Publications
58. Giacomo
Bernardi. 2008. Isolation and characterization of 12 microsatellites from
the black surfperch, Embiotoca jacksoni, a reef fish that lacks a pelagic larval phase. Molecular Ecology
Resources (in press)
57. Giacomo
Bernardi, Yvette R. Alva-Campbell, Joao L. Gasparini, Sergio R. Floeter.
2008. Molecular ecology, speciation, and evolution of the reef fish genus Anisotremus. Molecular Phylogenetics and Evolution (in press)
56. Martha
O. Burford, and Giacomo Bernardi. 2008. Incipient speciation within a
subgenus of rockfish (Sebastosomus)
provides evidence of recent radiations within an ancient species flock. Marine
Biology 154: 701-717
55. Vera
S. Domingues, Markos Alexandrou, Vitor C. Almada, D. Ross Robertson, Alberto
Brito, Ricardo S. Santos, and Giacomo Bernardi 2008. Tropical fishes in a
temperate sea: evolution of the wrasse Thalassoma pavo and the
parrotfish Sparisoma cretense in the Mediterranean and the adjacent
Macaronesian and Cape Verde Archipelagos. Marine Biology 154: 465-474
54. A.
Zvuloni, O. Mokady, M. Al-Zibdah, G. Bernardi, S.D. Gaines and A. Abelson
2008. Local scale genetic structure in coral populations: A signature of
selection. Marine Pollution Bulletin 56: 430-438.
53. Marina
Ramon, Peter Nelson, Edward DeMartini, William Walsh, and Giacomo Bernardi
2008. Phylogeography, historical demography, and the role of post-settlement
ecology in two Hawaiian damselfish species. Marine Biology 153: 1207-1217.
52. Floeter,
S.R., L.A. Rocha, D.R. Robertson, J.C. Joyeux, W. Smith-Vaniz, P. Wirtz, A.J.
Edwards, J.P. Barreiros, C.E.L. Ferreira, J.L. Gasparini, A. Brito, J.M.
Falcon, B.W. Bowen, and G. Bernardi 2008. Atlantic reef fish biogeography
and evolution . Journal of Biogeography 35: 22-47.
51. Daniel
Golani, Ernesto Azzurro, Maria Corsini-Foka, Manuela Falautano, Franco
Andaloro, and Giacomo Bernardi. 2007. Genetic
bottlenecks and successful biological invasions: the case of a recent
Lessepsian migrant. Biology
Letters. 3: 541-545.
50. Karen
D. Crow, Hiroyuki Munehara, Ziyusei Kanamoto, Andrey Balanov, Dmitriy
Antonenko, and Giacomo Bernardi. 2007. Maintenance of species boundaries
despite rampant hybridization between three species of reef fishes
(Hexagrammidae): implications for the role of selection. Biological Journal of
the Linnnean Society. 91: 135-147.
49. Bernardi
G, Ruiz-Campos G, Camarena-Rosales F. 2007. Genetic isolation and
evolutionary history opf oases populations of the Baja California killifish, Fundulus
lima. Conservation Genetics 8: 547-554.
48. Domingues
VS, Almada VC, Santos RS, and Bernardi G. 2007. Phylogeography and
evolution of the triplefin Tripterygion delaisi (Pisces, Blennioidei).
Marine Biology 150: 509-519.
47. Robertson
DR, Karg F, de Moura RL, Victor BC, and Bernardi G. 2006. Mechanisms of
speciation and faunal enrichment in Atlantic parrotfishes. Molecular
Phylogenetics and Evolution 40: 795-807
46. Azzurro,
E., D. Golani, G. Bucciarelli, and G. Bernardi. 2006. Genetics of the early
stages of invasion of the Lessepsian rabbitfish Siganus luridus.
Journal of Experimental Marine Biology and Ecology 333: 190-201.
45. Bernardi,
G. and J. Lape. 2005. Tempo and mode of speciation in the Baja California
disjunct fish species Anisotremus davidsonii. Molecular Ecology 14: 4085-4096.
44. Domingues,
V., G. Bucciarelli, V.C. Almada, and G. Bernardi. 2005. Historical
colonization and demography of the Mediterranean damselfish, Chromis
chromis. Molecular Ecology 14: 4051-4063.
43. Bernardi,
G. 2005. Phylogeography and demography of sympatric sister species, Embiotoca
jacksoni and E. lateralis along the California coast: Historical
versus ecological factors. Evolution 59 386-394.
