Publicação
Exploiting the mitogenomes of Apis mellifera subspecies to authenticate the origin of Mediterranean honeys
| Resumo: | As defined by the Codex Alimentarius, honey is the natural sweet substance produced by honeybees from the nectar of plants.1 This natural product is widely appreciated but is also considered one of the foods most prone to adulteration. The increasing demand for monofloral honey and those with protected designation of origin (PDO) has led to increased fraud by mislabeling botanical and geographical origin.2 Verifying the geographical origin of honey is a challenging endeavor. Recently, attention has been paid to the entomological origin, as it aligns with the geographical patterns of honeybee subspecies. The Mediterranean region is a hot spot of Apis mellifera subspecific diversity shaped by thousands of years of evolution. Although contemporary human-mediated movements of queens have impacted the native subspecific distribution, several PDO honeys specify the subspecies that produce those honeys, thus offering a unique avenue for authentication. As part of the European PRIMA project MEDIBEES, we aim to develop a DNA-metabarcoding approach to authenticate honey's entomological origin, focusing on mitochondrial lineages A, M, C, and O. To achieve this, the DNA of 1280 honeybees representing 16 subspecies and the four lineages (A.m. sahariensis, A.m. intermisa, A.m. siciliana, A.m. ruttneri, A.m. iberiensis, A.m. ligustica, A.m. macedonica, A.m. adami, A.m. cecropia, A.m. cypria, A.m. caucasica, A.m. meda, A.m. anatoliaca, A.m. syriaca, A.m. jemenitica, A.m. lamarcki) was extracted, and their whole genomes were sequenced. The MitoZ software was used to assemble the mitochondrial genomes, resulting in 769 mitochondrial genomes successfully assembled. Subsequently, each of these genomes was aligned individually with a reference genome using MEGA software, and mitogenomes not specific to Apis mellifera were discarded. Of these, only the mitogenomes corresponding to the native ancestry were retained, resulting in a final set of 355 mitogenomes in the database. A phylogenetic analysis was conducted with the final 355 mitochondrial sequences, revealing four distinct clusters corresponding to the four maternal lineages. This dataset was used for calculating the fixation index (FST) pairwise values, and a sliding window of 400 bp was used to identify single nucleotide polymorphisms (SNPs) that effectively differentiate (FST>0.98) the four lineages, enabling the identification of promising regions for primer design. This work resulted in the discovery of three promising regions for discriminating the four maternal lineages: one in the COI gene, one in the ND1 gene, and one in the CYTB gene (Fig. 1). |
|---|---|
| Autores principais: | Honrado, Mónica |
| Outros Autores: | Henriques, Dora; Santos, Joana; Yadró Garcia, Carlos A.; Medibees Consortium; Pinto, M. Alice; Amaral, Joana S. |
| Assunto: | Mitogenomes Apis mellifera Authentication Mediterranean Honey Research Subject Categories::TECHNOLOGY::Chemical engineering::Food technology |
| Ano: | 2024 |
| País: | Portugal |
| Tipo de documento: | documento de conferência |
| Tipo de acesso: | acesso aberto |
| Instituição associada: | Instituto Politécnico de Bragança |
| Idioma: | inglês |
| Origem: | Biblioteca Digital do IPB |
| _version_ | 1867172978038407168 |
|---|---|
| author | Honrado, Mónica |
| author2 | Henriques, Dora Santos, Joana Yadró Garcia, Carlos A. Medibees Consortium Pinto, M. Alice Amaral, Joana S. |
