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Evolutionary Genetics of Vector and Parasite Populations
Invasion Biology
Development of Molecular Markers for Novel Organisms
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Dr. Adalgisa Caccone
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Parmakelis, A., M. A. Russello, A. CACCONE, C. Brisola Marcondes, J. Costa, O. P. Forattini, M. Sallum, R. C. Wilkerson, and J. R. Powell. Historical analysis of a near disaster: anopheles gambiae in Brazil.
Am J. of Trop. Med and Hyg., 78 (1): 176-178.

Santolamazza, F., , M. Calzetta, J. Etang2, E. Barrese1, I. Dia, A. CACCONE, M.J. Donnelly, V. Petrarca, F. Simard, J. Pinto, A. della Torre. Distribution of knock-down resistance mutations in Anopheles gambiae (Diptera: Culicidae) molecular forms in west and central-west Africa. Malaria Journal 2008, 7:74.

Palkovacs,E.P., K. B. Dion, D. M. Post, and A. CACCONE. Independent evolution of landlocked alewife populations and rapid, parallel evolution of phenotypic traits. Molecular Ecology, Volume 17: 582-597.

Parmakelis, A.,, M.A. Slotman, J.C. Marshall, P.H. Awono-Ambene, C. Antonio-Nkondjio, F. Simard, A. CACCONE, and J.R. Powell The molecular evolution of four anti-malarial immune genes in the Anopheles gambiae species complex. BMC Evolutionary Biology 2008, 8:79 (06 Mar 2008)

Abila, P.A., M. A. Slotman, A. Parmakelis, K. B. Dion, A. S. Robinson, V. B. Muwanika, J. CK Enyaru, L.M. Okedi, S. Aksoy and A. CACCONE.  High levels of genetic differentiation between Ugandan Glossina fuscipes fuscipes populations separated by Lake Kyoga. Plos Emerging Tropical Diseases . PLoS Neglected Tropical Diseases 2(5): e242 doi:10.1371/journal.pntd.0000242121-

Powell J.R. and A. CACCONE. CSI tortoise: unraveling the mystery of mysteries. Galapagos News. 26:8-9.
Glaberman, S. and A. CACCONE. Species-specific evolution of class I MHC genes of iguans (Order: Squamata;Subfamily: Iguaninae) Immunogenetics 60.

Ciofi, C., A. CACCONE, L. B. Beheregaray, M. C. Milinkovitch, M. Russello and J. R. Powell. “Genetics and conservation on islands: the Galápagos giant tortoise as a case study” in “Population Genetics for Animal Conservation” (Bertorelle, Bruford, Chemini, Hauffe, and Vernesi, eds). Cambridge University Press (In press).

Parent, C, E. A. CACCONE and K. Petren. Colonization and diversification of Galápagos terrestrial fauna: a phylogenetic and biogeographical synthesis.

Transactions of the Royal Society of London, series B,  Evolution on Pacific islands: Darwin's Legacy” S. Trewick and R. Cowie (eds.). (in press)

Gentile, G., C. Vernesi, S. Vicario, E. Pecchioli, G. Bertorelle, A. CACCONE, and V. Sbordoni. MtDNA variation in roe deer from Italy (Capreolus capreolus): evidence of admixture in one of the last C.c.italicus populations from central-southern Italy. J. of Italian Zoology (in press).

Chiari, Y., B. Wang, H. Rushmeier, and A. CACCONE. Using digital images to reconstruct 3D biological forms: a new tool for morphometric studies. Biol. J. of Linnean Soc. (in press).

Oliveira, E., Salgueiro P., Pålsson K., Vicente J.L., Arez A.P., Jaenson T., do Rosário V., CACCONE A., Pinto J. High Levels of hybridisation between molecular forms of Anopheles gambiae from Guinea Bissau. Submitted. J.of Med. Entomol.(In press).

Brown, J.E. .K.J. Komatsu1, P.P. Abila, A.S. Robinson, L.M. Okedi, Naomi Dyer, M.J. Donnelly, M.A. Slotman and A. CACCONE. Polymorphic microsatellite markers for the tsetse fly Glossina fuscipes fuscipes (Diptera: glossinidae), a vector of human African trypanosomiasis. Molecular Ecology Resources (in press).

Balmer O. and A. CACCONE. Frequency of multiple-strain infections in Trypanosoma brucei. Acta Tropica.(in press).

