Cyanobacterial phycobilisomes. Phycocyanin assembly in the rod substructures of anabaena variabilis phycobilisomes

Phycocyanin complexes with "linker" polypeptides (Lundell, D. J., Williams, R. C., and Glazer, A. N. (1981) J. Biol. Chem. 256, 3580-3592) of 27 and 32.5 kilodaltons have been isolated from dissociated Anabaena variabilis phycobilisomes. In 0.05 M phosphate at pH 7.0, these "trimeric" complexes have the molar composition (alpha beta)3 . 27,000 and (alpha beta)3 . 32,500, where alpha and beta are the subunits of phycocyanin and 27,000 and 32,500 denote single copies of the linker polypeptides. The (alpha beta)3 . 27,000 and (alpha beta)3 . 32,500 complexes have lambda max at 638 and 629 nm and fluorescence emission maxima at 651 and 646 nm, respectively. In 0.6 M phosphate at pH 8.0, the (alpha beta)3 . 27,000 complex forms an (alpha beta)6 . 27,000 disc-shaped aggregate as seen in the electron microscope, whereas the (alpha beta)3 . 32,500 complex forms discs, (alpha beta)6 . 32,500, and stacked disc rods of varying lengths. The former material, containing the 27,000 polypeptide, when mixed with the (alpha beta)6 . 32,500 discs, limits their assembly into rods. The spectroscopic properties of the discs and rods assembled in vitro indicate that energy transfer in phycobilisome rod substructures proceeds from (alpha beta)6 . 32,500 discs to the (alpha beta)6 . 27,000 disc proximal to the core and thence to the core.     

Cyanobacterial phycobilisomes. Characterization of the phycobilisomes of Synechococcus sp. 6301.

A procedure is described for the preparation of stable phycobilisomes from the unicellular cyanobacterium Synechococcus sp. 6301 (also known as Anacystis nidulans). Excitation of the phycocyanin in these particles at 580 nm leads to maximum fluorescence emission, from allophycocyanin and allophycocyanin B, at 673 nm. Electron microscopy shows that the phycobilisomes are clusters of rods. The rods are made up of stacks of discs which exhibit the dimensions of short stacks made up primarily of phycocyanin (Eiserling, F. A., and Glazer, A. N. (1974) J. Ultrastruct. Res. 47, 16-25). Loss of the clusters, by dissociation into rods under suitable conditions, is associated with loss of energy transfer as shown by a shift in fluorescence emission maximum to 652 nm. Synechococcus sp. 6301 phycobilisomes were shown to contain five nonpigmented polypeptides in addition to the colored subunits (which carry the covalently bound tetrapyrrole prosthetic groups) of the phycobiliproteins. Evidence is presented to demonstrate that these colorless polypeptides are genuine components of the phycobilisome. The nonpigmented polypeptides represent approximately 12% of the protein of the phycobilisomes; phycocyanin, approximately 75%, and allophycocyanin, approximately 12%. Spectroscopic studies that phycocyanin is in the hexamer form, (alpha beta)6, in intact phycobilisomes, and that the circular dichroism and absorbance of this aggregate are little affected by incorporation into the phycobilisome structure.     

Cyanobacterial phycobilisomes. Particles from Synechocystis 6701 and two pigment mutants