| author2_role | author author author author author author |
| author_facet | Honrado, Mónica Henriques, Dora Santos, Joana Yadró Garcia, Carlos A. Medibees Consortium Pinto, M. Alice Amaral, Joana S. |
| author_role | author |
| contributor_name_str_mv | Biblioteca Digital do IPB |
| country_str | PT |
| creators_json_txt | [{\"Person.name\":\"Honrado, Mónica\",\"Person.identifier.orcid\":\"0000-0002-5126-4693\"},{\"Person.name\":\"Henriques, Dora\",\"Person.identifier.orcid\":\"0000-0001-7530-682X\"},{\"Person.name\":\"Santos, Joana\"},{\"Person.name\":\"Yadró Garcia, Carlos A.\",\"Person.identifier.orcid\":\"0000-0002-6916-3647\"},{\"Person.name\":\"Medibees Consortium\"},{\"Person.name\":\"Pinto, M. Alice\",\"Person.identifier.orcid\":\"0000-0001-9663-8399\"},{\"Person.name\":\"Amaral, Joana S.\",\"Person.identifier.orcid\":\"0000-0002-3648-7303\"}] |
| datacite.contributors.contributor.contributorName.fl_str_mv | Biblioteca Digital do IPB |
| datacite.creators.creator.creatorName.fl_str_mv | Honrado, Mónica Henriques, Dora Santos, Joana Yadró Garcia, Carlos A. Medibees Consortium Pinto, M. Alice Amaral, Joana S. |
| datacite.date.Accepted.fl_str_mv | 2024-01-01T00:00:00Z |
| datacite.date.available.fl_str_mv | 2024-10-29T15:14:57Z |
| datacite.date.embargoed.fl_str_mv | 2024-10-29T15:14:57Z |
| datacite.rights.fl_str_mv | http://purl.org/coar/access_right/c_abf2 |
| datacite.subjects.subject.fl_str_mv | Mitogenomes Apis mellifera Authentication Mediterranean Honey Research Subject Categories::TECHNOLOGY::Chemical engineering::Food technology |
| datacite.titles.title.fl_str_mv | Exploiting the mitogenomes of Apis mellifera subspecies to authenticate the origin of Mediterranean honeys |
| dc.contributor.none.fl_str_mv | Biblioteca Digital do IPB |
| dc.creator.none.fl_str_mv | Honrado, Mónica Henriques, Dora Santos, Joana Yadró Garcia, Carlos A. Medibees Consortium Pinto, M. Alice Amaral, Joana S. |
| dc.date.Accepted.fl_str_mv | 2024-01-01T00:00:00Z |
| dc.date.available.fl_str_mv | 2024-10-29T15:14:57Z |
| dc.date.embargoed.fl_str_mv | 2024-10-29T15:14:57Z |
| dc.format.none.fl_str_mv | application/pdf |
| dc.identifier.none.fl_str_mv | http://hdl.handle.net/10198/30492 |
| dc.language.none.fl_str_mv | eng |
| dc.publisher.none.fl_str_mv | Sociedade Portuguesa de Química |
| dc.rights.cclincense.fl_str_mv | http://creativecommons.org/licenses/by/4.0/ |
| dc.rights.none.fl_str_mv | http://purl.org/coar/access_right/c_abf2 |
| dc.subject.none.fl_str_mv | Mitogenomes Apis mellifera Authentication Mediterranean Honey Research Subject Categories::TECHNOLOGY::Chemical engineering::Food technology |
| dc.title.fl_str_mv | Exploiting the mitogenomes of Apis mellifera subspecies to authenticate the origin of Mediterranean honeys |
| dc.type.none.fl_str_mv | http://purl.org/coar/resource_type/c_c94f |
| description | As defined by the Codex Alimentarius, honey is the natural sweet substance produced by honeybees from the nectar of plants.1 This natural product is widely appreciated but is also considered one of the foods most prone to adulteration. The increasing demand for monofloral honey and those with protected designation of origin (PDO) has led to increased fraud by mislabeling botanical and geographical origin.2 Verifying the geographical origin of honey is a challenging endeavor. Recently, attention has been paid to the entomological origin, as it aligns with the geographical patterns of honeybee subspecies. The Mediterranean region is a hot spot of Apis mellifera subspecific diversity shaped by thousands of years of