42. Bernardi,
G., and Vagelli, A. 2004. Population structure in Banggai Cardinalfish, Pterapogon
kauderni, a coral reef fish lacking a pelagic larval phase. Marine Biology
145: 803-810.
41. Crow,
K.D., Kanamoto, Z., and Bernardi, G. 2004. Molecular phylogeny of the
hexagrammid fishes using a multi-locus approach. Molecular Phylogenetics and
Evolution 32: 986-997.
40. Bernardi,
G., Bucciarelli, G., Costagliola, D., Robertson, D.R., and Heiser, J.B.
2004. Evolution of coral reef fish Thalassoma spp. (Labridae): 1.
Molecular phylogeny and biogeography. Marine Biology 144: 369-375
39. Costagliola,
D., Robertson, D.R., Guidetti, P., Stefanni, S., Wirtz, P., Heiser, J.B., and
Bernardi, G. 2004. Evolution of the coral reef fish Thalassoma spp.
(Labridae): 2. Evolution of the eastern Atlantic species. Marine Biology 144:
377-383
38. Bernardi,
G., Holbrook, S.J., Schmitt, R.J., and Crane, N.L. 2003. Genetic evidence
for two distinct clades in a French Polynesian population of the coral reef
three-spot damselfish Dascyllus trimaculatus. Marine Biology 143:
485-490
37. Bernardi,
G., Findley, L., and Rocha-Olivares, A. 2003. Vicariance and dispersal
across Baja California in disjunct marine fish populations. Evolution
57:1599-1609.
36. Fauvelot,
C., Bernardi, G., and Planes, S. 2003. Reductions in the mitochondrial DNA
diversity of coral reef fish provide evidence of population bottlenecks
resulting from Holocene sea-level change Evolution 57:1571-1583.
35. Bucciarelli,
G., Bernardi, Giacomo. and Bernardi, Giorgio. 2002. An ultracentrifugation
analysis of two hundred fish genomes. Gene 295: 153-162.
34. Jones
W.J., Quelvog, BD., and Bernardi, G. 2002. Morphological and genetic
analysis of the Red Hills roach (Cyprinidae: Lavinia symmetricus).
Conservation Genetics 3 (3): 261-276, 2002
33. Bucciarelli,
G., Golani, D., and Bernardi, G. 2002. Genetic cryptic species as
biological invaders: The case of a Lessepsian fish migrant, the hardyhead
silverside Atherinomorus lacunosus. J. Exp. Mar. Biol. Ecol
273:143-149.
32. Bernardi,
G., Holbrook, S.J., Schmitt, R.J., Crane, N.L., and DeMartini, E. 2002.
Species boundaries, populations, and colour morphs in the coral reef three-spot
damselfish (Dascyllus trimaculatus) species-complex. Proc.Roy. Soc.
London 269:599-605.
31. Planes,
S., Doherty, P., and Bernardi, G. 2001. Unusual case of extreme genetic
divergence in a marine fish, Acanthochromis polyacanthus, within the
Great Barrier Reef and the Coral Sea. Evolution 55:2263-2273
30. Bernardi
G., Holbrook S. J., and Schmitt R. J. 2001. Dispersal of the coral reef
three-spot dascyllus,Dascyllus trimaculatus, at three spatial scales.
Mar. Biol. 138:457-465.
29. Huang,
D., and Bernardi, G. 2001. Disjunct Sea of Cortez - Pacific Ocean Gillichthys
mirabilis populations and the evolutionary origin of their paedomorphic
relative, Gillichthys seta. Mar. Biol. 138:421-428.
28. Bernardi,
G., and Talley, D. 2000. Molecular evidence for reduced dispersal in the
coastal California killifish, Fundulus parvipinnis. J. Exp. Mar. Biol.
Ecol. 255:187-199.
27. Bernardi,
G., Robertson, R., Clifton, K. and Azzuro, E. 2000. Molecular Systematics,
Zoography, and Evolutionary Ecology of the Atlantic Parrotfish genus Sparisoma.
Mol. Phylo. Evol. 15:292-300.
26. Terry,
A., Bucciarelli, G. and Bernardi, G. 2000. Restricted Gene Flow and
Incipient Speciation in Disjunct Pacific Ocean and Sea of Cortez Populations of
a Reef Fish Species, Girella nigricans. Evolution 54:652-659.
25. Bernardi,
G. 2000. Barriers to gene flow in Embiotoca jacksoni, a marine
fish lacking a pelagic larval stage. Evolution 54:226-237.
24. Alesandrini,
S. and Bernardi, G. 1999. Ancient species flocks and recent speciation
events: What can rockfishes teach us about cichlids (and vice-versa)? J. Mol.
