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  1. The phylum Chlorophyta contains the majority of the green algae and is divided into four classes. While the basal position of the Prasinophyceae is well established, the divergence order of the Ulvophyceae, Tr...

    Authors: Jean-Charles de Cambiaire, Christian Otis, Claude Lemieux and Monique Turmel

    Citation: BMC Evolutionary Biology 2006 6:37

    Content type: Research article

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  2. Thrombospondins (TSPs) are evolutionarily-conserved, extracellular, calcium-binding glycoproteins with important roles in cell-extracellular matrix interactions, angiogenesis, synaptogenesis and connective tis...

    Authors: Patrick McKenzie, Seetharam C Chadalavada, Justin Bohrer and Josephine C Adams

    Citation: BMC Evolutionary Biology 2006 6:33

    Content type: Research article

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  3. The Vitaceae (grape) is an economically important family of angiosperms whose phylogenetic placement is currently unresolved. Recent phylogenetic analyses based on one to several genes have suggested several a...

    Authors: Robert K Jansen, Charalambos Kaittanis, Christopher Saski, Seung-Bum Lee, Jeffrey Tomkins, Andrew J Alverson and Henry Daniell

    Citation: BMC Evolutionary Biology 2006 6:32

    Content type: Research article

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  4. Globins occur in all three kingdoms of life: they can be classified into single-domain globins and chimeric globins. The latter comprise the flavohemoglobins with a C-terminal FAD-binding domain and the gene-r...

    Authors: Serge N Vinogradov, David Hoogewijs, Xavier Bailly, Raúl Arredondo-Peter, Julian Gough, Sylvia Dewilde, Luc Moens and Jacques R Vanfleteren

    Citation: BMC Evolutionary Biology 2006 6:31

    Content type: Research article

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  5. The evolution of type II MADS box genes has been extensively studied in angiosperms. One of the best-understood subfamilies is that of the Arabidopsis gene APETALA3 (AP3). Previous work has demonstrated that the ...

    Authors: Elena M Kramer, Huei-Jiun Su, Cheng-Chiang Wu and Jer-Ming Hu

    Citation: BMC Evolutionary Biology 2006 6:30

    Content type: Research article

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  6. In recent years, model based approaches such as maximum likelihood have become the methods of choice for constructing phylogenies. A number of authors have shown the importance of using adequate substitution m...

    Authors: Thomas M Keane, Christopher J Creevey, Melissa M Pentony, Thomas J Naughton and James O Mclnerney

    Citation: BMC Evolutionary Biology 2006 6:29

    Content type: Research article

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  7. Genetic diversity of the human immunodeficiency virus type 1 (HIV-1) population within an individual is lost during transmission to a new host. The demography of transmission is an important determinant of evo...

    Authors: Charles TT Edwards, Edward C Holmes, Daniel J Wilson, Raphael P Viscidi, Elaine J Abrams, Rodney E Phillips and Alexei J Drummond

    Citation: BMC Evolutionary Biology 2006 6:28

    Content type: Research article

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  8. Lateral gene transfer (LGT) in eukaryotes from non-organellar sources is a controversial subject in need of further study. Here we present gene distribution and phylogenetic analyses of the genes encoding the ...

    Authors: Jan O Andersson, Robert P Hirt, Peter G Foster and Andrew J Roger

    Citation: BMC Evolutionary Biology 2006 6:27

    Content type: Research article

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  9. The exchange of nucleotides at synonymous sites in a gene encoding a protein is believed to have little impact on the fitness of a host organism. This should be especially true for synonymous transitions, wher...

    Authors: Tang Li, Stephen G Chamberlin, M Daniel Caraco, David A Liberles, Eric A Gaucher and Steven A Benner

    Citation: BMC Evolutionary Biology 2006 6:25

    Content type: Research article

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  10. Multi-character empirical studies are important contributions to our understanding of the process of speciation. The relatively conserved morphology of, and importance of the mate recognition system in anurans...

