HBeeID : a molecular tool that identifes honey bee subspecies from diferent geographic populations
Background: Honey bees are the principal commercial pollinators. Along with other arthropods, they are increasingly under threat from anthropogenic factors such as the incursion of invasive honey bee subspecies, pathogens and parasites. Better tools are needed to identify bee subspecies. Genomic dat...
| Autores principales: | , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
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| Formato: | info:ar-repo/semantics/artículo |
| Lenguaje: | Inglés |
| Publicado: |
BioMed Central
2025
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| Materias: | |
| Acceso en línea: | http://hdl.handle.net/20.500.12123/22854 https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-024-05776-9 https://doi.org/10.1186/s12859-024-05776-9 |
| _version_ | 1855038652399222784 |
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| author | Donthu, Ravikiran Marcelino, Jose A. P. Giordano, Rosanna Tao, Yudong Weber, Everett Avalos, Arian Band, Mark Akraiko, Tatsiana Chen, Shu‑Ching Reyes, Maria P Hao, Haiping Ortiz‑Alvarado, Yarira Cuf, Charles A. Pérez Claudio, Eddie Soto‑Adames, Felipe Smith‑Pardo, Allan H. Meikle, William G. Evans, Jay D. Giray, Tugrul Abdelkader, Faten B. Allsopp, Mike Ball, Daniel Morgado, Susana B. Barjadze, Shalva Correa‑Benitez, Adriana Chakir, Amina Báez, David R. Chavez, Nabor H. M. Dalmon, Anne Douglas, Adrian B. Fraccica, Carmen Fernández‑Marín, Hermógenes Galindo Cardona, Alberto Guzman‑Novoa, Ernesto Horsburgh, Robert Kence, Meral Kilonzo, Joseph Kükrer, Mert Le Conte, Yves Mazzeo, Gaetana Mota, Fernando Muli, Elliud Oskay, Devrim Ruiz‑Martínez, José A. Oliveri, Eugenia Pichkhaia, Igor Romane, Abderrahmane Guillen Sanchez, Cesar Sikombwa, Evans Satta, Alberto Scannapieco, Alejandra Carla Stanford, Brandi Soroker, Victoria Velarde, Rodrigo A. Vercelli, Monica Huang, Zachary |
| author_browse | Abdelkader, Faten B. Akraiko, Tatsiana Allsopp, Mike Avalos, Arian Ball, Daniel Band, Mark Barjadze, Shalva Báez, David R. Chakir, Amina Chavez, Nabor H. M. Chen, Shu‑Ching Correa‑Benitez, Adriana Cuf, Charles A. Dalmon, Anne Donthu, Ravikiran Douglas, Adrian B. Evans, Jay D. Fernández‑Marín, Hermógenes Fraccica, Carmen Galindo Cardona, Alberto Giordano, Rosanna Giray, Tugrul Guillen Sanchez, Cesar Guzman‑Novoa, Ernesto Hao, Haiping Horsburgh, Robert Huang, Zachary Kence, Meral Kilonzo, Joseph Kükrer, Mert Le Conte, Yves Marcelino, Jose A. P. Mazzeo, Gaetana Meikle, William G. Morgado, Susana B. Mota, Fernando Muli, Elliud Oliveri, Eugenia Ortiz‑Alvarado, Yarira Oskay, Devrim Pichkhaia, Igor Pérez Claudio, Eddie Reyes, Maria P Romane, Abderrahmane Ruiz‑Martínez, José A. Satta, Alberto Scannapieco, Alejandra Carla Sikombwa, Evans Smith‑Pardo, Allan H. Soroker, Victoria Soto‑Adames, Felipe Stanford, Brandi Tao, Yudong Velarde, Rodrigo A. Vercelli, Monica Weber, Everett |
| author_facet | Donthu, Ravikiran Marcelino, Jose A. P. Giordano, Rosanna Tao, Yudong Weber, Everett Avalos, Arian Band, Mark Akraiko, Tatsiana Chen, Shu‑Ching Reyes, Maria P Hao, Haiping Ortiz‑Alvarado, Yarira Cuf, Charles A. Pérez Claudio, Eddie Soto‑Adames, Felipe Smith‑Pardo, Allan H. Meikle, William G. Evans, Jay D. Giray, Tugrul Abdelkader, Faten B. Allsopp, Mike Ball, Daniel Morgado, Susana B. Barjadze, Shalva Correa‑Benitez, Adriana Chakir, Amina Báez, David R. Chavez, Nabor H. M. Dalmon, Anne Douglas, Adrian B. Fraccica, Carmen Fernández‑Marín, Hermógenes Galindo Cardona, Alberto Guzman‑Novoa, Ernesto Horsburgh, Robert Kence, Meral Kilonzo, Joseph Kükrer, Mert Le Conte, Yves Mazzeo, Gaetana Mota, Fernando Muli, Elliud Oskay, Devrim Ruiz‑Martínez, José A. Oliveri, Eugenia Pichkhaia, Igor Romane, Abderrahmane Guillen Sanchez, Cesar Sikombwa, Evans Satta, Alberto Scannapieco, Alejandra Carla Stanford, Brandi Soroker, Victoria Velarde, Rodrigo A. Vercelli, Monica Huang, Zachary |