evolution. Although contemporary human-mediated movements of queens have impacted the native subspecific distribution, several PDO honeys specify the subspecies that produce those honeys, thus offering a unique avenue for authentication. As part of the European PRIMA project MEDIBEES, we aim to develop a DNA-metabarcoding approach to authenticate honey's entomological origin, focusing on mitochondrial lineages A, M, C, and O. To achieve this, the DNA of 1280 honeybees representing 16 subspecies and the four lineages (A.m. sahariensis, A.m. intermisa, A.m. siciliana, A.m. ruttneri, A.m. iberiensis, A.m. ligustica, A.m. macedonica, A.m. adami, A.m. cecropia, A.m. cypria, A.m. caucasica, A.m. meda, A.m. anatoliaca, A.m. syriaca, A.m. jemenitica, A.m. lamarcki) was extracted, and their whole genomes were sequenced. The MitoZ software was used to assemble the mitochondrial genomes, resulting in 769 mitochondrial genomes successfully assembled. Subsequently, each of these genomes was aligned individually with a reference genome using MEGA software, and mitogenomes not specific to Apis mellifera were discarded. Of these, only the mitogenomes corresponding to the native ancestry were retained, resulting in a final set of 355 mitogenomes in the database. A phylogenetic analysis was conducted with the final 355 mitochondrial sequences, revealing four distinct clusters corresponding to the four maternal lineages. This dataset was used for calculating the fixation index (FST) pairwise values, and a sliding window of 400 bp was used to identify single nucleotide polymorphisms (SNPs) that effectively differentiate (FST>0.98) the four lineages, enabling the identification of promising regions for primer design. This work resulted in the discovery of three promising regions for discriminating the four maternal lineages: one in the COI gene, one in the ND1 gene, and one in the CYTB gene (Fig. 1). |
| dirty | 0 |
| eu_rights_str_mv | openAccess |
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| fulltext.url.fl_str_mv | https://bibliotecadigital.ipb.pt/bitstreams/c8cc29b7-d82c-499c-8c93-2261213114d0/download |
| funding.funder.alternateName_str_mv | FCT FCT |
| funding.funder.identifier_str_mv | http://doi.org/10.13039/501100001871 http://doi.org/10.13039/501100001871 |
| funding.funder.name_str_mv | Fundação para a Ciência e a Tecnologia Fundação para a Ciência e a Tecnologia |
| funding.name_str_mv | 6817 - DCRRNI ID 6817 - DCRRNI ID |
| id | ipb_afa826bb702af514b7841f31e28a643a |
| identifier.url.fl_str_mv | http://hdl.handle.net/10198/30492 |
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| institution | Instituto Politécnico de Bragança |
| instname_str | Instituto Politécnico de Bragança |
| language | eng |
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| organization_str_mv | urn:organizationAcronym:ipb |
| person_str_mv | Honrado, Mónica Honrado, Mónica https://www.ciencia-id.pt/4712-B40B-4B0E 4712-B40B-4B0E http://orcid.org/0000-0002-5126-4693 0000-0002-5126-4693 Henriques, Dora Henriques, Dora https://www.ciencia-id.pt/291F-986F-07DA 291F-986F-07DA http://orcid.org/0000-0001-7530-682X 0000-0001-7530-682X Santos, Joana Yadró Garcia, Carlos A. Yadró Garcia, Carlos A. https://www.ciencia-id.pt/F71F-B08E-EC39 F71F-B08E-EC39 http://orcid.org/0000-0002-6916-3647 0000-0002-6916-3647 Medibees Consortium Pinto, M. Alice Pinto, M. Alice https://www.ciencia-id.pt/F814-A1D0-8318 F814-A1D0-8318 http://orcid.org/0000-0001-9663-8399 0000-0001-9663-8399 Amaral, Joana S. Amaral, Joana S. https://www.ciencia-id.pt/5319-7DE8-BEDA 5319-7DE8-BEDA http://orcid.org/0000-0002-3648-7303 0000-0002-3648-7303 |