Marshall, J.C.,, J. Pinto, J. D. Charlwood, G. Gentile, F. Santolamazza, F. Simard, A. della Torre, M. J. Donnelly, and A. CACCONE. Exploring the origin and degree of genetic isolation of An. gambiae from the islands of São Tomé and Príncipe: implications for testing transgenic-based vector control. Evolutionary Applications (in press).

Poulakakis, N., S.Glaberman, M.Russello*, L. B. Beheregaray, C. Ciofi, J. R. Powell, and A. CACCONE. Rediscovery of an extinct species of giant Galápagos tortoise. PNAS (in press).

Submitted 2008:
Balmer, O., C. Ciofi, D. A. Galbraith, I. R. Swingland, G. R. Zug  and A. CACCONE. Population genetic structure in Aldabra giant tortoises. Mol. Ecol. (submitted).

Glaberman, S., S. Steinfartz, D. Lanterbecq, T. C. Hanley, C. Marquez, H. L. Snell, K. Dion, H. M. Snell, andA. CACCONE. Mitochondrial control region sequences reveal complex phylogeographic patterns and excessive homoplasy in Galápagos marine iguanas (Amblyrhynchus cristatus). Mol. Ecol. (Submitted)
Glaberman, S., M. A. Moreno, and A. CACCONE. Patterns of squamate MHC evolution based on class II genes from Galápagos marine iguanas (Amblyrhynchus cristatus). Mol. Biol. And Evol. (submitted).




Milinkovitch, M.C., D. Monteyne, M. Russello, J. P. Gibbs, H. L. Snell, W. Tapia, C. Marquez, A. CACCONE and J. R. Powelll. Giant Galápagos Tortoises: Molecular Genetic Analysis Reveals Contamination in a Repatriation Program of an Endangered Taxon.  BMC Ecology 2007, 7:2 Published on line 15 February 2007.

Russello, M.A., L. B. Beheregaray, J. P. Gibbs, T. Fritts, N. Havill, J. R. Powell, and A. CACCONE.. Lonesome George is not alone among Galápagos Tortoises. Current Biology 17:317-318.

Russello, M.A., C. Hyseni, J. P. Gibbs, S. Cruz, C. Marquez, W. Tapia, P. Velensky, J. R. Powell and A. CACCONE. Lineage identification of Galápagos tortoises in captivity worldwide. Animal Conservation. Published on line 30 May 2007.

Schielke, E., C. Costantini, G. Carchini, N'falé Sagnon, J.R.Powell, and A. CACCONE. Development of a molecular assay to detect predation on Anopheles gambiae complex larval stages.
Am J. of Trop. Med and Hyg Sep 2007; 77: 464 - 466.

Slotman, M. A. Parmakelis, J. Marshall, P. Awono-Ambene, C. Antonio-Nkondjio, F. Simard, A. CACCONE, and J.R. Powell. Adaptive Evolution in the Anti-Malarial Immune Gene LRIM1 in Anopheles arabiensis.
PloS One Genetics (August 2007, issue 8, e793).

Steinfartz, S., S. Glaberman, D. Lanterbecq, C. Marquez, K. Rassmann, and A. CACCONE.  Genetic impact of a severe El Niño event on Galápagos marine iguanas. PloS ONE 2: e1285.

Beheregaray, L. and A. CACCONE. Cryptic Biodiversity in a Changing World. Invited minireview. J. of Biology, 6:9 (doi:10.I 186/jbiol60). 21 december 2007. Highly Assessed label of BioMed central.

Moreno, M.,  P. Salgueiro, J.L. Vicente, J. Cano, P.J. Berzosa, A. De Lucio A, F. Simard, CACCONE A, V.E. Do Rosario, J. Pinto J  and A. Benito. Genetic population structure of Anopheles gambiae in Equatorial Guinea. Malaria Journal 2007, 6:137 (15 October 2007).

Pinto, J., A. Lynd, J.L. Vicente, F. Santolamazza, N.P. Randle, G. Gentile, M. Moreno, F. Simard, J.D. Charlwood, A. CACCONE, A. della Torre and M. J. Donnelly. Multiple origin of knockdown resistence in the Afrotropical mosquito vector Anopheles gambiae. Plos ONE 11:e1243.



