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The oyster genome reveals stress adaptation and complexity of shell formation
The sequencing and assembly of the oyster genome using short reads and a fosmid-pooling strategy and transcriptomes of development and stress response and the proteome of the shell are reported, showing that shell formation in molluscs is more complex than currently understood and involves extensive participation of cells and their exosomes.
The genome of the cucumber, Cucumis sativus L.
This study establishes that five of the cucumber's seven chromosomes arose from fusions of ten ancestral chromosomes after divergence from Cucumis melo, and identifies 686 gene clusters related to phloem function.
Whole-genome analyses resolve early branches in the tree of life of modern birds
A genome-scale phylogenetic analysis of 48 species representing all orders of Neoaves recovered a highly resolved tree that confirms previously controversial sister or close relationships and identifies the first divergence in Neoaves, two groups the authors named Passerea and Columbea.
Comparative genomics reveals insights into avian genome evolution and adaptation
This work explored bird macroevolution using full genomes from 48 avian species representing all major extant clades to reveal that pan-avian genomic diversity covaries with adaptations to different lifestyles and convergent evolution of traits.
Analyses of pig genomes provide insight into porcine demography and evolution
The assembly and analysis of the genome sequence of a female domestic Duroc pig and a comparison with the genomes of wild and domestic pigs from Europe and Asia reveal a deep phylogenetic split between European and Asian wild boars ∼1 million years ago.
The diploid genome sequence of an Asian individual
Genotyping analysis showed that SNP identification had high accuracy and consistency, indicating the high sequence quality of this assembly, and the potential usefulness of next-generation sequencing technologies for personal genomics.
Resequencing 50 accessions of cultivated and wild rice yields markers for identifying agronomically important genes
Thousands of genes with significantly lower diversity in cultivated but not wild rice are identified, which represent candidate regions selected during domestication and should be valuable for breeding and for identifying agronomically important genes in rice.
Genomic Comparison of the Ants Camponotus floridanus and Harpegnathos saltator
The genomes of two socially divergent ant species exhibiting differences in caste development are sequenced and used to compare gene expression and identify differences in epigenetic gene regulation that lead to the phenotypic differences.
On the origin of new genes in Drosophila.
Several mechanisms have been proposed to account for the origination of new genes. Despite extensive case studies, the general principles governing this fundamental process are still unclear at the…
Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species
The high degree of variability between the entries suggests that there is still much room for improvement in the field of genome assembly and that approaches which work well in assembling the genome of one species may not necessarily work well for another.