Identification of a Novel Gene, Slc39a8, Encoding Zinc Transporter Specific to Treg Cells by Integrative Bioinformatic Analysis and Its Functional Validation

Dong Woo Ko; Jeesang Yoon; Jung Jin Yang

doi:doi:10.11648/j.cbb.20190702.12

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Identification of a Novel Gene, Slc39a8, Encoding Zinc Transporter Specific to Treg Cells by Integrative Bioinformatic Analysis and Its Functional Validation

Dong Woo Ko, Jeesang Yoon, Jung Jin Yang

Published in Computational Biology and Bioinformatics (Volume 7, Issue 2)

Received: 21 November 2019 Accepted: 9 December 2019 Published: 4 January 2020

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Abstract

Regulatory T cell (Treg cell) is a subset of T cell expressing Foxp3 transcription factor and critical for maintaining the immunological homeostasis in autoimmune micro-environment. However, the absence of the surface marker specific to Treg cell is the major barrier for the development of therapeutic reagent targeting Treg cells. To identify a novel gene specific to Treg cells mRNA sequencing data about naïve T cell, activated T cells (Th0), T_H1 and Treg cells were processed by integrative bioinformatic methods and 350 Differentially Expressed Genes (DEGs) specific to Treg cells were selected. Using the bioinformatic program to score the intracellular location and functional gene network analysis to measure the functional relationship to Foxp3 Slc39a8 gene encoding zinc transport on the surface of Treg cells was chosen as a final candidate. The protein expression of the Slc39a8 gene was highly specific to Treg cells among various T cell subsets, and its expression was induced by TGF-β. In a dose-dependent manner, which is the key immuno-suppressive cytokine. The immuno-suppressive capacity of CD4⁺/Slc39a8⁺ T cells toward the activated T cells was substantially higher than that of CD4⁺/CD25⁺ T cells in a contact-independent way. Taken these results together, Slc39a8 was identified as a novel Treg cell-specific marker encoding a zinc transporter on the surface, which is functionally important for Treg cells. Therefore, Slc39a8 will serve as a new target molecule to develop the therapeutics for the treatment of various autoimmune diseases and solid cancers.

Published in	Computational Biology and Bioinformatics (Volume 7, Issue 2)
DOI	10.11648/j.cbb.20190702.12
Page(s)	22-29
Creative Commons	This is an Open Access article, distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution and reproduction in any medium or format, provided the original work is properly cited.
Copyright	Copyright © The Author(s), 2024. Published by Science Publishing Group

Keywords

Regulatory T Cells, Integrative Bioinformatics, DEG, Functional Gene Network, Slc39a8, Immunosuppression

References

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APA Style

Dong Woo Ko, Jeesang Yoon, Jung Jin Yang. (2020). Identification of a Novel Gene, Slc39a8, Encoding Zinc Transporter Specific to Treg Cells by Integrative Bioinformatic Analysis and Its Functional Validation. Computational Biology and Bioinformatics, 7(2), 22-29. https://doi.org/10.11648/j.cbb.20190702.12

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ACS Style

Dong Woo Ko; Jeesang Yoon; Jung Jin Yang. Identification of a Novel Gene, Slc39a8, Encoding Zinc Transporter Specific to Treg Cells by Integrative Bioinformatic Analysis and Its Functional Validation. Comput. Biol. Bioinform. 2020, 7(2), 22-29. doi: 10.11648/j.cbb.20190702.12

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AMA Style

Dong Woo Ko, Jeesang Yoon, Jung Jin Yang. Identification of a Novel Gene, Slc39a8, Encoding Zinc Transporter Specific to Treg Cells by Integrative Bioinformatic Analysis and Its Functional Validation. Comput Biol Bioinform. 2020;7(2):22-29. doi: 10.11648/j.cbb.20190702.12

