Journal Article

Molecular phylogeny and phylogeography of the Cuban cave-fishes of the genus Lucifuga: Evidence for cryptic allopatric diversity

Garcia-Machado, E., Hernandez, D., Garcia-Debras, A., Chevalier-Monteagudo, P., Metcalfe, C., Bernatchez, L. and Casane, D.

Record Number:
2480
Year:
2011
Journal:
Molecular Phylogentics and Evolution
Pages:
470-483
Volume:
61
Abstract:
Underground environments are increasingly recognized as reservoirs of faunal diversity. Extreme environmental conditions and limited dispersal ability of underground organisms have been acknowledged as important factors promoting divergence between species and conspecific populations. However, in many instances, there is no correlation between genetic divergence and morphological differentiation. Lucifuga Poey is a stygobiotic fish genus that lives in Cuban and Bahamian caves. In Cuba, it offers a unique opportunity to study the influence of habitat fragmentation on the genetic divergence of stygobiotic species and populations. The genus includes four species and one morphological variant that have contrasting geographical distributions. In this study, we first performed a molecular phylogenetic analysis of the Lucifuga Cuban species using mitochondrial and nuclear markers. The mitochondrial phylogeny revealed three deeply divergent clades that were supported by nuclear and morphological characters. Within two of these main clades, we identified five lineages that are candidate cryptic species and a taxonomical synonymy between Lucifuga subterranea and Lucifuga teresinarum. Secondly, phylogeographic analysis using a fragment of the cytochrome b gene was performed for Lucifuga dentata, the most widely distributed species. We found strong geographical organization of the haplotype clades at different geographic scales that can be explained by episodes of dispersal and population expansion followed by population fragmentation and restricted gene flow. At a larger temporal scale, these processes could also explain the diversification and the distribution of the different species. Highlights: mtDNA phylogeny of the Cuban cave fishes (Lucifuga) revealed three main clades. Nuclear and morphological characters support these clades. Five putative new cryptic species were identified within two of these clades. Phylogeography indicates that dispersal and vicariance have moulds this diversity. The evolutionary trends of four phenotypic traits were inferred. KW: Blind cave fish, Cryptic species, Phylogeny, Phylogeography, Stygobiotic.
Times Cited:
6
Related Records:
Poey, F. (1858)
Peces ciegos de la isla de Cuba, comparados con algunas especies de distinto genero
Lane, H. H. (1903)
The ovarian structure of the viviparous blind fishes Lucifuga and Stygicola
Lane, H. H. (1903)
The ovarian structure of the viviparous blind fishes Lucifuga and Stygicola
Lane, H. H. (1903)
The ovarian structure of the viviparous blind fishes Lucifuga and Stygicola
Lane, H. H. (1903)
The ovarian structure of the viviparous blind fishes Lucifuga and Stygicola
Lane, H. H. (1903)
The ovarian structure of the viviparous blind fishes Lucifuga and Stygicola
Lane, H. H. (1903)
The ovarian structure of the viviparous blind fishes Lucifuga and Stygicola
Lane, H. H. (1908)
On the ovary and ova of the Cuban cavefishes
Lane, H. H. (1908)
On the ovary and ova of the Cuban cavefishes
Lane, H. H. (1908)
On the ovary and ova of the Cuban cavefishes
Lane, H. H. (1908)
