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A SNP assay for assessing diversity in immune genes in the honey bee (Apis mellifera L.)
Year:
2021
Source of publication :
Scientific Reports
Authors :
Chejanovsky, Nor
;
.
Soroker, Victoria
;
.
Volume :
11
Co-Authors:

Dora Henriques 
Ana R Lopes
Nor Chejanovsky
Anne Dalmon
Mariano Higes
Clara Jabal-Uriel 
Yves Le Conte 
Maritza Reyes-Carreño
Victoria Soroker
Raquel Martín-Hernández 
M Alice Pinto   

Facilitators :
From page:
0
To page:
0
(
Total pages:
1
)
Abstract:

With a growing number of parasites and pathogens experiencing large-scale range expansions, monitoring diversity in immune genes of host populations has never been so important because it can inform on the adaptive potential to resist the invaders. Population surveys of immune genes are becoming common in many organisms, yet they are missing in the honey bee (Apis mellifera L.), a key managed pollinator species that has been severely affected by biological invasions. To fill the gap, here we identified single nucleotide polymorphisms (SNPs) in a wide range of honey bee immune genes and developed a medium-density assay targeting a subset of these genes. Using a discovery panel of 123 whole-genomes, representing seven A. mellifera subspecies and three evolutionary lineages, 180 immune genes were scanned for SNPs in exons, introns (< 4 bp from exons), 3' and 5´UTR, and < 1 kb upstream of the transcription start site. After application of multiple filtering criteria and validation, the final medium-density assay combines 91 quality-proved functional SNPs marking 89 innate immune genes and these can be readily typed using the high-sample-throughput iPLEX MassARRAY system. This medium-density-SNP assay was applied to 156 samples from four countries and the admixture analysis clustered the samples according to their lineage and subspecies, suggesting that honey bee ancestry can be delineated from functional variation. In addition to allowing analysis of immunogenetic variation, this newly-developed SNP assay can be used for inferring genetic structure and admixture in the honey bee.

Note:
Related Files :
Biological techniques
Genetics
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More details
DOI :
10.1038/s41598-021-94833-x
Article number:
0
Affiliations:
Database:
PubMed
Publication Type:
article
;
.
Language:
English
Editors' remarks:
ID:
55852
Last updated date:
02/03/2022 17:27
Creation date:
03/08/2021 12:10
Scientific Publication
A SNP assay for assessing diversity in immune genes in the honey bee (Apis mellifera L.)
11

Dora Henriques 
Ana R Lopes
Nor Chejanovsky
Anne Dalmon
Mariano Higes
Clara Jabal-Uriel 
Yves Le Conte 
Maritza Reyes-Carreño
Victoria Soroker
Raquel Martín-Hernández 
M Alice Pinto   

A SNP assay for assessing diversity in immune genes in the honey bee (Apis mellifera L.) .

With a growing number of parasites and pathogens experiencing large-scale range expansions, monitoring diversity in immune genes of host populations has never been so important because it can inform on the adaptive potential to resist the invaders. Population surveys of immune genes are becoming common in many organisms, yet they are missing in the honey bee (Apis mellifera L.), a key managed pollinator species that has been severely affected by biological invasions. To fill the gap, here we identified single nucleotide polymorphisms (SNPs) in a wide range of honey bee immune genes and developed a medium-density assay targeting a subset of these genes. Using a discovery panel of 123 whole-genomes, representing seven A. mellifera subspecies and three evolutionary lineages, 180 immune genes were scanned for SNPs in exons, introns (< 4 bp from exons), 3' and 5´UTR, and < 1 kb upstream of the transcription start site. After application of multiple filtering criteria and validation, the final medium-density assay combines 91 quality-proved functional SNPs marking 89 innate immune genes and these can be readily typed using the high-sample-throughput iPLEX MassARRAY system. This medium-density-SNP assay was applied to 156 samples from four countries and the admixture analysis clustered the samples according to their lineage and subspecies, suggesting that honey bee ancestry can be delineated from functional variation. In addition to allowing analysis of immunogenetic variation, this newly-developed SNP assay can be used for inferring genetic structure and admixture in the honey bee.

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