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@article{10.11648/j.cbb.20190702.12,
  author = {Dong Woo Ko and Jeesang Yoon and Jung Jin Yang},
  title = {Identification of a Novel Gene, Slc39a8, Encoding Zinc Transporter Specific to Treg Cells by Integrative Bioinformatic Analysis and Its Functional Validation},
  journal = {Computational Biology and Bioinformatics},
  volume = {7},
  number = {2},
  pages = {22-29},
  doi = {10.11648/j.cbb.20190702.12},
  url = {https://doi.org/10.11648/j.cbb.20190702.12},
  eprint = {https://article.sciencepublishinggroup.com/pdf/10.11648.j.cbb.20190702.12},
  abstract = {Regulatory T cell (Treg cell) is a subset of T cell expressing Foxp3 transcription factor and critical for maintaining the immunological homeostasis in autoimmune micro-environment. However, the absence of the surface marker specific to Treg cell is the major barrier for the development of therapeutic reagent targeting Treg cells. To identify a novel gene specific to Treg cells mRNA sequencing data about naïve T cell, activated T cells (Th0), TH1 and Treg cells were processed by integrative bioinformatic methods and 350 Differentially Expressed Genes (DEGs) specific to Treg cells were selected. Using the bioinformatic program to score the intracellular location and functional gene network analysis to measure the functional relationship to Foxp3 Slc39a8 gene encoding zinc transport on the surface of Treg cells was chosen as a final candidate. The protein expression of the Slc39a8 gene was highly specific to Treg cells among various T cell subsets, and its expression was induced by TGF-β. In a dose-dependent manner, which is the key immuno-suppressive cytokine. The immuno-suppressive capacity of CD4+/Slc39a8+ T cells toward the activated T cells was substantially higher than that of CD4+/CD25+ T cells in a contact-independent way. Taken these results together, Slc39a8 was identified as a novel Treg cell-specific marker encoding a zinc transporter on the surface, which is functionally important for Treg cells. Therefore, Slc39a8 will serve as a new target molecule to develop the therapeutics for the treatment of various autoimmune diseases and solid cancers.},
 year = {2020}
}

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TY  - JOUR
T1  - Identification of a Novel Gene, Slc39a8, Encoding Zinc Transporter Specific to Treg Cells by Integrative Bioinformatic Analysis and Its Functional Validation
AU  - Dong Woo Ko
AU  - Jeesang Yoon
AU  - Jung Jin Yang
Y1  - 2020/01/04
PY  - 2020
N1  - https://doi.org/10.11648/j.cbb.20190702.12
DO  - 10.11648/j.cbb.20190702.12
T2  - Computational Biology and Bioinformatics
JF  - Computational Biology and Bioinformatics
JO  - Computational Biology and Bioinformatics
SP  - 22
EP  - 29
PB  - Science Publishing Group
SN  - 2330-8281
UR  - https://doi.org/10.11648/j.cbb.20190702.12
AB  - Regulatory T cell (Treg cell) is a subset of T cell expressing Foxp3 transcription factor and critical for maintaining the immunological homeostasis in autoimmune micro-environment. However, the absence of the surface marker specific to Treg cell is the major barrier for the development of therapeutic reagent targeting Treg cells. To identify a novel gene specific to Treg cells mRNA sequencing data about naïve T cell, activated T cells (Th0), TH1 and Treg cells were processed by integrative bioinformatic methods and 350 Differentially Expressed Genes (DEGs) specific to Treg cells were selected. Using the bioinformatic program to score the intracellular location and functional gene network analysis to measure the functional relationship to Foxp3 Slc39a8 gene encoding zinc transport on the surface of Treg cells was chosen as a final candidate. The protein expression of the Slc39a8 gene was highly specific to Treg cells among various T cell subsets, and its expression was induced by TGF-β. In a dose-dependent manner, which is the key immuno-suppressive cytokine. The immuno-suppressive capacity of CD4+/Slc39a8+ T cells toward the activated T cells was substantially higher than that of CD4+/CD25+ T cells in a contact-independent way. Taken these results together, Slc39a8 was identified as a novel Treg cell-specific marker encoding a zinc transporter on the surface, which is functionally important for Treg cells. Therefore, Slc39a8 will serve as a new target molecule to develop the therapeutics for the treatment of various autoimmune diseases and solid cancers.
VL  - 7
IS  - 2
ER  -

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Author Information

Dong Woo Ko

School of Computer Science and Information Engineering, The Catholic University of Korea, Bucheon, South Korea
Jeesang Yoon

Department of Biotechnology, Yonsei University, Seoul, Korea
Jung Jin Yang

School of Computer Science and Information Engineering, The Catholic University of Korea, Bucheon, South Korea

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APA Style

Dong Woo Ko, Jeesang Yoon, Jung Jin Yang. (2020). Identification of a Novel Gene, Slc39a8, Encoding Zinc Transporter Specific to Treg Cells by Integrative Bioinformatic Analysis and Its Functional Validation. Computational Biology and Bioinformatics, 7(2), 22-29. https://doi.org/10.11648/j.cbb.20190702.12

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ACS Style

Dong Woo Ko; Jeesang Yoon; Jung Jin Yang. Identification of a Novel Gene, Slc39a8, Encoding Zinc Transporter Specific to Treg Cells by Integrative Bioinformatic Analysis and Its Functional Validation. Comput. Biol. Bioinform. 2020, 7(2), 22-29. doi: 10.11648/j.cbb.20190702.12

