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	1.	Research article Giant viruses coexisted with the cellular ancestors and represent a distinct supergroup along with superkingdoms Archaea, Bacteria and Eukarya Arshan Nasir, Kyung Kim, Gustavo Caetano-Anolles BMC Evolutionary Biology 2012, 12:156 (24 August 2012) Abstract \| Full text \| PDF \| PubMed \| 1 comment
	2.	Editorial State-of the art methodologies dictate new standards for phylogenetic analysis Maria Anisimova, David A Liberles, Hervé Philippe, Jim Provan, Tal Pupko, Arndt von Haeseler BMC Evolutionary Biology 2013, 13:161 (1 August 2013) Abstract \| Full text \| PDF \| ePUB \| PubMed \| Editor’s summary Section Editors David A Liberles, Hervé Philippe, Jim Provan, Tal Pupko and Arndt von Haeseler and Associate Editor Maria Anisimova outline how best to carry out high quality phylogenetic research.
	3.	Research article A phylogeny and revised classification of Squamata, including 4161 species of lizards and snakes R Pyron, Frank T Burbrink, John J Wiens BMC Evolutionary Biology 2013, 13:93 (29 April 2013) Abstract \| Full text \| PDF \| ePUB \| PubMed \| Cited on BioMed Central
	4.	Research article Genealogy of an ancient protein family: the Sirtuins, a family of disordered members Susan Costantini, Ankush Sharma, Raffaele Raucci, Maria Costantini, Ida Autiero, Giovanni Colonna BMC Evolutionary Biology 2013, 13:60 (5 March 2013) Abstract \| Full text \| PDF \| PubMed
	5.	Research article Evidence for selection at HIV host susceptibility genes in a West Central African human population Kai Zhao, Yasuko Ishida, Taras K Oleksyk, Cheryl A Winkler, Alfred L Roca BMC Evolutionary Biology 2012, 12:237 (6 December 2012) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary There are signatures of selection at several loci associated with resistance to HIV in the genomes of Biaka Western Pygmies, whose communities historically overlapped with the range of chimpanzee subspecies that carries the SIV strain ancestral to HIV-1.
	6.	Research article The phylogenetic distribution of ultraviolet sensitivity in birds Anders Ödeen, Olle Håstad BMC Evolutionary Biology 2013, 13:36 (11 February 2013) Abstract \| Full text \| PDF \| ePUB \| PubMed \| Editor’s summary Phylogenetic analysis of a single opsin gene in birds shows that their vision has shifted between the visible spectrum and UV-sensitive vision at least 14 times, each of which can be explained by a single nucleotide change.
	7.	Research article Convergent evolution of heat-inducibility during subfunctionalization of the Hsp70 gene family Sascha Krenek, Martin Schlegel, Thomas U Berendonk BMC Evolutionary Biology 2013, 13:49 (21 February 2013) Abstract \| Full text \| PDF \| ePUB \| PubMed
	8.	Research article Evolution of Escherichia coli rifampicin resistance in an antibiotic-free environment during thermal stress Alejandra Rodríguez-Verdugo, Brandon S Gaut, Olivier Tenaillon BMC Evolutionary Biology 2013, 13:50 (22 February 2013) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central \| Editor’s summary E. coli can develop resistance to the antibiotic rifampicin, even in the absence of the drug, if grown in a thermally stressed environment, suggesting that antibiotic resistance is not always costly for bacteria to maintain.
