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DNA, Algal (0):
Recent article
DNA, Algal
Abstract
The most conspicuous feature in previous phaeophycean phylogenies is a large polytomy known as the brown algal crown radiation (BACR). The BACR encompasses 10 out of the 17 currently recognized brown algal orders. A recent study has been able to resolve a few nodes of the BACR, suggesting that it ma...
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PMID: 20412862
PDF is available here.
PDF is available here.
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Abstract
We sequenced the 138-mega-base pair genome of V. carteri and compared its approximately 14,500 predicted proteins to those of its unicellular relative Chlamydomonas reinhardtii. Despite fundamental differences in organismal complexity and life history, the two species have similar protein-coding pot...
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PMID: 20616280
PDF is available here.
PDF is available here.
Abstract
Abstract
Despite the significance of diatoms in biomonitoring, many aspects of their biodiversity and geographical distribution are poorly understood. Recent evidence from molecular data has shown that traditional cosmopolitan and euryvalent morphospecies are often heterogeneous, containing cryptic or pseudo...
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PMID: 20097131
PDF is available here.
PDF is available here.
Microbiology (156)Pt 6 2010
Abstract
We previously devised a novel synchronous culture system with controlled photosynthesis, which is triggered by 6 h-light/18 h-dark cycles combined with different levels of CO(2). The cells do not enter S-phase and consequently do not divide after the minimum light period without CO(2) supplementatio...
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PMID: 20223803
PDF is available here.
PDF is available here.
Phytopathology (100)2 2010
Abstract
ABSTRACT A method for nucleic-acid-based detection of pathogens in plant material has been developed which comprises a simple and rapid method for extracting DNA on the nitrocellulose membranes of lateral-flow devices, loop-mediated isothermal amplification (LAMP) of target DNA using labeled primers...
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PMID: 20055648
PDF is available here.
PDF is available here.
Abstract
Species delimitation in lichen-forming fungi has been based largely on morphological differences of fungal structures and the lichen thallus with an assumption that morphology reflects hereditary changes. One of the distinguishing features between Cladonia pyxidata and C. pocillum (Cladoniaceae, Asc...
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PMID: 20524586
PDF is available here.
PDF is available here.
Abstract
We expected that, along the central Chilean coast, D. antarctica would show considerable phylogeographic structure as a consequence of the isolating effects of distance and habitat discontinuities. In contrast, we hypothesised that further south--throughout the region affected by the Patagonian Ice...
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PMID: 20594354
PDF is available here.
PDF is available here.
Abstract
Phylogenetic evidence suggests GSIIB in Chloroplastida evolved by HGT, possibly after the divergence of the primary endosymbiotic lineages. Thus while multiple GS isoenzymes are common among members of the Chloroplastida, the isoenzymes may have evolved via different evolutionary processes. The acqu...
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PMID: 20579371
PDF is available here.
PDF is available here.
Biotechnology Letters (31)9 2009
Abstract
A marine microalga, strain JPCC GA0024 was selected as high amount of neutral lipid producers from marine microalgal culture collection toward biofuel production. The strain was tentatively identified as Scenedesmus rubescens by 18S rDNA analysis. The growth of strain JPCC GA0024 was influenced by a...
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PMID: 19475337
PDF is available here.
PDF is available here.
Plant Journal (57)6 2009
Abstract
We report a solution to this problem. We have designed a genetic screen that facilitates isolation of algal strains that efficiently express introduced transgenes. The levels of accumulation of foreign protein in our expression strains are almost uniformly high in all transgenic clones and are littl...
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PMID: 19036032
PDF is available here.
PDF is available here.
Abstract
Pythium senticosum and P. takayamanum spp. nov. were isolated from cool-temperate forest soil in Japan. P. senticosum can grow at 5 C and is fast growing at 25 C with a radial growth of 22.2 mm 24 h(-1). The species is morphologically characterized by ovoid to ellipsoid sporangia with apical papilla...
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PMID: 19623925
PDF is available here.
PDF is available here.
