Gibbon genome sequence deepens understanding of primates rapid chromosomal rearrangements
With the completion of the sequencing and analysis of the gibbon genome, scientists now know more about why this small ape has a rapid rate of chromosomal rearrangements, providing information that broadens understanding of chromosomal biology.
Chromosomes, essentially the packaging that encases the genetic information stored in the DNA sequence, are fundamental to cellular function and the transmission of genetic information from one generation to the next. Chromosome structure and function is also intimately related to human genetic diseases, especially cancer.
The sequence and analysis of the gibbon genome (all the chromosomes) was published today in the journal Nature and led by scientists at Oregon Health & Science University, the Baylor College of Medicine Human Genome Sequencing Center and the Washington University School of Medicine's Genome Institute.
"Everything we learn about the genome sequence of this particular primate and others analyzed in the recent past helps us to understand human biology in a more detailed and complete way," said Dr. Jeffrey Rogers, associate professor in the Human Genome Sequencing Center at Baylor and a lead author on the report. "The gibbon sequence represents a branch of the primate evolutionary tree that spans the gap between the Old World Monkeys and great apes and has not yet been studied in this way. The new genome sequence provides important insight into their unique and rapid chromosomal rearrangements."
For years, experts have known that gibbon chromosomes evolve quickly and have many breaks and rearrangements, but up until now there has been no explanation why, Rogers said. The genome sequence helps to explain the genetic mechanism unique to gibbons that results in these large scale rearrangements.
The sequencing was led by Dr. Kim Worley, professor in the Human Genome Sequencing Center, and Rogers, both of Baylor and Drs. Wesley Warren and Richard Wilson of Washington University.
The analysis was led by Dr. Lucia Carbone, an assistant professor of behavioral neuroscience in the OHSU School of Medicine and an assistant scientist in the Division of Neuroscience at OHSU's Oregon National Primate Research Center. Carbone is an expert in the study of gibbons and the lead and corresponding author on the report.
"We do this work to learn as much as we can about gibbons, which are some of the rarest species on the planet," said Carbone. "But we also do this work to better understand our own evolution and get some clues on the origin of human diseases."
Chromosomes play an essential role in the packaging of DNA, Worley said. "There are 3 billion base pairs of DNA in every cell and it is packaged into 23 pairs of chromosomes," said Worley, also a lead author on the report.
When there are rearrangements in chromosomes, the genes and gene regulation are often disrupted or broken, said Worley.
"Cancer is clearly the biggest medical example of the impact of chromosome rearrangements. The gibbon sequence gives us more insight into this process," said Worley. "There are also a number of other genetic diseases that result from these events."
The number of chromosomal rearrangements in the gibbons is remarkable, Rogers said. "It is like the genome just exploded and then was put back together," he said. "Up until recently, it has been impossible to determine how one human chromosome could be aligned to any gibbon chromosome because there are so many rearrangements."
The sequencing project revealed a novel and unique genetic repeat element (segments of DNA that occur in multiple copies throughout the genome) that is inserted into genes associated with the maintenance of chromatin structure.
Repeat elements have the capability to disrupt a gene and change their biological function, Worley said. In the gibbons, the team identified the LAVA element - a novel repeat element that emerged exclusively in gibbons and preferentially hits genes involved in chromosome segregation (an essential step in cell division, where chromosomes pair off with their similar homologous chromosome.)
"This explains why the gibbons have undergone so much change," said Rogers. "Similar disruptions cause disease, which is why everything we learn from this helps us better understand human biology and chromosomal structures."
More information: Gibbon genome and the fast karyotype evolution of small apes, Nature, dx.doi.org/10.1038/nature13679
Journal information: Nature
Provided by Baylor College of Medicine