Evol. 49:814-818.
23. Bernardi,
G. and Bucciarelli, G. 1999. Molecular phylogeny and speciation of the
surfperches (Embiotocidae, Perciformes). Mol. Phylo. Evol. 13:77-81.
22. Bernardi,
G. and Crane, N. 1999. Molecular phylogeny of the Humbug Damselfishes
inferred from mtDNA sequences. J. Fish Biology 54:1210-1217.
21. Bernardi,
G., Fain, S.R., Gallo-Reynoso, J.P., Figueroa-Carranza, A.L. and LeBoeuf, B.J.
1998. Genetic Variability in Guadalupe fur seals. Journal of Heredity
89:301-305.
20. Bernardi,
G. and Goswami, U. 1997. Molecular evidence for cryptic species among the
Antarctic fish Trematomus bernacchii and Trematomus hansoni. Antarctic Science
9:381-385.
19. Crow,
K., Powers, D.A. and Bernardi, G. 1997. Evidence for multiple maternal
contributors in nests of kelp greenling (Hexagrammos decagrammus,
Hexagrammidae). Copeia 1997:9-15.
18. Bernardi,
G., Fernandez-Delgado, C., Gomez-Chiarri, M. and Powers, D.A. 1995. Origin
of a Spanish population of
17. Bernardi,
G. and Powers, D.A. 1995. Phylogenetic relationships among nine species
from the genus Fundulus (Cyprinodontiformes, Fundulidae) inferred from sequences
of the cytochrome b gene. Copeia 1995:469-473.
16. Zoubak,
S., D Onofrio G., Caccio', S, Bernardi, Giacomo and Bernardi, Giorgio.
1995. Specific compositional patterns of synonymous positions in homologous
mammalian genes. Journal of Molecular Evolution 40:293-307.
15. Ben-Miled
L., Dellagi K., Bernardi, G., Melrose, T.M., Darghouth, M., Bouattour, A.,
Kinnaird, J., Shiels, B., Tait, A. and Brown, C.G.D. 1994. Genomic and
phenotypic diversity of Tunisian Theileria annulata isolates. Parasitology
51-60.
14. Isacchi,
A., Bernardi, Giacomo and Bernardi, Giorgio. 1993. Compositional
compartmentalization of the nuclear genome of Trypanosoma brucei and
Trypanosoma equiperdum. FEBS Letters 181-183.
13. Bernardi,
Giacomo , D Onofrio, G., Caccio', S. and Bernardi, Giorgio. 1993. Molecular
phylogeny of the bony fishes, based on the amino acid sequence of the growth
hormone. Journal of Molecular Evolution 37:644-649.
12. Bernardi,
G., Sordino, P. and Powers, D.A. 1993. Concordant mitochondrial and nuclear
DNA phylogenies for populations of the teleost fish Fundulus heteroclitus.
Proceedings of the National Academy of Sciences, USA 90:9271-9274.
11. Bernardi,
G., Sordino, P. and Powers, D.A. 1992. Nucleotide sequence of the 18S
Ribosomal Ribonucleic Acid gene from two teleosts and two sharks and their
Molecular Phylogeny. Molecular Marine Biology and Biotechnology 1:187-194.
10. Bernardi,
G. and Powers, D.A. 1992. Molecular phylogeny of the prickly shark
Echinorhinus cookei based on a nuclear (18S rRNA), and a mitochondrial
(cytochrome b) gene. Molecular Phylogenetics and Evolution 1:161-167.
9. Bernardi,
Giacomo and Bernardi, Giorgio. 1991. Compositional properties of nuclear
genes from cold-blooded vertebrates. Journal of Molecular Evolution 33:57-67.
8. Bernardi,
Giacomo and Bernardi, Giorgio. 1990. Compositional patterns in the nuclear
genome of cold-blooded vertebrates. Journal of Molecular Evolution 31:265-281.
7. Bernardi,
Giacomo and Bernardi, Giorgio. 1990. Compositional transitions in the
nuclear genome of cold-blooded vertebrates. Journal of Molecular Evolution
31:282-293.
6. Guizani I., Van Eys, G., Bernardi, G.,
Kroon, N., Schoone, G.J., Ben-Isma_l, R. and Dellagi, K. 1990. Selection of
Leishmania major nuclear DNA probes for the characterization of Leishmania
strains: Application on Tunisian isolates. Bull. Soc Fr. Parasitol. 8:39.
