The diversity of algal phospholipase D homologs revealed by biocomputational analysis.

Abstract:

:Phospholipase D (PLD) participates in the formation of phosphatidic acid, a precursor in glycerolipid biosynthesis and a second messenger. PLDs are part of a superfamily of proteins that hydrolyze phosphodiesters and share a catalytic motif, HxKxxxxD, and hence a mechanism of action. Although HKD-PLDs have been thoroughly characterized in plants, animals and bacteria, very little is known about these enzymes in algae. To fill this gap in knowledge, we performed a biocomputational analysis by means of HMMER iterative profiling, using most eukaryotic algae genomes available. Phylogenetic analysis revealed that algae exhibit very few eukaryotic-type PLDs but possess, instead, many bacteria-like PLDs. Among algae eukaryotic-type PLDs, we identified C2-PLDs and PXPH-like PLDs. In addition, the dinoflagellate Alexandrium tamarense features several proteins phylogenetically related to oomycete PLDs. Our phylogenetic analysis also showed that algae bacteria-like PLDs (proteins with putative PLD activity) fall into five clades, three of which are novel lineages in eukaryotes, composed almost entirely of algae. Specifically, Clade II is almost exclusive to diatoms, whereas Clade I and IV are mainly represented by proteins from prasinophytes. The other two clades are composed of mitochondrial PLDs (Clade V or Mito-PLDs), previously found in mammals, and a subfamily of potentially secreted proteins (Clade III or SP-PLDs), which includes a homolog formerly characterized in rice. In addition, our phylogenetic analysis shows that algae have non-PLD members within the bacteria-like HKD superfamily with putative cardiolipin synthase and phosphatidylserine/phosphatidylglycerophosphate synthase activities. Altogether, our results show that eukaryotic algae possess a moderate number of PLDs that belong to very diverse phylogenetic groups.

journal_name

J Phycol

journal_title

Journal of phycology

authors

Beligni MV,Bagnato C,Prados MB,Bondino H,Laxalt AM,Munnik T,Ten Have A

doi

10.1111/jpy.12334

subject

Has Abstract

pub_date

2015-10-01 00:00:00

pages

943-62

issue

5

eissn

0022-3646

issn

1529-8817

journal_volume

51

pub_type

杂志文章
  • A combined morphological, ultrastructural, molecular, and biochemical study of the peculiar family Gomontiellaceae (Oscillatoriales) reveals a new cylindrospermopsin-producing clade of cyanobacteria.

    abstract::Members of the morphologically unusual cyanobacterial family Gomontiellaceae were studied using a polyphasic approach. Cultured strains of Hormoscilla pringsheimii, Starria zimbabweënsis, Crinalium magnum, and Crinalium epipsammum were thoroughly examined, and the type specimen of the family, Gomontiella subtubulosa, ...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/jpy.12354

    authors: Bohunická M,Mareš J,Hrouzek P,Urajová P,Lukeš M,Šmarda J,Komárek J,Gaysina LA,Strunecký O

    更新日期:2015-12-01 00:00:00

  • SPECIFICITY AND FUNCTION OF GLYCERALDEHYDE-3-PHOSPHATE DEHYDROGENASE IN A FRESHWATER DIATOM, ASTERIONELLA FORMOSA (BACILLARIOPHYCEAE)(1).

    abstract::The plastidic glyceraldehyde-3-phosphate dehydrogenase (GAPDH) catalyzes the only reductive step in the Calvin cycle and exists as different forms of which GapC1 enzyme is present in chromalveolates, such as diatoms. Biochemical studies on diatoms are still fragmentary, and, thus, in this report, GAPDH from the freshw...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/j.1529-8817.2008.00600.x

    authors: Erales J,Gontero B,Maberly SC

    更新日期:2008-12-01 00:00:00

  • Morphology and phylogeny of a new wall-less freshwater volvocalean flagellate, Hapalochloris nozakii gen. et sp. nov. (Volvocales, Chlorophyceae).