Abstract
Species of the genus Phytophthora are arguably the most destructive plant pathogens causing widespread damage to many horticultural and ornamental species, and to native ecosystems throughout the world. Globalization has increased the volume of plants being transported over long distances and has in...
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PMID: 19624253
PDF is available here.
PDF is available here.
BMC Genomics (10)1 2009
Abstract
We sequenced 30 and 420 kilobases (kb) of the mitochondrial and plastid genomes of V. carteri, respectively -- resulting in partial assemblies of these genomes. The mitochondrial genome is the most bloated green-algal mtDNA observed to date: ~61% of the sequence is noncoding, most of which is compri...
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PMID: 19323823
PDF is available here.
PDF is available here.
Abstract
Using microsatellite markers, we show the evolution of a new species of brown macroalga (Fucus radicans) in the Baltic Sea in the last 400 years, well after the formation of this brackish water body ~8-10 thousand years ago. Sympatric individuals of F. radicans and F. vesiculosus (bladder wrack) sho...
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PMID: 19335884
PDF is available here.
PDF is available here.
BMC Biotechnology (9)1 2009
Abstract
Stable nuclear transformation of G. pectorale was achieved using a heterologous dominant antibiotic resistance gene, the aminoglycoside 3'-phosphotransferase VIII gene (aphVIII) of Streptomyces rimosus, as a selectable marker. Heterologous 3'- and 5'-untranslated flanking sequences, including promot...
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PMID: 19591675
PDF is available here.
PDF is available here.
Abstract
The chloroplast genomes of two brown algae, Ectocarpus siliculosus and Fucus vesiculosus, have been fully sequenced. These species represent two distinct orders of the Phaeophyceae, which is a major group within the heterokont lineage. The sizes of the circular plastid genomes are 139,954 and 124,98...
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PMID: 19835607
PDF is available here.
PDF is available here.
Abstract
In C. reinhardtii, the mean estimate of pi(silent) for the ptDNA (14.5 x 10(-3)) is less than that of the nuclear DNA (32 x 10(-3)) and greater than that of the mitochondrial DNA (8.5 x 10(-3)). On average, C. reinhardtii has approximately 4 times more silent-site ptDNA diversity than the mean value...
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PMID: 19473533
PDF is available here.
PDF is available here.
BMC Microbiology (9) 2009
Abstract
Two novel constitutively expressed members of the glycosyl hydrolase (GH18) gene family of chitinases were isolated from the A. astaci strain Gb04. The primary amino acid sequence of these chitinase genes, termed CHI2 and CHI3, is composed of an N-terminal signal peptide directing the post-translati...
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PMID: 19719847
PDF is available here.
PDF is available here.
BMC Genomics (10)1 2009
Abstract
Contingency tests of specific predictions of the chromalveolate model find no evidence for an unusual red algal contribution to Phytophthora genomes, nor that putative cyanobacterial sequences that are present entered these genomes through a red algal endosymbiosis. Examination of genes unrelated to...
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PMID: 19843329
PDF is available here.
PDF is available here.
Abstract
We used universal eukaryotic SSU rDNA forward primers. Specificity was confirmed by using a BLAST search and by amplification of cultures of various phytoplankton taxa. Reaction conditions were optimized for each primer set with linearized plasmids from cloned SSU rDNA fragments. The number of SSU r...
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PMID: 18849462
PDF is available here.
PDF is available here.
Plant and Cell Physiology (49)12 2008
Abstract
Synchronized cultures of the green alga Scenedesmus quadricauda were grown in the absence (untreated cultures) or in the presence (FdUrd-treated cultures) of 5-fluorodeoxyuridine, the specific inhibitor of nuclear DNA replication. The attainment of commitment points, at which the cells become commit...
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PMID: 18977763
PDF is available here.
PDF is available here.
Abstract
We present evidence that the open reading frames on the antisense strand of HSP70 genes are spurious, and we identify a more probable candidate for the gene encoding the oomycete NAD-GDH enzyme. These results cast extensive doubt on the Rosetta Stone argument....
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PMID: 19037009
PDF is available here.
PDF is available here.
