Tuesday, June 13, 2006

Fast evolution in Ciliates

The Ciliate Tetrahymena

Ciliates are a large group of unicellular eukaryotes that have a highly unusual genome architecture. They have two, a micronucleus (MIC) and a macronucleus (MAC). The MIC is where genes are stored and it is passed on during sexual reproduction but it does not produce mRNA. The MAC is not passed during sexual reproduction, it is much larger than the MIC containing several copies of each gene and it is derived from the MIC (1). Ciliates normally divide asexually and in that case both nuclei are duplicated and one copy is passed on to each daughter cell. The reason for this genome architecture seems to be the very large cell size of Ciliates making it necessary to produce large amounts of proteins from each gene; this makes it necessary to have several copies of each gene from which mRNA can be produced.

It has been hypothesized that this unusual genome causes the ciliates to evolve much faster than other organisms. A fast rate of evolution has been found in histone H4 but as this gene is related to chromosome structure this fast rate of evolution could be a cause of the strange genome rather than a consequence of it. Now the rate of protein evolution has been compared between ciliates and other organisms and within ciliates with different amounts of genome processing (2). It was indeed found that genome processing did dramatically increase the rate of protein evolution, and the more extensive the processing the faster the rate of evolution.

It is not immediately obvious just how the unusual genome architecture of ciliates causes this fast evolutionary rate. The model proposed in the paper is this:

(Click for bigger)

“Genome architecture drives protein evolution in ciliates through the impact of selection operating on processed chromosomes in a somatic nucleus that divides by amitosis. Each ciliate contains a germline micronucleus, with a canonical eukaryotic genome, and a somatic macronucleus, represented by a large polyploid nucleus. A. If a deleterious mutation occurs (shown as an X), the chromosome carrying that mutation can be lost following unequal assortment during amitosis of the macronucleus. While this mutation may eventually be completely eliminated from the macronucleus, it will be present in the micronucleus. B. During subsequent rounds of asexual division, the micronucleus will acquire additional mutations. Given sufficient time and/or population size, one or more of these mutations may be compensatory. After conjugation, individuals with compensatory mutations can increase in frequency in the population. C. These processes are exaggerated in ciliates with extensively fragmented genomes, where every allele and locus is able to assort independently.”

Its and interesting theory although a lot more data will have to be accumulated before it is validated or another explanation can be found for the rate of evolution in Ciliates.

Although ‘Developmentally Regulated Genome Rearrangements’ seem very odd, they are fairly common (3). For example Genome-wide rearrangements has been found in Nematodes, Copepods, Hagfish Foraminifera and Ciliates and Targeted rearrangements are found in places like the vertebrate immune system. It is likely that this phenomenon does have an effect on the rate of evolution and it seems that this area of study will reveal interesting results.


1) Carolyn L. Jahn and Lawrence A. Klobutcher
Annual Review of Microbiology Vol. 56: 489-520

2) Rebecca A. Zufall, Casey L. McGrath, Spencer V. Muse, and Laura A. Katz
Genome Architecture Drives Protein Evolution in Ciliates
MBE Advance Access published on June 7, 2006.

Evolution of Developmentally Regulated Genome Rearrangements in Eukaryotes

Ciliophora (Protist image database)


Kevin Spring said...

Yes, genome processing may faster protein evolution. Although, the question of why genome processing would evolve in the first place is still out there.

The little data available will change.

Beautiful post.

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