An integrated in silico approach for functional and structural impact of non- synonymous SNPs in the MYH1 gene in Jeju Native Pigs

• DOI: 10.1186/s12863-016-0341-1
• Publication Date: 2016-02-04T01:01:03Z
• Authors: Mrinmoy Ghosh; Simrinder Singh S...; Neelesh Sharma; Raj Kumar Mongre; Nameun Kim; Amit Kumar Singh; Sung Jin Lee; Dae Cheol Kim; Sung Woo Kim; Hak Kyo Lee; Ki-Duk Song; Dong Kee Jeong
• Keywords: SNP

Background: This study was performed to identify the non-synonymous polymorphisms in myosin heavy chain 1 gene (MYH1) association with skeletal muscle development economically important Jeju Native Pig (JNP) and Berkshire breeds.Herein, we present an silico analysis, a focus on (a) approaches predict functional effect of SNP (nsSNP) MYH1 growth, (b) molecular docking dynamic simulation effects those nsSNP protein-protein association.Results: The NextGENe (V 2.3.4.) tool used variants from JNP using RNA seq.Gene ontology analysis revealed significant contraction organ development.The 95 % confidence intervals clearly indicate that mRNA expression is significantly higher longissimus dorsi samples than breed.Concordant MYH1, open-source software tools identified 4 potential (L884T, K972C, N981G, Q1285C) (H973G) pigs.Moreover, interactions were studied investigate mutations hub proteins, found be closely associated protein light chain, phosphorylatable, fast MYLPF.The results studies (native mutants) MYLFP demonstrated native complex showed electrostatic energy (-466.5 Kcal mol -1 ), van der Walls (-87.3Kcal interaction (-835.7 ) mutant complexes.Furthermore, yielded root-mean-square deviation (0.2-0.55 nm) lower fluctuation (approximately 0.08-0.3nm) as compared complexes. Conclusions:The suggest at L884T, Q1285C might represent cause for poor growth performance this breed.This pioneering in-depth polymorphic will serve valuable resource further targeted diagnosis populationbased conducted improving JNP.