Abstract
The isolation of high quality DNA is essential for many molecular biology applications including polymerase chain reaction (PCR) and endonuclease restriction digestion based techniques. An easy and inexpensive protocol has been developed for extracting genomic DNA from seven species of algae viz. Lo...
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PMID: 19297990
PDF is available here.
PDF is available here.
Plant and Cell Physiology (49)12 2008
Abstract
The synchronized cultures of the green alga Scenedesmus quadricauda were grown in the absence (untreated cultures) or in the presence (FdUrd-treated cultures) of 5-fluorodeoxyuridine, the specific inhibitor of nuclear DNA replication. The attainment of commitment points, at which the cells become com...
PDF is available here.
PDF is available here.
Plant Biology (10)6 2008
Abstract
We investigated whether the unicellular green alga Micrasterias denticulata is capable of executing programmed cell death (PCD) upon experimental induction, and which morphological, molecular and physiological hallmarks characterise this. This is particularly interesting as unicellular freshwater gr...
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PMID: 18950431
PDF is available here.
PDF is available here.
Abstract
For the first time, on the basis of nuclear, plastid and mitochondrial sequence data, the most comprehensive molecular phylogeny of the Dictyotales to date is presented, in a broad context where all brown algal orders are included (except Discosporangiales, Ascoseirales and Nemodermatales). A veto s...
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PMID: 18652904
PDF is available here.
PDF is available here.
Abstract
A Dunaliella strain was isolated from salt crystals obtained from experimental salt farm of the institute (latitude 21.46 N, longitude 72.11 degrees E). The comparative homology study of amplified molecular signature 18S rRNA, proves the isolated strain as D. salina. The growth pattern and metabolic...
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PMID: 18604577
PDF is available here.
PDF is available here.
Environmental Microbiology (10)10 2008
Abstract
We have inferred the evolutionary relationships among marine and freshwater species in order to better understand the importance of the marine-freshwater boundary on the historical diversification patterns of cryptomonads. We have constructed improved molecular phylogenies by taking into account rat...
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PMID: 18643928
PDF is available here.
PDF is available here.
Abstract
We have designed and evaluated an 18S rRNA gene-targeted oligonucleotide microarray consisting of 21 probes targeting different taxonomic levels of prasinophytes. The microarray contains both previously published probes from other hybridization methods and new probes, which were designed for novel p...
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PMID: 18621863
PDF is available here.
PDF is available here.
Abstract
I ) of the mitochondrial respiratory chain catalyzes the transfer of electrons from NADH to ubiquinone coupled to proton translocation across the membrane. The cDNA sequence of Dunaliella salina mitochondrial NADH: ubiquinone oxidoreductase 19-kD subunit contains a 682-bp ORF encoding a protein with...
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PMID: 17530440
PDF is available here.
PDF is available here.
Medical Mycology (46)6 2008
Abstract
Pythium insidiosum causes pythiosis, a life-threatening disease that occurs in tropical regions and affects man and animals. Although pythiosis in Brazil had been described in various animal species, the first human case was only recently reported. The present study aimed to characterize the morphol...
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PMID: 19180750
PDF is available here.
PDF is available here.
Abstract
Very few studies have analysed the niches of pelagic protist in details. This is because for most protists, both an accurate species definition and methods for routine detection and quantification of cells are lacking. The morphospecies Micromonas pusilla, a marine unicellular green alga, is the mos...
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PMID: 18537812
PDF is available here.
PDF is available here.
Abstract
We have addressed the question of whether the toxic, bloom-forming dinoflagellate Dinophysis norvegica practice kleptoplasty or if they replicate their own plastid DNA. Dividing (G2) and non-dividing (G1) D. norvegica cells from a natural population were physically separated with a flow cytometer ba...
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PMID: 18518896
PDF is available here.
PDF is available here.
Abstract
We determined the bacterial community profile in non-axenic cultures of Chlorella (Chlorophyceae, Chlorophyta) isolated from soil. The bacterial composition at the phylum level was different from that of whole soil bacteria, but it was similar to that reported for non-axenic cultures of marine micro...
