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

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dc.contributor.authorHenriques, Dora
dc.contributor.authorLopes, Ana
dc.contributor.authorChejanovsky, Nor
dc.contributor.authorDalmon, Anne
dc.contributor.authorHiges, Mariano
dc.contributor.authorJabal-Uriel, Clara
dc.contributor.authorLe Conte, Yves
dc.contributor.authorReyes-Carreño, Maritza
dc.contributor.authorSoroker, Victoria
dc.contributor.authorMartín-Hernández, Raquel
dc.contributor.authorPinto, M. Alice
dc.date.accessioned2022-11-04T10:14:49Z
dc.date.available2022-11-04T10:14:49Z
dc.date.issued2021
dc.description.abstractWith 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-stone species that has been severely affected by biological invasions. To fill the gap, here we identified single nucleotide polymorphisms (SNPs) in honey bee immune genes and then developed an assay to be genotyped using the high-sample-throughput iPLEX MassARRAY system that can be readily used for population surveys. The assay was constructed using SNPs detected in whole-genome scans of 123 individuals originating from a wide geographical area, representing seven A. mellifera subspecies and three evolutionary lineages (M-Western European, C- Eastern European, A- African). In this dataset, a total of 35,782 SNPs distributed through 180 genes were found. Only polymorphic SNPs (MAF>0.05) SNPs located in putatively functional regions were retained. Other filtering criteria inked to the MassARRAY® MALDI-TOF genotyping system were used and an assay with 107 SNPs was obtained. A total of 16 SNPs were discarded either due to inconsistent calls and/or misidentification of heterozygous positions. The final assay contains 91 quality-proved functional SNPs covering 89 innate immune genes. The 89 genes belong to several families and pathways, such as IMD, JAK-STAT, Toll and RNAi. This gene set also includes genes that have been found to be expressed in honey bees infected with the viruses SINV, IAPV, DWV and Nosema spp. This medium-density-SNP assay was applied to 156 samples from four countries (Portugal, Spain, France and Israel) and the admixture analysis clustered the samples according to their lineage and subspecies, suggesting that the immune SNPs can be also used to reconstruct population structure. This newly-developed SNP assay can be applied to monitoring diversity in immune genes, identifying the genetic basis of disease susceptibility, and even inferring genetic structure.pt_PT
dc.description.versioninfo:eu-repo/semantics/publishedVersionpt_PT
dc.identifier.citationHenriques, Dora; Lopes, Ana; Chejanovsky, Nor; Dalmon, Anne; Higes, Mariano; Jabal-Uriel, Clara; Le Conte, Yves; Reyes-Carreno, Maritza; Soroker, Victoria; Martin- Hernandez, Raquel; Pinto, M. Alice (2021). A SNP assay for assessing diversity in immune genes in the honey bee (Apis mellifera L.). In Research Network for Sustainable Bee Breeding. Onlinept_PT
dc.identifier.urihttp://hdl.handle.net/10198/26064
dc.language.isoengpt_PT
dc.peerreviewedyespt_PT
dc.publisherUniversitas Arhusiensispt_PT
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/pt_PT
dc.subjectSNPpt_PT
dc.subjectApis melliferapt_PT
dc.subjectConservationpt_PT
dc.subjectImmune genespt_PT
dc.titleA SNP assay for assessing diversity in immune genes in the honey bee (Apis mellifera L.)pt_PT
dc.typeconference object
dspace.entity.typePublication
oaire.citation.conferencePlaceOnlinept_PT
oaire.citation.endPage5pt_PT
oaire.citation.startPage5pt_PT
oaire.citation.titleResearch Network for Sustainable Bee Breedingpt_PT
person.familyNameHenriques
person.familyNameLopes
person.familyNamePinto
person.givenNameDora
person.givenNameAna Rita
person.givenNameM. Alice
person.identifier.ciencia-id291F-986F-07DA
person.identifier.ciencia-idF014-6835-054D
person.identifier.ciencia-idF814-A1D0-8318
person.identifier.orcid0000-0001-7530-682X
person.identifier.orcid0000-0002-1888-2262
person.identifier.orcid0000-0001-9663-8399
person.identifier.scopus-author-id55761737300
person.identifier.scopus-author-id8085507800
rcaap.rightsopenAccesspt_PT
rcaap.typeconferenceObjectpt_PT
relation.isAuthorOfPublicationd2abd09f-a90c-4cfb-9a60-7fc32f56184d
relation.isAuthorOfPublication5c8dc714-e63c-4ac6-882e-92deafa4bbe8
relation.isAuthorOfPublication0667fe04-7078-483d-9198-56d167b19bc5
relation.isAuthorOfPublication.latestForDiscovery5c8dc714-e63c-4ac6-882e-92deafa4bbe8

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