Characterization and 454 pyrosequencing of major histocompatibility complex class I genes in the great tit reveal complexity in a passerine system.

BMC Evolutionary Biology
Irem SepilBen C Sheldon

Abstract

The critical role of Major Histocompatibility Complex (Mhc) genes in disease resistance and their highly polymorphic nature make them exceptional candidates for studies investigating genetic effects on survival, mate choice and conservation. Species that harbor many Mhc loci and high allelic diversity are particularly intriguing as they are potentially under strong selection and studies of such species provide valuable information as to the mechanisms maintaining Mhc diversity. However comprehensive genotyping of complex multilocus systems has been a major challenge to date with the result that little is known about the consequences of this complexity in terms of fitness effects and disease resistance. In this study, we genotyped the Mhc class I exon 3 of the great tit (Parus major) from two nest-box breeding populations near Oxford, UK that have been monitored for decades. Characterization of Mhc class I exon 3 was adopted and bidirectional sequencing was carried using the 454 sequencing platform. Full analysis of sequences through a stepwise variant validation procedure allowed reliable typing of more than 800 great tits based on 214,357 reads; from duplicates we estimated the repeatability of typing as 0.94. A total of 862 a...Continue Reading

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Oct 15, 2014·Nature Communications·Shai PilosofJordi Bascompte
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Datasets Mentioned

BETA
AY234770
FJ392790

Methods Mentioned

BETA
genotyping
Assay
PCR
454 sequencing
the

Software Mentioned

DnaSP
jMHC
PAML
adegenet
Mhc
CodeML
Roche
Sequencher
R
BioEdit Sequence Alignment Editor

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