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PMID: 18802317
PDF is available here.
PDF is available here.
FEMS Microbiology Letters (285)2 2008
Abstract
A new species of Phytophthora, previously referred to as the 'Dre I' taxon, is named Phytophthora irrigata. Isolates of P. irrigata morphologically and physiologically resemble Phytophthora drechsleri. They are heterothallic, produce nonpapillate sporangia, and grow well at 35 degrees C. The above t...
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PMID: 18547326
PDF is available here.
PDF is available here.
Abstract
Differential protection of plants by Enterobacter cloacae was studied by investigating early sensing and response behavior of Pythium ultimum sporangia toward seeds in the presence or absence of E. cloacae. Ten percent of P. ultimum sporangia were activated within the first 30 min of exposure to cuc...
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PMID: 18515482
PDF is available here.
PDF is available here.
Abstract
The taxonomic criterion of Antithamnion sparsum was reappraised in comparison with A. densum and A. defectum based on crossing experiments, morphological observation, chromosome study and Random Amplified Polymorphic DNA (RAPD) analysis. These species had a very similar morphology but were sexually...
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PMID: 19195395
PDF is available here.
PDF is available here.
Abstract
I examined the effects of temperature, pathogens, and spatial distribution on the survival of R. sphenocephala in the egg stage. Field observations found that temperature had little effect on the number of infected eggs within egg masses, but that egg masses in colder water were more likely to be ag...
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PMID: 18368423
PDF is available here.
PDF is available here.
Abstract
We constructed an 18S rRNA gene phylogeny based on 449 volvocalean sequences collected using exhaustive BLAST searches of the GenBank database. Many chimeric sequences, which can cause fallacious phylogenetic trees, were detected and excluded during data collection. The results revealed 21 strongly...
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PMID: 18430591
PDF is available here.
PDF is available here.
Current Genetics (54)1 2008
Abstract
I basal to these and haplotype III representing the ancestral state....
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PMID: 18488228
PDF is available here.
PDF is available here.
FEMS Microbiology Letters (284)1 2008
Abstract
Achlya spiralis sp. nov. was isolated from water samples collected in the river Tille in the Burgundian region of France. The new oomycete is described, illustrated and compared with related species of the genus Achlya. It is characterized by the presence of smooth-walled oogonia that are usually bo...
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PMID: 18479432
PDF is available here.
PDF is available here.
FEMS Microbiology Letters (284)1 2008
Abstract
Sixteen Pythium isolates from diverse hosts and locations, which showed similarities in their morphology and sequences of the internal transcribed spacer (ITS) region of their rRNA gene, were investigated. As opposed to the generally accepted view, within single isolates ITS sequence variations were...
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PMID: 18479434
PDF is available here.
PDF is available here.
Abstract
Abstract
A new heterokontophyte alga, Aurearena cruciata gen. et sp. nov., was isolated from sandy beaches in Japan. Isolates were characterized by light and electron microscopy, spectroscopy of pigment composition, and molecular phylogenetic analyses using 18S rDNA and rbcL. The alga usually possessed a cel...
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PMID: 18358776
PDF is available here.
PDF is available here.
Molecular Ecology (17)11 2008
Abstract
We hypothesize that the few undifferentiated population groups indicate historical human spread of the pathogen, while the general presence of genetically structured populations indicates that new infestations are currently generated by rare medium or long-range natural movement of the pathogen, fol...
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PMID: 18444982
PDF is available here.
PDF is available here.
Microbial Ecology (55)4 2008
Abstract
We measured changes in chlorophyll a (chl a) to determine whole community growth and mortality caused by grazing. We detected grazing on H akashiwo using QPCR in samples where chl a analyses indicated little or no grazing on the total phytoplankton community. Overall, specific microzooplankton grazi...
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PMID: 17609846
PDF is available here.
PDF is available here.
Abstract
We examined only the sequences of 18S and rbcL genes. Most exhibited identities closer to Galdieria maxima than to other strains, but these identities were commonly as low as 91 to 93%. Some of these Japanese and New Zealand strains probably represent undescribed species that diverged after long-ter...