| author_sort | Donthu, Ravikiran |
| collection | INTA Digital |
| description | Background: Honey bees are the principal commercial pollinators. Along with other arthropods, they are increasingly under threat from anthropogenic factors such as the incursion of invasive honey bee subspecies, pathogens and parasites. Better tools are needed to identify bee subspecies. Genomic data for economic and ecologically important organisms is increasing, but in its basic form its practical application to address ecological problems is limited.
Results: We introduce HBeeID a means to identify honey bees. The tool utilizes a knowledge-based network and diagnostic SNPs identified by discriminant analysis of principle components and hierarchical agglomerative clustering. Tests of HBeeID showed that it identifies African, Americas-Africanized, Asian, and European honey bees with a high degree of certainty even when samples lack the full 272 SNPs of HBeeID. Its prediction capacity decreases with highly admixed samples.
Conclusion: HBeeID is a high-resolution genomic, SNP based tool, that can be used to identify honey bees and screen species that are invasive. Its flexible design allows for future improvements via sample data additions from other localities. |
| format | info:ar-repo/semantics/artículo |
| id | INTA22854 |
| institution | Instituto Nacional de Tecnología Agropecuaria (INTA -Argentina) |
| language | Inglés |
| publishDate | 2025 |
| publishDateRange | 2025 |
| publishDateSort | 2025 |
| publisher | BioMed Central |
| publisherStr | BioMed Central |
| record_format | dspace |
| spelling | INTA228542025-07-01T16:01:31Z HBeeID : a molecular tool that identifes honey bee subspecies from diferent geographic populations Donthu, Ravikiran Marcelino, Jose A. P. Giordano, Rosanna Tao, Yudong Weber, Everett Avalos, Arian Band, Mark Akraiko, Tatsiana Chen, Shu‑Ching Reyes, Maria P Hao, Haiping Ortiz‑Alvarado, Yarira Cuf, Charles A. Pérez Claudio, Eddie Soto‑Adames, Felipe Smith‑Pardo, Allan H. Meikle, William G. Evans, Jay D. Giray, Tugrul Abdelkader, Faten B. Allsopp, Mike Ball, Daniel Morgado, Susana B. Barjadze, Shalva Correa‑Benitez, Adriana Chakir, Amina Báez, David R. Chavez, Nabor H. M. Dalmon, Anne Douglas, Adrian B. Fraccica, Carmen Fernández‑Marín, Hermógenes Galindo Cardona, Alberto Guzman‑Novoa, Ernesto Horsburgh, Robert Kence, Meral Kilonzo, Joseph Kükrer, Mert Le Conte, Yves Mazzeo, Gaetana Mota, Fernando Muli, Elliud Oskay, Devrim Ruiz‑Martínez, José A. Oliveri, Eugenia Pichkhaia, Igor Romane, Abderrahmane Guillen Sanchez, Cesar Sikombwa, Evans Satta, Alberto Scannapieco, Alejandra Carla Stanford, Brandi Soroker, Victoria Velarde, Rodrigo A. Vercelli, Monica Huang, Zachary Honey Bees Single Nucleotide Polymorphisms Diagnostic Techniques Networks Invasive Species Abeja Melífera Polimorfismo de Nucleótido Unico Técnica de Diagnóstico Red Especie Invasiva Background: Honey bees are the principal commercial pollinators. Along with other arthropods, they are increasingly under threat from anthropogenic factors such as