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      Historical abiotic events or human-aided dispersal: inferring the evolutionary history of a newly discovered galaxiid fish

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          Abstract

          Range expansion of obligate freshwater fishes in the Cape Floristic Region (CFR) of South Africa has mostly been attributed to river capture events and confluence of rivers following sea-level regression. The role of low drainage divides and interbasin water transfers has received less attention. This study analyzed mitochondrial and nuclear DNA sequences to assess the processes that could have influenced the phylogeographic patterns of a newly discovered lineage of Galaxias zebratus (hereafter Galaxias zebratus “Joubertina”) that occurs across two currently isolated river systems close to the Joubertina area in the eastern CFR. Results from both analyses revealed that observed genetic differentiation cannot be explained by isolation between the two river systems. No genetic differentiation was found between the Krom River system and a population from one of the Gamtoos tributaries. Shallow genetic differentiation was found between the Krom and the other Gamtoos populations. Historical river capture events and sea-level changes do not explain the present distribution of Galaxias zebratus “Joubertina” across the Krom and Gamtoos River systems. Interbasin dispersal during pluvial periods, recent river capture, or recent human-mediated translocation seems to be the most plausible explanations.

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          Dating of the human-ape splitting by a molecular clock of mitochondrial DNA.

          A new statistical method for estimating divergence dates of species from DNA sequence data by a molecular clock approach is developed. This method takes into account effectively the information contained in a set of DNA sequence data. The molecular clock of mitochondrial DNA (mtDNA) was calibrated by setting the date of divergence between primates and ungulates at the Cretaceous-Tertiary boundary (65 million years ago), when the extinction of dinosaurs occurred. A generalized least-squares method was applied in fitting a model to mtDNA sequence data, and the clock gave dates of 92.3 +/- 11.7, 13.3 +/- 1.5, 10.9 +/- 1.2, 3.7 +/- 0.6, and 2.7 +/- 0.6 million years ago (where the second of each pair of numbers is the standard deviation) for the separation of mouse, gibbon, orangutan, gorilla, and chimpanzee, respectively, from the line leading to humans. Although there is some uncertainty in the clock, this dating may pose a problem for the widely believed hypothesis that the pipedal creature Australopithecus afarensis, which lived some 3.7 million years ago at Laetoli in Tanzania and at Hadar in Ethiopia, was ancestral to man and evolved after the human-ape splitting. Another likelier possibility is that mtDNA was transferred through hybridization between a proto-human and a proto-chimpanzee after the former had developed bipedalism.
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            DnaSP, DNA polymorphism analyses by the coalescent and other methods.

            DnaSP is a software package for the analysis of DNA polymorphism data. Present version introduces several new modules and features which, among other options allow: (1) handling big data sets (approximately 5 Mb per sequence); (2) conducting a large number of coalescent-based tests by Monte Carlo computer simulations; (3) extensive analyses of the genetic differentiation and gene flow among populations; (4) analysing the evolutionary pattern of preferred and unpreferred codons; (5) generating graphical outputs for an easy visualization of results. The software package, including complete documentation and examples, is freely available to academic users from: http://www.ub.es/dnasp
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              Phylogeography: the history and formation of species

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                Author and article information

                Journal
                Ecol Evol
                Ecol Evol
                ece3
                Ecology and Evolution
                BlackWell Publishing Ltd (Oxford, UK )
                2045-7758
                2045-7758
                April 2015
                04 March 2015
                : 5
                : 7
                : 1369-1380
                Affiliations
                [1 ]Department of Ichthyology and Fisheries Science, Rhodes University P. O. Box 94, Grahamstown, 6140, South Africa
                [2 ]South African Institute for Aquatic Biodiversity Private Bag 1015, Grahamstown, 6140, South Africa
                Author notes
                Correspondence Gamuchirai Chakona, South African Institute for Aquatic Biodiversity, Private Bag 1015, Grahamstown 6140, South Africa, Tel: 046 6035800; Fax: +27 46 622 2403; E-mail: matarutseg@ 123456yahoo.com

                Funding Information Funding was provided by the South African Institute for Aquatic Biodiversity (SAIAB) and the Rhodes University Margaret Smith bursary.

                Article
                10.1002/ece3.1409
                4395167
                e61000b8-dcf7-4405-8fc6-1012e2f5ff98
                © 2015 The Authors. Ecology and Evolution published by John Wiley & Sons Ltd.

                This is an open access article under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.

                History
                : 09 October 2014
                : 05 December 2014
                : 12 December 2014
                Categories
                Original Research

                Evolutionary Biology
                cape floristic region,galaxias,interbasin dispersal,mitochondrial dna,nuclear dna,phylogeography

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