    Authors: Stephen C Lougheed, James D Austin, James P Bogart, Peter T Boag and Andrew A Chek

    Citation: BMC Evolutionary Biology 2006 6:23

    Content type: Research article

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  11. While the premise that lateral gene transfer (LGT) is a dominant evolutionary force is still in considerable dispute, the case for widespread LGT in the family of aminoacyl-tRNA synthetases (aaRS) is no longer...

    Authors: Shaul Shaul, Ruth Nussinov and Tal Pupko

    Citation: BMC Evolutionary Biology 2006 6:22

    Content type: Research article

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  12. The P-type II ATPase gene family encodes proteins with an important role in adaptation of the cell to variation in external K+, Ca2+ and Na2+ concentrations. The presence of P-type II gene subfamilies that are sp...

    Authors: Nicolas Corradi and Ian R Sanders

    Citation: BMC Evolutionary Biology 2006 6:21

    Content type: Research article

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  13. Papillomaviruses (PVs) infect stratified squamous epithelia in warm-blooded vertebrates and have undergone a complex evolutionary process. The control of the expression of the early ORFs in PVs depends on the ...

    Authors: Santiago García-Vallvé, José R Iglesias-Rozas, Ángel Alonso and Ignacio G Bravo

    Citation: BMC Evolutionary Biology 2006 6:20

    Content type: Research article

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  14. Colour polymorphisms are widespread and one of the prime examples is the colour polymorphism in female coenagrionid damselflies: one female morph resembles the male colour (andromorph) while one, or more, fema...

    Authors: Gerrit Joop, Andreas Mitschke, Jens Rolff and Michael T Siva-Jothy

    Citation: BMC Evolutionary Biology 2006 6:19

    Content type: Research article

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  15. In eukaryotes, histone H3 lysine 9 (H3K9) methylation is a common mechanism involved in gene silencing and the establishment of heterochromatin. The loci of the major heterochromatic H3K9 methyltransferase Su(...

    Authors: Veiko Krauss, Anne Fassl, Petra Fiebig, Ina Patties and Heinz Sass

    Citation: BMC Evolutionary Biology 2006 6:18

    Content type: Research article

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  16. The number of species within the Malagasy genus Lepilemur and their phylogenetic relationships is disputed and controversial. In order to establish their evolutionary relationships, a comparative cytogenetic and ...

    Authors: Nicole Andriaholinirina, Jean-Luc Fausser, Christian Roos, Dietmar Zinner, Urs Thalmann, Clément Rabarivola, Iary Ravoarimanana, Jörg U Ganzhorn, Bernhard Meier, Roland Hilgartner, Lutz Walter, Alphonse Zaramody, Christoph Langer, Thomas Hahn, Elke Zimmermann, Ute Radespiel…

    Citation: BMC Evolutionary Biology 2006 6:17

    Content type: Research article

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  17. The Dscam gene in the fruit fly, Drosophila melanogaster, contains twenty-four exons, four of which are composed of tandem arrays that each undergo mutually exclusive alternative splicing (4, 6, 9 and 17), potent...

    Authors: Mack E Crayton III, Bradford C Powell, Todd J Vision and Morgan C Giddings

    Citation: BMC Evolutionary Biology 2006 6:16

    Content type: Research article

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  18. Lateral genetic transfer can lead to disagreements among phylogenetic trees comprising sequences from the same set of taxa. Where topological discordance is thought to have arisen through genetic transfer even...

    Authors: Robert G Beiko and Nicholas Hamilton

    Citation: BMC Evolutionary Biology 2006 6:15

    Content type: Methodology article

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  19. Phylogenetic conservation at the DNA level is routinely used as evidence of molecular function, under the assumption that locations and sequences of functional DNA segments remain invariant in evolution. In pa...

    Authors: Georgii A Bazykin and Alexey S Kondrashov

    Citation: BMC Evolutionary Biology 2006 6:14

    Content type: Research article

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  20. Genome rearrangements influence gene order and configuration of gene clusters in all genomes. Most land plant chloroplast DNAs (cpDNAs) share a highly conserved gene content and with notable exceptions, a larg...