	9.	Research article Genome differentiation in a species pair of coregonine fishes: an extremely rapid speciation driven by stress-activated retrotransposons mediating extensive ribosomal DNA multiplications Radka Symonová, Zuzana Majtánová, Alexandr Sember, Georg BO Staaks, Jörg Bohlen, Jörg Freyhof, Marie Rábová, Petr Ráb BMC Evolutionary Biology 2013, 13:42 (14 February 2013) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	10.	Research article Transitions between Andean and Amazonian centers of endemism in the radiation of some arboreal rodents Nathan S Upham, Reed Ojala-Barbour, Jorge Brito M, Paúl M Velazco, Bruce D Patterson BMC Evolutionary Biology 2013, 13:191 (9 September 2013) Abstract \| Full text \| PDF \| ePUB \| PubMed \| Editor’s summary Phylogenetic analysis of South American “spiny rats” suggests a pattern of reciprocal transitions between the Andean-Amazonian interface, although the majority of speciation events occur within a region
	11.	Research article Patterns of genetic variation across inversions: geographic variation in the In(2L)t inversion in populations of Drosophila melanogaster from eastern Australia W Kennington, Ary A Hoffmann BMC Evolutionary Biology 2013, 13:100 (20 May 2013) Abstract \| Full text \| PDF \| ePUB \| PubMed
	12.	Research article Rapid adaptation to mammalian sociality via sexually selected traits Adam C Nelson, Kevin E Colson, Steve Harmon, Wayne K Potts BMC Evolutionary Biology 2013, 13:81 (11 April 2013) Abstract \| Full text \| PDF \| ePUB \| PubMed
	13.	Research article Horizontal gene transfer of epigenetic machinery and evolution of parasitism in the malaria parasite Plasmodium falciparum and other apicomplexans Sandeep P Kishore, John W Stiller, Kirk W Deitsch BMC Evolutionary Biology 2013, 13:37 (11 February 2013) Abstract \| Full text \| PDF \| PubMed
	14.	Research article Haplowebs as a graphical tool for delimiting species: a revival of Doyle's "field for recombination" approach and its application to the coral genus Pocillopora in Clipperton Jean-François Flot, Arnaud Couloux, Simon Tillier BMC Evolutionary Biology 2010, 10:372 (30 November 2010) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	15.	Methodology article Estimating ancestry and heterozygosity of hybrids using molecular markers Benjamin M Fitzpatrick BMC Evolutionary Biology 2012, 12:131 (31 July 2012) Abstract \| Full text \| PDF \| PubMed \| Editor’s summary Classification of natural hybrids between genetically distinct populations into discrete categories can be misleading without use of many markers, but joint consideration of ancestry and heterozygosity measures can give useful insight into hybrid populations.
	16.	Research article Overlapping genes of Aedes aegypti: evolutionary implications from comparison with orthologs of Anopheles gambiae and other insects Susanta K Behura, David W Severson BMC Evolutionary Biology 2013, 13:124 (18 June 2013) Abstract \| Full text \| PDF \| ePUB \| PubMed
	17.	Research article Hypervariable antigen genes in malaria have ancient roots Martine M Zilversmit, Ella K Chase, Donald S Chen, Philip Awadalla, Karen P Day, Gil McVean BMC Evolutionary Biology 2013, 13:110 (31 May 2013) Abstract \| Full text \| PDF \| ePUB \| PubMed
	18.	Software PhyDesign: an online application for profiling phylogenetic informativeness Francesc López-Giráldez, Jeffrey P Townsend BMC Evolutionary Biology 2011, 11:152 (31 May 2011) Abstract \| Full text \| PDF \| PubMed
	19.	Software Simulating gene trees under the multispecies coalescent and time-dependent migration Joseph Heled, David Bryant, Alexei J Drummond BMC Evolutionary Biology 2013, 13:44 (18 February 2013) Abstract \| Full text \| PDF \| ePUB \| PubMed \| Cited on BioMed Central \| Editor’s summary New software that can simulate gene trees under a multispecies coalescent model with migration between subspecies shows that although inference of species tree topologies can be robust to gene flow, even detecting the presence of migration is difficult.
	20.	Research article A time-calibrated molecular phylogeny of the precious corals: reconciling discrepancies in the taxonomic classification and insights into their evolutionary history Néstor E Ardila, Gonzalo Giribet, Juan A Sánchez BMC Evolutionary Biology 2012, 12:246 (18 December 2012) Abstract \| Full text \| PDF \| PubMed
	21.	Research article Distinct evolutionary histories of the DNA-A and DNA-B components of bipartite begomoviruses Rob W Briddon, Basavaprabhu L Patil, Basavaraj Bagewadi, Muhammad Nawaz-ul-Rehman, Claude M Fauquet BMC Evolutionary Biology 2010, 10:97 (8 April 2010) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	22.	Research article Whole genome molecular phylogeny of large dsDNA viruses using composition vector method Lei Gao, Ji Qi BMC Evolutionary Biology 2007, 7:41 (15 March 2007) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	23.	Research article Genetic characterization of the ABO blood group in Neandertals Carles Lalueza-Fox, Elena Gigli, Marco de la Rasilla, Javier Fortea, Antonio Rosas, Jaume Bertranpetit, Johannes Krause BMC Evolutionary Biology 2008, 8:342 (24 December 2008) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central
	24.	Research article Deep sequencing and expression of microRNAs from early honeybee (Apis mellifera) embryos reveals a role in regulating early embryonic patterning Lisa Zondag, Peter K Dearden, Megan J Wilson BMC Evolutionary Biology 2012, 12:211 (2 November 2012) Abstract \| Full text \| PDF \| PubMed
	25.	Research article Rampant historical mitochondrial genome introgression between two species of green pond frogs, Pelophylax nigromaculatus and P. plancyi Kui Liu, Fang Wang, Wei Chen, Lihong Tu, Mi-Sook Min, Ke Bi, Jinzhong Fu BMC Evolutionary Biology 2010, 10:201 (29 June 2010) Abstract \| Full text \| PDF \| PubMed \| Cited on BioMed Central