Chromosome-scale genome assembly of the South American fruit fly, Anastrepha fraterculus sp.1
Anastrepha fraterculus is a cryptic species complex with at least eight morphotypes distributed across the Americas. Among them, A. fraterculus sp.1, present in Argentina, is a major pest impacting fresh fruit production. Integrated pest management strategies, including chemical control and trapping...
| Main Authors: | , , , , , , , , , , , , , , , |
|---|---|
| Format: | Artículo |
| Language: | Inglés |
| Published: |
Wiley
2025
|
| Subjects: | |
| Online Access: | http://hdl.handle.net/20.500.12123/24355 https://onlinelibrary.wiley.com/doi/10.1111/1744-7917.70175 https://doi.org/10.1111/1744-7917.70175 |
| _version_ | 1855487310072643584 |
|---|---|
| author | Rivarola, Maximo Lisandro Conte, Claudia Alejandra Berube, Pierre Chen, Shu-Huang Giardini, Maria Cecilia Scannapieco, Alejandra Carla Milla, Fabian Horacio Soria, Maria Celeste Russo, Romina Maria Wulff, Juan Pedro Djambazian, Haig H. Pomar, Rolando R. Handler, Alfred M. Bourtzis, Kostas Ragoussis, Ioannis Lanzavecchia, Silvia Beatriz |
| author_browse | Berube, Pierre Bourtzis, Kostas Chen, Shu-Huang Conte, Claudia Alejandra Djambazian, Haig H. Giardini, Maria Cecilia Handler, Alfred M. Lanzavecchia, Silvia Beatriz Milla, Fabian Horacio Pomar, Rolando R. Ragoussis, Ioannis Rivarola, Maximo Lisandro Russo, Romina Maria Scannapieco, Alejandra Carla Soria, Maria Celeste Wulff, Juan Pedro |
| author_facet | Rivarola, Maximo Lisandro Conte, Claudia Alejandra Berube, Pierre Chen, Shu-Huang Giardini, Maria Cecilia Scannapieco, Alejandra Carla Milla, Fabian Horacio Soria, Maria Celeste Russo, Romina Maria Wulff, Juan Pedro Djambazian, Haig H. Pomar, Rolando R. Handler, Alfred M. Bourtzis, Kostas Ragoussis, Ioannis Lanzavecchia, Silvia Beatriz |
| author_sort | Rivarola, Maximo Lisandro |
| collection | INTA Digital |
| description | Anastrepha fraterculus is a cryptic species complex with at least eight morphotypes distributed across the Americas. Among them, A. fraterculus sp.1, present in Argentina, is a major pest impacting fresh fruit production. Integrated pest management strategies, including chemical control and trapping, are currently employed to mitigate its effects. Genetic sexing strains of A. fraterculus sp.1 are being evaluated for use in sterile insect technique programs. To support traditional and emerging control methods, this study aimed to enhance the genomic understanding of this morphotype. Individual female and male samples were sequenced using long- and short-read technologies. The female genome (760 Mb) was de novo assembled into 58 scaffolds and the male genome (750 Mb) into 68 scaffolds, with BUSCO completeness scores of 98.8% and 98.7%, respectively. Synteny analysis revealed complete scaffolds of the five autosomes and enabled near-complete reconstruction of the X and Y chromosomes. Gene prediction identified 17 751 and 16 535 protein-coding genes (for female and male genomes, respectively), with repetitive regions representing 46% of both genomes. Additionally, the mitochondrial genome was fully assembled and annotated. This comprehensive genomic resource reveals candidate genes for functional studies, including gene editing and RNA interference, as successfully applied in related tephritid species. These findings lay the foundation for innovative, complementary biocontrol tools against A. fraterculus. |
| format | Artículo |
| id | INTA24355 |
| institution | Instituto Nacional de Tecnología Agropecuaria (INTA -Argentina) |
| language | Inglés |
| publishDate | 2025 |
| publishDateRange | 2025 |
| publishDateSort | 2025 |
| publisher | Wiley |
| publisherStr | Wiley |
| record_format | dspace |