    abstract::New strains of a wall-less unicellular volvocalean flagellate were isolated from a freshwater environment in Japan. Observations of the alga, described here as Hapalochloris nozakii Nakada, gen. et sp. nov., were made using light, fluorescence, and electron microscopy. Each vegetative cell had two flagella, four contr...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/jpy.12484

    authors: Nakada T,Tomita M

    更新日期:2017-02-01 00:00:00

  • HIGH-THROUGHPUT SCREENING TECHNOLOGY FOR MONITORING PHYTOHORMONE PRODUCTION IN MICROALGAE(1).

    abstract::New miniaturized techniques for multiplying microalgae and estimating their phytohormone production were developed; in these methods, the strains to be tested are cultivated in microtitre plates, and the phytohormones in suspensions of the cultures are measured by direct ELISAs. Specific and sensitive ELISAs for deter...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/j.1529-8817.2008.00615.x

    authors: Jirásková D,Poulíčková A,Novák O,Sedláková K,Hradecká V,Strnad M

    更新日期:2009-02-01 00:00:00

  • Transcriptomic Insights into the Life History of Bolidophytes, the Sister Lineage to Diatoms.

    abstract::Diatoms are perhaps the most diverse lineage of eukaryotic algae, with their siliceous cell wall and diplontic life history often considered to have played important roles in their extraordinary diversification. The characteristic diminution of the diatom cell wall over the course of vegetative growth provides a relia...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/jpy.12222

    authors: Kessenich CR,Ruck EC,Schurko AM,Wickett NJ,Alverson AJ

    更新日期:2014-12-01 00:00:00

  • ATP and related purines stimulate motility, spatial congregation, and coalescence in red algal spores.

    abstract::Adenosine 5'-triphosphate (ATP) is a versatile extracellular signal along the tree of life, whereas cAMP plays a major role in vertebrates as an intracellular messenger for hormones, transmitters, tastants, and odorants. Since red algal spore coalescence may be considered analogous to the congregation process of socia...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/jpy.12278

    authors: Huidobro-Toro JP,Donoso V,Flores V,Santelices B

    更新日期:2015-04-01 00:00:00

  • EVIDENCE FOR IMPACTS OF NONINDIGENOUS MACROALGAE: A META-ANALYSIS OF EXPERIMENTAL FIELD STUDIES(1).

    abstract::Invasions by nonindigenous macroalgal species (NIMS) potentially cause severe impacts on native species. We conducted a meta-analysis of 18 field-based manipulative experiments to quantify the direction and magnitude of impacts (Hedges effect size d, hereafter ES). We found significant small-to-medium negative effects...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/j.1529-8817.2009.00709.x

    authors: Thomsen MS,Wernberg T,Tuya F,Silliman BR

    更新日期:2009-08-01 00:00:00

  • Improvement of phytoplankton culture isolation using single cell sorting by flow cytometry.

    abstract::Flow cytometry provides a tool to physically sort single algal cells in order to obtain clonal cultures. During sorting, cells are submitted to physical stress factors such as high fluidic pressure, exposure to the laser beam, electrostatic charges, deflection through high voltage fields, and collisions with container...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/jpy.12495

    authors: Marie D,Le Gall F,Edern R,Gourvil P,Vaulot D

    更新日期:2017-04-01 00:00:00

  • Sex-specific Positioning of the Mating Structure in Scale-bearing Gametes of Monostroma angicava and Collinsiella cava (Ulvophyceae, Chlorophyta): A Possible Widespread Difference between Male and Female Gametes.

    abstract::The gametes of chlorophytes can be divided into two morphological types (types α and β) based on the position of the mating structure relative to the flagella and eyespot. To elucidate the relationship between the morphological types and the sexes, we studied spatial relationships between the flagellar apparatus-eyesp...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/jpy.13096

    authors: Miyamura S,Nakayama T,Mitsuhashi F,Nagumo T,Sato T,Motomura T,Hori T

    更新日期:2020-11-04 00:00:00

  • Paludicola gen. nov. and Revision of the Species Formerly in Batrachospermum Section Turfosa (Batrachospermales, Rhodophyta).