The phycobilisomes of the unicellular cyanobacterium Synechocystis 6701, grown in white light, contain C-phycoerythrin, C-phycocyanin, and allophycocyanin in a molar ration of approximately 2:2:1, and in addition, polypeptides of 99, 46, 33.5, 31.5, 30.5, and 27 x 10(3) Daltons, as well as a trace of a approximately 9 x 10(3)-dalton component. Two nitrosoguanidine-induced mutants of this organism produce aberrant phycobilisomes. Crude cell extracts of these mutants, 6701-NTG25 and NTG31, contain phycoerythrin, phycocyanin, and allophycocyanin in a molar ration of 1:5:1:1 and 0.55:0.3:1.0, respectively. The phycobilisomes from both mutants lack the 33.5 x 10(3)-dalton polypeptide. Wile-type phycobilisomes consist of a core composed of an equilateral array of three cylindrical elements surrounded by six rods in a fanlike arrangement. The rods are made up of stacked disks, 11 nm in diameter and 6 nm thick. In phycobilisomes of mutant 6701-NTG25, numerous particles with fewer than six rods are seen. Mutant 6701-NTG31 produces incomplete structures that extend from triangular core particles, through cores with one or two attached rods, to cores with as many as five rods. The structure of the core appears unaltered throughout. The amount of phycocyanin (relative to allophycocyanin) appears to determine the number of rods per core. A common assembly form seen in 6701-NTG31 is the core with two rods attached at opposite sides. From observations of this form, it is concluded that the core elements are cylindrical, with a height of 14 nm and a diameter of 11 nm. No consistently recognizable structural details are evident within the core elements.     

Cyanobacterial phycobilisomes. Role of the linker polypeptides in the assembly of phycocyanin

The phycocyanin-containing segments of the rod substructures of Anabaena variabilis phycobilisomes consist of complexes of phycocyanin with "linker" polypeptides of 27,000 and 32,500 daltons (Yu, M.-H., Glazer, A. N., and Williams, R. C. (1981) J. Biol. Chem. 256, 13130-13136). Complexes (alpha beta)3.27,000, (alpha beta)3.32,500, (alpha beta)6.27,000, [(alpha beta)6.32,500]n, (alpha beta)6.27,000 - (alpha beta)6.32,500 were prepared, where alpha beta represents a monomer of phycocyanin, and 27,000 and 32,500 represent the 27,000- and 32,500-dalton polypeptides, respectively. Tryptic digestion of (alpha beta)3.32,500 leads to a stable (alpha beta)3.28,000 complex which does not form higher aggregates. The 32,500 polypeptide is stable to trypsin in the [(alpha beta)6.32,500]n and (alpha beta)6.27,000 - [(alpha beta)6.32,500]n=1.2 aggregates. Upon trypsin treatment of all 27,000 still assembled into higher aggregates, (alpha beta)6.21,0900 and (alpha beta)6.21,000 - (alpha beta)6.32,500. The spectroscopic properties of phycocyanin-linker polypeptide complexes were not modified by the tryptic cleavages. These results show that the 32,500 polypeptide has two distinct functional domains, a 28,000 portion necessary to the stabilization of a trimeric phycocyanin complex and a 4,500 domain which links consecutive phycocyanin hexamers in the rod substructure. The 27,000 polypeptide likewise has two distinct functional domains: a 21,000 domain stabilizes a trimeric phycocyanin complex, a 6,000 domain is exposed in all of the assembly forms examined. From these and earlier studies, it is concluded that the 6,000 domain functions in the attachment of the rod substructures to the core of the phycobilisome.     

Cyanobacterial ycf27 gene products regulate energy transfer from phycobilisomes to photosystems I and II

Two open reading frames (slr0115 and slr0947) in the genome of the cyanobacterium Synechocystis sp. PCC 6803 are shown to be involved in the regulation of the coupling of phycobilisomes to photosynthetic reaction centres. Homologues of these genes, called ycf27, have been found in a range of phycobilin-containing organisms. The slr0115 and slr0947 gene products are OmpR-type DNA-binding response regulator proteins. Deletion of slr0115 results in increased efficiency of energy transfer from phycobilisomes to photosystem II relative to photosystem I. Reduction of the copy number of slr0947 has the opposite phenotypic effect. We have given the slr0115 and slr0947 genes the designations rpaA and rpaB respectively.     

