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Genes, rRNA (0):
Recent article
Genes, rRNA
Abstract
We report cultures of this group and describe the class, Archaeorhizomycetes, phylogenetically placed within subphylum Taphrinomycotina in the Ascomycota. Archaeorhizomycetes comprises hundreds of cryptically reproducing filamentous species that do not form recognizable mycorrhizal structures and ha...
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PMID: 21836015
PDF is available here.
PDF is available here.
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Abstract
We describe a chronic case of rhinofacial mucormycosis caused by Mucor irregularis, formerly known as Rhizomucor variabilis var. variabilis, a rare mycotic agent in humans. The infection caused progressive destruction of the nasal septum and soft and hard palate, leading to collapse of the nose brid...
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PMID: 21508154
PDF is available here.
PDF is available here.
Abstract
We provide the first molecular characterization of a piroplasm detected in a symptomatic sow, phylogenetically closely related to the Ungulibabesids. Results pave the way for future molecular epidemiology studies....
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PMID: 21490184
PDF is available here.
PDF is available here.
ISME Journal (5)2 2011
Abstract
We produced metagenomic data by direct 454 pyrosequencing from bathypelagic plankton (1000 m depth) and bottom sediment of the Sea of Marmara, the gateway between the Eastern Mediterranean and the Black Seas. Data from small subunit ribosomal RNA (SSU rRNA) gene libraries and direct pyrosequencin...
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PMID: 20668488
PDF is available here.
PDF is available here.
Abstract
We describe the Public Goods Hypothesis and show that it is appropriate in order to describe biological evolution on the planet. According to this hypothesis, nucleotide sequences (genes, promoters, exons, etc.) are simply seen as goods, passed from organism to organism through both vertical and hor...
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PMID: 21861918
PDF is available here.
PDF is available here.
Abstract
Although the bitch and the male had visited neighboring Galicia (northwestern Spain), where the disease is endemic, incursion of this piroplasm into northern Portugal is evident and infection of the non-traveled pup was due to either vertical transmission or autochthonous tick infection....
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PMID: 21489238
PDF is available here.
PDF is available here.
Abstract
We obtained sequence data for three protein-coding genes (rpb2, atp6, tef1) and three rRNA regions (nuc-ssu, nuc-lsu, 5.8S) in 19 species of Gloeophyllales representing seven genera and analyzed them together with a diverse set of Agaricomycotina, emphasizing Polyporales. Boreostereum, which is susp...
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PMID: 21186327
PDF is available here.
PDF is available here.
Abstract
A haloalkaliphilic archaeon, strain JX313(T), was isolated from a saline-alkaline soil from Daqing, Heilongjiang Province, China. Its morphological, physiological and biochemical features and 16S rRNA gene sequence were determined. Colonies of the strain were orange-red and cells were non-motile coc...
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PMID: 19915113
PDF is available here.
PDF is available here.
Abstract
A halophilic archaeon, strain RO1-6(T), was isolated from a marine solar saltern in eastern China. Cells of strain RO1-6(T) were pleomorphic and motile and stained Gram-negative. Strain RO1-6(T) grew well on complex medium and colonies were red-pigmented. It was able to grow at 20-50°C (optimum 37...
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PMID: 19946053
PDF is available here.
PDF is available here.
Epidemiology and Infection (138)10 2010
Abstract
We identified 819 cases, of whom 389 returned surveillance questionnaires. A subset of 267 faecal samples was submitted for typing by sequencing of the triose phosphate isomerase (tpi) and ribosomal RNA genes, and/or a separate duplex PCR of the tpi gene. Typing was successful in 199 (75%) samples b...
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PMID: 20144251
PDF is available here.
PDF is available here.
Abstract
To obtain a thiamine-auxotrophic yeast strain that overproduces alpha-ketoglutaric acid (alpha-KG) from glycerol and to investigate nutrient effects on alpha-KG production.
Yeast strain WSH-Z06, a thiamine auxotroph that gave high yields of alpha-KG from glycerol, was obtained by screening for ampic...
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PMID: 20636327
PDF is available here.
PDF is available here.
Mycopathologia (170)3 2010
Abstract
In a survey of mycotic human skin and nail lesions in Chiriquí, Western Panama, Talaromyces indigoticus was isolated in one case. This ascomycete is characterised by formation of gymnothecia containing oval, spinose and yellow ascospores, which become blue in mounting fluids, and by short monoverti...
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PMID: 20349275
PDF is available here.
PDF is available here.
Genetika (Moskva) (46)9 2010
Abstract
We present our data on the copy number of rRNA genes in individual human genomes and on their heterogeneity in the functional respect. Fractions of active and potentially active RGs as well as fractions of inactive and silent RGs intensively methylated in the transcribed region are characterized. Th...
