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Molecular evolution of cytochrome C oxidase-I protein of insects living in Saudi Arabia.
PLoS One 2019; 14(11):e0224336Plos

Abstract

The study underpins barcode characterization of insect species collected from Saudi Arabia and explored functional constraints during evolution at the DNA and protein levels to expect the possible mechanisms of protein evolution in insects. Codon structure designated AT-biased insect barcode of the cytochrome C oxidase I (COI). In addition, the predicted 3D structure of COI protein indicated tyrosine in close proximity with the heme ligand, depicted substitution to phenylalanine in two Hymenopteran species. This change resulted in the loss of chemical bonding with the heme ligand. The estimated nucleotide substitution matrices in insect COI barcode generally showed a higher probability of transversion compared with the transition. Computations of codon-by-codon nonsynonymous substitutions in Hymenopteran and Hemipteran species indicated that almost half of the codons are under positive evolution. Nevertheless, codons of COI barcode of Coleoptera, Lepidoptera and Diptera are mostly under purifying selection. The results reinforce that codons in helices 2, 5 and 6 and those in loops 2-3 and 5-6 are mostly conserved and approach strong purifying selection. The overall results argue the possible evolutionary position of Hymenopteran species among those of other insects.

Authors+Show Affiliations

Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), Jeddah, Saudi Arabia.Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), Jeddah, Saudi Arabia.Department of Biological Sciences, Faculty of Science, University of Jeddah, Dahaban, Saudi Arabia.Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), Jeddah, Saudi Arabia.Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), Jeddah, Saudi Arabia.Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), Jeddah, Saudi Arabia.Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), Jeddah, Saudi Arabia. Department of Genetics, Faculty of Agriculture, Ain Shams University, Cairo, Egypt. Princess Al-Jawhara Al-Brahim Centre of Excellence in Research of Hereditary Disorders (PACER-HD), Faculty of Medicine, King Abdulaziz University (KAU), Jeddah, Saudi Arabia.Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), Jeddah, Saudi Arabia.Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), Jeddah, Saudi Arabia.Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), Jeddah, Saudi Arabia.Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), Jeddah, Saudi Arabia.Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), Jeddah, Saudi Arabia.Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), Jeddah, Saudi Arabia. The Genome Analysis Center, Norwich Research Park, Norwich, United Kingdom.Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), Jeddah, Saudi Arabia. Department of Genetics, Faculty of Agriculture, Ain Shams University, Cairo, Egypt.Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), Jeddah, Saudi Arabia.Department of Biological Sciences, Faculty of Science, King Abdulaziz University (KAU), Jeddah, Saudi Arabia.

Pub Type(s)

Journal Article

Language

eng

PubMed ID

31682609

Citation

Sabir, Jamal S M., et al. "Molecular Evolution of Cytochrome C oxidase-I Protein of Insects Living in Saudi Arabia." PloS One, vol. 14, no. 11, 2019, pp. e0224336.
Sabir JSM, Rabah S, Yacoub H, et al. Molecular evolution of cytochrome C oxidase-I protein of insects living in Saudi Arabia. PLoS ONE. 2019;14(11):e0224336.
Sabir, J. S. M., Rabah, S., Yacoub, H., Hajrah, N. H., Atef, A., Al-Matary, M., ... Rather, I. A. (2019). Molecular evolution of cytochrome C oxidase-I protein of insects living in Saudi Arabia. PloS One, 14(11), pp. e0224336. doi:10.1371/journal.pone.0224336.
Sabir JSM, et al. Molecular Evolution of Cytochrome C oxidase-I Protein of Insects Living in Saudi Arabia. PLoS ONE. 2019;14(11):e0224336. PubMed PMID: 31682609.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Molecular evolution of cytochrome C oxidase-I protein of insects living in Saudi Arabia. AU - Sabir,Jamal S M, AU - Rabah,Samar, AU - Yacoub,Haitham, AU - Hajrah,Nahid H, AU - Atef,Ahmed, AU - Al-Matary,Mohammed, AU - Edris,Sherif, AU - Alharbi,Mona G, AU - Ganash,Magdah, AU - Mahyoub,Jazem, AU - Al-Hindi,Rashad R, AU - Al-Ghamdi,Khalid M, AU - Hall,Neil, AU - Bahieldin,Ahmed, AU - Kamli,Majid R, AU - Rather,Irfan A, Y1 - 2019/11/04/ PY - 2019/08/21/received PY - 2019/10/10/accepted PY - 2019/11/5/entrez PY - 2019/11/5/pubmed PY - 2019/11/5/medline SP - e0224336 EP - e0224336 JF - PloS one JO - PLoS ONE VL - 14 IS - 11 N2 - The study underpins barcode characterization of insect species collected from Saudi Arabia and explored functional constraints during evolution at the DNA and protein levels to expect the possible mechanisms of protein evolution in insects. Codon structure designated AT-biased insect barcode of the cytochrome C oxidase I (COI). In addition, the predicted 3D structure of COI protein indicated tyrosine in close proximity with the heme ligand, depicted substitution to phenylalanine in two Hymenopteran species. This change resulted in the loss of chemical bonding with the heme ligand. The estimated nucleotide substitution matrices in insect COI barcode generally showed a higher probability of transversion compared with the transition. Computations of codon-by-codon nonsynonymous substitutions in Hymenopteran and Hemipteran species indicated that almost half of the codons are under positive evolution. Nevertheless, codons of COI barcode of Coleoptera, Lepidoptera and Diptera are mostly under purifying selection. The results reinforce that codons in helices 2, 5 and 6 and those in loops 2-3 and 5-6 are mostly conserved and approach strong purifying selection. The overall results argue the possible evolutionary position of Hymenopteran species among those of other insects. SN - 1932-6203 UR - https://www.unboundmedicine.com/medline/citation/31682609/Molecular_evolution_of_cytochrome_C_oxidase-I_protein_of_insects_living_in_Saudi_Arabia L2 - http://dx.plos.org/10.1371/journal.pone.0224336 DB - PRIME DP - Unbound Medicine ER -