| publishDate | 2024 |
| publisher.none.fl_str_mv | Sociedade Portuguesa de Química |
| reponame_str | Biblioteca Digital do IPB |
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| spelling | engSociedade Portuguesa de Químicapt_PTAs defined by the Codex Alimentarius, honey is the natural sweet substance produced by honeybees from the nectar of plants.1 This natural product is widely appreciated but is also considered one of the foods most prone to adulteration. The increasing demand for monofloral honey and those with protected designation of origin (PDO) has led to increased fraud by mislabeling botanical and geographical origin.2 Verifying the geographical origin of honey is a challenging endeavor. Recently, attention has been paid to the entomological origin, as it aligns with the geographical patterns of honeybee subspecies. The Mediterranean region is a hot spot of Apis mellifera subspecific diversity shaped by thousands of years of evolution. Although contemporary human-mediated movements of queens have impacted the native subspecific distribution, several PDO honeys specify the subspecies that produce those honeys, thus offering a unique avenue for authentication. As part of the European PRIMA project MEDIBEES, we aim to develop a DNA-metabarcoding approach to authenticate honey's entomological origin, focusing on mitochondrial lineages A, M, C, and O. To achieve this, the DNA of 1280 honeybees representing 16 subspecies and the four lineages (A.m. sahariensis, A.m. intermisa, A.m. siciliana, A.m. ruttneri, A.m. iberiensis, A.m. ligustica, A.m. macedonica, A.m. adami, A.m. cecropia, A.m. cypria, A.m. caucasica, A.m. meda, A.m. anatoliaca, A.m. syriaca, A.m. jemenitica, A.m. lamarcki) was extracted, and their whole genomes were sequenced. The MitoZ software was used to assemble the mitochondrial genomes, resulting in 769 mitochondrial genomes successfully assembled. Subsequently, each of these genomes was aligned individually with a reference genome using MEGA software, and mitogenomes not specific to Apis mellifera were discarded. Of these, only the mitogenomes corresponding to the native ancestry were retained, resulting in a final set of 355 mitogenomes in the database. A phylogenetic analysis was conducted with the final 355 mitochondrial sequences, revealing four distinct clusters corresponding to the four maternal lineages. This dataset was used for calculating the fixation index (FST) pairwise values, and a sliding window of 400 bp was used to identify single nucleotide polymorphisms (SNPs) that effectively differentiate (FST>0.98) the four lineages, enabling the identification of promising regions for primer design. This work resulted in the discovery of three promising regions for discriminating the four maternal lineages: one in the COI gene, one in the ND1 gene, and one in the CYTB gene (Fig. 1).application/pdfpt_PTExploiting the mitogenomes of Apis mellifera subspecies to authenticate the origin of Mediterranean honeysPersonalHonrado, MónicaDSpacehttp://dspace.org/items/87f8840d-04b1-427a-bca9-d37eadfc0e9bDSpacehttp://dspace.org/items/87f8840d-04b1-427a-bca9-d37eadfc0e9bHonradoMónicaCiência IDhttps://www.ciencia-id.pt4712-B40B-4B0EORCIDhttp://orcid.org0000-0002-5126-4693PersonalHenriques, DoraDSpacehttp://dspace.org/items/d2abd09f-a90c-4cfb-9a60-7fc32f56184dDSpacehttp://dspace.org/items/d2abd09f-a90c-4cfb-9a60-7fc32f56184dHenriquesDoraCiência IDhttps://www.ciencia-id.pt291F-986F-07DAORCIDhttp://orcid.org0000-0001-7530-682XScopus