. Alberti C., Brun-Buisson C., Goodman S.V., Guidici D., Granton J., Moreno R., Smithies M., Thomas O., Artigas A., Le Gall J.R. Influence of systemic inflammatory response syndrome and sepsis on outcome of critically ill infected patients. Am. J. Respir. Crit. Care Med. 2003;168:77–84. doi: 10.1164/rccm.200208-785OC. - DOI - PubMed
    1. Katzenstein A.L., Bloor C.M., Leibow A.A. Diffuse alveolar damage--the role of oxygen, shock, and related factors. A review. Am. J. Pathol. 1976;85:209–228. - PMC - PubMed
    1. Matute-Bello G., Frevert C.W., Martin T.R. Animal models of acute lung injury. Am. J. Physiol. Lung Cell Mol. Physiol. 2008;295:L379–L399. doi: 10.1152/ajplung.00010.2008. - DOI - PMC - PubMed
    1. Blondonnet R., Constantin J.M., Sapin V., Jabaudon M. A Pathophysiologic Approach to Biomarkers in Acute Respiratory Distress Syndrome. Dis. Markers. 2016;2016:3501373. doi: 10.1155/2016/3501373. - DOI - PMC - PubMed

Publication types

MeSH terms

Substances

LinkOut - more resources