Workshops and Symposia
YIBS-MSCG Overview 1998-2008
Current Projects
Past Projects


Yale Institute for Biospheric Studies Offices

ESC, Room 132
21 Sachem Street
P.O. Box 208105
New Haven, CT 06520-8105
Phone: (203) 432-9856
Fax: (203) 432-9927

Oswald Schmitz, Director
Rose Rita Riccitelli, Assistant Director
LaToya Sealy, Sr Administrative Assistant

Papers Published Thanks To Support, Research, and Training in the YIBS-MSCG laboratory

Students and trainees in bold

In review and preparation 2008:

Cohnstaedt, L.W., A.L. Caceres, C. Ferro, L. Beati, L.E. Munstermann.  In Prep. CO1Bar coding the Lutzomyia verrucarum group.

Cohnstaedt, L.W
., A.L. Caceres, L. Beati, and L.E. Munstermann. In Prep. Fine scale genetic differentiation of Lutzomyia verrucarum (DIptera: Psychodidae) based on mitochondrial gene sequences.

Heckman, K.L.
, Near T.J., Alonzo S.H. In Review. Phylogenetic relationships of Boleosoma (Percidae: Etheostoma). Copeia.

Alonzo, S.H., Heckman, K. In Prep. Unprecedented levels of extra-male paternity in a species with male-only care. Science.

Heckman, K.L.
, Near T.J., Alonzo S.H. In Prep. Incongruence between mtDNA gene tree and coalescent species tree: examination of cryptic diversity. Molecular Phylogenetics and Evolution.

Heckman, K.L.
, Klein, J., Alonzo S.H. In Prep. Insights into female reproductive behavior in the ocellated wrasse (Symphodus ocellatus). Ethology.

Heckman, K.L.
, Stiver, K., Alonzo S.H. In Prep. Population structuring of the tessellated darter in light of a postglacial environment. Journal of Fish Biology.

Heckman, K.L.
, Alonzo S.H. In Prep.  Spatial and temporal divergence of a postglacial migrant. Journal of Biogeography.



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. Etang, E. Barrese, 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, 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, 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, 8:79 (06 Mar 2008).

Abila, P.A., M.A. Slotman, A. Parmakelis, K.B. Dion,
A.S. Robinson, V.B. Muwanika, J.C.K. 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-

Glaberman, S.
and A. Caccone. Species-specific evolution of class I MHC genes of iguanas (Order: Squamata;Subfamily: Iguaninae). Immunogenetics, 60.

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).

Brown, J.E., K.J. Komatsu
, P.P. Abila, A.S. Robinson, L.M. Okedi, N. 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 (on line early edition 23 Sept. 2008).

Palkovacs, E.P
. and D.M. Post. Eco-evolutionary interactions between predators and prey: can predator-induced changes to prey communities feed back to shape predator foraging traits?  Evolutionary Ecology Research, 10: 699-720.

Post, D.M.,
E.P. Palkovacs, E.G. Schielke, and S.I. Dodson. Intraspecific variation in a predator affects community structure and cascading trophic interactions. Ecology, 89: 2019-2032.

Palkovacs, E.P
. and D.M. Post. Experimental evidence that phenotypic divergence in predator foraging traits causes ecological divergence in prey communities. Ecology (in press).

Havill, N.P.
, M.E. Montgomery, and R. Foottit. Molecular ecology of hemlock woolly adelgid, its hosts, and its natural enemies. Proceedings of the Fourth Symposium on Hemlock Woolly Adelgid in the Eastern United States, February 12-14, Hartford, CT.

N.P., C.S. Campbell, T.F. Vining, B. LePage, R.J. Bayer, and M.J. Donoghue. Phylogeny and biogeography of Tsuga (Pinaceae) inferred from nuclear ribosomal ITS and chloroplast DNA sequence data. Systematic Botany, 33: 478-489.

Havill, N.P., M.E. Montgomery. The role of arboreta in studying the evolution of host resistance to the hemlock woolly adelgid. Arnoldia, 65 (3): 2-9.



Milinkovitch, M.C., D. Monteyne, M. Russello, J.P. Gibbs, H.L. Snell, W. Tapia, C. Marquez, A. Caccone and J.R. Powell. Giant Galápagos Tortoises: Molecular Genetic Analysis Reveals Contamination in a Repatriation Program of an Endangered Taxon.  BMC Ecology, 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, 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(12): e1285.

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. 2(11): e1243.

Havill, N.P.
, R.G. Foottit, and C.D. von Dohlen. Evolution of host specialization in the Adelgidae (Insecta: Hemiptera) inferred from molecular phylogenetics. Molecular Phylogenetics and Evolution, 44: 357-370

N.P. and R.G. Foottit. Biology and evolution of Adelgidae. Annual Review of Entomolology, 52: 325-349.

