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Epigenetics: Discoveries About The Protein That Oversees DNA Replication Print E-mail
SciMed - Genetics & Genome
TS-Si News Service   
Thursday, 17 January 2008 20:00
Epigenetics: Discoveries About The Protein That Oversees DNA Replication.
Epigenetics & Epigenomics

Epigenetics & Epigenomics. Traditional genetics attributes human characteristics to a simple arithmetical combination of inheritable traits from unchanging genes. As a result, genetic mutations and recombinations have driven most descriptions of how traits are handed down from one generation to another.

The discovery and understanding of DNA, and the role of non-coding (junk) DNA, reveals a more complex — and subtle — situation. Today, scientists know that heritable changes in gene function can occur without a change in the DNA sequence. Called epigenetics, this insight has further changed the way researchers think about heredity. Epigenetics bridges the gap between nature and nurture.

Both epigenetics and epigenomics — the genomewide distribution of epigenetic changes — are related to many other topics requiring a thorough understanding of all aspects of genetics. The latter includes aging, agriculture, cloning, evolution, sexual differentiation, species conservation, stem cells, and synthetic biology.




There are more than 200 different cell types in the human body; each cell contains the same genetic information and can, in theory, synthesize the same proteins. However, each cell type is unique and synthesizes a specific set of proteins. Nerve cells synthesize proteins that are necessary for generating nerve cells, muscle cells synthesize those necessary for building muscle fibers, etc.

This specialization takes place during early embryonic development and continues throughout a person's life. Cells exercise control over their own development using a mechanism called epigenetic regulation, which “opens” or "closes" the DNA structure. Differences in protein synthesis result from the activation and inactivation of genes.

This is fundamental to all animals, humans, and plants (eukaryotic cells). It is involved in tissue regeneration and the preservation of stem cells and DNA.

Epigenetic processes are natural and essential to many organism functions, but disruptions can result in major adverse health and behavioral effects. Variations in epigenetic gene activity regulation are causally connected in human beings to disruptions in early embryonic development and serious diseases.

The cell has to condense two meters of DNA inside a 1/100 millimeter diameter body. During the condensation process, the cell mechanism determines which genes activate. A special group of proteins, called the histones, plays a central part during this process.

The DNA is wound around the histones — which also determine the DNA structure — during condensation. They attach a number of complex and relatively unknown combinations of small chemical modifications under the influence of different enzymes. This opens and closes parts of the DNA structure to regulate gene activation — specific for each of our distinct cell types.



Most epigenetic modifications are erased with each new generation, during gametogenesis and after fertilization. Recent reports suggest that some epigenetic changes may endure in at least four subsequent generations of organisms. If reproducible, the findings could suggest some interesting new approaches. Other studies have found that epigenetic effects occur not just in the womb, but over the full course of a human life span.


Imprinted genes don't rely on the traditional laws of Mendelian genetics, which describe the inheritance of traits as either dominant or recessive. In Mendelian genetics, both parental copies are equally likely to contribute to the outcome. The impact of an imprinted gene copy, however, depends only on which parent it was inherited from. For some imprinted genes, the cell only uses the copy from the mother to make proteins, and for others only that from the father.

In the mid 1980s, scientists studying mice discovered that normal development requires the inheritance of genetic material from both a male and a female. The resulting variances changed, depending on the material's origin.

One hypothesis has it that imprinting regulates embryonic growth. Maternally-expressed imprinted genes usually suppress growth, while those from the male parent usually enhance growth, ensuring continuation of the father's genes.

This is important for a species in which a single litter of offspring can result from the contributions of more than one male. However, the mother, interested in her own health maintenance (biologically speaking), "fights" the paternal genes and limits the size of the embryo or fetus.
Paris, France. Conception results in division of the initial human cell and continuing divisions that result in a human being. But it is what happens before conception that ensures this result.
 
Part of the answer lies in a process called DNA replication — it is essential in all known life forms. The process is the means by which a double-stranded DNA (deoxyribonucleic acid) molecule can be copied.
 
Each DNA strand holds the same genetic information and can serve as a template for the reproduction of the opposite strand. The template is preserved in its entirety and the new strand is assembled from nucleotides (the structural units of RNA, DNA, and several other cofactors). They have important roles in metabolism and signaling in the cell.
 

Regulation of Replication Fork Progression Through Histone Supply and Demand. Anja Groth, Armelle Corpet, Adam J. L. Cook, Daniele Roche, Jiri Bartek, Jiri Lukas, and Geneviève Almouzni. Science. Vol. 318. no. 5858, pp. 1928 - 1931. DOI: 10.1126/science.1148992.

 
This process is called semiconservative replication. Proofreading and error-checking mechanisms ensure extremely high fidelity. The resulting double-stranded DNA molecules almost always are identical. However, some variations do occur that can lead to innovation or, considered as errors, can influence the later emergence of various birth conditions, defects, and/or diseases.
 
