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Correlation between an intronic SNP genotype and ARL15 level in rheumatoid arthritis

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Abstract

ADP ribosylation factor like protein 15 (ARL15) was identified as a novel susceptibility gene for rheumatoid arthritis (RA) based on a genomewide association study in a north Indian cohort. Mechanism of its action and functional relevance in RA biology remain largely unknown. In this study, we aimed to establish (i) ARL15 protein level in sera samples of RA patients; and (ii) its correlation, if any, with the RA associated ARL15 intronic single-nucleotide polymorphism (SNP) rs255758 (A > C). DNA, RNA and sera were isolated from blood samples of 117 RA patients and 25 age-matched healthy controls recruited at All India Institute of Medical Sciences, New Delhi with institutional ethical committee clearance. SNP rs255758 (A > C) was genotyped by Sanger sequencing; ARL15 RNA and protein levels were estimated by quantitative polymerase chain reaction (qPCR) and enzyme-linked immunosorbent assay (ELISA), respectively; and genotype–phenotype correlation established using Mann–Whitney nonparametric test. Very low level of ARL15 expression in human blood was confirmed at both RNA and protein levels. Genotype-wise distribution showed increased levels (P = 0.05) of ARL15 protein in RA patients with the homozygous variant (CC) as compared to AA + AC genotypes of rs255758. This first-ever correlation between higher ARL15 protein levels and the intronic susceptibility genotype (CC; rs255758) in RA patients may be of diagnostic and therapeutic relevance encouraging additional investigations.

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Acknowledgements

DNA isolation by Mrs Anjali Dabral, BKT lab, Department of Genetics, University of Delhi South Campus (UDSC); Research Associateship to SKD from Professor Debi P. Sarkar’s J. C. Bose Fellowship at the Department of Biochemistry, UDSC (#SR/S2/JCB-08/2010); Senior research fellowship to AKP from Indian Council of Medical Research (#2019-6584/CMB/BMS) and Council of Scientific and Industrial Research, New Delhi (#09/045(1312)/EMR-1); Sanger sequencing by Central Instrumentation Facility, UDSC; infrastructure and instrument support provided by the University Grants Commission (UGC), New Delhi, through their special assistance programme and the Department of Science and Technology (DST), New Delhi, through FIST and DU-DST PURSE programmes to the Department of Genetics, UDSC are gratefully acknowledged. We gratefully acknowledge funding support from the Department of Biotechnology, Government of India, New Delhi through the Centre of Excellence in Genome Sciences and Predictive Medicine projects (#BT/01/COE/07/UDSC/2008-Phase-I and #BT/COE/34/SP15246/2015-Phase-II) to BKT and UK.

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Author notes

  1. Anuj Kumar Pandey and Aishwarya Saxena contributed equally to this work.

Authors and Affiliations

  1. Department of Genetics, University of Delhi South Campus, New Delhi, 110 021, India

    Anuj Kumar Pandey, Aishwarya Saxena & B. K. Thelma

  2. Department of Biochemistry, University of Delhi South Campus, New Delhi, 110 021, India

    Sanjay Kumar Dey

  3. Department of Rheumatology, All India Institute of Medical Sciences, New Delhi, 110 021, India

    Maumita Kanjilal & Uma Kumar

  4. Dr. B. R. Ambedkar Center for Biomedical Research, University of Delhi, Delhi, 110 007, India

    Sanjay Kumar Dey

Authors
  1. Anuj Kumar Pandey
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  2. Aishwarya Saxena
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  3. Sanjay Kumar Dey
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  4. Maumita Kanjilal
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  5. Uma Kumar
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  6. B. K. Thelma
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Corresponding authors

Correspondence to Uma Kumar or B. K. Thelma.

Additional information

Corresponding editor: Indrajit Nanda.

BKT and UK designed the study and obtained research funding; UK and MK diagnosed and recruited the study subjects; AS performed genotyping; AKP performed RNA isolation and q PCR; SKD, AS and AKP carried out ELISA and data analysis; AS, AKP and BKT wrote the first draft of the manuscript; and all authors have approved the final manuscript.

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Pandey, A.K., Saxena, A., Dey, S.K. et al. Correlation between an intronic SNP genotype and ARL15 level in rheumatoid arthritis. J Genet 100, 26 (2021). https://doi.org/10.1007/s12041-021-01286-2

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  • DOI: https://doi.org/10.1007/s12041-021-01286-2

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