Targeted deep sequencing identifies rare loss-of-function variants in IFNGR1 for risk of atopic dermatitis complicated by eczema herpeticum

Li Gao, Lianghua Bin, Nicholas M. Rafaels, Lili Huang, Joseph Potee, Ingo Ruczinski, Terri H. Beaty, Amy S. Paller, Lynda C. Schneider, Rich Gallo, Jon Hanifin, Lisa A. Beck, Raif S. Geha, Rasika A. Mathias, Kathleen C. Barnes, Donald Y M Leung

Research output: Contribution to journalArticle

22 Citations (Scopus)

Abstract

Background A subset of atopic dermatitis is associated with increased susceptibility to eczema herpeticum (ADEH+). We previously reported that common single nucleotide polymorphisms (SNPs) in the IFN-γ (IFNG) and IFN-γ receptor 1 (IFNGR1) genes were associated with the ADEH+ phenotype. Objective We sought to interrogate the role of rare variants in interferon pathway genes for the risk of ADEH+. Methods We performed targeted sequencing of interferon pathway genes (IFNG, IFNGR1, IFNAR1, and IL12RB1) in 228 European American patients with AD selected according to their eczema herpeticum status, and severity was measured by using the Eczema Area and Severity Index. Replication genotyping was performed in independent samples of 219 European American and 333 African American subjects. Functional investigation of loss-of-function variants was conducted by using site-directed mutagenesis. Results We identified 494 single nucleotide variants encompassing 105 kb of sequence, including 145 common, 349 (70.6%) rare (minor allele frequency

Original languageEnglish (US)
Pages (from-to)1591-1600
Number of pages10
JournalJournal of Allergy and Clinical Immunology
Volume136
Issue number6
DOIs
StatePublished - Dec 1 2015

Fingerprint

Kaposi Varicelliform Eruption
High-Throughput Nucleotide Sequencing
Interferons
Genes
Eczema
Atopic Dermatitis
Site-Directed Mutagenesis
Gene Frequency
African Americans
Single Nucleotide Polymorphism
Nucleotides
Phenotype
Dermatitis, Atopic, 1

Keywords

  • atopic dermatitis
  • eczema herpeticum
  • genetic variants
  • IFNGR1

ASJC Scopus subject areas

  • Immunology and Allergy
  • Immunology

Cite this

Targeted deep sequencing identifies rare loss-of-function variants in IFNGR1 for risk of atopic dermatitis complicated by eczema herpeticum. / Gao, Li; Bin, Lianghua; Rafaels, Nicholas M.; Huang, Lili; Potee, Joseph; Ruczinski, Ingo; Beaty, Terri H.; Paller, Amy S.; Schneider, Lynda C.; Gallo, Rich; Hanifin, Jon; Beck, Lisa A.; Geha, Raif S.; Mathias, Rasika A.; Barnes, Kathleen C.; Leung, Donald Y M.

In: Journal of Allergy and Clinical Immunology, Vol. 136, No. 6, 01.12.2015, p. 1591-1600.

Research output: Contribution to journalArticle

Gao, L, Bin, L, Rafaels, NM, Huang, L, Potee, J, Ruczinski, I, Beaty, TH, Paller, AS, Schneider, LC, Gallo, R, Hanifin, J, Beck, LA, Geha, RS, Mathias, RA, Barnes, KC & Leung, DYM 2015, 'Targeted deep sequencing identifies rare loss-of-function variants in IFNGR1 for risk of atopic dermatitis complicated by eczema herpeticum', Journal of Allergy and Clinical Immunology, vol. 136, no. 6, pp. 1591-1600. https://doi.org/10.1016/j.jaci.2015.06.047
Gao, Li ; Bin, Lianghua ; Rafaels, Nicholas M. ; Huang, Lili ; Potee, Joseph ; Ruczinski, Ingo ; Beaty, Terri H. ; Paller, Amy S. ; Schneider, Lynda C. ; Gallo, Rich ; Hanifin, Jon ; Beck, Lisa A. ; Geha, Raif S. ; Mathias, Rasika A. ; Barnes, Kathleen C. ; Leung, Donald Y M. / Targeted deep sequencing identifies rare loss-of-function variants in IFNGR1 for risk of atopic dermatitis complicated by eczema herpeticum. In: Journal of Allergy and Clinical Immunology. 2015 ; Vol. 136, No. 6. pp. 1591-1600.
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abstract = "Background A subset of atopic dermatitis is associated with increased susceptibility to eczema herpeticum (ADEH+). We previously reported that common single nucleotide polymorphisms (SNPs) in the IFN-γ (IFNG) and IFN-γ receptor 1 (IFNGR1) genes were associated with the ADEH+ phenotype. Objective We sought to interrogate the role of rare variants in interferon pathway genes for the risk of ADEH+. Methods We performed targeted sequencing of interferon pathway genes (IFNG, IFNGR1, IFNAR1, and IL12RB1) in 228 European American patients with AD selected according to their eczema herpeticum status, and severity was measured by using the Eczema Area and Severity Index. Replication genotyping was performed in independent samples of 219 European American and 333 African American subjects. Functional investigation of loss-of-function variants was conducted by using site-directed mutagenesis. Results We identified 494 single nucleotide variants encompassing 105 kb of sequence, including 145 common, 349 (70.6{\%}) rare (minor allele frequency",
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AU - Bin, Lianghua

AU - Rafaels, Nicholas M.

AU - Huang, Lili

AU - Potee, Joseph

AU - Ruczinski, Ingo

AU - Beaty, Terri H.

AU - Paller, Amy S.

AU - Schneider, Lynda C.

AU - Gallo, Rich

AU - Hanifin, Jon

AU - Beck, Lisa A.

AU - Geha, Raif S.

AU - Mathias, Rasika A.

AU - Barnes, Kathleen C.

AU - Leung, Donald Y M

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AB - Background A subset of atopic dermatitis is associated with increased susceptibility to eczema herpeticum (ADEH+). We previously reported that common single nucleotide polymorphisms (SNPs) in the IFN-γ (IFNG) and IFN-γ receptor 1 (IFNGR1) genes were associated with the ADEH+ phenotype. Objective We sought to interrogate the role of rare variants in interferon pathway genes for the risk of ADEH+. Methods We performed targeted sequencing of interferon pathway genes (IFNG, IFNGR1, IFNAR1, and IL12RB1) in 228 European American patients with AD selected according to their eczema herpeticum status, and severity was measured by using the Eczema Area and Severity Index. Replication genotyping was performed in independent samples of 219 European American and 333 African American subjects. Functional investigation of loss-of-function variants was conducted by using site-directed mutagenesis. Results We identified 494 single nucleotide variants encompassing 105 kb of sequence, including 145 common, 349 (70.6%) rare (minor allele frequency

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