Saranathan, V.
, Hamilton, D., Powell, G.V.N., Kroodsma, D. E. and Prum, R.O. Genetic evidence supports song learning in the three-wattled bellbird Procnias tricarunculata (Cotingidae). Molecular Ecology, 16: 3689-3702.



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.

Slotman, M.A., M. Mendez, A. dellaTorre, 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(4): 641-648.

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, 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, 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. Journal of Heredity, 97:290-293. of the introduction

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.

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.

Russello, M.A., V. Saranathan,
S. Buhrman-Deever, J. Eberhard and A. Caccone. Characterization of polymorphic microsatellite loci for the invasive Monk Parakeet (Myiopsitta monachus). Mol. Ecol. Notes, Volume 6, Issue 2: 390-392.

Rio, R.V.,
Wu, Y.N., Filardo, G. and Aksoy, S. Dynamics of multiple symbiont density regulation during host development: tsetse fly and its microbial flora. Proc Biol Sci 273, 805-14.



Karanth, P.K., S. Glaberman, E. Palkovacs, A. Caccone, and A. Yoder. Seychelles tortoises are they a distinct species? DNA from sub-fossil material sheds lights 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., 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, 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. 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.

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. 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. A. 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.

Lawler, R.R.
, A.F. Richard, and M.A. Riley. Genetic population structure of the white sifaka (Propithecus verreauxi verreauxi) in southwest Madagascar.  Molecular Ecology, 12: 2307-2317.

Booth, M.G
. Mycorrhizal networks mediate overstorey-understorey competition in a temperate forest.  Ecology Letters, 7: 538-546.

Ciofi, C.
, and Me De Boer. Distribution and conservation of the Komodo monitor Varanus komodoensis. Herpetological Journal, 14: 99-107.

Ciofi, C.,
and T.S. Jessop. Tracing the dragon. BBC Wildlife, 4: 52-58.



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

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.

Rio, R.V.M
, C. Lefevre, A. Heddi and S. Aksoy. Comparative genomics of insect-symbiotic bacteria: influence of host environment on microbial genome composition. Applied and Environmental Microbiology, 69(11): 6825-32.



Palkovacs, E. , J. Gerlach, and A. Caccone. The evolutionary origin of Indian Ocean tortoises (Dypsochelys). Molecular Phylogenetics and Evolution, 24: 216-227.
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., Milinkovitch M., Gibbs J.P., Caccone A, Powell J.R. Nuclear DNA microsatellite analysis of genetic divergence among and within island populations of giant Galápagos tortoises.Molecular Ecology 11:2265-2283.
Havill, N.P. and K.F. Raffa. 2002. Effects of genotypic variation and rearing method on gypsy moth suitability to its parasitoid Cotesia melanoscela. Entomological News 113: 197-202
Ciofi C Conservation genetics. In: Komodo dragons: Biology and Conservation (eds Murphy JB, Ciofi C, de La Panouse C, Walsh, T). pp 129-164. Smithsonian Institution Press, Washington, DC.
Ciofi C, Smith BR, Hutchins M. Conservation: in situ and ex situ contributions. In: Komodo dragons: Biology and Conservation (eds Murphy JB, Ciofi C, Walsh, T). pp 211-230. Smithsonian Institution Press, Washington, DC.

Sastrawan P, Ciofi C Distribution and home range. In: Komodo dragons: Biology and Conservation (eds Murphy JB, Ciofi C, Walsh, T). pp 42-77. Smithsonian Institution Press, Washington, DC.
Murphy JB, Ciofi C, de La Panouse C, Walsh, T (eds) Komodo dragons: Biology and Conservation. Smithsonian Institution Press, Washington, DC.



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

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.

Luna, C
. et al. Microsatellite polymorphism in tsetse flies (Diptera: Glossinidae). Journal of Medical Entomology, 38(3): 376-81.

Lawler, R.R.
, A.F. Richard and M.A. Riley. Isolation and screening of microsatellite loci in a wild lemur population (Propithecus verreauxi verreauxi). American Journal of Primatology, 55: 253-259.



Caccone, A., G. Amato, O.C. Gratry, J. Behler and J.R. Powell. A molecular phylogeny of four endangered Madagascar tortoises based on mtDNA sequences. Molecular Phylogenetics and Evolution, 12: 1-9.

Caccone, A., J.P. Gibbs, V. Ketmaier, E. Suatoni and J.R. Powell. Origin and evolutionary relationships of giant Gálapagos tortoises. Proceedings National Academy of Sciences (PNAS) USA, 96(23): 13223-13228.

Chen, X.,
S. Li, and S. Aksoy. Concordant evolution of a symbiont with its host insect species: molecular phylogeny of genus Glossina and its bacteriome-associated endosymbiont, Wigglesworthia glossinidia. Journal of Molecular Evolution, 48(1): 49-58.