On the ovary and ova of the Cuban cavefishes
Lane, H. H. (1908)
On the ovary and ova of the Cuban cavefishes
Lane, H. H. (1908)
On the ovary and ova of the Cuban cavefishes
Lane, H.H. (1909)
On the overy and ova in Lucifuga and Stygicola
Lane, H.H. (1909)
On the overy and ova in Lucifuga and Stygicola
Lane, H.H. (1909)
On the overy and ova in Lucifuga and Stygicola
Lane, H.H. (1909)
On the overy and ova in Lucifuga and Stygicola
Lane, H.H. (1909)
On the overy and ova in Lucifuga and Stygicola
Eigenmann, C. H. (1909)
Cave vertebrates of America, a study in degenerative evolution
Lane, H.H. (1909)
On the overy and ova in Lucifuga and Stygicola
Nunez Jimenez, A. (1944)
Los peces ciegos en Cuba
Cohen, D. M. and Robins, C. R. (1970)
A new ophidioid fish (Genus Lucifuga) from a limestone sink, New Providence Island, Bahamas
Juberthie, C. (1971)
Notes sur l'ecologie des poissons souterraines de Cuba
Taboada, G.S. (1974)
Sinopsis de la espeleofauna Cubana. Serie espeleologica y carsologica No. 43
Vina, N., Davila, Zaida and Grana, A. (1975)
Contribucion al conocimiento de los peces cavernicolas de Cuba
Durand, J. P. (1978)
Phenomenes de convergences tissulaires et cytologiques, lies aux processus degeneratifs qui affectent l'oeil chez deux teleoteens cavericoles Asytyanax (Anoptichthys) mexicanus (Characidae) et Lucifuga (Stygicola) dentatus (Ophidiidae)
Cohen, D. M. and Nielsen, J. G. (1978)
Guide to the identification of genera of the fish order Ophidiiformes with a tentative classification of the order
Thines, G. and Piquemal, M. (1978)
Observations sur les comportements de Lucifuga subterranea Poey (Pisces, Ophidiidae), poisson cavernicole de Cuba
Nunez Jimenez, A. (1980)
40 anos explorando a Cuba
Varela, E., Barros, O. and Jimenez, S. (1980)
The effects of sugar-waste disposal on a karstic limestone aquifer
Vergara, R. (1980)
Estudio fenetico de los peces ciegos del genero Lucifuga
Vergara, R. (1980)
Estudio filogenetico del los peces ciegos del genero Lucifuga (Pisces, Ophidiidae). I Sistematica filogenetica
Vergara, R. (1981)
Estudio filogenetico del los peces ciegos del genero Lucifuga (Pisces, Ophidiidae). III Aspectos evolutivos
Wourms, J.P. (1981)
Viviparity: The maternal-fetal relationship in fishes
Wourms, J.P. (1981)
Viviparity: The maternal-fetal relationship in fishes
Wourms, J.P. (1981)
Viviparity: The maternal-fetal relationship in fishes
Wourms, J.P. (1981)
Viviparity: The maternal-fetal relationship in fishes
Wourms, J.P. (1981)
Viviparity: The maternal-fetal relationship in fishes
Wourms, J.P. (1981)
Viviparity: The maternal-fetal relationship in fishes
Nalbant, T. T. (1981)
A study of the subterranean species of Lucifuga from Cuba, with the description of Lucifuga simile sp. n. (Pisces, Ophidiiformes, Bythitidae)
Vergara, R. (1981)
Estudio filogenetico del los peces ciegos del genero Lucifuga (Pisces, Ophidiidae). II Bibliografia filogenetica
Burgess, G.H. (1983)
Lucifuga
Diaz-Perez, P.A., Nieto, E. and Abio, G. (1987)
Peces ciegos del genero Lucifuga (Ophidiiformes, Bythitidae) en dos casimbas cubanas
Diaz Perez, P. A., Lima, A. M. and Garcia, E. (1987)
Morfologia externa de ejemplares machos de Lucifuga Simile Nalbant, 1981 (Ophidiiformes, Bythitidae)
Burgess, G.H. and Franz, R. (1987)
Zoogeography of the Antillean freshwater fish fauna
Diaz-Perez, P.A., Nieto, E. and Abio, G. (1987)
Peces ciegos del genero Lucifuga (Ophidiiformes, Bythitidae) en dos casimbas cubanas
Diaz Perez, P. A. (1988)