Energy migration in phycobilisomes

Fluorescence emission and polarization spectra of the phycobilisomes (PBS) of the blue-green alga Nostoc muscorum were measured at 20, -73 and -196 degrees C while exciting at the absorption maximum of each pigment in the PBS. The emission spectra were deconvoluted into a number of Gaussian components and energy migration coefficients and quantum yields of fluorescence for the 8 forms of the phycobilins constituting the PBS were calculated. The overlap integrals and the critical and real distances for the energy transfer in the donor-acceptor pairs were evaluated. The general scheme of the energy transfer in the PBS is proposed according to which there is a homogeneous energy migration within each pigment form and a following effective heterogeneous migration directed from the short wavelength forms via the intermediate ones to the terminal long wavelength acceptors. The transfer passes one or more steps of the energy "staircase" which is formed by the excited levels of the forms. The backward "uphill" energy transfer does not take place. These data and the estimates of the real distances of the energy transfer allowed us to make a conclusion on the regular arrangement of the pigments in the PBS, to determine the distances between the chromophores and their localization in a pigment molecule and the distances between the chromophores of different pigments and thus to specify the structure of the PBS.     

Rod substructure in cyanobacterial phycobilisomes: phycoerythrin assembly in synechocystis 6701 phycobilisomes

Synechocystis 6701 phycobilisomes consist of a core of three cylindrical elements in an equilateral array from which extend in a fanlike manner six rods, each made up of three to four stacked disks. Previous studies (see Gingrich, J. C., L. K. Blaha, and A. N. Glazer, 1982. J. Cell Biol. 92:261-268) have shown that the rods consist of four disk-shaped complexes of biliproteins with "linker" polypeptides of 27-, 33.5-, 31.5-, and 30.5-kdaltons, listed in order starting with the disk proximal to the core: phycocyanin (alpha beta)6-27 kdalton, phycocyanin (alpha beta)6-33.5 kdalton, phycoerythrin (alpha beta)6- 31.5 kdalton, phycoerythrin (alpha beta)6-30.5 kdalton, where alpha beta is the monomer of the biliprotein. Phycoerythrin complexes of the 31.5- and 30.5-kdalton polypeptides were isolated in low salt. In 0.05 M K-phosphate-1 mM EDTA at pH 7.0, these complexes had the average composition (alpha beta)2-31.5 and (alpha beta)-30.5 kdalton polypeptide, respectively. Peptide mapping of purified 31.5- and 30.5- kdalton polypeptides showed that they differed significantly in primary structure. In 0.65 M Na-K-phosphate at pH 8, these phycoerythrin complexes formed rods of stacked disks of composition (alpha beta)6- 31.5 or (alpha beta)6-30.5 kdaltons. For the (alpha beta)-30.5 kdalton complex, the yield of rod assemblies was variable and the self- association of free phycoerythrin to smaller aggregates was an important competing reaction. Complementation experiments were performed with incomplete phycobilisomes from Synechocystis 6701 mutant strain CM25. These phycobilisomes are totally lacking in phycoerythrin and the 31.5- and 30.5-kdalton polypeptides, but have no other apparent structural defects. In high phosphate at pH 8, the phycoerythrin-31.5- kdalton complex formed disk assemblies at the end of the rod substructures of CM25 phycobilisomes whereas no interaction with the phycoerythrin-30.5 kdalton complex was detected. In mixtures of both the phycoerythrin-31.5 and -30.5 kdalton complexes with CM25 phycobilisomes, both complexes were incorporated at the distal ends of the rod substructures. The efficiency of energy transfer from the added phycoerythrin in complemented phycobilisomes was approximately 96%. The results show that the ordered assembly of phycoerythrin complexes seen in phycobilisomes is reproduced in the in vitro assembly process.     