    Authors: Liying Cui, Jim Leebens-Mack, Li-San Wang, Jijun Tang, Linda Rymarquis, David B Stern and Claude W dePamphilis

    Citation: BMC Evolutionary Biology 2006 6:13

    Content type: Research article

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  21. The big-headed turtle (Platysternon megacephalum) from east Asia is the sole living representative of a poorly-studied turtle lineage (Platysternidae). It has no close living relatives, and its phylogenetic posit...

    Authors: James F Parham, Chris R Feldman and Jeffrey L Boore

    Citation: BMC Evolutionary Biology 2006 6:11

    Content type: Research article

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  22. The family Accipitridae (hawks, eagles and Old World vultures) represents a large radiation of predatory birds with an almost global distribution, although most species of this family occur in the Neotropics. ...

    Authors: Fabio S Raposo do Amaral, Matthew J Miller, Luís Fábio Silveira, Eldredge Bermingham and Anita Wajntal

    Citation: BMC Evolutionary Biology 2006 6:10

    Content type: Research article

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  23. The recently emerged protein interaction network paradigm can provide novel and important insights into the innerworkings of a cell. Yet, the heavy burden of both false positive and false negative protein-prot...

    Authors: Stefan Wuchty, Albert-Laszlo Barabási and Michael T Ferdig

    Citation: BMC Evolutionary Biology 2006 6:8

    Content type: Research article

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  24. The rate of molecular evolution varies widely between proteins, both within and among lineages. To what extent is this variation influenced by genome-wide, lineage-specific effects? To answer this question, we...

    Authors: Joël Savard, Diethard Tautz and Martin J Lercher

    Citation: BMC Evolutionary Biology 2006 6:7

    Content type: Research article

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  25. Recently, HEN1 protein from Arabidopsis thaliana was discovered as an essential enzyme in plant microRNA (miRNA) biogenesis. HEN1 transfers a methyl group from S-adenosylmethionine to the 2'-OH or 3'-OH group of ...

    Authors: Karolina L Tkaczuk, Agnieszka Obarska and Janusz M Bujnicki

    Citation: BMC Evolutionary Biology 2006 6:6

    Content type: Research article

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  26. Gene losses played a role which may have been as important as gene and genome duplications and rearrangements, in modelling today species' genomes from a common ancestral set of genes. The set and diversity of...

    Authors: Etienne GJ Danchin, Philippe Gouret and Pierre Pontarotti

    Citation: BMC Evolutionary Biology 2006 6:5

    Content type: Research article

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  27. Integrons are genetic elements capable of the acquisition, rearrangement and expression of genes contained in gene cassettes. Gene cassettes generally consist of a promoterless gene associated with a recombina...

    Authors: Yan Boucher, Camilla L Nesbø, Michael J Joss, Andrew Robinson, Bridget C Mabbutt, Michael R Gillings, W Ford Doolittle and HW Stokes

    Citation: BMC Evolutionary Biology 2006 6:3

    Content type: Research article

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  28. Genomic islands are regions of bacterial genomes that have been acquired by horizontal transfer and often contain blocks of genes that function together for specific processes. Recently, it has become clear th...

    Authors: James W Wilson and Cheryl A Nickerson

    Citation: BMC Evolutionary Biology 2006 6:2

    Content type: Research article

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  29. Rates of synonymous nucleotide substitutions are, in general, exceptionally low in plant mitochondrial genomes, several times lower than in chloroplast genomes, 10–20 times lower than in plant nuclear genomes,...

    Authors: Christopher L Parkinson, Jeffrey P Mower, Yin-Long Qiu, Andrew J Shirk, Keming Song, Nelson D Young, Claude W dePamphilis and Jeffrey D Palmer

    Citation: BMC Evolutionary Biology 2005 5:73

    Content type: Research article

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  30. Calcium signaling plays a prominent role in plants for coordinating a wide range of developmental processes and responses to environmental cues. Stimulus-specific generation of intracellular calcium transients...

    Authors: Steffen Abel, Tatyana Savchenko and Maggie Levy

    Citation: BMC Evolutionary Biology 2005 5:72

    Content type: Research article

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  31. Evolutionary analyses of the largest subunit of RNA polymerase II (RPB1) have yielded important and at times provocative results. One particularly troublesome outcome is the consistent inference of independent...