Geneviève Almouzni is a CNRS director of research and heads the CNRS/Institut Curie Laboratory of Nuclear Dynamics and Genome Plasticity.In a human cell, the replication process must occur before cell division. The timings are highly regulated and precede cell division (mitosis or meiosis). A team of scientists at the Institut Curie has been investigating this process. They have now reported the discovery of how a specific protein, Asf1, ensures the correct (re)organization of duplicated DNA. 
 
Led by Geneviève Almouzni at the Centre National de la Recherche Scientifique (CNRS — National Center for Scientific Research), they published their findings in the journal Science
 
During DNA replication, all the information in the mother cell must be transmitted to the daughter cells. The DNA must be faithfully copied, of course, but also properly organized within the cell. Chromatin is the complex of DNA and protein found inside cell nuclei that makes up chromosomes. DNA is wrapped around proteins called histones to form chromatin.
 
This complex structure contains so-called epigenetic information, which governs gene expression and gives each cell its specific identity. The histone chaperone, Asf1, coordinates the removal of histones from the chromatin to allow the replication machinery to move along the DNA with the supply of new histones to reform the chromatin once the replication machinery has passed. This discovery sheds new light on the transmission of epigenetic information in cells.
 
DNA inherited from both parents is copied during each cell division and transmitted to all cells. Each of our cells therefore contains the same genetic information. So, what is the difference between a neuron and a white blood cell? The difference lies in the fact that although every cell in our body has the same number of genes, only some of these genes are active in any given cell. Gene expression is the process by which the inheritable information in a gene, such as the DNA sequence, is made into a functional gene product, such as protein or RNA. Depending on cell type, certain genes are “locked” to prevent their expression.
 
Information on the locking and unlocking of genes is essential for cell function. This information is not carried in the genes themselves but by epigenetic factors. These can be chemical modifications such as the binding of chemical groups (methyl, phosphate, acetyl) to DNA and to its associated proteins, the histones, or the epigentic factors could be the organization of the DNA within the cell.
 
The DNA double helix (diameter 2 nanometers) is wrapped around histones, proteins that facilitate its compaction, to form nucleosomes which are strung along the DNA like beads on a string. This bead necklace then folds on itself to form a fiber — chromatin. When a cell divides to give rise to two daughter cells, the DNA-replicating machinery unfolds the chromatin as it moves along the DNA strands.
 
Once the so-called replication fork (the structure that forms during DNA replication) has passed, both the DNA and the epigenetic factors must be repositioned. The Chromatin Dynamics team of Geneviève Almouzni has now shown that the histone chaperone, the protein ASF-1, regulates the progression of the replication fork and handles the supply and demand of histones during this process essential to cell life.
 
Asf1 oversees the removal of old histones upstream of the replication fork and their recycling, together with the supply of newly synthesized histones to the DNA daughter strands. In so doing, Asf1 collaborates with MCM2-7, a protein complex that opens the DNA strands to allow the replication fork to advance. Asf1 therefore plays a key role in replication during cell division by coordinating the recycling of old histones and the incorporation of newly synthesized histones.
 
This discovery clarifies the relation between duplication of the genetic material and transmission of information carried by the histones during cell division. Any alterations occurring in the DNA or chromatin may compromise the development of an organism, play a part in cell aging, or even in the occurrence of a disease (such as cancer).
 

The Centre National de la Recherche Scientifique (CNRS — National Center for Scientific Research) is a government-funded research organization, under the administrative authority of France's Ministry of Research.

Geneviève Almouzni is a CNRS director of research and heads the CNRS/Institut Curie Laboratory of Nuclear Dynamics and Genome Plasticity.

 
Regulation of Replication Fork Progression Through Histone Supply and Demand. Anja Groth, Armelle Corpet, Adam J. L. Cook, Daniele Roche, Jiri Bartek, Jiri Lukas, and Geneviève Almouzni. Science. Vol. 318. no. 5858, pp. 1928 - 1931. DOI: 10.1126/science.1148992.

Abstract. DNA replication in eukaryotes requires nucleosome disruption ahead of the replication fork and reassembly behind. An unresolved issue concerns how histone dynamics are coordinated with fork progression to maintain chromosomal stability. Here, we characterize a complex in which the human histone chaperone Asf1 and MCM2–7, the putative replicative helicase, are connected through a histone H3-H4 bridge. Depletion of Asf1 by RNA interference impedes DNA unwinding at replication sites, and similar defects arise from overproduction of new histone H3-H4 that compromises Asf1 function. These data link Asf1 chaperone function, histone supply, and replicative unwinding of DNA in chromatin. We propose that Asf1, as a histone acceptor and donor, handles parental and new histones at the replication fork via an Asf1–(H3-H4)–MCM2–7 intermediate and thus provides a means to fine-tune replication fork progression and histone supply and demand.
 
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Last Updated on Saturday, 19 January 2008 20:06