    abstract::Since the first phylogenetic study of the order Batrachospermales, Batrachospermum was shown to be paraphyletic. Subsequently, sections of the genus have been methodically investigated using DNA sequences and morphology in order to propose new genera and delineate species. Batrachospermum section Turfosa is the last s...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/jpy.13001

    authors: Vis ML,Lee J,Eloranta P,Chapuis IS,Lam DW,Necchi O Jr

    更新日期:2020-08-01 00:00:00

  • Diel variation of the cellular carbon to nitrogen ratio of Chlorella autotrophica (Chlorophyta) growing in phosphorus- and nitrogen-limited continuous cultures.

    abstract::We investigated the relationship between daily growth rates and diel variation of carbon (C) metabolism and C to nitrogen (N) ratio under P- and N-limitation in the green algae Chlorella autotrophica. To do this, continuous cultures of C. autotrophica were maintained in a cyclostat culture system under 14:10 light:dar...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/jpy.12254

    authors: Ng WH,Liu H

    更新日期:2015-02-01 00:00:00

  • A COMPARISON OF DRAGON KELP, EUALARIA FISTULOSA, (PHAEOPHYCEAE) FECUNDITY IN URCHIN BARRENS AND NEARBY KELP BEDS THROUGHOUT THE ALEUTIAN ARCHIPELAGO(1).

    abstract::The Aleutian Archipelago coastal ecosystem has undergone a dramatic change in community composition during the past two decades. Following the removal of ∼99% of the sea otters, Enhydra lutris, from the ecosystem, changes to the benthic communities resulted in widespread losses to most of the region's kelp beds and co...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/j.1529-8817.2012.01139.x

    authors: Edwards MS,Konar B

    更新日期:2012-08-01 00:00:00

  • Phylogenetic positioning of the Antarctic alga Prasiola crispa (Trebouxiophyceae) using organellar genomes and their structural analysis.

    abstract::Antarctica is one of the most difficult habitats for sustaining life on earth; organisms that live there have developed different strategies for survival. Among these organisms is the green alga Prasiola crispa, belonging to the class Trebouxiophyceae. The literature on P. crispa taxonomy is scarce, and many gaps in t...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/jpy.12541

    authors: Carvalho EL,Wallau GL,Rangel DL,Machado LC,Pereira AB,Victoria FC,Boldo JT,Pinto PM

    更新日期:2017-08-01 00:00:00

  • MECHANISM OF TOXICITY AND RESISTANCE TO D-MANNOSE AND CERTAIN DERIVATIVES IN SPECIES OF THE GENUS CHLORELLA BEIJ.(1) (2).

    abstract::d-Mannose and related derivatives, e.g., d-glucosa-mine and 2-deoxy-

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/j.1529-8817.1968.tb04688.x

    authors: Gross RE

    更新日期:1968-06-01 00:00:00

  • BACTERIA-INDUCED MOTILITY REDUCTION IN LINGULODINIUM POLYEDRUM (DINOPHYCEAE)(1).

    abstract::Biotic factors that affect phytoplankton physiology and behavior are not well characterized but probably play a crucial role in regulating their population dynamics in nature. We document evidence that some marine bacteria can decrease the swimming speed of motile phytoplankton through the release of putative protease...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/j.1529-8817.2008.00549.x

    authors: Mayali X,Franks PJ,Tanaka Y,Azam F

    更新日期:2008-08-01 00:00:00

  • A PHYLOGENETIC APPROACH TO THE ESTIMATION OF PHYTOPLANKTON TRAITS(1).

    abstract::The quantitative characterization of the ecology of individual phytoplankton taxa is essential for model resolution of many aspects of aquatic ecosystems. Existing literature cannot directly parameterize all phytoplankton taxa of interest, as many traits and taxa have not been sampled. However, valuable clues on the v...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/j.1529-8817.2010.00946.x

    authors: Bruggeman J

    更新日期:2011-02-01 00:00:00

  • TAXONOMIC REVISIONS OF MORPHOLOGICALLY SIMILAR SPECIES FROM TWO EUGLENOID GENERA: EUGLENA (E. GRANULATA AND E. VELATA) AND EUGLENARIA (EU. ANABAENA, EU. CAUDATA, AND EU. CLAVATA)(1).

