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Phylogeny of the order Zoantharia (Anthozoa, Hexacorallia) based on the mitochondrial ribosomal genes
TLDR
To resolve the phylogenetic relationships among Zoantharia, the sequences of mitochondrial 16S and 12S rRNA genes obtained from 24 specimens, representing two suborders and eight genera are analysed and Brachycnemina appears as a monophyletic group diverging within the paraphyletic Macrocnemina.
Historical biogeography of the catfish genus Hypostomus (Siluriformes: Loricariidae), with implications on the diversification of Neotropical ichthyofauna
TLDR
Comparisons with published distribution patterns of unrelated fish groups indicate that several of the reconstructed and dated hydrogeological–cladogenetic events may have acted at a large scale on the diversification of Neotropical freshwater fish fauna during late Tertiary.
Early History of Mammals Is Elucidated with the ENCODE Multiple Species Sequencing Data
TLDR
The sequence data of the ENCODE consortium, which include 1% of mammalian genomes in 18 species belonging to all main mammalian lineages, support the Afrotheria hypothesis; however, none can reject both of the remaining topological alternatives.
Optimization of de novo transcriptome assembly from next-generation sequencing data.
TLDR
Two new methods for substantially improving transcriptome de novo assembly were used to assemble successfully the transcripts of the core set of genes regulating tooth development in vertebrates, while classic de noVO assembly failed.
Changes in Hox genes’ structure and function during the evolution of the squamate body plan
TLDR
The genomic organization of Hox clusters in different reptiles and show that squamates have accumulated unusually large numbers of transposable elements at these loci, reflecting extensive genomic rearrangements of coding and non-coding regulatory regions.
Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome.
TLDR
The quantitative and qualitative trade-offs concomitant with alignment method choice and the levels of technical error that need to be accounted for in applications that require multisequence alignments are described.
Origin of the Mesozoa inferred from 18S rRNA gene sequences.
TLDR
The sequence analysis shows that the Mesozoa branch early in the animal evolution, closely to nematodes and myxozoans, suggests probably separate origins of rhombozoids and orthonectids, suggesting that their placement in the same phylum needs to be revised.
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