Pinto, J.,  A. Lynd, N. Elissa, M.J. Donnelly, C. Costa, G. Gentile, A. CACCONE, and V.E. do Rosário. Co-occurrence of East and West African kdr mutations suggests high levels of resistance to pyrethroid insecticides in Anopheles gambiae from Libreville, Gabon. Med. and Vet. Entomol, 20: 27-32

Halverson, M.A, D.K. Skelly, and A. CACCONE. Kin Distribution among wood frog (Rana sylvatica) larvae in the wild. Molecular Ecology, 15: 1139-1146

Powell, J.R., and A. CACCONE. A quick guide to Galapagos tortoises. Current Biology, 16: R144-145

Ketmaier, V., F. Giusti, and A. CACCONE. Molecular phylogeny and historical biogeography of the land snail genus Solatopupa (Pulmonata) in the peri-Tyrrhenian area. Mol. Phylog. And Evol., 39: 439-451

Slotman, M.A., M. Mendez, A. della Torre, Y. Toure’, G. Dolo, and A. CACCONE. AFLP analysis indicates genetic differentiation between the Bamako and Savanna chromosomal forms of Anopheles gambiae. Am. J. of Trop. Med and Hyg., 74: 641-648

Ciofi, C., K.A. Wilson, L.B. Beheregeray, C. Marquez, J.P. Gibbs, W. Tapia, H.L. Snell, A. CACCONE and J. R. Powell. Phylogeographic history and gene flow among giant Galápagos tortoises on southern Isabela island. Genetics. 172: 1727-1744

Wolf, J.B., D. Tautz, A. CACCONE, and S. Steinfartz. Development of new microsatellite loci and evaluation of loci from other pinniped species for the Galapagos sea lion (Zalophus californianus wollebaeki). Conservation Genetics, 7: 461-465

Balmer, O., C. Palma, A. MacLeod, A. CACCONE. Characterization of di-, tri-, and tetranucleotide microsatellite markers with perfect repeats for Trypanosoma brucei and related species. Molecular Ecology Notes, 6: 508-510

Havill, N.P., M.E. Montgomery, G.Yu, S. Shiyake, and A. CACCONE. Mitochondrial DNA from hemlock woolly adelgids, Adelges tsugae (Hemiptera, Adelgidae), suggests cryptic speciation and pinpoints the source of introduction to eastern North America. Ann. of the Entomol. Soc. of America, 99(2): 195-203

Olson, M.A., R. Zajac, A. CACCONE, and M.A. Russello. Characterization of polymorphic microsatellite locifor the polychaete tubeworm Hobsonia florida. Mol. Ecol. Notes, 6: 390-392

Poulakakis, N., A. Parmakelis, P. Lymberakis, M. Mylonas, E. Zouros, D.S. Reese, S. Glaberman, and A. CACCONE. Ancient DNA forces reconsideration of evolutionary history of Mediterranean pygmy elephantids.  Biology Letters, 2: 451-454

Lee, J., J. Marshall, O.J. Schmitz, and A. CACCONE. Genetic divergence of Connecticut Melanoplus femurrubrum populations. J. of Heredity, 97: 290-293

Suatoni, E., S. Vicario, S. Rice, T. Snell, and A. CACCONE. An analysis of species boundary and biogeographic patterns in the salt water rotifer, Brachionus plicatilis. Mol. Phylogen. and Evol., 41: 86-98

Beheregaray, L.B., M. Piggott, N.L. Chao, and A. CACCONE. Development and characterization of microsatellite markers for the Amazonian blackwing hatchetfish Carnegiella marthae (Teleostei, Gasteropelecidae). Mol. Ecol. Notes., 6: 787-788

Halverson, M.A, D.K. Skelly, and A. CACCONE.  Inbreeding linked to amphibian survival the wild but not in the laboratory. J. of Heredity, 97: 499-507

Garren, M., S.M. Walsh, A. CACCONE, and N. Knowlton. Patterns of association between Symbiodinium and members of the Montastraea annularis species complex on spatial scales ranging from within colonies to between geographic regions. Coral Reefs, 25: 503-512

Steinfartz, S., S. Vicario, J.W. Arntzen, and A. CACCONE. A Bayesian approach on molecules, morphology and behavior: reconsidering evolutionary patterns in Triturus newts (Amphibia: Salamandridae). J. of Exp. Zoology (Mol.Dev.Evol), 306B: 1-24

Slotman, M.A., N.B. Kelly, L.C. Harrington, S. Kitthawee, J.W. Jones, T.W. Scott, A. CACCONE, and J.R. Powell. Polymorphic microsatellites markers for studies of Aedes aegypti (Diptera Culicidae), the vector of dengue and yellow fever. Molecular Ecology Notes, 7: 168-171

Russello M.A., P. Brazaitis, J. Gratten, G.J. Watkins-Colwell, and A. CACCONE. Molecular assessment of the genetic integrity, distinctiveness and phylogeographic context of the saltwater crocodile (Crocodylus porosus) on Palau. Conservation Genetics, 8: 777-787