Cyanobacterial Heterocysts

Many multicellular cyanobacteria produce specialized nitrogen-fixing heterocysts. During diazotrophic growth of the model organism Anabaena (Nostoc) sp. strain PCC 7120, a regulated developmental pattern of single heterocysts separated by about 10 to 20 photosynthetic vegetative cells is maintained along filaments. Heterocyst structure and metabolic activity function together to accommodate the oxygen-sensitive process of nitrogen fixation. This article focuses on recent research on heterocyst development, including morphogenesis, transport of molecules between cells in a filament, differential gene expression, and pattern formation.Organisms composed of multiple differentiated cell types can possess structures, functions, and behaviors that are more diverse and efficient than those of unicellular organisms. Among multicellular prokaryotes, heterocyst-forming cyanobacteria offer an excellent model for the study of cellular differentiation and multicellular pattern formation. Cyanobacteria are a large group of Gram-negative prokaryotes that perform oxygenic photosynthesis. They have evolved multiple specialized cell types, including nitrogen-fixing heterocysts, spore-like akinetes, and the cells of motile hormogonia filaments. Of these, the development of heterocysts in the filamentous cyanobacterium Anabaena (also Nostoc) sp. strain PCC 7120 (hereafter Anabaena PCC 7120) has been the best studied. Heterocyst development offers a striking example of cellular differentiation and developmental biology in a very simple form: Filaments are composed of only two cell types and these are arrayed in a one-dimensional pattern similar to beads on a string (Figs. 1 and ​and22).Open in a separate windowFigure 1.Heterocyst development in Anabaena PCC 7120. (A) Anabaena PCC 7120 grown in medium containing a source of combined nitrogen grows as filaments of photosynthetic vegetative cells. (B) In the absence of combined nitrogen, heterocysts differentiate at semiregular intervals, forming a developmental pattern of single heterocysts every 10 to 20 vegetative cells along filaments. Heterocysts are often larger than vegetative cells, have a thicker multilayered envelope, and usually contain cyanophycin granules at their poles adjacent to a vegetative cell.Open in a separate windowFigure 2.Heterocyst development in Anabaena PCC 7120. Filaments of the wild type carrying a patS-gfp reporter grown in medium containing nitrate are composed of vegetative cells (A), and have undergone heterocyst development 1 d after transfer to medium without combined nitrogen (B). A patS mutant strain carrying the same patS-gfp reporter grown in media containing nitrate contains a small number of heterocysts (C), and 1 d after transfer to medium without combined nitrogen shows a higher than normal frequency of heterocysts and an abnormal developmental pattern (D). (A, B, C, D) Merged DIC (grayscale), autofluorescence of photosynthetic pigments (red), and patS-gfp reporter fluorescence (green) microscopic images; arrowheads indicate heterocysts; asterisks indicate proheterocysts; size bar, 5 µm. (E, F) Transmission electron micrographs of wild-type vegetative cells (V) and a heterocyst (H) at the end of a filament; T, thylakoid membranes; PS, polysaccharide layer; GL, glycolipid layer; C, polar cyanophycin granule; size bar, 0.2 µm.Many cyanobacterial species are capable of nitrogen fixation. However, oxygenic photosynthesis and nitrogen fixation are incompatible processes because nitrogenase is inactivated by oxygen. Cyanobacteria mainly use two mechanisms to separate these activities: a biological circadian clock to separate them temporally, and multicellularity and cellular differentiation to separate them spatially. For example, the unicellular Cyanothece sp. strain ATCC 51142 stores glycogen during the day and fixes nitrogen at night (Toepel et al. 2008), whereas the filamentous Trichodesmium erythraeum IMS101 fixes nitrogen during the day in groups of specialized cells (Sandh et al. 2009). Heterocyst-forming cyanobacteria differentiate highly specialized cells to provide fixed nitrogen to the vegetative cells in a filament.In the presence of a source of combined nitrogen such as nitrate or ammonium, Anabaena PCC 7120 grows as long filaments containing hundreds of photosynthetic vegetative cells. In the absence of combined nitrogen, it produces heterocysts, which are terminally differentiated nitrogen-fixing cells that form at semiregular intervals between stretches of vegetative cells to produce a multicellular pattern of single heterocysts every ten to twenty vegetative cells along filaments (Figs. 1 and ​and2).2). Some heterocyst-forming cyanobacteria show different regulation or display different developmental patterns but these topics are beyond the scope of this article. Heterocyst development involves integration of multiple external and internal signals, communication between the cells in a filament, and temporal and spatial regulation of genes and cellular processes. The study of heterocyst development in Anabaena PCC 7120 has proven to be an excellent model for the study of cell fate determination, pattern formation, and differential gene expression during prokaryotic multicellular evelopment. Various aspects of heterocyst development, signaling, and regulation have been the subject of several recent reviews (Meeks and Elhai 2002; Forchhammer 2004; Herrero et al. 2004; Zhang et al. 2006; Aldea et al. 2008; Zhao and Wolk 2008).Although beyond the scope of this article, it should be noted that cyanobacteria have recently attracted increased attention because of their important roles in environmental carbon and nitrogen fixation (Montoya et al. 2004), and their potential for providing renewable chemicals and biofuels (Dismukes et al. 2008).     

