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Phylogenomic evidence supports past endosymbiosis, intracellular and horizontal gene transfer in Cryptosporidium parvum

Jinling Huang, Nandita Mullapudi, Cheryl A Lancto, Marla Scott, Mitchell S Abrahamsen and Jessica C Kissinger*

Genome Biology 2004, 5:R88 doi:10.1186/gb-2004-5-11-r88

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Cyanobacterial contribution to the genomes of the plastid-lacking protists

Shinichiro Maruyama, Motomichi Matsuzaki, Kazuharu Misawa, Hisayoshi Nozaki BMC Evolutionary Biology 2009, 9:197 (11 August 2009)

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The transferome of metabolic genes explored: analysis of the horizontal transfer of enzyme encoding genes in unicellular eukaryotes

John W Whitaker, Glenn A McConkey, David R Westhead Genome Biology 2009, 10:R36 (15 April 2009)

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Metabolic network analysis in multiple eukaryotes identifies how horizontal and endosymbiotic gene transfer of metabolic enzyme-encoding genes leads to functional gene gain during evolution.

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Concerted gene recruitment in early plant evolution

Jinling Huang, J Peter Gogarten Genome Biology 2008, 9:R109 (8 July 2008)

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Analyses of the red algal Cyanidioschyzon genome identified 37 genes that were acquired from non-organellar sources prior to the split of red algae and green plants.

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Identification of multiple independent horizontal gene transfers into poxviruses using a comparative genomics approach

Kirsten A Bratke, Aoife McLysaght BMC Evolutionary Biology 2008, 8:67 (27 February 2008)

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Horizontal gene transfer in chromalveolates

Tetyana Nosenko, Debashish Bhattacharya BMC Evolutionary Biology 2007, 7:173 (25 September 2007)

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Did an ancient chlamydial endosymbiosis facilitate the establishment of primary plastids?

Jinling Huang, Johann Gogarten Genome Biology 2007, 8:R99 (4 June 2007)

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Phylogenomic analyses of the red alga Cyanidioschyzon merolae shows that at least 21 genes were transferred between chlamydiae and primary photosynthetic eukaryotes, suggesting an ancient chlamydial endosymbiosis with the ancestral primary photosynthetic eukaryote.

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Complex distribution of EFL and EF-1α proteins in the green algal lineage

Geoffrey P Noble, Matthew B Rogers, Patrick J Keeling BMC Evolutionary Biology 2007, 7:82 (23 May 2007)

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A genomic survey of the fish parasite Spironucleus salmonicida indicates genomic plasticity among diplomonads and significant lateral gene transfer in eukaryote genome evolution

Jan O Andersson, Åsa M Sjögren, David S Horner, Colleen A Murphy, Patricia L Dyal, Staffan G Svärd, John M Logsdon, Mark A Ragan, Robert P Hirt, Andrew J Roger BMC Genomics 2007, 8:51 (14 February 2007)

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Evolution of four gene families with patchy phylogenetic distributions: influx of genes into protist genomes

Jan O Andersson, Robert P Hirt, Peter G Foster, Andrew J Roger BMC Evolutionary Biology 2006, 6:27 (21 March 2006)

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A configuration space of homologous proteins conserving mutual information and allowing a phylogeny inference based on pair-wise Z-score probabilities

Olivier Bastien, Philippe Ortet, Sylvaine Roy, Eric Maréchal BMC Bioinformatics 2005, 6:49 (10 March 2005)

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