Multi-locus fossil-calibrated phylogeny of Atheriniformes (Teleostei, Ovalentaria)

Campanella, Daniela; Hughes, Lily C.; Unmack, Peter J.; Bloom, Devin D.; Piller, Kyle R.; Ortı́, Guillermo

doi:10.1016/j.ympev.2015.03.001

Cited by 66 publications

(94 citation statements)

References 58 publications

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“…We also note that we are only looking at geographically and environmentally adjacent (parapatric) sister species. There are many more examples of lineages that have evolved between fresh and salt water including within relatively closely related New-World silversides (Campanella et al 2015). Thus, we are at a loss as to what Brusca is on about here -it seems to exhibit his general modus operandi to attack us from an any conceivable angle he can conjure up.…”

Section: Lavín Et Al 2014) the Baja Coast Where Percebu Is Located mentioning

confidence: 99%

Conflict in the Colorado Delta - A response to Brusca (2018)

Jacobs

Lau

2018

Preprint

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Abstract:In his enthusiasm to highlight the impacts of fisheries in the Gulf of California, Richard Brusca (Brusca 2018) attacks our paper which is about a largely separate issue, makes false claims, does a disservice to his own cause, and undermines science. Brusca sets out to defame our work because, as he states, he fears that third parties will misuse work of this type in fisheries management. This is unfortunate. Brusca's effort to manipulate and suppress scientific work because he fears managers will use it inappropriately is overt and chilling. We respond to Brusca's numerous and varied criticisms in as much detail and in as measured a way as we can muster.PeerJ Preprints | https://doi.org/10.7287/peerj.preprints.26953v1 | CC BY 4.0 Open Access |

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Section: Lavín Et Al 2014) the Baja Coast Where Percebu Is Located mentioning

confidence: 99%

Conflict in the Colorado Delta - A response to Brusca (2018)

Jacobs

Lau

2018

Preprint

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“…Time-calibrated phylogenies and body size measurements were assembled for 66 clades across five major vertebrate groups (Table 1) Harmon et al 2010b;Cowman and Bellwood 2011;Santini et al 2013a;b;Sorenson et al 2013;Bloom and Lovejoy 2014;Roxo et al 2014;Campanella et al 2015;Dornburg et al 2015;Martin and Bonett 2015) Length from ( Table 1: Vertebrate datasets. Data were collected for N = 66 clades for 8323 species records in total (mean 126 species per clade).…”

Section: Vertebrate Datasetmentioning

confidence: 99%

Punctuated evolution shaped modern vertebrate diversity

Landis

Schraiber

2017

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The relative importance of different modes of evolution in shaping phenotypic diversity remains a hotly debated question. Fossil data suggest that stasis may be a common mode of evolution, while modern data suggest very fast rates of evolution. One way to reconcile these observations is to imagine that evolution is punctuated, rather than gradual, on geological time scales. To test this hypothesis, we developed a novel maximum likelihood framework for fitting Lévy processes to comparative morphological data. This class of stochastic processes includes both a gradual and punctuated component. We found that a plurality of modern vertebrate clades examined are best fit by punctuated processes over models of gradual change, gradual stasis, and adaptive radiation. When we compare our results to theoretical expectations of the rate and speed of regime shifts for models that detail fitness landscape dynamics, we find that our quantitative results are broadly compatible with both microevolutionary models and with observations from the fossil record.A key debate in evolutionary biology centers around the seeming contradictions regarding the tempo and mode of evolution as seen in fossil data compared to ecological data. Fossil data often support models of stasis, in which little evolutionary change is seen within lineages over long timescales (Hunt 2007;Estes and Arnold 2007), while ecological data show that rapid bursts of evolution are not only possible, but potentially common (Reznick et al. 1997;Herrel et al. 2008;Brown and Brown 2013;Cresko et al. 2004). At face value, these observations seem to contradict one another, an observation known as the "paradox of stasis" (Hansen and Houle 2004). These observations are often reconciled through a descriptive model of punctuated evolution, entailing stasis interrupted by pulses of rapid change, as famously articulated by Simpson (Simpson 1944;1953).On macroevolutionary timescales, pulses of rapid change are expected to look roughly instantaneous. Only recently have statistical methods grown sophisticated enough to model punctuated evolution as a stochastic process, with advances showing that punctuation is detectable in some fossil time series (Hunt et al. 2015) and between pairs of living and extinct taxa (Uyeda et al. 2011).While these studies establish the existence of punctuated evolution, it is still unknown whether the evolutionary mode is common or rare. How many clades in the Tree of Life were shaped by abrupt pulses of rapid evolution? If these evolutionary pulses are common, then that should inform our expectations about how traits evolved for clades that left no fossils, and the potential for vulnerable species to adapt rapidly to climate change (Quintero and Wiens 2013). To this end, phylogenetic models-models of trait evolution that account for the shared ancestry of species-have played a vital role in measuring the relative support of competing Simpsonian modes of evolution.A pioneering meta-analysis (Harmon et al. 2010a) fitted a collection of phylogen...

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“…To legitimately claim these two fishes are sister species, Lau and Jacobs need to first provide a well-supported phylogeny. Many gene sequences for this family are already in GenBank (e.g., Campanella et al 2015), and this would be the most appropriate and straightforward way to determine the phylogenetic relationships of these two species.…”

mentioning

confidence: 99%

“…But four of these papers refer to studies done on an entirely different family, Atherinidae, which has been shown by numerous studies not to be a sister group to Atherinopsidae, nor even to be closely related (e.g., Dyer & Chernoff 1996;Bloom et al 2012;Campanella et al 2015). Dyer & Chernoff's (1996) detailed morphological phylogenetic analysis (1996) found these two families to be the most distantly related of all families in the large order Atheriniformes (over 350 described species).…”

mentioning

confidence: 99%

“…The Bloom et al (2012) molecular analysis showed these two families to be in different clades. The Campanella et al (2015) dated molecular phylogenetic analysis showed the two families being separated by an ancient split, nearly 75 million years ago. And of the remaining four papers that Lau and Jacobs cite, two deal only with east coast inland populations of one atherinopsid genus (Menidia), and another is a theoretical paper.…”

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confidence: 99%

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Lax science can have negative impacts on conservation: A rebuttal to Lau and Jacobs (2017)

Brusca

2018

Preprint

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A recent paper by Lau and Jacobs (2017, PeerJ) negatively contributes to a critical conservation problem in the Gulf of California—better regulation of fisheries in the Upper Gulf of California. The paper’s broader conclusions are not supported by the data presented, and numerous assumptions and claims regarding previous work are misstated or incorrect, including claims of sister-group relationship between Colpichthys hubbsi and C. regis and an implied sister group relationship between Uca monilifera and Uca princeps, claims regarding Colorado River water flow to the Gulf of California, and claims of post-dam “significantly different adaptive regimes on taxa in the [Upper Gulf].”

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Multi-locus fossil-calibrated phylogeny of Atheriniformes (Teleostei, Ovalentaria)

Cited by 66 publications

References 58 publications

Conflict in the Colorado Delta - A response to Brusca (2018)

Conflict in the Colorado Delta - A response to Brusca (2018)

Punctuated evolution shaped modern vertebrate diversity

Lax science can have negative impacts on conservation: A rebuttal to Lau and Jacobs (2017)

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