| spelling | INTA243552025-10-29T10:11:34Z Chromosome-scale genome assembly of the South American fruit fly, Anastrepha fraterculus sp.1 Rivarola, Maximo Lisandro Conte, Claudia Alejandra Berube, Pierre Chen, Shu-Huang Giardini, Maria Cecilia Scannapieco, Alejandra Carla Milla, Fabian Horacio Soria, Maria Celeste Russo, Romina Maria Wulff, Juan Pedro Djambazian, Haig H. Pomar, Rolando R. Handler, Alfred M. Bourtzis, Kostas Ragoussis, Ioannis Lanzavecchia, Silvia Beatriz Diptera Fruit Flies Mitochondrial Genetics Sterile Insect Release Candidate Genes Gene Editing Mosca de la Fruta Genética Mitocondrial Liberación de Insectos Estériles Anastrepha fraterculus Gen Candidato Edición de Genes Anastrepha fraterculus is a cryptic species complex with at least eight morphotypes distributed across the Americas. Among them, A. fraterculus sp.1, present in Argentina, is a major pest impacting fresh fruit production. Integrated pest management strategies, including chemical control and trapping, are currently employed to mitigate its effects. Genetic sexing strains of A. fraterculus sp.1 are being evaluated for use in sterile insect technique programs. To support traditional and emerging control methods, this study aimed to enhance the genomic understanding of this morphotype. Individual female and male samples were sequenced using long- and short-read technologies. The female genome (760 Mb) was de novo assembled into 58 scaffolds and the male genome (750 Mb) into 68 scaffolds, with BUSCO completeness scores of 98.8% and 98.7%, respectively. Synteny analysis revealed complete scaffolds of the five autosomes and enabled near-complete reconstruction of the X and Y chromosomes. Gene prediction identified 17 751 and 16 535 protein-coding genes (for female and male genomes, respectively), with repetitive regions representing 46% of both genomes. Additionally, the mitochondrial genome was fully assembled and annotated. This comprehensive genomic resource reveals candidate genes for functional studies, including gene editing and RNA interference, as successfully applied in related tephritid species. These findings lay the foundation for innovative, complementary biocontrol tools against A. fraterculus. Instituto de Genética Fil: Rivarola, Maximo Lisandro. APOLO Biotech; Argentina Fil: Rivarola, Maximo Lisandro. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina Fil: Conte, Claudia Alejandra. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Genética; Argentina Fil: Conte, Claudia Alejandra. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular (IABIMO); Argentina Fil: Conte, Claudia Alejandra. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina Fil: Berube, Pierre. McGill Centre; Canadá Fil: Chen, Shu-Huang. McGill Centre; Canadá Fil: Giardini, Maria Cecilia. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Genética; Argentina Fil: Giardini, Maria Cecilia. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular (IABIMO); Argentina Fil: Giardini, Maria Cecilia. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina 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: Milla, Fabian Horacio. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Genética; Argentina Fil: Milla, Fabian Horacio. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular (IABIMO); Argentina Fil: Milla, Fabian Horacio. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina Fil: Soria, Maria Celeste. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Genética; Argentina Fil: Soria, Maria Celeste. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular (IABIMO); Argentina Fil: Soria, Maria Celeste. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina Fil: Russo, Romina Maria. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Genética; Argentina Fil: Russo, Romina Maria. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular (IABIMO); Argentina Fil: Russo, Romina Maria. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina Fil: Wulff, Juan Pedro. North Carolina State University; Estados Unidos Fil: Djambazian, Haig H. McGill Centre; Canadá Fil: Pomar, Rolando R. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina Fil: Handler, Alfred M. United States Department of Agriculture (USDA). Agricultural Research Service (ARS). Center for Medical, Agricultural, and Veterinary Entomology; Estados Unidos Fil: Bourtzis, Kostas. Vienna International Centre. Joint FAO/IAEA Division of Nuclear Techniques in Food and Agriculture. Insect Pest Control Laboratory; Austria Fil: Ragoussis, Ioannis. McGill Centre; Canadá Fil: Lanzavecchia, Silvia Beatriz. