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Research Project: Improved Biologically-Based Methods for Insect Pest Management of Crop Insect Pests

Location: Insect Behavior and Biocontrol Research

Title: The whole genome sequence of the Mediterranean fruit fly, Ceratitis capitata (Wiedmann), reveals insights into the biology and adaptive evolution of a highly invasive pest species

Author
item PAPANICOLAOU, ALEXIE - WESTERN SYDNEY UNIVERSITY
item SCHETELIG, MARC - JUSTUS-LIEBIG UNIVERSITY
item ARENSBURGER, PETER - CALIFORNIA POLYTECHNIC STATE UNIVERSITY
item ATKINSON, PETER - CALIFORNIA STATE UNIVERSITY
item BENOIT, JOSHUA - UNIVERSITY OF CINCINNATI
item BOURTZIS, KOSTAS - INTERNATIONAL ATOMIC ENERGY AGENCY (IAEA)
item CASTANERA, PEDRO - CENTRO DE INVESTIGACIONS BIOLOGICAS, CIB, (C.S.I.C.)
item CAVANAUGH, JOHN - UNIVERSITY OF CINCINNATI
item CHAO, HSU - BAYLOR COLLEGE OF MEDICINE
item Childers, Christopher
item CURRIL, INGRID - GEORG AUGUST UNIVERSITY
item DINH, HUYEN - BAYLOR COLLEGE OF MEDICINE
item DODDAAPANELI, HARSHA - BAYLOR COLLEGE OF MEDICINE
item DOLAN, AMANDA - UNIVERSITY OF ROCHESTER
item DUGAN, SHANNON - BAYLOR COLLEGE OF MEDICINE
item FRIEDRICH, MARKUS - WAYNE STATE UNIVERSITY
item GASPERI, GIULIANO - UNIVERSITY OF PAVIA
item Geib, Scott
item GEORGAKILAS, GEORGIOS - UNIVERSITY OF THESSALY
item GIBBS, RICHARD - BAYLOR COLLEGE OF MEDICINE
item GIERS, SARAH - UNIVERSITY OF ILLINOIS
item GOMULSKI, LUDVIK - UNIVERSITY OF PAVIA
item GONZALEZ-GUZMAN, MIGUEL - CENTRO DE INVESTIGACIONS BIOLOGICAS, CIB, (C.S.I.C.)
item GUILLEM-AMAT, ANA - CENTRO DE INVESTIGACIONS BIOLOGICAS, CIB, (C.S.I.C.)
item HAN, YI - BAYLOR COLLEGE OF MEDICINE
item HATZIGEORGIOU, ARTEMIS - UNIVERSITY OF THESSALY
item HERNANDEZ-CRESPO, PEDRO - CENTRO DE INVESTIGACIONS BIOLOGICAS, CIB, (C.S.I.C.)
item HUGHES, DANIEL - BAYLOR COLLEGE OF MEDICINE
item JONES, JEFFERY - OAKLAND UNIVERSITY
item KARAGKOUNI, DIMITRA - UNIVERSITY OF THESSALY
item KOSKINIOTI, PANAGIOTA - UNIVERSITY OF THESSALY
item LEE, SANDRA - BAYLOR COLLEGE OF MEDICINE
item MALACRIDA, ANNA - UNIVERSITY OF PAVIA
item MANNI, MOSE - UNIVERSITY OF PAVIA
item MATHIOPOULOS, KOSTAS - UNIVERSITY OF THESSALY
item MURALI, SHWETHA - BAYLOR COLLEGE OF MEDICINE
item MURPHY, TERENCE - NATIONAL INSTITUTES OF HEALTH (NIH)
item MUZNY, DONNA - BAYLOR COLLEGE OF MEDICINE
item OBERHOFER, GEORGE - GEORG AUGUST UNIVERSITY
item ORTEGO, FELIX - CENTRO DE INVESTIGACIONS BIOLOGICAS, CIB, (C.S.I.C.)
item PARASKEVOPOULOU, MARIA - UNIVERSITY OF THESSALY
item Poelchau, Monica
item QU, JIAXIN - BAYLOR COLLEGE OF MEDICINE
item RECZKO, MARTIN - BIOMEDICAL SCIENCES RESEARCH CENTER (B.S.R.C.) "ALEXANDER FLEMING"
item ROBERTSON, HUGH - UNIVERSITY OF ILLINOIS
item ROSENDALE, ANDREW - UNIVERSITY OF CINCINNATI
item ROSSELOT, ANDREW - UNIVERSITY OF CINCINNATI
item SACCONE, GIUSEPPE - THE UNIVERSITY OF NAPLES FEDERICO II
item SALVEMINI, MARCO - THE UNIVERSITY OF NAPLES FEDERICO II
item SAVINI, GRAZIA - UNIVERSITY OF PAVIA
item SCHREINER, PATRICK - UNIVERSITY OF CALIFORNIA
item SCOLARI, FRANCESCA - UNIVERSITY OF PAVIA
item SICILIANO, PAOLO - UNIVERSITY OF PAVIA
item SIM, SHEINA - UNIVERSITY OF HAWAII
item TSIAMIS, GEORGE - UNIVERSITY OF PATRAS
item URENA, ENRIC - CENTRO DE INVESTIGACIONS BIOLOGICAS, CIB, (C.S.I.C.)
item VLACHOS, IOANNIS - UNIVERSITY OF THESSALY
item WERREN, JOHN - UNIVERSITY OF ROCHESTER
item WIMMER, ERNST - GEORG AUGUST UNIVERSITY
item WORLEY, KIM - BAYLOR COLLEGE OF MEDICINE
item ZACHAROPOULOU, ANTIGONE - UNIVERSITY OF PATRAS
item RICHARDS, STEPHEN - BAYLOR COLLEGE OF MEDICINE
item Handler, Alfred - Al