5. Medrano,
L., Bernardi, Giacomo, Couturier, J., Dutrillaux, B. and Bernardi, Giorgio.
1988. Chromosome banding and genome compartmentalization in fishes. Chromosoma
96:178-183.
4. Bernardi,
Giorgio, Mouchiroud, D., Gautier, C. and Bernardi, Giacomo. 1988.
Compositional patterns in vertebrate genomes: conservation and change in
evolution. Journal of Molecular Evolution 28:7-18.
3. Bernardi,
Giorgio and Bernardi, Giacomo. 1986. Compositional constraints and genome
evolution. Journal of Molecular Evolution 24:1-11.
2. Bernardi,
Giacomo, Pizon, V., Cuny, G., Haschemeyer, A. and Bernardi, Giorgio. 1986.
ADN et taxonomie des poissons. Oceanis 12:377-380.
1. Bernardi,
Giacomo and Bernardi, Giorgio. 1985. Codon usage and genome composition .
Journal of Molecular Evolution 22:363-365.
Book Chapters
Dawson
M., R. Waples, and Bernardi G. 2006. Phylogeography. In The Ecology of
Marine Fishes: California and Adjacent Waters - UC Press Larry G. Allen, Daniel
J. Pondella, II, and Michael H. Horn Eds.
Bernardi,
G. 1997. Molecular phylogeny of the Fundulidae (Teleostei,
Cyprinodontiformes) based on the cytochrome b gene. In: Molecular Systematics
of Fishes. T. Kocher and C. Stepien, eds. Academic Press, San Diego, CA;
pp.189-197.
Powers,
D.A., Smith M., Gonzales-Villasenor I., DiMichele L., Crawford D., Bernardi G.,
and Lauerman T. 1993. A multidisciplinary approach to the
selectionist/neutralist controversy using the model teleost Fundulus
heteroclitus. In: Oxford Surveys in Evolutionary Biology, Volume 9. D. Futuyama
and J. Antonovics, eds. Oxford University Press, Oxford, England; pp. 43-107.
Bernardi,
Giorgio, and Bernardi, Giacomo. 1989. Randomness and natural selection in
genome evolution. In: Molecules in Physics, Chemistry, and Biology, IV. Jean
Maruani, ed. Kluwer Academic Pubs., Norwell, MA; pp. 3-12.
Bernardi,
Giorgio and Bernardi, Giacomo. 1987. The role of chance in genome
evolution. In: From Enzyme Adaptation to Natural Philosophy : Heritage from
Jacques Monod. E. Quagliariello, G. Bernardi, and A. Ullmann, eds. Elsevier,
Amsterdam, Holland; pp. 173-185.
Book Reviews
Bernardi,
G. 2003. Meselson, Stahl, and the Replication of DNA. by FL Holmes. Book
Review. The Quarterly Review of Biology 78: 81-82.
Bernardi,
G. 1995. Molecular Biology Frontiers. Biochemistry and Molecular Biology of
Fishes. Vol. 2. by P.W. Hochachka, and T.P. Mommsen. Book Review. Copeia
1995:505-506.
Bernardi,
G. 1994. Unraveling DNA. by Maxim D. Frank-Kamenetskii. Book Review. The
Quarterly Review of Biology 69:513.
Other Publications
Martha
Burford, Mark Carr, and G Bernardi. Speciation and Genetic Structure in a
Marine Fish with an Extended Pelagic Larval Phase: an Analysis of Both the
Juvenile and Adult Populations of Blue Rockfish (Sebastes mystinus). Coastal
Environmental Quality Initiative. Paper 039.
_http://repositories.cdlib.org/ucmarine/ceqi/039
Bernardi,
G. In: Stefanni, Bried and Bettencourt Eds. 2004. Use of Molecular markers
for the study of Marine Biodiversity. Acta of the 1st International Workshop in
Marine Molecular Phylogenetics.
Bernardi,
G and DeVries, A.L. 1994. Cytochrome b gene sequences from two eelpouts
(perciformes, zoarcidae) from McMurdo Sound (Antarctica): Implications on the
antifreeze gene structure. Antarctic Journal 29:159-161.
Bernardi,
Giorgio and Bernardi, Giacomo. 1986. The Human genome and its evolutionary
context . Cold Spring Harbor Symp. Quant. Biol. "Molecular Biology of Homo
sapiens " 51: 479-487.
Miscellaneous
Sympatric
speciation 2006. Science now.
Good
Karma in Tropical Paradise 2004. NPR - Jesse Kalisher.
E-mail: bernardi@biology.ucsc.edu