Poulakakis, N., A. Parmakelis, P. Lymberakis, M. Mylonas, E. Zouros, D.S. Reese, S. Glaberman, and A. CACCONE. Reply. It remains a mammoth DNA fragment. Biology Letters, 3: 60-63

Steinfartz, S. and A. CACCONE. A set of highly discriminating microsatellite for the Galápagos marine iguana Amblyrhynchus cristatus. Molecular Ecology Notes, 6: 927-929



Karanth, P.K., S. Glaberman, E.P. Palkovacs, A. CACCONE, and A. Yoder. Seychelles tortoises are they a distinct species? DNA from sub-fossil material sheds light on this issue. Amphibia and Reptilia, 26: 116-121

Leonard, J.A., N. Rohland, S. Glaberman, R.C. Fleischer, S. Pääbo, A. CACCONE, and M. Hofreiter.  How a Zebra Lost its Stripes: 20 Years of Ancient DNA and the Origin of the Quagga. Biology Letters, 1(3): 291-295

Russello, M.A., S. Glaberman, C. Marquez, J.R. Powell, and A. CACCONE. A novel taxon of Giant tortoises in conservation peril. Biology Letters, 1(3): 287-290

Beheregaray, L.B., J. Chae, N.L. Chao, and A. CACCONE. Characterization of microsatellite loci for the rummy nose tetra Hemigrammus bleheri (Characidae), an Amazonian flooded forest fish. Molecular Ecology Notes, 5(3): 536-537

Hanley, T., and A. CACCONE. Development of primers for the characterization of the mitochondrial control region of Galápagos land and marine iguanas (Conolophus and Amblyrhynchus).  Molecular Ecology Notes, 5: 599-601

Marshall, J.C., J.R. Powell, and A. CACCONE. Phylogenetic relationships of five   major malaria (Plasmodium falciparum) vectors within the mosquito subgenus Cellia. Am. J. of Trop. Med and Hyg., 73: 749-752

Russello, M.A., K. Lin, G. Amato, and A. CACCONE. (2005) Additional microsatellite loci for the endangered St.Vincent parrot, Amazonia guilingii. Conservation Genetics, 6: 643-645



CACCONE, A., G. Gentile, C. Burns, E. Sezzi, W. Bergman, and J.R. Powell. Extreme difference in rate of mitochondrial and nuclear DNA evolution in a large ectotherm, Galápagos tortoises.  Molecular Phylogenetics and Evolution, 31: 794-798

Santolamazza, F., A. della Torre, and A. CACCONE. A new PCR-RFLP method to identify An. arabiensis from An. gambiae and its two molecular forms from DNA templates of poor quality. Am. J. of Trop. Med. and Hyg., 70: 604-606.

Milinkovitch, M.C., A. CACCONE, and G. Amato. Molecular Phylogenetic Analyses Indicate Extensive Morphological Convergence between the “Yeti” and Primates. Mol. Phylog. and Evol., 31: 1-3.

Pinou, D., S. Vicario, M. Mendez, and A. CACCONE. Relict Snakes of North America and their relationship to the Caenophidia using Likelihood-Based Bayesian Methods on Mitochondrial Sequences. Mol. Phylog. and Evol., 32: 563-574

Palkovacs, E.P., A.J. Oppenheimer, E. Gladyshev, J.E. Toepfer, G. Amato, T. Chase, and A. CACCONE. Phylogeography of the Greater Prairie Chicken (Tympanuchus cupido) Including the Extinct Heath Hen: Potential Implications for Conservation and Management. Molecular Ecology, 13: 1759-1769

Beheregaray, L.B., J.P. Gibbs, N.P. Havill, T.H. Fritts, J.R. Powell, and A. CACCONE. Giant tortoises are not so slow: Rapid diversification by recent volcanism in Galápagos. PNAS, 101: 6514-6519

Gentile, G., F. Santolamazza, C. Fanello, V. Petrarca, A. CACCONE, A. della Torre. A variation in an intron sequence of the voltage gated sodium channel gene correlates with genetic differentiation between Anopheles gambiae s.s. molecular forms. Insect Mol Biol., 13: 371-377

Beheregaray, L.B., T. Schwartz, L.M. Möller, N.L. Chao, and A. CACCONE. Microsatellite markers for the cardinal tetra Paracheirodon axelrodi, an economically important fish from central Amazonia.  Molecular Ecology Notes, 4: 330-332