Lucifuga teresinarum sp. n. nueva especie cubana de peces troglobios (Ophidiiformes, Bythitidae)
Wilkens, H., Strecker, U. and Yager, J. (1989)
Eye reduction and phylogenetic age of ophidiiform cave fishes
Garcia Debras, A. and Perez Gonzales, A. (1992)
Nueva forma y neuva variante en la relacion de las aletas impares para Lucifuga simile Nalbant 1981
Garcia Debras, A. and Perez, A. (1992)
Nueva forma y nueve variante en la relacion de las aletas impares para Lucifuga simile Nalbant 1981
Garcia-Debras, A and Perez-Gonzalez, A (1992)
Nueva forma et nueva variante en la relacion de las aletas impares para Lucifuga simile Nalbant 1981
Yager, J., Spokane, R. B., Bozanic, J. E., Williams, D. W. and Balado, E. (1994)
An ecological comparison of two anchialine caves in Cuba with emphasis on water chemistry
Coy Otero, A., Garcia, N. and Ventosa, L. (1997)
Helmintos de peces cubanos del genero Lucifuga Poey, 1858 (Ophidiiformes: Bythitidae)
Durand, J.P. (1998)
Degenerescence spontanee des yeax du poisson cavernicole Lucifuga subterraneus Poey, 1861 (Teleostei, Ophidioidei)
Cohen, D. M. and McCosker, J. E. (1998)
A new species of Bythitid fish, genus Lucifuga, from the Galapagos Islands
Garcia Debras, A. and Gonzalez, A.P. (1999)
Estudio sobre la dieta de peces Cubanos (Ophidiiformes: Bythitidae)
Garcia, N., Coy Otero, A. and Ventosa, L. (1999)
Nematodos asociados a la espeleofauna Cubana
Nielsen, J. G., Cohen, D. M., Markle, D.F. and Robins, C. R. (1999)
Ophidiiform fishes of the world (Order Ophidiiformes). An annotated and illustrated catalogue of pearlfishes, cusk-eels, brotulas and other ophidiiform fishes known to date
Diaz Perez, P. A. (19xx)
Caracteres meristicos comparados del Genero Lucifuga (Ophidiiformes, Bythitidae)
Hernández, D.A. (2005)
Relaciones evolutivas de las especies del genéro Lucifuga (Ophidiiformes: Bythitidae) en Cuba
Hernández, D.A. (2005)
Relaciones evolutivas de las especies del genéro Lucifuga (Ophidiiformes: Bythitidae) en Cuba
Hernández, D.A. (2005)
Relaciones evolutivas de las especies del genéro Lucifuga (Ophidiiformes: Bythitidae) en Cuba
Hernández, D.A. (2005)
Relaciones evolutivas de las especies del genéro Lucifuga (Ophidiiformes: Bythitidae) en Cuba
Hernández, D.A. (2005)
Relaciones evolutivas de las especies del genéro Lucifuga (Ophidiiformes: Bythitidae) en Cuba
Hernández, D.A. (2005)
Relaciones evolutivas de las especies del genéro Lucifuga (Ophidiiformes: Bythitidae) en Cuba
Moller, P.R., Schwarzhans, W., Iliffe, T.M. and Nielsen, J.G. (2006)
Revision of the Bahamian cave-fishes of the genus Lucifuga (Ophidiiformes, Bythitidae), with description of a new species from Islands on the Little Bahama bank
Garrido-Linares, M. and Acero, P. A. (2006)
Peces Ophidiiformes del Atlántico occidental tropical con especial énfasis en el mar Caribe colombiano
Romero, A. (2007)
The discovery of the first Cuban blind cave fish: The untold story
Casane, D, Hernandez, D, Garcia, A, Chevalier-Monteagudo, P, Bernathez, L and Garcia-Machado, E (2009)
Molecular phylogeny and phylogeography of Cuban cave fishes (genus Lucifuga)
Garcia-Machado, E., Hernandez, D., Garcia-Debras, A., Chevalier-Monteagudo, P., Metcalfe, C., Bernatchez, L. and Casane, D. (2011)
Molecular phylogeny and phylogeography of the Cuban cave-fishes of the genus Lucifuga: Evidence for cryptic allopatric diversity
Garcia-Machado, E., Hernandez, D., Garcia-Debras, A., Chevalier-Monteagudo, P., Metcalfe, C., Bernatchez, L. and Casane, D. (2011)