    abstract::The establishment of epitypes (together with the emended diagnoses) for three species of Euglenaria Karnkowska, E. W. Linton et Kwiatowski [Eu. anabaena (Mainx) Karnkowska et E. W. Linton; Eu. caudata (Hübner) Karnkowska et E. W. Linton; and Eu. clavata (Skuja) Karnkowska et E. W. Linton] and two species of Euglena Eh...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/j.1529-8817.2012.01140.x

    authors: Karnkowska-Ishikawa A,Milanowski R,Triemer RE,Zakryś B

    更新日期:2012-06-01 00:00:00

  • Exopolymer production as a function of cell permeability and death in a diatom (Thalassiosira weissflogii) and a cyanobacterium (Synechococcus elongatus).

    abstract::Exopolymer particles are found throughout the ocean and play a significant biogeochemical role in carbon cycling. Transparent exopolymer particles (TEP) are composed of acid polysaccharides, and Coomassie staining particles (CSP) are proteins. TEPs have been extensively studied in the ocean, while CSP have been largel...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/jpy.12470

    authors: Thornton DCO,Chen J

    更新日期:2017-04-01 00:00:00

  • CHLOROPLAST PIGMENTS OF CHLOROMONADOPHYCEAE.

    abstract::The chloroplast pigments of 2 species of Chloro-monadophyceae have been examined. Both Gonyo-stomum semen and Vacuolaria virescens possessed only one chlorophyll, chlorophyll a. Gonyostomum contained 4 carotenoids, but not fucoxanthin and peridinin. Vacuolaria also possessed 4 carotenoids which have been identified as...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/j.1529-8817.1966.tb04599.x

    authors: Chapman DJ,Haxo FT

    更新日期:1966-06-01 00:00:00

  • Prospects and challenges for industrial production of seaweed bioactives.

    abstract::Large-scale seaweed cultivation has been instrumental in globalizing the seaweed industry since the 1950s. The domestication of seaweed cultivars (begun in the 1940s) ended the reliance on natural cycles of raw material availability for some species, with efforts driven by consumer demands that far exceeded the availa...

    journal_title:Journal of phycology

    pub_type: 杂志文章,评审

    doi:10.1111/jpy.12326

    authors: Hafting JT,Craigie JS,Stengel DB,Loureiro RR,Buschmann AH,Yarish C,Edwards MD,Critchley AT

    更新日期:2015-10-01 00:00:00

  • Functional group richness: implications of biodiversity for light use and lipid yield in microalgae.

    abstract::Currently, very few studies address the relationship between diversity and biomass/lipid production in primary producer communities for biofuel production. Basic studies on the growth of microalgal communities, however, provide evidence of a positive relationship between diversity and biomass production. Recent studie...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/jpy.12092

    authors: Stockenreiter M,Haupt F,Graber AK,Seppälä J,Spilling K,Tamminen T,Stibor H

    更新日期:2013-10-01 00:00:00

  • Cyclophilin Participates in Responding to Stress Situations in Porphyra haitanensis (Bangiales, Rhodophyta).

    abstract::Porphyra haitanensis (T. J. Chang & B. F. Zheng) is an important economic alga found off the southern coast of China. It has evolved a strong tolerance against stress, which is an important survival characteristic. Cyclophilin has been shown to be involved in the stress response of plants and algae. To investigate the...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/j.1529-8817.2012.01234.x

    authors: Jia Z,Niu J,Huan L,Wu X,Wang G,Hou Z

    更新日期:2013-02-01 00:00:00

  • Phylogeny of Gracilariaceae (Rhodophyta): evidence from plastid and mitochondrial nucleotide sequences.

    abstract::Gracilariaceae are mostly pantropical red algae and include ~230 species in seven genera. Infrafamilial classification of the group has long been based on reproductive characters, but previous phylogenies have shown that traditionally circumscribed groups are not monophyletic. We performed phylogenetic analyses using ...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/jpy.12281

    authors: Lyra Gde M,Costa Eda S,de Jesus PB,de Matos JC,Caires TA,Oliveira MC,Oliveira EC,Xi Z,Nunes JM,Davis CC

    更新日期:2015-04-01 00:00:00

  • The variable routes of rafting: stranding dynamics of floating bull kelp Durvillaea antarctica (Fucales, Phaeophyceae) on beaches in the SE Pacific.