Author IDhttps://www.scopus.com55761737300Santos, JoanaPersonalYadró Garcia, Carlos A.DSpacehttp://dspace.org/items/59212a6c-fc6a-45fd-b37a-51e90926c9e3DSpacehttp://dspace.org/items/59212a6c-fc6a-45fd-b37a-51e90926c9e3GarcíaCarlos A. YadróCiência IDhttps://www.ciencia-id.ptF71F-B08E-EC39ORCIDhttp://orcid.org0000-0002-6916-3647Medibees ConsortiumPersonalPinto, M. AliceDSpacehttp://dspace.org/items/0667fe04-7078-483d-9198-56d167b19bc5DSpacehttp://dspace.org/items/0667fe04-7078-483d-9198-56d167b19bc5PintoM. AliceCiência IDhttps://www.ciencia-id.ptF814-A1D0-8318ORCIDhttp://orcid.org0000-0001-9663-8399Scopus Author IDhttps://www.scopus.com8085507800PersonalAmaral, Joana S.DSpacehttp://dspace.org/items/42be2cf4-adc4-4e7f-ac60-7aab515b38cdDSpacehttp://dspace.org/items/42be2cf4-adc4-4e7f-ac60-7aab515b38cdAmaralJoana S.Ciência IDhttps://www.ciencia-id.pt5319-7DE8-BEDAORCIDhttp://orcid.org0000-0002-3648-7303HostingInstitutionOrganizationalBiblioteca Digital do IPBe-mailmailto:dspace@ipb.ptdspace@ipb.pt2024-10-29T15:14:57Z20242024-01-01T00:00:00ZHandlehttp://hdl.handle.net/10198/30492http://purl.org/coar/access_right/c_abf2open accessMitogenomesApis melliferaAuthenticationMediterraneanHoneyResearch Subject Categories::TECHNOLOGY::Chemical engineering::Food technology6279752 bytesFundação para a Ciência e a TecnologiaMountain Research Center6817 - DCRRNI IDCrossref Funder IDhttp://doi.org/10.13039/501100001871Fundação para a Ciência e a TecnologiaAssociate Laboratory for Sustainability and Tecnology in Mountain Regions6817 - DCRRNI IDCrossref Funder IDhttp://doi.org/10.13039/501100001871other research producthttp://purl.org/coar/resource_type/c_c94fconference object2024http://creativecommons.org/licenses/by/4.0/http://purl.org/coar/access_right/c_abf2application/pdffulltexthttps://bibliotecadigital.ipb.pt/bitstreams/c8cc29b7-d82c-499c-8c93-2261213114d0/downloadXVII Encontro Nacional Química dos Alimentos117117Vila Real |
| spellingShingle | Exploiting the mitogenomes of Apis mellifera subspecies to authenticate the origin of Mediterranean honeys Honrado, Mónica Mitogenomes Apis mellifera Authentication Mediterranean Honey Research Subject Categories::TECHNOLOGY::Chemical engineering::Food technology |
| status | SINGLETON |
| subject.fl_str_mv | Mitogenomes Apis mellifera Authentication Mediterranean Honey Research Subject Categories::TECHNOLOGY::Chemical engineering::Food technology |
| title | Exploiting the mitogenomes of Apis mellifera subspecies to authenticate the origin of Mediterranean honeys |
| title_full | Exploiting the mitogenomes of Apis mellifera subspecies to authenticate the origin of Mediterranean honeys |
| title_fullStr | Exploiting the mitogenomes of Apis mellifera subspecies to authenticate the origin of Mediterranean honeys |
| title_full_unstemmed | Exploiting the mitogenomes of Apis mellifera subspecies to authenticate the origin of Mediterranean honeys |
| title_short | Exploiting the mitogenomes of Apis mellifera subspecies to authenticate the origin of Mediterranean honeys |
| title_sort | Exploiting the mitogenomes of Apis mellifera subspecies to authenticate the origin of Mediterranean honeys |
| topic | Mitogenomes Apis mellifera Authentication Mediterranean Honey Research Subject Categories::TECHNOLOGY::Chemical engineering::Food technology |
| topic_facet | Mitogenomes Apis mellifera Authentication Mediterranean Honey Research Subject Categories::TECHNOLOGY::Chemical engineering::Food technology |
| url | http://hdl.handle.net/10198/30492 |
| visible | 1 |