Charge transfer states in phycobilisomes

Phycobilisomes (PBs) absorb light and supply downstream photosynthetic processes with excitation energy in many cyanobacteria and algae. In response to a sudden increase in light intensity, excess excitation energy is photoprotectively dissipated in PBs by means of the orange carotenoid protein (OCP)-related mechanism or via a light-activated intrinsic decay channel. Recently, we have identified that both mechanisms are associated with far-red emission states. Here, we investigate the far-red states involved with the light-induced intrinsic mechanism by exploring the energy landscape and electro-optical properties of the pigments in PBs. While Stark spectroscopy showed that the far-red states in PBs exhibit a strong charge-transfer (CT) character at cryogenic temperatures, single molecule spectroscopy revealed that CT states should also be present at room temperature. Owing to the strong environmental sensitivity of CT states, the knowledge gained from this study may contribute to the design of a new generation of fluorescence markers.     

Core substructure in cyanobacterial phycobilisomes

The tricylindrical core of Synechocystis 6701 phycobilisomes is made up of four types of allophycocyanin-containing complexes: A, (alpha AP beta AP)3; B, (alpha AP beta AP)3 .10K; C, (alpha APB1 alpha AP2 beta AP3).10K; D, (alpha AP beta AP)2.18.5K.99K; where AP is allophycocyanin, APB is allophycocyanin B, and 10K, 18.5K, and 99K are polypeptides of 10,000, 18,500, and 99,000 daltons, respectively. The 18.5K polypeptide is a hitherto unrecognized biliprotein subunit with a single phycocyanobilin prosthetic group. The tricylindrical core is made up of 12 subcomplexes in the molar ratio of A:B:C:D: of 4:4:2:2. Complexes C and D act as terminal energy acceptors. From these results and previous analysis of the bicylindrical core of Synechococcus 6301 phycobilisomes [14,15] it is proposed that the two cylinders of the Synechocystis 6701 core, proximal to the thylakoid membrane, each have the composition ABCD, and that the distal cylinder has the composition A2B2.     

Molecular morphology of cyanobacterial phycobilisomes

Phycobilisomes were isolated from several cyanobacteria following cell lysis with Triton X-100. They were purified by phosphate precipitation and hydrophobic-interaction chromatography. Their phycobiliprotein compositions were quantitatively determined by application of sets of simultaneous absorbance equations to gel chromatographic separations of the chromoproteins. Phycobilisomes purified from several cyanobacteria had characteristic elution times on agarose gel chromatography. Combining electron microscope observations of phycobilisome structure, phycobiliprotein composition, and agarose gel chromatography estimates of molecular weight permitted the calculation of many details of phycobilisome molecular structure. Complementary chromatic adaptation resulted in a change of phycobilisome composition and structure. The polypeptide compositions of phycobilisomes were examined by sodium dodecyl sulfate-agarose gel chromatography and sodium dodecyl sulfate-polyacrylamide gel electrophoresis. The phycobilisomes were composed of phycobilipeptides derived from the constituent phycobiliproteins. Higher molecular-weight phycobilipeptide aggregates were also observed. The dominant forces responsible for the maintenance of phycobilisome structure are concluded to be hydrophobic interactions.     