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AMA Style

Dong Woo Ko, Jeesang Yoon, Jung Jin Yang. Identification of a Novel Gene, Slc39a8, Encoding Zinc Transporter Specific to Treg Cells by Integrative Bioinformatic Analysis and Its Functional Validation. Comput Biol Bioinform. 2020;7(2):22-29. doi: 10.11648/j.cbb.20190702.12

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@article{10.11648/j.cbb.20190702.12,
  author = {Dong Woo Ko and Jeesang Yoon and Jung Jin Yang},
  title = {Identification of a Novel Gene, Slc39a8, Encoding Zinc Transporter Specific to Treg Cells by Integrative Bioinformatic Analysis and Its Functional Validation},
  journal = {Computational Biology and Bioinformatics},
  volume = {7},
  number = {2},
  pages = {22-29},
  doi = {10.11648/j.cbb.20190702.12},
  url = {https://doi.org/10.11648/j.cbb.20190702.12},
  eprint = {https://article.sciencepublishinggroup.com/pdf/10.11648.j.cbb.20190702.12},
  abstract = {Regulatory T cell (Treg cell) is a subset of T cell expressing Foxp3 transcription factor and critical for maintaining the immunological homeostasis in autoimmune micro-environment. However, the absence of the surface marker specific to Treg cell is the major barrier for the development of therapeutic reagent targeting Treg cells. To identify a novel gene specific to Treg cells mRNA sequencing data about naïve T cell, activated T cells (Th0), TH1 and Treg cells were processed by integrative bioinformatic methods and 350 Differentially Expressed Genes (DEGs) specific to Treg cells were selected. Using the bioinformatic program to score the intracellular location and functional gene network analysis to measure the functional relationship to Foxp3 Slc39a8 gene encoding zinc transport on the surface of Treg cells was chosen as a final candidate. The protein expression of the Slc39a8 gene was highly specific to Treg cells among various T cell subsets, and its expression was induced by TGF-β. In a dose-dependent manner, which is the key immuno-suppressive cytokine. The immuno-suppressive capacity of CD4+/Slc39a8+ T cells toward the activated T cells was substantially higher than that of CD4+/CD25+ T cells in a contact-independent way. Taken these results together, Slc39a8 was identified as a novel Treg cell-specific marker encoding a zinc transporter on the surface, which is functionally important for Treg cells. Therefore, Slc39a8 will serve as a new target molecule to develop the therapeutics for the treatment of various autoimmune diseases and solid cancers.},
 year = {2020}
}

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TY  - JOUR
T1  - Identification of a Novel Gene, Slc39a8, Encoding Zinc Transporter Specific to Treg Cells by Integrative Bioinformatic Analysis and Its Functional Validation
AU  - Dong Woo Ko
AU  - Jeesang Yoon
AU  - Jung Jin Yang
Y1  - 2020/01/04
PY  - 2020
N1  - https://doi.org/10.11648/j.cbb.20190702.12
DO  - 10.11648/j.cbb.20190702.12
T2  - Computational Biology and Bioinformatics
JF  - Computational Biology and Bioinformatics
JO  - Computational Biology and Bioinformatics
SP  - 22
EP  - 29
PB  - Science Publishing Group
SN  - 2330-8281
UR  - https://doi.org/10.11648/j.cbb.20190702.12
AB  - Regulatory T cell (Treg cell) is a subset of T cell expressing Foxp3 transcription factor and critical for maintaining the immunological homeostasis in autoimmune micro-environment. However, the absence of the surface marker specific to Treg cell is the major barrier for the development of therapeutic reagent targeting Treg cells. To identify a novel gene specific to Treg cells mRNA sequencing data about naïve T cell, activated T cells (Th0), TH1 and Treg cells were processed by integrative bioinformatic methods and 350 Differentially Expressed Genes (DEGs) specific to Treg cells were selected. Using the bioinformatic program to score the intracellular location and functional gene network analysis to measure the functional relationship to Foxp3 Slc39a8 gene encoding zinc transport on the surface of Treg cells was chosen as a final candidate. The protein expression of the Slc39a8 gene was highly specific to Treg cells among various T cell subsets, and its expression was induced by TGF-β. In a dose-dependent manner, which is the key immuno-suppressive cytokine. The immuno-suppressive capacity of CD4+/Slc39a8+ T cells toward the activated T cells was substantially higher than that of CD4+/CD25+ T cells in a contact-independent way. Taken these results together, Slc39a8 was identified as a novel Treg cell-specific marker encoding a zinc transporter on the surface, which is functionally important for Treg cells. Therefore, Slc39a8 will serve as a new target molecule to develop the therapeutics for the treatment of various autoimmune diseases and solid cancers.
VL  - 7
IS  - 2
ER  -

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