Evaluation of two approaches to genotyping major histocompatibility complex class I in a passerine-CE-SSCP and 454 pyrosequencing

Result code in IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216208%3A11310%2F12%3A10100936" target="_blank" >RIV/00216208:11310/12:10100936 - isvavai.cz</a>

Alternative codes found

RIV/68081766:_____/12:00365694

Result on the web

<a href="http://dx.doi.org/10.1111/j.1755-0998.2011.03082.x" target="_blank" >http://dx.doi.org/10.1111/j.1755-0998.2011.03082.x</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1111/j.1755-0998.2011.03082.x" target="_blank" >10.1111/j.1755-0998.2011.03082.x</a>

Result language

angličtina

Original language name

Evaluation of two approaches to genotyping major histocompatibility complex class I in a passerine-CE-SSCP and 454 pyrosequencing

Original language description

MHC is linked to individual fitness and is important in evolutionary ecology and conservation genetics. Gene duplication and positive selection usually lead to high polymorphism in the MHC region, making genotyping of MHC a challenging task. We compare the performance of two methods for MHC class I genotyping in a passerine with highly duplicated MHC class I genes: CE-SSCP analysis and 454 GS FLX Titanium pyrosequencing. According to our findings, the number of MHC alleles detected by CE-SSCP is significantly lower than detected by 454. To resolve discrepancies between the two methods, we cloned and Sanger sequenced a MHC class I amplicon for an individual with high number of alleles. We found perfect congruence between cloning/Sanger sequencing and 454. Thus, in case of multi-locus amplification, CE-SSCP considerably underestimates individual MHC diversity. Numbers of alleles detected by both methods are significantly correlated, although the correlation is weak (r=0.32).

Czech name

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Czech description

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Type

J_x - Unclassified - Peer-reviewed scientific article (Jimp, Jsc and Jost)

CEP classification

EG - Zoology

OECD FORD branch

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Project

Result was created during the realization of more than one project. More information in the Projects tab.

Continuities

P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)<br>I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace

Publication year

2012

Confidentiality

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Name of the periodical

Molecular Ecology Resources

ISSN

1755-098X

e-ISSN

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Volume of the periodical

12

Issue of the periodical within the volume

2

Country of publishing house

GB - UNITED KINGDOM

Number of pages

8

Pages from-to

285-292

UT code for WoS article

000299930300011

EID of the result in the Scopus database

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