Radioprotective role of cyanobacterial phycobilisomes

Cyanobacteria are thought to be responsible for pioneering dioxygen production and the so-called “Great Oxygenation Event” that determined the formation of the ozone layer and the ionosphere restricting ionizing radiation levels reaching our planet, which increased biological diversity but also abolished the necessity of radioprotection. We speculated that ancient protection mechanisms could still be present in cyanobacteria and studied the effect of ionizing radiation and space flight during the Foton-M4 mission on Synechocystis sp. PCC6803. Spectral and functional characteristics of photosynthetic membranes revealed numerous similarities of the effects of α-particles and space flight, which both interrupted excitation energy transfer from phycobilisomes to the photosystems and significantly reduced the concentration of phycobiliproteins. Although photosynthetic activity was severely suppressed, the effect was reversible, and the cells could rapidly recover from the stress. We suggest that the actual existence and the uncoupling of phycobilisomes may play a specific role not only in photo-, but also in radioprotection, which could be crucial for the early evolution of Life on Earth.     

Cyanobacterial hydrogen production

With the global attention and research now being focussed on looking for an alternative to fossil fuel, hydrogen is the hope of future. Cyanobacteria are highly promising microorganisms for biological photohydrogen production. The review highlights the advancement in the biology of cyanobacterial hydrogen production in recent years. It discusses the enzymes involved in hydrogen production, viz. hydrogenases and nitrogenases, various strategies developed by cyanobacteria to limit nitrogenase inactivation by atmospheric and photosynthetic O₂, different biochemical and physicochemical parameters influencing the commercial cyanobacterial hydrogen production and the methods opted by different researchers for eliminating them to obtain maximum and sustained hydrogen production. Integrating the existing knowledge, techniques and expertise available, much future improvement and progress can be made in the field. This revised version was published online in November 2006 with corrections to the Cover Date.     

Core substructure in Mastigocladus laminosus phycobilisomes

A native high molecular complex (M_r 850000) containing about 50% of the allphycocyanin of the phycobilisome but lacking allophycocyanin B was separated from isolated phycobilisomes by gel electrophoresis. It was designated AP_CM since the large linker polypeptide L_CM was exclusively localized in this complex. The complex exhibited a ?196°C fluorescence emission maximum at 673 nm (671 nm at 25°C). In addition, a core complex (designated AP_C, M_r≥1000000) consisting of both AP_CM and AP 680 was isolated by combined gel filtration and linear gradient centrifugation. At 25°C this complex showed dual emission peaks at 670 and 680 nm demonstrating functional independence of the terminal emitters. A complex similar to AP_CM can be isolated from phycobilisomes of Anabaena variabilis. This is evidence that AP_CM is the constitutive center of the tricylindrical core of hemidiscoidal cyanobacterial phycobilisomes. Two models summarizing the structural and functional consequences of the results are presented in the discussion.     

Cyanobacterial signature genes

A comparison of 8 cyanobacterial genomes reveals that there are 181 shared genes that do not have obvious orthologs in other bacteria. These signature genes define aspects of the genotype that are uniquely cyanobacterial. Approximately 25% of these genes have been associated with some function. These signature genes may or may not be involved in photosynthesis but likely they will be in many cases. In addition, several examples of widely conserved gene order involving two or more signature genes were observed. This suggests there may be regulatory processes that have been preserved throughout the long history of the cyanobacterial phenotype. The results presented here will be especially useful because they identify which of the many genes of unassigned function are likely to be of the greatest interest. This revised version was published online in June 2006 with corrections to the Cover Date.     