    abstract::Dispersal on floating seaweeds depends on availability, viability, and trajectories of the rafts. In the southern hemisphere, the bull kelp Durvillaea antarctica is one of the most common floating seaweeds, but phylogeographic studies had shown low connectivity between populations from continental Chile, which could b...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/jpy.12479

    authors: López BA,Macaya EC,Tala F,Tellier F,Thiel M

    更新日期:2017-02-01 00:00:00

  • INTER- AND INTRASPECIFIC RELATIONSHIPS BETWEEN NUCLEAR DNA CONTENT AND CELL SIZE IN SELECTED MEMBERS OF THE CENTRIC DIATOM GENUS THALASSIOSIRA (BACILLARIOPHYCEAE)(1).

    abstract::The enormous species diversity of diatoms correlates with the remarkable range of cell sizes in this group. Nuclear DNA content relates fundamentally to cell volume in other eukaryotic cells. The relationship of cell volume to G1 DNA content was determined among selected members of the genus Thalassiosira, one of the ...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/j.1529-8817.2008.00476.x

    authors: Von Dassow P,Petersen TW,Chepurnov VA,Virginia Armbrust E

    更新日期:2008-04-01 00:00:00

  • Monitoring cell-specific neutral lipid accumulation in Phaeodactylum tricornutum (Bacillariophyceae) with Nile Red staining - a new method for FlowCAM.

    abstract::With the fluorescent stain Nile Red (NR), phytoplankton lipid accumulation can be monitored quickly and in situ. In the light of recent results in phytoplankton diversity research, there is also a need for cell- and species-specific lipid measurement techniques. The objective of this work was to investigate whether ce...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/jpy.12504

    authors: Natunen K,Seppälä J,Koivula RJ,Pellinen J

    更新日期:2017-04-01 00:00:00

  • Diatom type material in permanent slides does not need to be permanently unavailable for electron microscopy examination.

    abstract::The inability to thoroughly examine diatom type material existing only in resin-mounted permanent slides is a common frustration for diatomologists. Here, we present an efficient, inexpensive, and straightforward technique to extract siliceous exoskeletons of diatoms from permanent slides prepared with commonly used m...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/jpy.13122

    authors: Majewska R,Taylor JC,Goosen WE

    更新日期:2020-12-19 00:00:00

  • Inorganic carbon concentrating mechanisms in free-living and symbiotic dinoflagellates and chromerids.

    abstract::Photosynthetic dinoflagellates are ecologically and biogeochemically important in marine and freshwater environments. However, surprisingly little is known of how this group acquires inorganic carbon or how these diverse processes evolved. Consequently, how CO2 availability ultimately influences the success of dinofla...

    journal_title:Journal of phycology

    pub_type: 杂志文章,评审

    doi:10.1111/jpy.13050

    authors: Raven JA,Suggett DJ,Giordano M

    更新日期:2020-07-11 00:00:00

  • INORGANIC CARBON ACQUISITION BY CHRYSOPHYTES(1).

    abstract::Twelve species, representing 12 families of the chrysophytes sensu lato, were tested for their ability to take up inorganic carbon. Using the pH-drift technique, CO2 compensation points generally varied between 1 and 20 μmol · L(-1) with a mean concentration of 5 μmol · L(-1) . Neither pH nor alkalinity affected the C...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/j.1529-8817.2009.00734.x

    authors: Maberly SC,Ball LA,Raven JA,Sültemeyer D

    更新日期:2009-10-01 00:00:00

  • A survey of Polytomella (Chlorophyceae, Chlorophyta) strains in public culture collections.

    abstract::Polytomella is a genus of colorless green algae in the Reinhardtinia clade of the Chlamydomonadales, which has proven useful for a broad range of studies particularly those exploring the evolutionary loss of photosynthesis and mitochondrial genomics/biochemistry. Although 13 Polytomella strain accessions are currently...

    journal_title:Journal of phycology

    pub_type: 杂志文章

    doi:10.1111/jpy.12430

    authors: MacDonald SM,Lee RW

    更新日期:2016-08-01 00:00:00