Molecular phylogeny and phylogeography of the Cuban cave-fishes of the genus Lucifuga: Evidence for cryptic allopatric diversity
Garcia-Machado, E., Hernandez, D., Garcia-Debras, A., Chevalier-Monteagudo, P., Metcalfe, C., Bernatchez, L. and Casane, D. (2011)
Molecular phylogeny and phylogeography of the Cuban cave-fishes of the genus Lucifuga: Evidence for cryptic allopatric diversity
Garcia-Machado, E., Hernandez, D., Garcia-Debras, A., Chevalier-Monteagudo, P., Metcalfe, C., Bernatchez, L. and Casane, D. (2011)
Molecular phylogeny and phylogeography of the Cuban cave-fishes of the genus Lucifuga: Evidence for cryptic allopatric diversity
Garcia-Machado, E., Hernandez, D., Moller, P.R., Bernatchez, L. and Casane, D. (2011)
Phylogenetic relationships among Cuban and Bahamian species of the blind cave-fishes genus Lucifuga: A shared lineage among two isoloated archipelagoes
Garcia-Machado, E., Hernandez, D., Garcia-Debras, A., Chevalier-Monteagudo, P., Metcalfe, C., Bernatchez, L. and Casane, D. (2011)
Molecular phylogeny and phylogeography of the Cuban cave-fishes of the genus Lucifuga: Evidence for cryptic allopatric diversity
Garcia-Machado, E., Hernandez, D., Garcia-Debras, A., Chevalier-Monteagudo, P., Metcalfe, C., Bernatchez, L. and Casane, D. (2011)
Molecular phylogeny and phylogeography of the Cuban cave-fishes of the genus Lucifuga: Evidence for cryptic allopatric diversity
Faloh-Gandarilla, I., Alvarez-Lajonchere, L.S., García-Machado, E., Guiérrez de los Reyes, E., Orozco, M.V., Cortés, R., Alfonso, Y., Lemus, E., Corrada Wong, R.I., Chevalier-Monteagudo, P., Fernández Osoria, A.R., Pérez de los Reyes, R. and I. Àlvarez, S (2016)
Catálogo ilustrado de los especímenes tipo de peces cubanos II (Osteichthyes, clase: Actinopterygii: Cyprinodontiformes, Gadiformes, Lampridiformes, Mugiliformes, Myctophiformes, Ophidiformes).
Hernandez, D., Casane, D., Chevalier-Monteagudo, P., Bernatchez, L. and Garcia-Machado, E. (2016)
Go West: A One Way Stepping-Stone Dispersion Model for the Cavefish Lucifuga dentata in Western Cuba
Moller, P.R., Knudsen, S.W., Schwarzhans, W. and Nielsen, J.G. (2016)
A new classification of viviparous brotulas (Bythitidae) – with family status for Dinematichthyidae – based on molecular, morphological and fossil data
Policarpo, M., Fumey, J., Lafargeas, P., Legendre, L., Naquin, D., Thermes, C., Møller, P.R., Bernatchez, L., García-Machado, E., Rétaux, S. and Casane, D. (2019)
Molecular decay of light-processing genes in cavefishes: assessing the effects of time, genome architecture and gene flow
Ditter, R.E., Erdman, R.B., Goebel, A.M. and Bracken-Grissom, H.D. (2019)
Widespread phenotypic hypervariation in the enigmatic anchialine shrimp Barbouria cubensis (Decapoda: Barbouriidae)
Ditter, R.E., Snyder, A.P., Schulman, S.E. and Bracken-Grissom, H.D. (2019)
Notes on the behavior and first records of three enigmatic anchialine shrimps (Decapoda: Caridea: Barbouriidae, Palaemonidae) in the Bahamas
Ditter, R.E., Erdman, R.B., Goebel, A.M. and Bracken-Grissom, H.D. (2019)
Widespread phenotypic hypervariation in the enigmatic anchialine shrimp Barbouria cubensis (Decapoda: Barbouriidae)
Ditter, R.E., Snyder, A.P., Schulman, S.E. and Bracken-Grissom, H.D. (2019)
Notes on the behavior and first records of three enigmatic anchialine shrimps (Decapoda: Caridea: Barbouriidae, Palaemonidae) in the Bahamas
Ditter, R.E., Erdman, R.B., Goebel, A.M. and Bracken-Grissom, H.D. (2019)