    Authors: John W Stiller and Leslie Harrell

    Citation: BMC Evolutionary Biology 2005 5:71

    Content type: Research article

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  32. Myotragus balearicus was an endemic bovid from the Balearic Islands (Western Mediterranean) that became extinct around 6,000-4,000 years ago. The Myotragus evolutionary lineage became isolated in the islands most...

    Authors: Carles Lalueza-Fox, Jose Castresana, Lourdes Sampietro, Tomàs Marquès-Bonet, Josep Antoni Alcover and Jaume Bertranpetit

    Citation: BMC Evolutionary Biology 2005 5:70

    Content type: Research article

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  33. Merlin, the product of the Neurofibromatosis type 2 (NF2) tumor suppressor gene, belongs to the ezrin-radixin-moesin (ERM) subgroup of the protein 4.1 superfamily, which links cell surface glycoproteins to the ac...

    Authors: Kseniya Golovnina, Alexander Blinov, Elena M Akhmametyeva, Leonid V Omelyanchuk and Long-Sheng Chang

    Citation: BMC Evolutionary Biology 2005 5:69

    Content type: Research article

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  34. Group I introns have spread into over 90 different sites in nuclear ribosomal DNA (rDNA) with greater than 1700 introns reported in these genes. These ribozymes generally spread through endonuclease-mediated i...

    Authors: Debashish Bhattacharya, Valérie Reeb, Dawn M Simon and François Lutzoni

    Citation: BMC Evolutionary Biology 2005 5:68

    Content type: Research article

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  35. In Drosophila melanogaster the Enhancer of split-Complex [E(spl)-C] consists of seven highly related genes encoding basic helix-loop-helix (bHLH) repressors and intermingled, four genes that belong to the Bearded...

    Authors: Rebekka Schlatter and Dieter Maier

    Citation: BMC Evolutionary Biology 2005 5:67

    Content type: Research article

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  36. Long alpha-helical coiled-coil proteins are involved in diverse organizational and regulatory processes in eukaryotic cells. They provide cables and networks in the cyto- and nucleoskeleton, molecular scaffold...

    Authors: Annkatrin Rose, Shannon J Schraegle, Eric A Stahlberg and Iris Meier

    Citation: BMC Evolutionary Biology 2005 5:66

    Content type: Research article

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  37. Adaptive evolution appears to be a common feature of reproductive proteins across a very wide range of organisms. A promising way of addressing the evolutionary forces responsible for this general phenomenon i...

    Authors: Sofia Berlin and Nick GC Smith

    Citation: BMC Evolutionary Biology 2005 5:65

    Content type: Research article

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  38. Molecular phylogenetic methods are based on alignments of nucleic or peptidic sequences. The tremendous increase in molecular data permits phylogenetic analyses of very long sequences and of many species, but ...

    Authors: Charles Chapus, Christine Dufraigne, Scott Edwards, Alain Giron, Bernard Fertil and Patrick Deschavanne

    Citation: BMC Evolutionary Biology 2005 5:63

    Content type: Methodology article

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  39. Prior to the sequencing of the human genome it was typically assumed that, tandem duplication aside, gene order is for the most part random. Numerous observers, however, highlighted instances in which a ligand...

    Authors: Laurence D Hurst and Martin J Lercher

    Citation: BMC Evolutionary Biology 2005 5:62

    Content type: Research article

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  40. Confronted with well-defended, novel hosts, should an enemy invest in avoidance of these hosts (behavioral adaptation), neutralization of the defensive innovation (physiological adaptation) or both? Although simu...

    Authors: Corinne Vacher, Sam P Brown and Michael E Hochberg

    Citation: BMC Evolutionary Biology 2005 5:60

    Content type: Research article

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  41. Costly structures need to represent an adaptive advantage in order to be maintained over evolutionary times. Contrary to many other conspicuous shell ornamentations of gastropods, the haired shells of several ...

    Authors: Markus Pfenninger, Magda Hrabáková, Dirk Steinke and Aline Dèpraz

    Citation: BMC Evolutionary Biology 2005 5:59

    Content type: Research article

    Published on:

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