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This interesting review discusses the role that nutrient resource limitation has had on the evolution of photosynthetic organisms. Special consideration is given to particular elemental and biochemical restrictions and to molecular and physiological mechanisms that are likely adaptations to life in oligotrophic environments. Oligotrophic conditions that constrain photosynthesis in the ocean are discussed.
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Raven, J.A.1
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This paper describes the construction and features of a diatom EST database. The EST sequences are organized into a non-redundant set for P. tricornutum and T. pseudonana and can be searched according to Pfam domains, clusters of orthologous groups (COG), and gene ontologies (GO).
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Maheswari U., Montsant A., Goll J., Krishnasamy S., Rajyashri K.R., Patell V.M., and Bowler C. The diatom EST database. Nucleic Acids Res 33 (2005) D344-D347. This paper describes the construction and features of a diatom EST database. The EST sequences are organized into a non-redundant set for P. tricornutum and T. pseudonana and can be searched according to Pfam domains, clusters of orthologous groups (COG), and gene ontologies (GO).
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Maheswari, U.1
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The analysis of the complete 34-Mb genome sequence of T. pseudonana revealed many novel features related to silica, fatty-acid, nitrogen, and metal metabolism. The diatom genome sequence supports the red algal origin of chromoalveolate secondary plastids.
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Armbrust E.V., Berges J.A., Bowler C., Green B.R., Martinez D., Putnam N.H., Zhou S.G., Allen A.E., Apt K.E., Bechner M., et al. The genome of the diatom Thalassiosira pseudonana: ecology, evolution, and metabolism. Science 306 (2004) 79-86. The analysis of the complete 34-Mb genome sequence of T. pseudonana revealed many novel features related to silica, fatty-acid, nitrogen, and metal metabolism. The diatom genome sequence supports the red algal origin of chromoalveolate secondary plastids.
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Armbrust, E.V.1
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Synopsis of biogeochemical and geological aspects of the rise of red-lineage phytoplankton (chromoalveolates) and of the evolution of dinoflagellates, coccolithophores, and diatoms.
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Falkowski, P.G.1
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A phylogenetic analysis of ten plastid genes for each of the four major chromalveolate lineages is presented. This study represents the first organellar genome-scale analysis to include both haptophytes and dinoflagellates. Overall, molecular phylogenetics supports the idea of a single origin of chlorophyll c-containing plastids from red algae. The authors emphasize, however, that the data do not preclude the possibility of serial transfer of chlorophyll c-containing plastids to various hosts.
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Bachvaroff T.R., Puerta M.V.S., and Delwiche C.F. Chlorophyll c-containing plastid relationships based on analyses of a multigene data set with all four chromalveolate lineages. Mol Biol Evol 22 (2005) 1772-1782. A phylogenetic analysis of ten plastid genes for each of the four major chromalveolate lineages is presented. This study represents the first organellar genome-scale analysis to include both haptophytes and dinoflagellates. Overall, molecular phylogenetics supports the idea of a single origin of chlorophyll c-containing plastids from red algae. The authors emphasize, however, that the data do not preclude the possibility of serial transfer of chlorophyll c-containing plastids to various hosts.
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Mol Biol Evol
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Bachvaroff, T.R.1
Puerta, M.V.S.2
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A multi-gene dataset and reliable fossil constraints are used to calculate a time-line for major splits and endosymbiotic events that govern the algal tree of life and that facilitated the spread photosynthesis across different lineages.
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Yoon H.S., Hackett Y.D., Ciniglia C., Pinto G., and Bhattacharya D. A molecular timeline for the origin of photosynthetic eukaryotes. Mol Biol Evol 21 (2004) 809-818. A multi-gene dataset and reliable fossil constraints are used to calculate a time-line for major splits and endosymbiotic events that govern the algal tree of life and that facilitated the spread photosynthesis across different lineages.
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Mol Biol Evol
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Yoon, H.S.1
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Chaal B.K., and Green B.R. Protein import pathways in 'complex' chloroplasts derived from secondary endosymbiosis involving a red algal ancestor. Plant Mol Biol 57 (2005) 333-342
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Chaal, B.K.1
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Through the manipulation and fusion to GFP of diatom plastid presequence motifs, the authors discover a single conserved phenylalanine that is essential for protein transport into diatom plastids.