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Genética; Argentina Fil: Lanzavecchia, Silvia Beatriz. Instituto Nacional de Tecnología Agropecuaria (INTA). Instituto de Agrobiotecnología y Biología Molecular (IABIMO); Argentina Fil: Lanzavecchia, Silvia Beatriz. Consejo Nacional de Investigaciones Científicas y Técnicas; Argentina 2025-10-29T10:00:58Z 2025-10-29T10:00:58Z 2025-10 info:ar-repo/semantics/artículo info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion http://hdl.handle.net/20.500.12123/24355 https://onlinelibrary.wiley.com/doi/10.1111/1744-7917.70175 1744-7917 https://doi.org/10.1111/1744-7917.70175 eng info:eu-repograntAgreement/INTA/2023-PD-L01-I087, Caracterización de la diversidad genética de plantas, animales y microorganismos mediante herramientas de genómica aplicada. info:eu-repo/semantics/restrictedAccess 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 Wiley Insect Science : 1-25 (First published: 21 October 2025) |
| spellingShingle | Diptera Fruit Flies Mitochondrial Genetics Sterile Insect Release Candidate Genes Gene Editing Mosca de la Fruta Genética Mitocondrial Liberación de Insectos Estériles Anastrepha fraterculus Gen Candidato Edición de Genes Rivarola, Maximo Lisandro Conte, Claudia Alejandra Berube, Pierre Chen, Shu-Huang Giardini, Maria Cecilia Scannapieco, Alejandra Carla Milla, Fabian Horacio Soria, Maria Celeste Russo, Romina Maria Wulff, Juan Pedro Djambazian, Haig H. Pomar, Rolando R. Handler, Alfred M. Bourtzis, Kostas Ragoussis, Ioannis Lanzavecchia, Silvia Beatriz Chromosome-scale genome assembly of the South American fruit fly, Anastrepha fraterculus sp.1 |
| title | Chromosome-scale genome assembly of the South American fruit fly, Anastrepha fraterculus sp.1 |
| title_full | Chromosome-scale genome assembly of the South American fruit fly, Anastrepha fraterculus sp.1 |
| title_fullStr | Chromosome-scale genome assembly of the South American fruit fly, Anastrepha fraterculus sp.1 |
| title_full_unstemmed | Chromosome-scale genome assembly of the South American fruit fly, Anastrepha fraterculus sp.1 |
| title_short | Chromosome-scale genome assembly of the South American fruit fly, Anastrepha fraterculus sp.1 |
| title_sort | chromosome scale genome assembly of the south american fruit fly anastrepha fraterculus sp 1 |
| topic | Diptera Fruit Flies Mitochondrial Genetics Sterile Insect Release Candidate Genes Gene Editing Mosca de la Fruta Genética Mitocondrial Liberación de Insectos Estériles Anastrepha fraterculus Gen Candidato Edición de Genes |
| url | http://hdl.handle.net/20.500.12123/24355 https://onlinelibrary.wiley.com/doi/10.1111/1744-7917.70175 https://doi.org/10.1111/1744-7917.70175 |
| work_keys_str_mv | AT rivarolamaximolisandro chromosomescalegenomeassemblyofthesouthamericanfruitflyanastrephafraterculussp1 AT conteclaudiaalejandra chromosomescalegenomeassemblyofthesouthamericanfruitflyanastrephafraterculussp1 AT berubepierre chromosomescalegenomeassemblyofthesouthamericanfruitflyanastrephafraterculussp1 AT chenshuhuang chromosomescalegenomeassemblyofthesouthamericanfruitflyanastrephafraterculussp1 AT giardinimariacecilia chromosomescalegenomeassemblyofthesouthamericanfruitflyanastrephafraterculussp1 AT scannapiecoalejandracarla chromosomescalegenomeassemblyofthesouthamericanfruitflyanastrephafraterculussp1 AT millafabianhoracio chromosomescalegenomeassemblyofthesouthamericanfruitflyanastrephafraterculussp1 AT soriamariaceleste chromosomescalegenomeassemblyofthesouthamericanfruitflyanastrephafraterculussp1 AT russorominamaria chromosomescalegenomeassemblyofthesouthamericanfruitflyanastrephafraterculussp1 AT wulffjuanpedro chromosomescalegenomeassemblyofthesouthamericanfruitflyanastrephafraterculussp1 AT djambazianhaigh chromosomescalegenomeassemblyofthesouthamericanfruitflyanastrephafraterculussp1 AT pomarrolandor chromosomescalegenomeassemblyofthesouthamericanfruitflyanastrephafraterculussp1 AT handleralfredm chromosomescalegenomeassemblyofthesouthamericanfruitflyanastrephafraterculussp1 AT bourtziskostas chromosomescalegenomeassemblyofthesouthamericanfruitflyanastrephafraterculussp1 AT ragoussisioannis chromosomescalegenomeassemblyofthesouthamericanfruitflyanastrephafraterculussp1 AT lanzavecchiasilviabeatriz chromosomescalegenomeassemblyofthesouthamericanfruitflyanastrephafraterculussp1 |