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PMID: 21061619
PDF is available here.
PDF is available here.
Abstract
Phylogenetic relationships of 6 species in the trematode subfamily Haplorchiinae were analyzed using small and large subunit of ribosomal DNA genes (18S rDNA and 28S rDNA) and internal transcribed spacer subunit II (ITS2) region as molecular markers. Maximum Likelihood and Bayesian inference analyse...
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PMID: 20601104
PDF is available here.
PDF is available here.
Abstract
I (RPB1) and nuclear ribosomal large subunit (LSU) rDNA gene sequences. Based on the result of this initial screen, 62 collections representing the full range of genetic diversity sampled were subjected to multigene phylogenetic species recognition based on genealogical concordance (GCPSR). The 62-t...
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PMID: 20580850
PDF is available here.
PDF is available here.
Parasitology Research (107)3 2010
Abstract
Spores of the myxozoan parasite Myxobolus turpisrotundus Zhang 2009 were observed for the first time bearing caudal appendages. Most spores had the typical Myxobolus spp. morphology, but approximately 10% of spores possessed a spore body that was slightly elongated with a short tail projecting from...
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PMID: 20512504
PDF is available here.
PDF is available here.
Zhonghua Yixue Zazhi (90)28 2010
Abstract
To investigate the role of bacteria in the etiology of chronic prostatitis.
Complete prostate specimens were obtained at autopsy from 192 organ donors (aged 20 - 38 years old) during 2002 to 2008 who died of non-prostatic diseases. One tissue taken from the peripheral prostatic zone according to McN...
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PMID: 20979861
PDF is available here.
PDF is available here.
EMBO Journal (29)13 2010
Abstract
We showed that TIP5 not only mediates the establishment of rDNA silencing but also the formation of perinucleolar heterochromatin that contains centric and pericentric repeats. Our data indicated that the TIP5-mediated heterochromatin is indispensable for stability of silent rRNA genes and of major...
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PMID: 20168299
PDF is available here.
PDF is available here.
Parasitology Research (107)2 2010
Abstract
Due to the scarcity of information related to the epidemiology of Cryptosporidium infection in passerine birds, this study aimed to determine the periodicity of fecal shedding of Cryptosporidium spp. oocysts, after natural infection, and its clinical signs, mortality, and molecular characterization....
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PMID: 20407911
PDF is available here.
PDF is available here.
Parasitology Research (107)2 2010
Abstract
We conducted cross-sectional studies in the New York City Watershed to ensure a valid estimate of the risk associated with Cryptosporidium infection in dairy herds. Our aims were to obtain species-specific estimates of the prevalence of Cryptosporidium in dairy cattle and to investigate seasonal var...
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PMID: 20397026
PDF is available here.
PDF is available here.
FEMS Microbiology Letters (308)1 2010
Abstract
We present the 91,500 bp mitochondrial genome of the wood-degrading basidiomycete Trametes cingulata and compare it with the mitochondrial genomes of five additional Basidiomycota species. The Trametes mitochondrial genome encodes 15 proteins, 25 tRNAs and the small and large rRNAs. All of the genes...
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PMID: 20455947
PDF is available here.
PDF is available here.
Current Microbiology (61)1 2010
Abstract
We observed that there were no significant differences between diabetic and healthy group, although a few diabetic individuals (D6, D8) exhibited a remarkable decrease in species profiles. As for the similarity index, it was lower in inter-group than that in intra-group, which showed that the compos...
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PMID: 20087741
PDF is available here.
PDF is available here.
Critical taxonomic revision of Parabasalids with description of one new genus and three new species.
Abstract
We propose a new classification of Parabasalia which is congruent with both ultrastructural and molecular-phylogenetic studies. We identify six main parabasalid lineages and give them the rank of class: Hypotrichomonadea, Trichomonadea, Tritrichomonadea, Cristamonadea, Trichonymphea, and Spirotricho...
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PMID: 20093080
PDF is available here.
PDF is available here.
Pelagodinium gen. nov. and P. béii comb. nov., a dinoflagellate symbiont of planktonic foraminifera.
Abstract
The taxonomic status of the free-living stage of the dinoflagellate Gymnodinium béii, symbiont of the foraminifer Orbulina universa, was reassessed on the basis of detailed morpho-genetic analyses. Electron microscopy observations revealed previously undescribed morphological features of the cell t...
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PMID: 20149979
PDF is available here.
PDF is available here.
An evaluation of the use of the LSU rRNA D1-D5 domain for DNA-based taxonomy of eukaryotic protists.