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Kilian O., and Kroth P.G. Identification and characterization of a new conserved motif within the presequence of proteins targeted into complex diatom plastids. Plant J 41 (2005) 175-183. Through the manipulation and fusion to GFP of diatom plastid presequence motifs, the authors discover a single conserved phenylalanine that is essential for protein transport into diatom plastids.
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Kilian, O.1
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A database of the size of diatom silica frustules over the Cenozoic is constructed and analyzed. The largest changes in the mean size of the diatom frustule are inferred to correspond with Miocene and Eocene changes in the intensity of oceanic temperature gradients, as estimated from the temperature difference between surface and deep waters. The authors conclude that during periods of intense thermal stratification, such as in the Neogene, the average size of individual cells within the diatom community decreased as a result of reduced nutrient supply.
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Finkel Z.V., Katz M.E., Wright J.D., Schofield O.M.E., and Falkowski P.G. Climatically driven macroevolutionary patterns in the size of marine diatoms over the cenozoic. Proc Natl Acad Sci USA 102 (2005) 8927-8932. A database of the size of diatom silica frustules over the Cenozoic is constructed and analyzed. The largest changes in the mean size of the diatom frustule are inferred to correspond with Miocene and Eocene changes in the intensity of oceanic temperature gradients, as estimated from the temperature difference between surface and deep waters. The authors conclude that during periods of intense thermal stratification, such as in the Neogene, the average size of individual cells within the diatom community decreased as a result of reduced nutrient supply.
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Proc Natl Acad Sci USA
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Finkel, Z.V.1
Katz, M.E.2
Wright, J.D.3
Schofield, O.M.E.4
Falkowski, P.G.5
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15
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22844447984
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The elemental stoichiometry and composition of an iron-limited diatom
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The centric diatom Thalassiosira weissflogii was cultured over a range of Fe-limiting conditions with nitrate or ammonium as the N source. N:P and C:P ratios were found to decline significantly as a function of Fe limitation. The elemental stoichiometry and uptake rate ratios for Fe-limited and nutrient replete cells were measured and are discussed.
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Price N.M. The elemental stoichiometry and composition of an iron-limited diatom. Limnol Oceanogr 50 (2005) 1159-1171. The centric diatom Thalassiosira weissflogii was cultured over a range of Fe-limiting conditions with nitrate or ammonium as the N source. N:P and C:P ratios were found to decline significantly as a function of Fe limitation. The elemental stoichiometry and uptake rate ratios for Fe-limited and nutrient replete cells were measured and are discussed.
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Limnol Oceanogr
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Price, N.M.1
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27744513188
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Synthesis of iron fertilization experiments: from the iron age in the age of enlightenment
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10.1029/2004JC002601. This exhaustive analysis compares and summarizes eight large-scale iron-enrichment experiments. Large diatoms apparently always benefit more than smaller diatoms from Fe addition and Pseudo-nitzschia spp. are consistently the most responsive of the smaller diatoms.
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de Baar H.J.W., Boyd P.W., Coale K.H., Landry M.R., Tsuda A., Assmy P., Bakker D.C.E., Bozec Y., Barber R.T., Brzezinski M.A., et al. Synthesis of iron fertilization experiments: from the iron age in the age of enlightenment. J Geophys Res - Oceans 110 (2005) C09S16 10.1029/2004JC002601. This exhaustive analysis compares and summarizes eight large-scale iron-enrichment experiments. Large diatoms apparently always benefit more than smaller diatoms from Fe addition and Pseudo-nitzschia spp. are consistently the most responsive of the smaller diatoms.