Widespread phenotypic hypervariation in the enigmatic anchialine shrimp Barbouria cubensis (Decapoda: Barbouriidae)
Ditter, R.E., Snyder, A.P., Schulman, S.E. and Bracken-Grissom, H.D. (2019)
Notes on the behavior and first records of three enigmatic anchialine shrimps (Decapoda: Caridea: Barbouriidae, Palaemonidae) in the Bahamas
Ditter, R.E., Erdman, R.B., Goebel, A.M. and Bracken-Grissom, H.D. (2019)
Widespread phenotypic hypervariation in the enigmatic anchialine shrimp Barbouria cubensis (Decapoda: Barbouriidae)
Ditter, R.E., Snyder, A.P., Schulman, S.E. and Bracken-Grissom, H.D. (2019)
Notes on the behavior and first records of three enigmatic anchialine shrimps (Decapoda: Caridea: Barbouriidae, Palaemonidae) in the Bahamas
Ditter, R.E., Erdman, R.B., Goebel, A.M. and Bracken-Grissom, H.D. (2019)
Widespread phenotypic hypervariation in the enigmatic anchialine shrimp Barbouria cubensis (Decapoda: Barbouriidae)
Ditter, R.E., Snyder, A.P., Schulman, S.E. and Bracken-Grissom, H.D. (2019)
Notes on the behavior and first records of three enigmatic anchialine shrimps (Decapoda: Caridea: Barbouriidae, Palaemonidae) in the Bahamas
Ditter, R.E., Erdman, R.B., Goebel, A.M. and Bracken-Grissom, H.D. (2019)
Widespread phenotypic hypervariation in the enigmatic anchialine shrimp Barbouria cubensis (Decapoda: Barbouriidae)
Ditter, R.E., Snyder, A.P., Schulman, S.E. and Bracken-Grissom, H.D. (2019)
Notes on the behavior and first records of three enigmatic anchialine shrimps (Decapoda: Caridea: Barbouriidae, Palaemonidae) in the Bahamas
Hernández, D., Moller, P.R., Casane, D. and García-Machado, E. (2020)
A new species of the cave-fish genus Lucifuga (Ophidiiformes, Bythitidae), from eastern Cuba
Ditter, R.E., Mejía-Ortíz, L.M. and Bracken-Grissom, H.D. (2020)
Anchialine adjustments: an updated phylogeny and classification for the family Barbouriidae Christoffersen 1987 (Decapoda: Caridea)
Ditter, R.E., Mejía-Ortíz, L.M. and Bracken-Grissom, H.D. (2020)
Anchialine adjustments: an updated phylogeny and classification for the family Barbouriidae Christoffersen 1987 (Decapoda: Caridea)
Ditter, R.E., Mejía-Ortíz, L.M. and Bracken-Grissom, H.D. (2020)
Anchialine adjustments: an updated phylogeny and classification for the family Barbouriidae Christoffersen 1987 (Decapoda: Caridea)
Ditter, R.E., Mejía-Ortíz, L.M. and Bracken-Grissom, H.D. (2020)
Anchialine adjustments: an updated phylogeny and classification for the family Barbouriidae Christoffersen 1987 (Decapoda: Caridea)
Ditter, R.E., Mejía-Ortíz, L.M. and Bracken-Grissom, H.D. (2020)
Anchialine adjustments: an updated phylogeny and classification for the family Barbouriidae Christoffersen 1987 (Decapoda: Caridea)
Ditter, R.E., Mejía-Ortíz, L.M. and Bracken-Grissom, H.D. (2020)
Anchialine adjustments: an updated phylogeny and classification for the family Barbouriidae Christoffersen 1987 (Decapoda: Caridea)
Policarpo, M., Fumey, J., Lafargeas, P., Naquin, D., Thermes, C., Naville, M., Dechaud, C., Volff, J.-M., Cabau, C., Klopp, C., Rask Møller, P., Bernatchez, L., García-Machado, E., Rétaux, S. and Casane, D. (2020)
Contrasted gene decay in subterranean vertebrates: insights from cavefishes and fossorial mammals
Policarpo, M., Fumey, J., Lafargeas, P., Naquin, D., Thermes, C., Naville, M., Dechaud, C., Volff, J.-M., Cabau, C., Klopp, C., Rask Møller, P., Bernatchez, L., García-Machado, E., Rétaux, S. and Casane, D. (2020)
Contrasted gene decay in subterranean vertebrates: insights from cavefishes and fossorial mammals