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A fresh look at the evolution and diversification of photochemical reaction centers.

Cardona T - Photosyn. Res. (2014)

Bottom Line: In this review, I reexamine the origin and diversification of photochemical reaction centers based on the known phylogenetic relations of the core subunits, and with the aid of sequence and structural alignments.Moreover, it becomes evident that the Acidobacteria and the Proteobacteria shared a more recent common phototrophic ancestor, and this is also likely for the Chloroflexi and the Cyanobacteria.The primordial phototrophic ancestor must have had both Type I and Type II reaction centers.

View Article: PubMed Central - PubMed

Affiliation: Department of Life Sciences, Imperial College London, Exhibition Road, London, SW7 2AZ, UK. t.cardona@imperial.ac.uk.

ABSTRACT
In this review, I reexamine the origin and diversification of photochemical reaction centers based on the known phylogenetic relations of the core subunits, and with the aid of sequence and structural alignments. I show, for example, that the protein folds at the C-terminus of the D1 and D2 subunits of Photosystem II, which are essential for the coordination of the water-oxidizing complex, were already in place in the most ancestral Type II reaction center subunit. I then evaluate the evolution of reaction centers in the context of the rise and expansion of the different groups of bacteria based on recent large-scale phylogenetic analyses. I find that the Heliobacteriaceae family of Firmicutes appears to be the earliest branching of the known groups of phototrophic bacteria; however, the origin of photochemical reaction centers and chlorophyll synthesis cannot be placed in this group. Moreover, it becomes evident that the Acidobacteria and the Proteobacteria shared a more recent common phototrophic ancestor, and this is also likely for the Chloroflexi and the Cyanobacteria. Finally, I argue that the discrepancies among the phylogenies of the reaction center proteins, chlorophyll synthesis enzymes, and the species tree of bacteria are best explained if both types of photochemical reaction centers evolved before the diversification of the known phyla of phototrophic bacteria. The primordial phototrophic ancestor must have had both Type I and Type II reaction centers.

No MeSH data available.


Related in: MedlinePlus

Maximum likelihood phylogenetic tree of Type I reaction center subunits. The tree was calculated using the same method as described in Fig. 3, and the sequence alignments are available on request. On top, the tree is shown as a rectangular phylogram and at the bottom in a radial form to highlight the different clades
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Fig7: Maximum likelihood phylogenetic tree of Type I reaction center subunits. The tree was calculated using the same method as described in Fig. 3, and the sequence alignments are available on request. On top, the tree is shown as a rectangular phylogram and at the bottom in a radial form to highlight the different clades

Mentions: The phylogenetic relationships of Type I reaction center core subunits calculated using maximum likelihood are shown in Fig. 7. It has basically the same topology as a tree reported by Bryant et al. (2007) using distance methods, which included for the first time the sequence from C. thermophilum. The tree is also similar to that constructed by Jagannathan et al. (2012) using in addition to distance, maximum likelihood and parsimony methods, and also see Sattley et al. (2008). These phylogenetic trees were built using alignments of the entire sequences of the reaction center subunit from all known Type I reaction centers. However, in contrast to Type II subunits, reconstructing the phylogeny of Type I reaction center proteins is slightly more difficult. This is mostly because there is a lower level of sequence homology among Type I reaction center subunits, especially when Photosystem I subunits PsaA and PsaB are compared with PscA and PshA. Thus, analyses with alternative sequence alignments have obtained different topologies for the phylogeny of Type I reaction centers (Rutherford et al. 1996; Mix et al. 2005; Hohmann-Marriott and Blankenship 2011).Fig. 7


A fresh look at the evolution and diversification of photochemical reaction centers.

Cardona T - Photosyn. Res. (2014)

Maximum likelihood phylogenetic tree of Type I reaction center subunits. The tree was calculated using the same method as described in Fig. 3, and the sequence alignments are available on request. On top, the tree is shown as a rectangular phylogram and at the bottom in a radial form to highlight the different clades
© Copyright Policy - OpenAccess
Related In: Results  -  Collection

Show All Figures
getmorefigures.php?uid=PMC4582080&req=5

Fig7: Maximum likelihood phylogenetic tree of Type I reaction center subunits. The tree was calculated using the same method as described in Fig. 3, and the sequence alignments are available on request. On top, the tree is shown as a rectangular phylogram and at the bottom in a radial form to highlight the different clades
Mentions: The phylogenetic relationships of Type I reaction center core subunits calculated using maximum likelihood are shown in Fig. 7. It has basically the same topology as a tree reported by Bryant et al. (2007) using distance methods, which included for the first time the sequence from C. thermophilum. The tree is also similar to that constructed by Jagannathan et al. (2012) using in addition to distance, maximum likelihood and parsimony methods, and also see Sattley et al. (2008). These phylogenetic trees were built using alignments of the entire sequences of the reaction center subunit from all known Type I reaction centers. However, in contrast to Type II subunits, reconstructing the phylogeny of Type I reaction center proteins is slightly more difficult. This is mostly because there is a lower level of sequence homology among Type I reaction center subunits, especially when Photosystem I subunits PsaA and PsaB are compared with PscA and PshA. Thus, analyses with alternative sequence alignments have obtained different topologies for the phylogeny of Type I reaction centers (Rutherford et al. 1996; Mix et al. 2005; Hohmann-Marriott and Blankenship 2011).Fig. 7

Bottom Line: In this review, I reexamine the origin and diversification of photochemical reaction centers based on the known phylogenetic relations of the core subunits, and with the aid of sequence and structural alignments.Moreover, it becomes evident that the Acidobacteria and the Proteobacteria shared a more recent common phototrophic ancestor, and this is also likely for the Chloroflexi and the Cyanobacteria.The primordial phototrophic ancestor must have had both Type I and Type II reaction centers.

View Article: PubMed Central - PubMed

Affiliation: Department of Life Sciences, Imperial College London, Exhibition Road, London, SW7 2AZ, UK. t.cardona@imperial.ac.uk.

ABSTRACT
In this review, I reexamine the origin and diversification of photochemical reaction centers based on the known phylogenetic relations of the core subunits, and with the aid of sequence and structural alignments. I show, for example, that the protein folds at the C-terminus of the D1 and D2 subunits of Photosystem II, which are essential for the coordination of the water-oxidizing complex, were already in place in the most ancestral Type II reaction center subunit. I then evaluate the evolution of reaction centers in the context of the rise and expansion of the different groups of bacteria based on recent large-scale phylogenetic analyses. I find that the Heliobacteriaceae family of Firmicutes appears to be the earliest branching of the known groups of phototrophic bacteria; however, the origin of photochemical reaction centers and chlorophyll synthesis cannot be placed in this group. Moreover, it becomes evident that the Acidobacteria and the Proteobacteria shared a more recent common phototrophic ancestor, and this is also likely for the Chloroflexi and the Cyanobacteria. Finally, I argue that the discrepancies among the phylogenies of the reaction center proteins, chlorophyll synthesis enzymes, and the species tree of bacteria are best explained if both types of photochemical reaction centers evolved before the diversification of the known phyla of phototrophic bacteria. The primordial phototrophic ancestor must have had both Type I and Type II reaction centers.

No MeSH data available.


Related in: MedlinePlus