We are beginning to appreciate the increasing complexity of mammalian gene structure. A phenomenon that adds an important dimension to this complexity is the use of alternative gene promoters that drive widespread cell type, tissue type or developmental gene regulation. Recent annotations of the human genome suggest that almost one half of the protein-coding genes contain alternative promoters,...

Animal eyes have long served as a classical example of independent origin followed by convergence of structures onto a few different solutions. During the past decade this view has been challenged by the discovery of shared developmental regulatory genes. The Pax6 gene in particular is almost universally employed for eye formation in bilaterian animals, despite widely different embryological or...

Genomes of animals as different as sponges and humans show conservation of global architecture. Here we show that multiple genomic features including transposon diversity, developmental gene repertoire, physical gene order, and intron-exon organization are shattered in the tunicate Oikopleura, belonging to the sister group of vertebrates and retaining chordate morphology. Ancestral architecture...

Background: Regulation of gene expression in mammalian embryos is not completely known. Pre-implantation embryos need maternal RNA and proteins synthesized during oogenesis, to regulate development before mater-embryo transition, as the grown oocyte and the 1-cell zygote are transcriptionally silent. There are some oocyte-specific genes called maternal effect genes which may account for this ea...

In yeast and worm, duplicate genes overlap in 7 function so that deleting one of a pair from the 8 genome is less likely to be lethal than deleting a 9 singleton gene. By contrast, previous analyses 10 showed that mouse duplicate genes were as 11 essential as singletons. We show that the 12 relationship between gene duplication and 13 essentiality is complex in multicellular organisms, 14 with ...

Hydra's remarkable capacity to regenerate, to proliferate asexually by budding, and to form a pattern de novo from aggregates allows studying complex cellular and molecular processes typical for embryonic development. The underlying assumption is that patterning in adult hydra tissue relies on factors and genes which are active also during early embryogenesis. Previously, we reported that in Hy...

Increase in the complexity of organisms during evolution strongly correlates with the increase in the noncoding DNA content of their genomes. Although a gradual increase in the proportion of repetitive DNA elements along with increasing complexity is known, most of the noncoding components of the genome remain uncharacterized. A nonrepetitive but highly conserved noncoding component of the geno...

DNA methylation is an epigenetic mark associated with regulation of transcription and genome structure. These markers have been investigated in a variety of cancer settings for their utility in differentiating normal tissue from tumor tissue. Here, we examine the direct correlation between DNA methylation and patient survival. We find that changes in the DNA methylation of key pancreatic develo...

The concept that neoplastic diseases are characterized by a deregulation of the genes that control, during embryogenesis, the correct development it has now been fully accepted by the scientific community. In fact, the common mechanisms between the two processes are very numerous, and for this reason at the end of eighties, the role of developmental genes in neoplastic transformation and progre...