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PMID: 18344337
PDF is available here.
PDF is available here.
Abstract
A field study was conducted to determine the microbial community structures of streambed sediments across diverse geographic and climatic areas. Sediment samples were collected from three adjacent headwater forest streams within three biomes, eastern deciduous (Pennsylvania), southeastern coniferous...
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PMID: 18378660
PDF is available here.
PDF is available here.
Abstract
We found that a large fraction of the sequences belonged to potential parasites of freshwater phytoplankton, including sequences affiliated with fungi and Perkinsozoa. On average, these sequences represented 30% of the OTUs (40% of the clones) obtained for each of two dates for Lake Bourget. Our res...
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PMID: 18359836
PDF is available here.
PDF is available here.
Abstract
The unicellular green alga Dunaliella salina is a halotolerant eukaryotic organism. Its halophytic properties provide an important advantage for open pond mass cultivation, since D. salina can be grown selectively. D. salina was originally described by E. C. Teodoresco in 1905. Since that time, nume...
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PMID: 18633277
PDF is available here.
PDF is available here.
Abstract
We undertook a feasibility study to determine whether a retrospective approach could be used on archived coccolithophore datasets. We demonstrate for the first time a technique for the extraction of E. huxleyi nucleic acids from archived formalin-fixed samples of the long-term Continuous Plankton Re...
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PMID: 18358549
PDF is available here.
PDF is available here.
Abstract
We introduce a method for quantitative analysis of planktonic protists and microalgae from preserved field samples combining morphological and small-subunit (SSU) rRNA gene sequence analysis. We linked a microscopic screening with PCR of single cells using field samples preserved with Lugol's iodine...
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PMID: 18296536
PDF is available here.
PDF is available here.
Abstract
We analysed 184 strains from marine and estuarine sites worldwide. We identified the strains using light and electron microscopy, and we sequenced the hyper-variable region of nuclear LSU rDNA. All recently described species were genetically distinct, and all but two were morphologically distinct. V...
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PMID: 18042429
PDF is available here.
PDF is available here.
Abstract
We report the characterization of a cell-surface protein isolated from copper-stressed cells of the centric diatom Thalassiosira pseudonana Hasle and Heimdal (CCMP 1335). This protein has an apparent molecular weight of 100kDa and is highly acidic. The 100kDa protein (p100) sequence is comprised alm...
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PMID: 18162437
PDF is available here.
PDF is available here.
Abstract
The morphological development, ultrastructural cytology, and molecular phylogeny of Eurychasma dicksonii, a holocarpic oomycete endoparasite of phaeophyte algae, were investigated in laboratory cultures. Infection of the host algae by E. dicksonii is initiated by an adhesorium-like infection apparat...
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PMID: 18243049
PDF is available here.
PDF is available here.
Mycological Research (112)Pt 3 2008
Abstract
I intron-like multiple insertions were found in the SSU rRNA gene of O. porphyrae. This is the first report of SSU group I introns in the class Oomycetes....
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PMID: 18308530
PDF is available here.
PDF is available here.
Abstract
We obtained psbA sequence data from specimens of the order from New Zealand that had been identified according to current taxonomic criteria. We compared phylogenetic analyses based on psbA with those based on nSSU for the same dataset, and also analysed nSSU sequences of the New Zealand material wi...
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PMID: 18243019
PDF is available here.
PDF is available here.
Abstract
We present a genus-wide phylogeny for 82 Phytophthora species using seven of the most informative loci (approximately 8700 nucleotide sites). Our results support the division of the genus into 10 well-supported clades. The relationships among these clades were rigorously evaluated using a number of...
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PMID: 18039586
PDF is available here.
PDF is available here.
Abstract
We have analyzed the phylogeny of plastid-encoded genes from Lingulodinium as well as that of nuclear-encoded dinoflagellate homologues of plastid-encoded genes conserved in all other plastid genome sequences. Our analyses place the dinoflagellate, stramenopile, haptophyte, and cryptophyte plastids...
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PMID: 18253685
PDF is available here.
PDF is available here.