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Pregled bibliografske jedinice broj: 1215620

Performance Comparison of Different Approaches in Genotyping MHC-DRB: The Contrast between Single-Locus and Multi-Locus Species


Svetličić, Ida; Konjević, Dean; Bužan, Elena; Bujanić, Miljenko; Duniš, Luka; Stipoljev, Sunčica; Martinčić, Jelena; Šurina, Mihaela; Galov, Ana
Performance Comparison of Different Approaches in Genotyping MHC-DRB: The Contrast between Single-Locus and Multi-Locus Species // Animals, 12 (2022), 18; 2452, 13 doi:10.3390/ani12182452 (međunarodna recenzija, članak, znanstveni)


CROSBI ID: 1215620 Za ispravke kontaktirajte CROSBI podršku putem web obrasca

Naslov
Performance Comparison of Different Approaches in Genotyping MHC-DRB: The Contrast between Single-Locus and Multi-Locus Species

Autori
Svetličić, Ida ; Konjević, Dean ; Bužan, Elena ; Bujanić, Miljenko ; Duniš, Luka ; Stipoljev, Sunčica ; Martinčić, Jelena ; Šurina, Mihaela ; Galov, Ana

Izvornik
Animals (2076-2615) 12 (2022), 18; 2452, 13

Vrsta, podvrsta i kategorija rada
Radovi u časopisima, članak, znanstveni

Ključne riječi
Capreolus capreolus ; Cervus elaphus ; Illumina ; Ion Torrent ; major histocompatibility complex ; next-generation sequencing

Sažetak
Major histocompatibility complex (MHC) genes are widely recognised as valuable markers for wildlife genetic studies given their extreme polymorphism and functional importance in fitness-related traits. Newly developed genotyping methods, which rely on the use of next-generation sequencing (NGS), are gradually replacing traditional cloning and Sanger sequencing methods in MHC genotyping studies. Allele calling in NGS methods remains challenging due to extreme polymorphism and locus multiplication in the MHC coupled with allele amplification bias and the generation of artificial sequences. In this study, we compared the performance of molecular cloning with Illumina and Ion Torrent NGS sequencing in MHC-DRB genotyping of single-locus species (roe deer) and species with multiple DRB loci (red deer) in an attempt to adopt a reliable and straightforward method that does not require complex bioinformatic analyses. Our results show that all methods work similarly well in roe deer, but we demonstrate non-consistency in results across methods in red deer. With Illumina sequencing, we detected a maximum number of alleles in 10 red deer individuals (42), while other methods were somewhat less accurate as they scored 69–81% of alleles detected with Illumina sequencing.

Izvorni jezik
Engleski

Znanstvena područja
Biologija, Veterinarska medicina, Poljoprivreda (agronomija)



POVEZANOST RADA


Projekti:
HRZZ-IP-2018-01-8963 - Interakcija nositelj-parazit: odnos tri različita tipa nositelja prema invaziji metiljem Fascioloides magna (MAGNA) (Konjević, Dean, HRZZ - 2018-01) ( CroRIS)

Ustanove:
Veterinarski fakultet, Zagreb,
Prirodoslovno-matematički fakultet, Zagreb,
Agronomski fakultet, Zagreb

Poveznice na cjeloviti tekst rada:

doi www.mdpi.com

Citiraj ovu publikaciju:

Svetličić, Ida; Konjević, Dean; Bužan, Elena; Bujanić, Miljenko; Duniš, Luka; Stipoljev, Sunčica; Martinčić, Jelena; Šurina, Mihaela; Galov, Ana
Performance Comparison of Different Approaches in Genotyping MHC-DRB: The Contrast between Single-Locus and Multi-Locus Species // Animals, 12 (2022), 18; 2452, 13 doi:10.3390/ani12182452 (međunarodna recenzija, članak, znanstveni)
Svetličić, I., Konjević, D., Bužan, E., Bujanić, M., Duniš, L., Stipoljev, S., Martinčić, J., Šurina, M. & Galov, A. (2022) Performance Comparison of Different Approaches in Genotyping MHC-DRB: The Contrast between Single-Locus and Multi-Locus Species. Animals, 12 (18), 2452, 13 doi:10.3390/ani12182452.
@article{article, author = {Svetli\v{c}i\'{c}, Ida and Konjevi\'{c}, Dean and Bu\v{z}an, Elena and Bujani\'{c}, Miljenko and Duni\v{s}, Luka and Stipoljev, Sun\v{c}ica and Martin\v{c}i\'{c}, Jelena and \v{S}urina, Mihaela and Galov, Ana}, year = {2022}, pages = {13}, DOI = {10.3390/ani12182452}, chapter = {2452}, keywords = {Capreolus capreolus, Cervus elaphus, Illumina, Ion Torrent, major histocompatibility complex, next-generation sequencing}, journal = {Animals}, doi = {10.3390/ani12182452}, volume = {12}, number = {18}, issn = {2076-2615}, title = {Performance Comparison of Different Approaches in Genotyping MHC-DRB: The Contrast between Single-Locus and Multi-Locus Species}, keyword = {Capreolus capreolus, Cervus elaphus, Illumina, Ion Torrent, major histocompatibility complex, next-generation sequencing}, chapternumber = {2452} }
@article{article, author = {Svetli\v{c}i\'{c}, Ida and Konjevi\'{c}, Dean and Bu\v{z}an, Elena and Bujani\'{c}, Miljenko and Duni\v{s}, Luka and Stipoljev, Sun\v{c}ica and Martin\v{c}i\'{c}, Jelena and \v{S}urina, Mihaela and Galov, Ana}, year = {2022}, pages = {13}, DOI = {10.3390/ani12182452}, chapter = {2452}, keywords = {Capreolus capreolus, Cervus elaphus, Illumina, Ion Torrent, major histocompatibility complex, next-generation sequencing}, journal = {Animals}, doi = {10.3390/ani12182452}, volume = {12}, number = {18}, issn = {2076-2615}, keyword = {Capreolus capreolus, Cervus elaphus, Illumina, Ion Torrent, major histocompatibility complex, next-generation sequencing}, chapternumber = {2452} }

Časopis indeksira:


  • Current Contents Connect (CCC)
  • Web of Science Core Collection (WoSCC)
    • Science Citation Index Expanded (SCI-EXP)
    • SCI-EXP, SSCI i/ili A&HCI
  • Scopus


Citati:





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