the incursion of invasive honey bee subspecies, pathogens and parasites. Better tools are needed to identify bee subspecies. Genomic data for economic and ecologically important organisms is increasing, but in its basic form its practical application to address ecological problems is limited. Results: We introduce HBeeID a means to identify honey bees. The tool utilizes a knowledge-based network and diagnostic SNPs identified by discriminant analysis of principle components and hierarchical agglomerative clustering. Tests of HBeeID showed that it identifies African, Americas-Africanized, Asian, and European honey bees with a high degree of certainty even when samples lack the full 272 SNPs of HBeeID. Its prediction capacity decreases with highly admixed samples. Conclusion: HBeeID is a high-resolution genomic, SNP based tool, that can be used to identify honey bees and screen species that are invasive. Its flexible design allows for future improvements via sample data additions from other localities. Instituto de Genética Fil: Donthu, Ravikiran. Puerto Rico Science, Technology and Research Trust; Estados Unidos Fil: Donthu, Ravikiran. Mahindra University. Centre for Life Sciences; India Fil: Marcelino, Jose A. P. Puerto Rico Science, Technology and Research Trust; Estados Unidos Fil: Marcelino, Jose A. P. Florida Department of Agriculture and Consumer Services. Division of Plant Industry; Estados Unidos Fil: Giordano, Rosanna. Puerto Rico Science, Technology and Research Trust; Estados Unidos Fil: Giordano, Rosanna. Florida International University. Institute of Environment; Estados Unidos Fil: Tao, Yudong. University of Miami. Department of Electrical and Computer Engineering; Estados Unidos Fil: Weber, Everett. Dartmouth College. Ofce of Institutional Research; Estados Unidos Fil: Avalos, Arian. United States Department of Agriculture. The Agricultural Research Service (USDA-ARS). Honey Bee Breeding, Genetics and Physiology Research; Estados Unidos Fil: Band, Mark. University of Illinois. Roy J. Carver Biotechnology Center; Estados Unidos Fil: Akraiko, Tatsiana. University of Illinois. Roy J. Carver Biotechnology Center; Estados Unidos Fil: Chen, Shu‑Ching. University of Missouri-Kansas City. Data Science and Analytics Innovation Center (dSAIC); Estados Unidos Fil: Reyes, Maria P. Florida International University. Knight Foundation School of Computing and Information Sciences; Estados Unidos Fil: Hao, Haiping. Johns Hopkins University. School of Medicine; Estados Unidos Fil: Ortiz‑Alvarado, Yarira. University of Puerto Rico. Department of Biology; Estados Unidos Fil: Cuf, Charles A. University of Puerto Rico. Department of Biology; Estados Unidos Fil: Pérez Claudio, Eddie. University of Pittsburgh. School of Medicine. Department of Biomedical Informatics; Estados Unidos Fil: Soto‑Adames, Felipe. Florida Department of Agriculture and Consumer Services. Division of Plant Industry; Estados Unidos Fil: Smith‑Pardo, Allan H. United States Department of Agriculture. Animal and Plant Health Inspection Service. Plant Protection and Quarantine (USDA-APHIS-PPQ). Science and Technology; Estados Unidos Fil: Meikle, William G. United States Department of Agriculture. The Agricultural Research Service (USDA-ARS). Carl Hayden Bee Research Center; Estados Unidos Fil: Evans, Jay D. United States Department of Agriculture. The Agricultural Research Service (USDA-ARS). Bee Research Laboratory; Estados Unidos Fil: Giray, Tugrul. University of Puerto Rico. Department of