Abstract
We studied the application of the large subunit (LSU) rRNA gene fragments (D1-D5) regarding their usefulness to discriminate between a wide range of heterotrophic nanoflagellates. Phylogenetic analyses based on the LSU rRNA fragments showed similar results compared to phylogenetic trees based on the...
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PMID: 20153693
PDF is available here.
PDF is available here.
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.
Abstract
We have determined SSU rRNA gene sequences for Kofoidiniaceae, those of the type Spatulodinium (=Gymnodinium) pseudonoctiluca and another Spatulodinium species, as well as of two species of Kofoidinium, and the first gene sequence of Leptodiscaceae, that of Abedinium (=Leptophyllus) dasypus. These t...
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PMID: 20188628
PDF is available here.
PDF is available here.
Acta Tropica (115)3 2010
Abstract
We show that the lumen of Aedes aegypti midgut is highly colonized by bacteria that were identified by culture-dependent and culture-independent methods. rDNA sequences obtained were compared with those from GenBank and the main bacterial genera identified were: Serratia, Klebsiella, Asaia, Bacillus...
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PMID: 20434424
PDF is available here.
PDF is available here.
Acta Tropica (115)3 2010
Abstract
In the study, 52 spring water samples were collected from three hot spring recreation areas in northern Taiwan and Acanthamoebae were isolated from 11 samples (21.2%) on two hot spring recreation areas and mainly present in the hot spring water, hot tubs and wastewater. The most frequently identifie...
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PMID: 20434423
PDF is available here.
PDF is available here.
Antonie Van Leeuwenhoek (98)1 2010
Abstract
We describe it as Ogataea cecidiorum and designate type culture KBP Y-3846 (= CBS 11522(T) = VKM Y-2982(T) = VKPM Y-3482(T) = MUCL 52544(T) = NCAIM Y.01965(T)) as the type strain. The new species was registered in MycoBank under MB 515233....
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PMID: 20373142
PDF is available here.
PDF is available here.
Abstract
Apart from a single record in a shark, there have been no published studies conducted on Giardia genotypes in fish. The present study investigated the prevalence of Giardia in cultured fingerlings (n=227), wild freshwater (n=227) and wild marine/estuarine species (n=255) of fish in Western Australia...
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PMID: 20026124
PDF is available here.
PDF is available here.
Abstract
We suggest that organisms clustering with the sheep and cattle isolates analysed in the present study be named E. bovis.
(c) 2010 Australian Society for Parasitology Inc. All rights reserved....
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PMID: 20359482
PDF is available here.
PDF is available here.
Abstract
We provide the first report of infections in treeshrews, describe the morphology of encysted parasites using light and transmission electron microscopy, and place this agent within a phylogenetic context by sequencing and comparing its 18S ribosomal DNA to that of related parasites. Muscle infection...
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PMID: 20026242
PDF is available here.
PDF is available here.
Abstract
As part of investigations into the cause of a waterborne outbreak of Cryptosporidium hominis infection linked to a mains water supply, surface waters and wastewater treatment plants were tested for Cryptosporidium spp. Oocyst counts in base flow surface water samples ranged from nil to 29 per 10 l....
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PMID: 20154394
PDF is available here.
PDF is available here.
Abstract
Noctiluca scintillans (Macartney) Kofoid et Swezy, 1921 is an unarmoured heterotrophic dinoflagellate with a global distribution, and has been considered as one of the ancestral taxa among dinoflagellates. Recently, 18S rDNA, actin, alpha-, beta-tubulin, and Hsp90-based phylogenies have shown the ba...
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PMID: 20347580
PDF is available here.
PDF is available here.
Abstract
A strain of naked amoeba isolated from pikeperch (Sander lucioperca (L.)) kidney tissue has been characterized using light- and transmission electron microscopy. Sequencing of SSU rDNA and phylogenetic analysis based on a broad dataset of sequences completed our study. All data obtained suggest that...
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PMID: 20347581
PDF is available here.
PDF is available here.
Abstract
The living morphology, infraciliature and silverline system of two small marine Euplotes species, E. orientalis spec. nov. and E. raikoviAgamaliev, 1966, isolated from a sandy beach near Qingdao, China, were investigated. Euplotes orientalis is characterized by a combination of features including th...
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PMID: 20172700
PDF is available here.
PDF is available here.
Abstract
We report the first two proven cases of cavitary pulmonary zygomycosis caused by Rhizopus homothallicus. The diagnosis in each case was based on histology, culture of the causal agent, and the nucleotide sequence of the D1/D2 region of the 28S ribosomal DNA.
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PMID: 20200286
PDF is available here.
PDF is available here.
Biotechnology Letters (32)5 2010
Abstract
A new 10-hydroxycamptothecin (HCPT)-producing fungus was isolated from Camptotheca acuminata. The strain was classified as a Xylaria sp. based on the internal transcribed spacer and 18S rDNA gene analysis. All elicitors tested, except methyl jasmonate, increased HCPT production in submerged culture....
