title: Significance of 5,10-methylenetetrahydrofolate reductase gene variants in acute lymphoblastic leukemia in Indian population: an experimental, computational and meta-analysis.
abstract: Acute lymphoblastic leukemia (ALL) arises due to several genetic alterations in progenitor cells, and methotrexate is frequently used as part of the treatment regimen. Although there is evidence for an effect of 5,10-methylenetetrahydrofolate reductase gene (MTHFR) C677T and A1298C variations on drug response in ALL, its risk association for ALL is still unresolved. In a case-control study of 203 patients with ALL and 246 controls and meta-analysis in the Indian population, we showed an insignificant association of MTHFR C677T and A1298C genotypes with childhood and adult ALL. Comprehensive in silico characterization of non-synonymous single nucleotide polymorphisms (nsSNPs) and SNPs of the 3' untranslated region (UTR) revealed nine nsSNPs as deleterious, and three SNPs in the 3'UTR could possibly alter the binding of miRNAs. The study revealed that several overlooked SNPs may contribute to the risk of ALL susceptibility and further studies of these SNPs with functional characterization in a large sample size are required to understand the significant role of MTHFR in ALL development.
authors.affiliation: Division of Biotechnology, School of Life Sciences, Manipal University , Manipal, Karnataka , India.
authors.forename: Ravishankara
authors.initials: R
authors.lastname: Bellampalli
authors.forename: Nagaraja M
authors.initials: NM
authors.lastname: Phani
authors.forename: Kamalakshi G
authors.initials: KG
authors.lastname: Bhat
authors.forename: Krishna
authors.initials: K
authors.lastname: Prasad
authors.forename: Nalini
authors.initials: N
authors.lastname: Bhaskaranand
authors.forename: Kanive P
authors.initials: KP
authors.lastname: Guruprasad
authors.forename: Padmalatha S
authors.initials: PS
authors.lastname: Rai
authors.forename: Kapaettu
authors.initials: K
authors.lastname: Satyamoorthy
mesh_terms: D020413:3' Untranslated Regions; D000483:Alleles; D016022:Case-Control Studies; D019295:Computational Biology; D005260:Female; D005787:Gene Frequency; D020022:Genetic Predisposition to Disease; D014644:Genetic Variation; D005838:Genotype; D006801:Humans; D007194:India / Q000453:epidemiology; D008297:Male; D042965:Methylenetetrahydrofolate Reductase (NADPH2) / Q000235:genetics*; D016017:Odds Ratio; D020641:Polymorphism, Single Nucleotide; D011159:Population Surveillance; D054198:Precursor Cell Lymphoblastic Leukemia-Lymphoma / Q000453:epidemiology* / Q000235:genetics*; D012306:Risk
chemical_list: D020413:3' Untranslated Regions; C573423:MTHFR protein, human; D042965:Methylenetetrahydrofolate Reductase (NADPH2)
keywords: Indian population; MTHFR gene polymorphism; acute lymphoblastic leukemia; in silico analysis; meta-analysis