Biology; Estados Unidos Fil: Abdelkader, Faten B. University of Carthage, National Agronomic Institute of Tunisia; Túnez Fil: Allsopp, Mike. ARC-Plant Protection & Health. Honey Bee Research Section; Sudáfrica Fil: Ball, Daniel. Forest Fruits Ltd; Zambia Fil: Morgado, Susana B. Associação de Apicultores do Parque Natural do Tejo Internacional. Meltagus; Portugal Fil: Barjadze, Shalva. Ilia State University. Institute of Zoology; Georgia Fil: Correa‑Benitez, Adriana. Universidad Nacional Autónoma de México. Facultad de MedicinaVeterinaria y Zootecnia. Departamento de Medicina y Zootecnia de Abejas, Conejos y Organismos Aquáticos (DMZ:ACyOA); México Fil: Chakir, Amina. University Cadi Ayyad. Semlalia Faculty of Sciences. Applied Chemistry Laboratory; Marruecos Fil: Báez, David R. Amateur Beekeeper; Estados Unidos Fil: Chavez, Nabor H. M. Cochabamba Beekeepers Federation (FEDAC); Bolivia Fil: Dalmon, Anne. French National Research Institute for Agriculture, Food and Environment (INRAE); Francia Fil: Douglas, Adrian B. University of Malta. Institute of Earth Systems, Rural Sciences Farmhouse; Malta Fil: Fraccica, Carmen. Florida Department of Agriculture and Consumer Services. Division of Plant Industry; Estados Unidos Fil: Fernández‑Marín, Hermógenes. Instituto de Investigaciones Científcas y Servicios de Alta Tecnología. Centro de Biodiversidad y Descubrimiento de Drogas; Panamá Fil: Galindo Cardona, Alberto. Universidad Nacional de Tucumán. Instituto de Ecología Regional (IER); Argentina Fil: Galindo Cardona, Alberto. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina Fil: Guzman‑Novoa, Ernesto. University of Guelph. School of Environmental Sciences; Canadá Fil: Horsburgh, Robert. Florida Department of Agriculture and Consumer Services. Division of Plant Industry; Estados Unidos Fil: Kence, Meral. Middle East Technical University. Biology Department; Turquía Fil: Kilonzo, Joseph. International Centre of Insect Physiology and Ecology; Kenia Fil: Kükrer, Mert. Middle East Technical University. Biology Department; Turquía Fil: Kükrer, Mert. Kilis 7 Aralık University. Molecular Biology and Genetics Department; Turquía Fil: Le Conte, Yves. French National Research Institute for Agriculture, Food and Environment (INRAE); Francia Fil: Mazzeo, Gaetana. Università Degli Studi Di Catania. Dipartimento di Agricoltura, Alimentazione e Ambiente; Italia Fil: Mota, Fernando. Independent Beekeeper; Portugal Fil: Muli, Elliud. International Centre of Insect Physiology and Ecology; Kenia Fil: Muli, Elliud. South Eastern Kenya University; Kenia Fil: Oskay, Devrim. Tekirdağ Namık Kemal University. Department of Agricultural Biotechnology; Turquía Fil: Ruiz‑Martínez, José A. High School Lope de Vega. Professional Training in Livestock and Animal Health; España Fil: Oliveri, Eugenia. Istituto Zooproflattico Sperimentale della Sicilia; Italia Fil: Pichkhaia, Igor. Chkhorotsku Local Historical Museum; Georgia Fil: Romane, Abderrahmane. University Cadi Ayyad. Semlalia Faculty of Sciences. Applied Chemistry Laboratory; Marruecos Fil: Guillen Sanchez, Cesar. University of Costa Rica. Escuela de Agronomía, Sede del Atlántico; Costa Rica Fil: Sikombwa, Evans. Forest Fruits Ltd; Zambia Fil: Satta, Alberto. University of Sassari. Department of Agricultural Sciences; Italia Fil: Scannapieco, Alejandra Carla. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Genética; Argentina Fil: Scannapieco, Alejandra Carla. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular (IABIMO); Argentina Fil: Scannapieco, Alejandra Carla. