Journal Article

Cave-adapted evolution in the North American Amblyopsid fishes Inferred using phylogenomics and geometric morphometrics

Hart, P.B., Niemiller, M.L., Burress, E.D., Armbruster, J.W., Ludt, W.B. and Chakrabarty, P.

Record Number:
4572
Year:
2020
Journal:
Evolution
Volume:
in press
Abstract:
Abstract Cave adaptation has evolved repeatedly across the Tree of Life, famously leading to pigmentation and eye degeneration and loss, yet its macroevolutionary implications remain poorly understood. We use the North American amblyopsid fishes, a family spanning a wide degree of cave adaptation, to examine the impact of cave specialization on the modes and tempo of evolution. We reconstruct evolutionary relationships using ultraconserved element loci, estimate the ancestral histories of eye-state, and examine the impact of cave adaptation on body shape evolution. Our phylogenomic analyses provide a well-supported hypothesis for amblyopsid evolutionary relationships. The obligate blind cavefishes form a clade and the cave-facultative eyed spring cavefishes are nested within the obligate cavefishes. Using ancestral state reconstruction, we find support for at least two independent subterranean colonization events within the Amblyopsidae. Eyed and blind fishes have different body shapes, but not different rates of body shape evolution. North American amblyopsids highlight the complex nature of cave-adaptive evolution and the necessity to include multiple lines of evidence to uncover the underlying processes involved in the loss of complex traits. Keywords: Ancestral State Reconstruction; Cavefishes; Geometric Morphometrics; Phylogenomics; Regressive Evolution; Ultraconserved Elements
Times Cited:
13
Related Records:
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Niemiller, M.L., Graening, G.O., Fenolio, D.B., Godwin, J.C., Cooley, J.R., Pearson, W.D., Fitzpatrick, B.M. and Near, T.J. (2013)
Doomed before they are described? The need for conservation assessments of cryptic species complexes using an amblyopsid cavefish (Amblyopsidae: Typhlichthys) as a case study
Niemiller, M.L., Graening, G.O., Fenolio, D.B., Godwin, J.C., Cooley, J.R., Pearson, W.D., Fitzpatrick, B.M. and Near, T.J. (2013)
Doomed before they are described? The need for conservation assessments of cryptic species complexes using an amblyopsid cavefish (Amblyopsidae: Typhlichthys) as a case study
Niemiller, M.L., Graening, G.O., Fenolio, D.B., Godwin, J.C., Cooley, J.R., Pearson, W.D., Fitzpatrick, B.M. and Near, T.J. (2013)
Doomed before they are described? The need for conservation assessments of cryptic species complexes using an amblyopsid cavefish (Amblyopsidae: Typhlichthys) as a case study
Niemiller, M.L., Graening, G.O., Fenolio, D.B., Godwin, J.C., Cooley, J.R., Pearson, W.D., Fitzpatrick, B.M. and Near, T.J. (2013)
Doomed before they are described? The need for conservation assessments of cryptic species complexes using an amblyopsid cavefish (Amblyopsidae: Typhlichthys) as a case study
Niemiller, M.L., Graening, G.O., Fenolio, D.B., Godwin, J.C., Cooley, J.R., Pearson, W.D., Fitzpatrick, B.M. and Near, T.J. (2013)
Doomed before they are described? The need for conservation assessments of cryptic species complexes using an amblyopsid cavefish (Amblyopsidae: Typhlichthys) as a case study
Niemiller, M.L., Graening, G.O., Fenolio, D.B., Godwin, J.C., Cooley, J.R., Pearson, W.D., Fitzpatrick, B.M. and Near, T.J. (2013)
Doomed before they are described? The need for conservation assessments of cryptic species complexes using an amblyopsid cavefish (Amblyopsidae: Typhlichthys) as a case study
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Cave-adapted evolution in the North American Amblyopsid fishes Inferred using phylogenomics and geometric morphometrics
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Cave-adapted evolution in the North American Amblyopsid fishes Inferred using phylogenomics and geometric morphometrics
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Cave-adapted evolution in the North American Amblyopsid fishes Inferred using phylogenomics and geometric morphometrics
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Amblyopsidae: Cavefishes
Adams, G.L., Burr, B.M. and Warren, M.L. (2020)
Amblyopsidae: Cavefishes
Adams, G.L., Burr, B.M. and Warren, M.L. (2020)
Amblyopsidae: Cavefishes
Adams, G.L., Burr, B.M. and Warren, M.L. (2020)
Amblyopsidae: Cavefishes
Adams, G.L., Burr, B.M. and Warren, M.L. (2020)
Amblyopsidae: Cavefishes
Adams, G.L., Burr, B.M. and Warren, M.L. (2020)
Amblyopsidae: Cavefishes
Adams, G.L., Burr, B.M. and Warren, M.L. (2020)
Amblyopsidae: Cavefishes
Adams, G.L., Burr, B.M. and Warren, M.L. (2020)
Amblyopsidae: Cavefishes
Adams, G.L., Burr, B.M. and Warren, M.L. (2020)
Amblyopsidae: Cavefishes
Adams, G.L., Burr, B.M. and Warren, M.L. (2020)
Amblyopsidae: Cavefishes
Hart, P.B., Niemiller, M.L., Burress, E.D., Armbruster, J.W., Ludt, W.B. and Chakrabarty, P. (2020)
Cave-adapted evolution in the North American Amblyopsid fishes Inferred using phylogenomics and geometric morphometrics
Adams, G.L., Burr, B.M. and Warren, M.L. (2020)
Amblyopsidae: Cavefishes
Adams, G.L., Burr, B.M. and Warren, M.L. (2020)
Amblyopsidae: Cavefishes
Hart, P.B., Niemiller, M.L., Burress, E.D., Armbruster, J.W., Ludt, W.B. and Chakrabarty, P. (2020)
Cave-adapted evolution in the North American Amblyopsid fishes Inferred using phylogenomics and geometric morphometrics
Ponta, G.M.L., McGregor, S.W. and Blackwood, R. (2020)
Time series hydrologic monitoring within karst aquifers of Key Cave and Cathedral Caverns, Alabama
Ponta, G.M.L., McGregor, S.W. and Blackwood, R. (2020)
Time series hydrologic monitoring within karst aquifers of Key Cave and Cathedral Caverns, Alabama
Hart, P.B., Niemiller, M.L., Burress, E.D., Armbruster, J.W., Ludt, W.B. and Chakrabarty, P. (2020)
Cave-adapted evolution in the North American Amblyopsid fishes Inferred using phylogenomics and geometric morphometrics
Hart, P.B., Niemiller, M.L., Burress, E.D., Armbruster, J.W., Ludt, W.B. and Chakrabarty, P. (2020)
Cave-adapted evolution in the North American Amblyopsid fishes Inferred using phylogenomics and geometric morphometrics