Convergent regulatory evolution and loss of flight in paleognathous birds von Sackton, Timothy B., Grayson, Phil, Cloutier, Alison, Hu, Zhirui, Liu, Jun S., Wheeler, Nicole E., Gardner, Paul P., Clarke, Julia A., Baker, Allan J., Clamp, Michele, Edwards, Scott V.

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Multiple nuclear genes and retroposons support vicariance and dispersal of the palaeognaths, and an Early Cretaceous origin of modern birds von Haddrath, Oliver, Baker, Allan J.

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DNA barcode detects high genetic structure within neotropical bird species von Tavares, Erika Sendra, Gonçalves, Priscila, Miyaki, Cristina Yumi, Baker, Allan J

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A mitogenomic timescale for birds detects variable phylogenetic rates of molecular evolution and refutes the standard molecular clock von Pereira, Sergio L, Baker, Allan J

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Single mitochondrial gene barcodes reliably identify sister-species in diverse clades of birds von Tavares, Erika S, Baker, Allan J

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A trans-Amazonian screening of mtDNA reveals deep intraspecific divergence in forest birds and suggests a vast underestimation of species diversity von Milá, Borja, Tavares, Erika S, Muñoz Saldaña, Alberto, Karubian, Jordan, Smith, Thomas B, Baker, Allan J

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Countering criticisms of single mitochondrial DNA gene barcoding in birds von BAKER, ALLAN J, TAVARES, ERIKA SENDRA, ELBOURNE, REBECCA F

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Phylogenetic relationships and divergence times of Charadriiformes genera: multigene evidence for the Cretaceous origin of at least 14 clades of shorebirds von Baker, Allan J, Pereira, Sérgio L, Paton, Tara A

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A molecular timescale for galliform birds accounting for uncertainty in time estimates and heterogeneity of rates of DNA substitutions across lineages and sites von Pereira, Sergio L., Baker, Allan J.

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Multiple gene evidence for expansion of extant penguins out of Antarctica due to global cooling von Baker, Allan J, Pereira, Sergio Luiz, Haddrath, Oliver P, Edge, Kerri-Anne

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Whole-Genome Analyses Resolve the Phylogeny of Flightless Birds (Palaeognathae) in the Presence of an Empirical Anomaly Zone von Cloutier, Alison, Sackton, Timothy B., Grayson, Phil, Clamp, Michele, Baker, Allan J., Edwards, Scott V.

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DNA evidence for a Paleocene origin of the Alcidae (Aves: Charadriiformes) in the Pacific and multiple dispersals across northern oceans von Pereira, Sergio L., Baker, Allan J.

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Genomic support for a moa-tinamou clade and adaptive morphological convergence in flightless ratites von Baker, Allan J, Haddrath, Oliver, McPherson, John D, Cloutier, Alison

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Conserved Nonexonic Elements: A Novel Class of Marker for Phylogenomics von Edwards, Scott V., Cloutier, Alison, Baker, Allan J.

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Explosive ice age diversification of kiwi von Weir, Jason T., Haddrath, Oliver, Robertson, Hugh A., Colbourne, Rogan M., Baker, Allan J.

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Low number of mitochondrial pseudogenes in the chicken (Gallus gallus) nuclear genome: implications for molecular inference of population history and phylogenetics von Pereira, Sérgio L, Baker, Allan J

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Complete mitochondrial DNA genome sequences show that modern birds are not descended from transitional shorebirds von Paton, Tara, Haddrath, Oliver, Baker, Allan J.

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Reconstructing the Tempo and Mode of Evolution in an Extinct Clade of Birds with Ancient DNA: The Giant Moas of New Zealand von Baker, Allan J., Huynen, Leon J., Haddrath, Oliver, Millar, Craig D., Lambert, David M., Pääbo, Svante

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interplay between habitat availability and population differentiation: a case study on genetic and morphological structure in an inland wader (Charadriiformes) von VERKUIL, YVONNE I, PIERSMA, THEUNIS, JUKEMA, JOOP, HOOIJMEIJER, JOS C. E. W, ZWARTS, LEO, BAKER, ALLAN J

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Molecular evidence for introgressive hybridization in New Zealand masked gulls von Given, Andrew D., Mills, James A., Momigliano, Paolo, Baker, Allan J.

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