Diversity of HLA class I and class II alleles in Iran populations: Systematic review and Meta-Analaysis

Abedini, Fateme; Rahmanian, Narges; Heidari, Zahra; Feizi, Awat; Sherkat, Roya; Rezaei, Marzieh

doi:10.1016/j.trim.2021.101472

Cited by 4 publications

(4 citation statements)

References 60 publications

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“…This preliminary data about ORF8 major deletions or single nucleotide mutations should not be considered for the total population of Iranian COVID-19 patients and further investigation with larger sample sizes is required. Another was in the limited considered HLA types based on the previous studies for Iranian and Arab populations 15 , 16 . The epitopes evaluation was a prototype data and this data needs to be confirmed by in-vitro or other more complete evaluation with more in-slico databases approaches.…”

Section: Discussionmentioning

confidence: 99%

“…The HLA I epitope mapping was performed by the online database NetMHCpan-4.1 and based on the previous study by Porto et al 13 , 14 . The most prevalent HLA I alleles include HLA-A*02, HLA-B*35, HLA-C*12 (studied from the Iranian population) HLA-A*02:01, HLA-B*51:01, HLA-C*06:02 (studied from Saudi Arabia population) were used for HLA I epitope mapping 15 , 16 . Default parameters and threshold with 9 amino acid lengths were used.…”

Section: Methodsmentioning

confidence: 99%

“…Default parameters and threshold with 15 amino acid lengths were used. HLA-DRB1*11, DRB1*07:01, HLA-DQA1*01, -DQB1*03, DQB1*02:01, HLA-DPB1*04:01, DPB1*02:01, DPA1*01:03 DPB1*04:01, DPB1*02:01 were used for the HLA II mapping of the ORF8 amino acid sequence 15 , 16 .…”

Section: Methodsmentioning

confidence: 99%

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A survey of ORF8 sequence and immunoinformatics features during alpha, delta, and wild type peaks of the SARS-CoV-2 pandemic in Iran

Tabibzadeh,

Niya,

Keyvani

et al. 2023

Mal. Med. J

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BackgroundThe Coronavirus disease 2019 (COVID-19) pandemic influences all around the world. The SARS-CoV-2 ORF8 accessory gene represents multiple functions in virus-host interaction. The current study aimed to compare the ORF8 substitutions and epitope features of these substitutions in the various SARS-CoV-2 outbreaks including delta, alpha, and wild type variants in Iran from 2020 to 2022. In addition, we evaluate B cell, HLA I and II epitopes, by in-silico approach to ORF8 binding site prediction.MethodsThe samples were collected from patients diagnosed with SARS-CoV-2 infection via a real-time PCR assay. Then, a conventional PCR was carried out for ORF8 mutations analysis and further Sanger sequencing. Possible important alterations in epitope features of the ORF8 were evaluated by epitope mapping. B cell, HLA class I and II epitopes, evaluated by online databases ABCpred, NetMHCpan-4.1, and NetMHCIIpan-3.2, respectively.Results The current study results could not represent novel variations in seven full-length ORF8 sequences or major ORF8 deletions in 80 evaluated samples. In addition, we could not find any ORF8 Δ382 during each outbreak of variants. Epitope mapping represents differences between the Alpha and other variants, especially in B cell potential epitopes and HLA I.ConclusionThe immunoinformatic evaluation of ORF8 suggested epitopes represent major differences for the Alpha variant in comparison with other variants. In addition, having mild pathogenesis of the Omicron variant does not seem to be associated with ORF8 alteration by phylogenetic evaluation. Future in-vitro studies for a clear conclusion about the epitope features of ORF8 are required.

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Section: Discussionmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

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A survey of ORF8 sequence and immunoinformatics features during alpha, delta, and wild type peaks of the SARS-CoV-2 pandemic in Iran

Tabibzadeh,

Niya,

Keyvani

et al. 2023

Mal. Med. J

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“…Additionally, MHC-II epitopes were analyzed for frequent HLA subtypes in Iran, including HLA-DQA1*01, DQB1*03 and DRB1*11, based on previous studies. These subtypes were demonstrated to cover approximately 88% of the total ethnic population ( 10 ).…”

Section: Methodsmentioning

confidence: 99%

Designing a Multiple-Epitope Vaccine Candidate against Leishmania major and Leishmania infantum for Monocyte-Derived Exosome Preparation

Moazezi Ghavihelm,

Nabian,

Jamshidi

et al. 2024

IJPA

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Background: Leishmania is a vector-borne protozoon, which causes visceral, cutaneous and mucocutaneous leishmaniosis in human and animals. Monocyte-derived exosome vaccines can be used as prophylaxis and immunotherapy strategies. The aim of this study was to design a multiple-epitope candidate vaccine using leishmaniolysin (GP63) and rK39 proteins against Leishmania major and L. infantum for monocyte-derived exosome preparation. Methods: This study was carried out in Faculty of Veterinary Medicine, University of Tehran, Tehran, Iran, 2023–2024. Effective immunodominant epitopes were selected from two antigenic proteins of GP63 and rK39 using various immunoinformatics and bioinformatics approaches. Vibrio cholerae β-subunit was used as an adjuvant to stimulate immune responses. Then, appropriate linkers were selected for the fusion of epitopes. The 3D model of candidate vaccine was predicted and validated. Results: This designed candidate vaccine could effectively be used as a prophylaxis strategy against leishmaniosis. Conclusion: A candidate vaccine was designed using bioinformatic and immunoinformatic studies with virtual acceptable quality; however, effectiveness of this vaccine should be verified through further in-vitro and in-vivo studies.

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Major histocompatibility complex (MHC) antigens polymorphism and alloimmunization study in thalassemia patients with febrile non-hemolytic transfusion reaction (FNHTR)

Dadashi

Ostadali

Mohammadi

et al. 2023

Transfusion Clinique et Biologique

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Diversity of HLA class I and class II alleles in Iran populations: Systematic review and Meta-Analaysis

Cited by 4 publications

References 60 publications

A survey of ORF8 sequence and immunoinformatics features during alpha, delta, and wild type peaks of the SARS-CoV-2 pandemic in Iran

A survey of ORF8 sequence and immunoinformatics features during alpha, delta, and wild type peaks of the SARS-CoV-2 pandemic in Iran

Designing a Multiple-Epitope Vaccine Candidate against Leishmania major and Leishmania infantum for Monocyte-Derived Exosome Preparation

Major histocompatibility complex (MHC) antigens polymorphism and alloimmunization study in thalassemia patients with febrile non-hemolytic transfusion reaction (FNHTR)

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