Core substructure in Mastigocladus laminosus phycobilisomes

Three allophycocyanin complexes were separated by gel electrophoresis, isoelectric focusing and ion exchange chromatography from a low molecular fraction (M_r 100–150000) of partially dissociated phycobilisomes of Mastigocladus laminosus: A. (^APAP); B. (^*AP₂ ^AP₂ ^AP*AP) · L _C ¹⁰ ; and C. (^*APAPBAP₂ ^AP*AP) · L _C ¹⁰ . According to their fluorescence emission maximum at room temperature the complexes A., B. and C. are designated AP 660, AP 664 and AP 680. The different subunits of the AP complexes have apparent molecular weights of M_r 18500 ^*AP, 18200 ^APB, 18000 ^AP, 17000 ^AP and 16500 ^*AP. This hitherto unrecognized microheterogeneity within the AP subunits of complexes B. and C. of Mastigocladus laminosus phycobilisomes could also be demonstrated and confirmed with the two phycocyanin complexes PC 642 and PC 646. PC 642 is characterized by a L _R ¹¹ linker polypeptide.Abbreviations AP allophycocyanin - PC phycocyanin - PEC phycoerythrocyanin - PE phycoerythrin - PAGE polyacrylamide gel electrophoresis - IEF isoelectric focusing - pI isoelectric point - M_r apparent molecular weight - TMED tetramethylethylenediamine - APS ammonium persulphate - SDS sodium dodecylsulphate - O.D. optical density A preliminary account of this work has been presented at the Embo Workshop on Oxygenic and Anoxygenic Electron Transport Systems in Cyanobacteria (Blue-green Algae) in Cape Sounion, Greece, 20–25 September 1987     

Phycobiliproteins and phycobilisomes: the early observations

The purpose of this minireview is to highlight the early observations that led to the discovery of the physico-chemical properties of the phycobiliproteins, their structure and function, and to their architectural organization in supramolecular complexes, the phycobilisomes. Generally attached on the stromal surface of the thylakoid membranes in both prokaryotic (cyanobacteria) and eukaryotic cells (cyanelles, red algae and cryptomonads), these complexes represent the most abundant soluble proteins and the major light-harvesting antennae for photosynthesis. This review mainly focuses on the years prior to the development of the molecular biology of cyanobacteria that flourished in the 1980s. We refer the reader to the comprehensive and excellent review by Sidler (1994) for more recent discoveries and more detailed literature on this topic. [-pt] `It would be difficult to find another series of colouring matters of greater beauty or with such remarkable and instructive chemical and physical peculiarities'. H. Sorby, 1877. This revised version was published online in August 2006 with corrections to the Cover Date.     

Cyanobacterial dominance in lakes

Cyanobacterial dominance in lakes has received much attention in the past because of frequent bloom formation in lakes of higher trophic levels. In this paper, underlying mechanisms of cyanobacterial dominance are analyzed and discussed using both original and literature data from various shallow mixed and deep stratifying lakes from temperate and (sub)tropical regions. Examples include all four ecotypes of cyanobacteria sensu Mur et al. (1993), because their behavior in the water column is entirely different. Colony forming species (Microcystis) are exemplified from the large shallow Tai Hu, China. Data from a shallow urban lake, Alte Donau in Austria are used to characterize well mixed species (Cylindrospermopsis), while stratifying species (Planktothrix) are analyzed from the deep alpine lake Mondsee. Nitrogen fixing species (Aphanizomenon) are typified from a shallow river-run lake in Germany. Factors causing the dominance of one or the other group are often difficult to reveal because several interacting factors are usually involved which are not necessarily the same in different environments. Strategies for restoration, therefore, depend on both the cyanobacterial species involved and the specific causing situation. Some uncertainty about the success of correctives, however, will remain due to the stochastic nature of the events and pathways leading to cyanobacterial blooms. Truly integrated research programs are required to generate predictive models capable of quantifying key variables at appropriate spatial and temporal scales.     

Cyanobacterial KnowledgeBase (CKB), a Compendium of Cyanobacterial Genomes and Proteomes

Cyanobacterial KnowledgeBase (CKB) is a free access database that contains the genomic and proteomic information of 74 fully sequenced cyanobacterial genomes belonging to seven orders. The database also contains tools for sequence analysis. The Species report and the gene report provide details about each species and gene (including sequence features and gene ontology annotations) respectively. The database also includes cyanoBLAST, an advanced tool that facilitates comparative analysis, among cyanobacterial genomes and genomes of E. coli (prokaryote) and Arabidopsis (eukaryote). The database is developed and maintained by the Sub-Distributed Informatics Centre (sponsored by the Department of Biotechnology, Govt. of India) of the National Facility for Marine Cyanobacteria, a facility dedicated to marine cyanobacterial research. CKB is freely available at http://nfmc.res.in/ckb/index.html.