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J Geophys Res - Oceans
, vol.110
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de Baar, H.J.W.1
Boyd, P.W.2
Coale, K.H.3
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Assmy, P.6
Bakker, D.C.E.7
Bozec, Y.8
Barber, R.T.9
Brzezinski, M.A.10
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17
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22844443849
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Extracellular production of superoxide by marine diatoms: contrasting effects on iron redox chemistry and bioavailability
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Kustka A.B., Shaked Y., Milligan A.J., King D.W., and Morel F.M.M. Extracellular production of superoxide by marine diatoms: contrasting effects on iron redox chemistry and bioavailability. Limnol Oceanogr 50 (2005) 1172-1180
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Limnol Oceanogr
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Kustka, A.B.1
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Perception of environmental signals by a marine diatom
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Falciatore A., d'Alcala M.R., Croot P., and Bowler C. Perception of environmental signals by a marine diatom. Science 288 (2000) 2363-2366
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Falciatore, A.1
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Peers G., and Price N.M. A role for manganese in superoxide dismutases and growth of iron-deficient diatoms. Limnol Oceanogr 49 (2004) 1774-1783
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Peers, G.1
Price, N.M.2
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22844442581
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Peers G., Quesnel S.A., and Price N.M. Copper requirements for iron acquisition and growth of coastal and oceanic diatoms. Limnol Oceanogr 50 (2005) 1149-1158
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Price, N.M.3
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28044461988
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This interesting study suggests that Pseudo-nitzschia spp., a diatom that produces the neurotoxin domoic acid, has the ability to utilize iron that is strongly complexed by organic ligands. Apparently, domoic acid and copper are functional components of this unusual high-affinity iron acquisition system.
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Wells M.L., Trick C.G., Cochlan W.P., Hughes M.P., and Trainer V.L. Domoic acid: the synergy of iron, copper, and the toxicity of diatoms. Limnol Oceanogr 50 (2005) 1908-1917. This interesting study suggests that Pseudo-nitzschia spp., a diatom that produces the neurotoxin domoic acid, has the ability to utilize iron that is strongly complexed by organic ligands. Apparently, domoic acid and copper are functional components of this unusual high-affinity iron acquisition system.
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Limnol Oceanogr
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Wells, M.L.1
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Trainer, V.L.5
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Quigg A., Finkel Z.V., Irwin A.J., Rosenthal Y., Ho T.Y., Reinfelder J.R., Schofield O., Morel F.M.M., and Falkowski P.G. The evolutionary inheritance of elemental stoichiometry in marine phytoplankton. Nature 425 (2003) 291-294
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Quigg, A.1
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Berges J.A., Gibson C.E., and Stewart B.M. Physiological responses of phytoplankton communities in the Irish Sea to simulated upwelling. Hydrobiologia 517 (2004) 121-132
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The authors use a stoichiometrically based model of phytoplankton physiology to evaluate competitive trade-offs in P-limited and N-limited environments. The model predicts that N:P ratios will vary from 8.2 to 45 depending on the ecological conditions.
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Nature
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Klausmeier, C.A.1
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Klausmeier, C.A.1
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Lomas M.W. Nitrate reductase and urease enzyme activity in the marine diatom Thalassiosira weissflogii (Bacillariophyceae): interactions among nitrogen substrates. Mar Biol 144 (2004) 37-44
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13944267988
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This study provides sequence information for a variety of diatom NR gene fragments. It also identifies a PCR primer set that is capable of detecting and assaying the diversity and expression of diatom NR genes in situ in marine phytoplankton assemblages.
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Allen A.E., Ward B.B., and Song B.K. Characterization of diatom (Bacillariophyceae) nitrate reductase genes and their detection in marine phytoplankton communities. J Phycol 41 (2005) 95-104. This study provides sequence information for a variety of diatom NR gene fragments. It also identifies a PCR primer set that is capable of detecting and assaying the diversity and expression of diatom NR genes in situ in marine phytoplankton assemblages.
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J Phycol
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22144456432
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This comparative genomics study is the first large-scale comparison of diatoms and red and green algae. Several intriguing differences, related to carbon and nitrogen metabolism, between diatoms and other algae and between pennate and centric diatoms are revealed.
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Montsant A., Jabbari K., Maheswari U., and Bowler C. Comparative genomics of the pennate diatom Phaeodactylum tricornutum. Plant Physiol 137 (2005) 500-513. This comparative genomics study is the first large-scale comparison of diatoms and red and green algae. Several intriguing differences, related to carbon and nitrogen metabolism, between diatoms and other algae and between pennate and centric diatoms are revealed.
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