Beheregaray, L.B., T. Schwartz, L.M. Möller, D. Call, N.L.Chao, and A. CACCONE. A set of microsatellite markers for the one-lined pencil-fish Nannostomus unifasciatus, an Amazonian flooded forest fish. Molecular Ecology Notes, 4: 333-335

Russello, M.A., E. Gladyshev, D. Miquelle, and A. CACCONE. Potential genetic consequences of a recent bottleneck in the Amur tiger of the Russian Far East. Conservation Genetics, 5: 707-713



Beherengary, L.B., C. Ciofi, A. CACCONE, J.P. Gibbs, and J.R. Powell. Genetic divergence, phylogeography and conservation units of Giant tortoises from Santa Cruz and Pinzon, Galápagos islands. Conservation Genetics, 4: 31-46

Ketmaier, V., R. Argano, and A. CACCONE. Phylogeography and molecular rates of subterranean aquatic Stenasellid Isopods with a peri-Tyrrhenian distribution. Molecular Ecology, 12: 547-555

Vicario, S., A. CACCONE, and J. Gauthier. Xantusiid "Night" lizards: a puzzling phylogenetic problem revisited using likelihood-based Bayesian methods on mtDNA sequences. Molecular Phylogenetics and Evolution, 26: 243-261

Palkovacs, E.P., M. Mendez, C. Ciofi, J. Gerlach, and A. CACCONE. Are the native Giant tortoises from the Seychelles really extinct? A genetic perspective based on mtDNA and microsatellite data. Molecular Ecology, 12: 1403-1413

Beheregaray, L.B., C. Ciofi, D. Geist, J.P. Gibbs, J.R. Powell, and A. CACCONE. Genes record a prehistorical volcano eruption in the Galápagos. Science, 302: 75

Roth, R., C. Dick, M. R. Lemes, C. Navarro, A. CACCONE, and E. Bermingham. Genetic structure of Mesoamerican populations of Big-leaf mahogany (Swietenia macrophylla) inferred from microsatellite analysis.
Molecular Ecology, 12: 2885-2894

Burns, C.T., C. Ciofi, L.B. Beheregaray, T.H. Fritts, J.P. Gibbs, C. Marquez, M.C. Milinkovitch, J.R. Powell and A. CACCONE. The origin of captive Galápagos tortoises based on DNA analysis: Implications for the management of natural populations. Animal Conservation, 6(4): 329-37

Powell, J.R., E. Sezzi, E. Moriyama, J. Gleason, and A. CACCONE.  Analysis of a shift in codon usage in Drosophila. J. Mol. Evol., 57: 214-225

Milinkovitch, M., D. Monteyne, J.P. Gibbs, T.H. Fritts, W. Tapia, H.L. Snell, R. Tiedemann, A. CACCONE and J.R. Powell. Genetic analysis of a successful repatriation program: Giant Galápagos tortoises.  Proc. Royal. Soc. London B, 271: 341-345



Gentile, G., A. della Torre, B. Maegga, J.R. Powell, and A. CACCONE.  Genetic differentiation in the African malaria vector, Anopheles gambiae s.s., and the problem of taxonomic status. Genetics, 161: 1561-1578

Palkovacs, E.P., J. Gerlach, and A. CACCONE. The evolutionary origin of Indian Ocean tortoises (Dypsochelys). Molecular Phylogenetics and Evolution, 24: 216-227

della Torre, A., C. Costantini, N.J. Besansky, A. CACCONE, V. Petrarca, J.R. Powell, and M. Coluzzi. Speciation within Anopheles gambiae: The Glass is Half Full. Science, 248: 115-117

CACCONE, A., G. Gentile, J.P. Gibbs, T.H. Fritts, H.L. Snell, and J.R. Powell. Phylogeography and history of Giant Galapagos Tortoises. Evolution, 56: 2052-2066

Ciofi, C., M. Milinkovitch, J.P. Gibbs, A. CACCONE, and J.R. Powell. Nuclear DNA microsatellite analysis of genetic divergence among and within island populations of giant Galápagos tortoises.Molecular Ecology, 11: 2265-2283



CACCONE, A. and V. Sbordoni.  Molecular biogeography, evolutionary rates, and morphological adaptation to cave life: a case study using Bathysciine beetles and sequence data from the mitochondrial COI gene. Evolution, 55(10): 122-130

Gentile, G., M. Slotman, V. Ketmaier, J.R. Powell, and A. CACCONE. Attempts to molecularly distinguish cryptic taxa in Anopheles gambiae s.s. Insect Molecular Biology, 10(1): 25-32