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina Fil: Stanford, Brandi. Florida Department of Agriculture and Consumer Services. Division of Plant Industry; Estados Unidos Fil: Soroker, Victoria. Agricultural Research Organization. The Volcani Center. Institute of Plant Protection. Department of Entomology; Israel Fil: Velarde, Rodrigo A. PROMIEL-SEDEM. Bolivian Apiculture Institute (IAB); Bolivia Fil: Vercelli, Monica. Independent Researcher; Italia Fil: Huang, Zachary. Michigan State University. Apiculture Lab. Department of Entomology; Estados Unidos 2025-07-01T15:18:59Z 2025-07-01T15:18:59Z 2024-08 info:ar-repo/semantics/artículo info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion http://hdl.handle.net/20.500.12123/22854 https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-024-05776-9 1471-2105 https://doi.org/10.1186/s12859-024-05776-9 eng info:eu-repo/semantics/openAccess http://creativecommons.org/licenses/by-nc-sa/4.0/ Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0) application/pdf BioMed Central BMC Bioinformatics 25 : 278 (August 2024) |
| spellingShingle | Honey Bees Single Nucleotide Polymorphisms Diagnostic Techniques Networks Invasive Species Abeja Melífera Polimorfismo de Nucleótido Unico Técnica de Diagnóstico Red Especie Invasiva Donthu, Ravikiran Marcelino, Jose A. P. Giordano, Rosanna Tao, Yudong Weber, Everett Avalos, Arian Band, Mark Akraiko, Tatsiana Chen, Shu‑Ching Reyes, Maria P Hao, Haiping Ortiz‑Alvarado, Yarira Cuf, Charles A. Pérez Claudio, Eddie Soto‑Adames, Felipe Smith‑Pardo, Allan H. Meikle, William G. Evans, Jay D. Giray, Tugrul Abdelkader, Faten B. Allsopp, Mike Ball, Daniel Morgado, Susana B. Barjadze, Shalva Correa‑Benitez, Adriana Chakir, Amina Báez, David R. Chavez, Nabor H. M. Dalmon, Anne Douglas, Adrian B. Fraccica, Carmen Fernández‑Marín, Hermógenes Galindo Cardona, Alberto Guzman‑Novoa, Ernesto Horsburgh, Robert Kence, Meral Kilonzo, Joseph Kükrer, Mert Le Conte, Yves Mazzeo, Gaetana Mota, Fernando Muli, Elliud Oskay, Devrim Ruiz‑Martínez, José A. Oliveri, Eugenia Pichkhaia, Igor Romane, Abderrahmane Guillen Sanchez, Cesar Sikombwa, Evans Satta, Alberto Scannapieco, Alejandra Carla Stanford, Brandi Soroker, Victoria Velarde, Rodrigo A. Vercelli, Monica Huang, Zachary HBeeID : a molecular tool that identifes honey bee subspecies from diferent geographic populations |
| title | HBeeID : a molecular tool that identifes honey bee subspecies from diferent geographic populations |
| title_full | HBeeID : a molecular tool that identifes honey bee subspecies from diferent geographic populations |
| title_fullStr | HBeeID : a molecular tool that identifes honey bee subspecies from diferent geographic populations |
| title_full_unstemmed | HBeeID : a molecular tool that identifes honey bee subspecies from diferent geographic populations |
| title_short | HBeeID : a molecular tool that identifes honey bee subspecies from diferent geographic populations |
| title_sort | hbeeid a molecular tool that identifes honey bee subspecies from diferent geographic populations |
| topic | Honey Bees Single Nucleotide Polymorphisms Diagnostic Techniques Networks Invasive Species Abeja Melífera Polimorfismo de Nucleótido Unico Técnica de Diagnóstico Red Especie Invasiva |
| url | http://hdl.handle.net/20.500.12123/22854 https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-024-05776-9 https://doi.org/10.1186/s12859-024-05776-9 |
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