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Open Access Research article

Simultaneous delimitation of species and quantification of interspecific hybridization in Amazonian peacock cichlids (genus cichla) using multi-locus data

Stuart C Willis1*, Jason Macrander2, Izeni P Farias3 and Guillermo Ortí4

Author Affiliations

1 School of Biological Sciences, 348 Manter Hall, University of Nebraska-Lincoln, Lincoln, NE, 68588, USA

2 Department of Evolution, Ecology, and Organismal Biology, The Ohio State University, 318 W. 12th Avenue, Columbus, OH, 43210, USA

3 Laboratório de Evolução e Genética Animal, ICB, Universidade Federal do Amazonas, Estrada do Contorno 3000, Manaus, AM, Brazil

4 Department of Biology, The George Washington University, 2023G St. NW Suite 340, Washington, DC, 20052, USA

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BMC Evolutionary Biology 2012, 12:96  doi:10.1186/1471-2148-12-96

Published: 22 June 2012

Additional files

Additional file 1:

Figure S1. Maps of approximate distributions of the 15 described species of Cichla. Sample locations are indicated.

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Additional file 2:

Table S1. Approximate coordinates and Atlantic versant of the localities sampled by the authors. For all other sites, see Renno et al. (2006).

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Additional file 3 :

Table S2. Availability of voucher specimens for samples used in this study. Interested parties should contact the collections listed directly for lot numbers. MCNG: Museo de Ciencias Naturales de Guanare (Edo. Portuguesa, Venezuela), AUM: Auburn University Museum (Auburn, Alabama, USA), ROM: Royal Ontario Museum (Toronto, ON, Canada), INPA: Instituto Nacional de Pesquisas da Amazônia (Manaus, AM, Brazil), MPEG: Museu Paraense Emilio Goeldi (Belem, PA, Brazil), CPUFMT: Coleção de peixes da Universidade Federal do Mato Grosso (Cuiaba, MT, Brazil).

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Additional file 4 :

File S1. Methods, Results and Discussion on Structurama.

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Additional file 5 :

Figure S2. Mitochondrial genealogy with localities and species where the haplotypes were observed. Tree is a maximum likelihood phylogram, and terminals are haplotypes. Localities follow Table 1, branch values are bootstrap percentages, and terminals with asterisks (*) included both mtCR and mtATP (see text). a) Clade A. b) Clade B1. c) Clade B2.

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Additional file 6 :

Figure S3. Plots of LnP(D|K) (left) and ΔK (right) for the divide-and-reanalyze Strucutre analyses.

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Additional file 7 :

Figure S4. Structurama and Structure comparisons. Left column: Results of the Structurama runs (no admixture) where K (no. clusters) was the number of clusters with the highest posterior probability. In each case, figures show Clumpp summaries of multiple runs where individuals are assigned to only one cluster; split assignment for an individual represents assignment to different clusters between runs. Right column: Result from Structure (with admixture) using the K that was optimal for Structurama. Locality codes follow Table 1, and species are abbreviated to the first three letters of their specific epithet. Colors follow Figure 4. a) Clade A (N = 360). b) Clade B (N = 666).

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