Physical map and gene organization of the mitochondrial genome from the unicellular green alga Platymonas (Tetraselmis) subcordiformis (Prasinophyceae)

Mitochondrial Genome of Prasinophyte Alga Pyramimonas parkeae

Prasinophytes are a paraphyletic assemblage of nine heterogeneous lineages in the Chlorophyta clade of Archaeplastida. Until now, seven complete mitochondrial genomes have been sequenced from four prasinophyte lineages. Here, we report the mitochondrial genome of Pyramimonas parkeae, the first representative of the prasinophyte clade I. The circular-mapping molecule is 43,294 bp long, AT rich (68.8%), very compact and it comprises two 6,671 bp long inverted repeat regions. The gene content is slightly smaller than the gene-richest prasinophyte mitochondrial genomes. The single identified intron is located in the cytochrome c oxidase subunit 1 gene (cox1). Interestingly, two exons of cox1 are encoded on the same strand of DNA in the reverse order and the mature mRNA is formed by trans-splicing. The phylogenetic analysis using the data set of 6,037 positions assembled from 34 mtDNA-encoded proteins of 48 green algae and plants is not in compliance with the branching order of prasinophyte clades revealed on the basis of 18S rRNA genes and cpDNA-encoded proteins. However, the phylogenetic analyses based on all three genomic elements support the sister position of prasinophyte clades Pyramimonadales and Mamiellales.

Inhibition of cytoplasmic DNA synthesis may be an initial signal for the induction of sexual reproduction in Closterium ehrenbergii

We investigated the effect that inhibitors of cytoplasmic DNA (cytDNA) and/or nuclear DNA (nDNA) synthesis have on the frequency of zygote formation in Closterium ehrenbergii and whether these inhibitors correlate with arrest of pyrenoid production and enlargement of pyrenoidal size accompanying pregametogenesis in the alga. CytDNA inhibitors, ethidium bromide (EB), acridine orange and novobiocin (NB), enhanced zygote formation in the presence of nitrate, and these chemicals correlated with both a decrease in pyrenoid production and an increase in pyrenoidal size. By contrast, a nDNA inhibitor, aphidicolin (APC), enhanced zygote formation in the presence and absence of nitrate, and correlated with only an increase in pyrenoidal size. Meanwhile, inhibitors of both nDNA and cytDNA synthesis, mitomycin C (MC), hydroxyurea (HU) and arabinosyl cytosine (Ara-C), enhanced zygote formation in the presence and/or absence of nitrate. In addition, MC and HU correlated with only an increase in pyrenoidal size and Ara-C only a decrease in pyrenoid production. This result seemed to indicate that MC and HU functioned as selective inhibitors of nDNA synthesis, and Ara-C as a selective inhibitor of cytDNA synthesis. It is suggested that differentiation into pregametes correlates with the inhibition of both nDNA and cytDNA synthesis, levels of which are probably low, the inhibition of cytDNA synthesis being the initial signal for pregametogenesis.

A phylogenetic analysis of the cytochrome b and cytochrome c oxidase I genes supports an origin of mitochondria from within the Rickettsiaceae

We have cloned and sequenced the genes encoding cytochrome b (cob) and cytochrome c oxidase subunit I (cox1) from Rickettsia prowazekii, a member of the alpha-proteobacteria. The phylogenetic analysis supports the hypothesis that mitochondria are derived from the alpha-proteobacteria and more specifically from within the Rickettsiaceae. We have estimated that the common ancestor of mitochondria and Rickettsiaceae dates back to more than 1500 million years ago.

Organization, generation and replication of amphimeric genomes: a review

Genomes comprising a pair of separated inverted repeats and called 'amphimers' are reviewed. Amphimeric genomes are observed in a large variety of different organisms, ranging from archaebacteria to mammals. The widespread existence of amphimeric genomes in nature could be due to their particular dynamic structure. Amphimeric genomes containing long inverted segments may provide the only form in which a duplicated segment is stably retained in genomes. Amphimers are often found in amplified subgenomes, indicating that they could promote a special mechanism of DNA replication and amplification. The possible mechanisms of generation, isomerization and replication/amplification of different types of amphimeric genomes are discussed. The study of amphimeric mitochondrial petite genomes of yeast could be a good model system for the study of the role of inverted repeat sequences in genome dynamics.