Submitted to: Genome Biology
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 7/29/2016
Publication Date: 9/22/2016
Citation: Papanicolaou, A., Schetelig, M.F., Arensburger, P., Atkinson, P.W., Benoit, J.B., Bourtzis, K., Castanera, P., Cavanaugh, J.P., Chao, H., Childers, C., Curril, I., Dinh, H., Doddaapaneli, H.V., Dolan, A., Dugan, S., Friedrich, M., Gasperi, G., Geib, S.M., Georgakilas, G., Gibbs, R.A., Giers, S.D., Gomulski, L.M., Gonzalez-Guzman, M., Guillem-Amat, A., Han, Y., Hatzigeorgiou, A.G., Hernandez-Crespo, P., Hughes, D.S., Jones, J.W., Karagkouni, D., Koskinioti, P., Lee, S.L., Malacrida, A.R., Manni, M., Mathiopoulos, K., Murali, S.C., Murphy, T.D., Muzny, D.M., Oberhofer, G., Ortego, F., Paraskevopoulou, M.D., Poelchau, M.F., Qu, J., Reczko, M., Robertson, H.M., Rosendale, A.J., Rosselot, A.E., Saccone, G., Salvemini, M., Savini, G., Schreiner, P., Scolari, F., Siciliano, P., Sim, S.B., Tsiamis, G., Urena, E., Vlachos, I.S., Werren, J.H., Wimmer, E.A., Worley, K.C., Zacharopoulou, A., Richards, S., Handler, A.M. 2016. The whole genome sequence of the Mediterranean fruit fly, Ceratitis capitata (Wiedmann), reveals insights into the biology and adaptive evolution of a highly invasive pest species. Genome Biology. 17:192. https://doi.org/10.1186/s13059-016-1049-2.
DOI: https://doi.org/10.1186/s13059-016-1049-2

Interpretive Summary: The Mediterranean fruit fly (Ceratitis capitata, Diptera: Tephritidae) is one of the most destructive agricultural pests throughout the world due to its broad host plant range that includes more than 260 different fruits, flowers, vegetables, and nuts. Host preferences vary in different regions of the world, which can be associated with its ability to invade and adapt to ecological niches throughout tropical and subtropical regions. To further our understanding of this critical agricultural pest and to develop genetic strategies to control its population size, scientists at the USDA Agriculture Research Service, Center for Medical, Agricultural and Veterinary Entomology, Gainesville, Florida, initiated the Mediterranean fruit fly whole genome sequencing (WGS) project. This represented the first of 30 insect genomes to be sequenced as part of pilot project for the i5K arthropod project at the Baylor College of Medicine Human Genome Sequencing Center (HGSC). A thorough automated structural annotation of the genome was conducted, aided by RNA-Seq data, which allowed a curation community of 20 groups to make key sequence assignments related to genome structure, orthology, and genetic regulation. Manual annotations were also performed for key gene families related to invasiveness, adaptation, insecticide resistance and detoxification, and aspects of sex-determination, reproduction and cell death related to population control strategies. This resource should provide a foundation for continued research on fundamental and comparative studies of insect genomes and gene family evolution, and to the improvement of biologically-based programs having the goal of controlling medfly, in addition to related insect pest populations.

Technical Abstract: The Mediterranean fruit fly is one of the most destructive agricultural pests throughout the world due to its broad host plant range that includes more than 260 different fruits, flowers, vegetables, and nuts. Host preferences vary in different regions of the world, which can be associated with its ability to invade and adapt to ecological niches throughout tropical and subtropical regions. To further our understanding of this critical agricultural pest and to facilitate development of genetic strategies to control its population size, scientists at the USDA, Agriculture Research Service, Center for Medical, Agricultural and Veterinary Entomology, Gainesville, Florida, initiated the Mediterranean fruit fly whole genome sequencing (WGS) project. This species represented the first of 30 insect genomes to be sequenced as part of pilot project for the i5K arthropod project at the Baylor College of Medicine Human Genome Sequencing Center (HGSC). A thorough automated structural annotation of the genome was conducted, aided by RNA-Seq data, which allowed a curation community of 20 groups to make key sequence assignments related to genome structure, orthology, and genetic regulation. Manual annotations were also performed for key gene families related to invasiveness, adaptation, insecticide resistance and detoxification, and aspects of sex-determination, reproduction and cell death related to population control strategies. This resource should provide a foundation for continued research on fundamental and comparative studies of insect genomes and gene family evolution, and to the improvement of biologically-based programs having the goal of controlling medfly, in addition to related insect pest populations.