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PMID: 20112128
PDF is available here.
PDF is available here.
Abstract
We selected bacteria that potentially could be passed through 0.22- or 0.45-microm-pore-size filters and then PCR amplified the 16S rDNA genes using the universal primer pairs 27F/1492R and 63F/1387R. The PCR-amplified rDNAs extracted from bacteria that had been passed through 0.45-microm-pore-size...
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PMID: 20513960
PDF is available here.
PDF is available here.
Abstract
We describe this as a new species, Thiorhodococcus modestalkaliphilus sp. nov....
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PMID: 20513956
PDF is available here.
PDF is available here.
Abstract
Strain LXD30(T) was isolated from rhizosphere soil of a plant of the species Camptotheca acuminata Decne which is native to warm, humid stream banks in southern China. Analysis of the 16S rRNA gene sequence revealed that the Gram-negative, rod-shaped bacterium fell within the realm of the genus Rhiz...
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PMID: 20513962
PDF is available here.
PDF is available here.
Abstract
A novel Gram-stain-positive bacterium, designated R19-04(T), was isolated from a soil sample from Rishiri Island, Japan, and its taxonomic position was investigated by a polyphasic approach. Cells of strain R19-04( T) exhibited a rod-coccus cycle. The peptidoglycan type of the isolat...
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PMID: 19656927
PDF is available here.
PDF is available here.
Abstract
A Gram-stain-positive, rod-shaped, non-endospore-forming, orange-pigmented (coloured) actinobacterium (01-Je-003(T)) was isolated from the wall of an indoor environment primarily colonized with moulds. On the basis of 16S rRNA gene sequence similarity studies, strain 01-Je-003(T) was...
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PMID: 19661519
PDF is available here.
PDF is available here.
Abstract
A Gram-stain-positive, coccoid, non-endospore-forming actinobacterium (strain CC-12602(T)) was isolated from a spawn used for growing the edible mushroom Agaricus brasiliensis in the laboratory. On the basis of 16S rRNA gene sequence analysis, strain CC-12602(T) was shown to belong t...
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PMID: 19661522
PDF is available here.
PDF is available here.
FEMS Yeast Research (10)2 2010
Abstract
Two asexual arthroconidial yeast strains, TM3-44(T) and LYSM5(T), were isolated, respectively, from estuarine water in a mangrove forest and soil in a terrestrial forest in Thailand. Analysis of the D1/D2 domains of the large-subunit rRNA gene sequences revealed that strain TM3-44(T)...
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PMID: 19788556
PDF is available here.
PDF is available here.
Abstract
We have established a long term program aiming at pinpointing the sources of surface water, drinking water, and environmental contamination, working with the water-supply industry. Total 43 sources of drinking water samples were selected, and a total of 167 samples were analyzed using the Method 162...
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PMID: 20333284
PDF is available here.
PDF is available here.
Abstract
Pentatrichomonas hominis is considered a commensal protozoan in the large intestine of a number of mammalian hosts, such as cats, dogs, and non-human primates. The resulting infections, which can induce diarrhea, have been attributed to opportunistic overgrowth of P. hominis. This study was performe...
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PMID: 20333280
PDF is available here.
PDF is available here.
Abstract
We suggest that this taxon is a new species, also within a new genus....
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PMID: 20487128
PDF is available here.
PDF is available here.
Abstract
We described the gene organization, gene rearrangement and codon usage in the mitochondrial genome of Euphausia superba Dana 1852 (sampling from Prydz Bay, PB). The mitochondrial genome of E. superba is more than 15,498 bp in length (partial non-coding region was not determined). Translocation of fo...
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PMID: 19578978
PDF is available here.
PDF is available here.
Genome Research (20)2 2010
Abstract
We report the first high-throughput and candidate sequence analyses of DNA methylation to investigate discordance for autoimmune disease in twins. We used a cohort of MZ twins discordant for three diseases whose clinical signs often overlap: systemic lupus erythematosus (SLE), rheumatoid arthritis,...
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PMID: 20028698
PDF is available here.
PDF is available here.
Abstract
Quantitative analysis of genes that code for Dehalococcoides 16S rRNA and chloroethene-reductive dehalogenases TceA, VcrA, and BvcA was done on groundwater sampled from 150 monitoring wells spread over 11 chlorinated ethene polluted European locations. Redundancy analysis was used to relate molecula...
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PMID: 20008170
PDF is available here.
PDF is available here.
Abstract
We have characterized a set of 106 clinical isolates of Mycobacterium tuberculosis using phenotypic drug susceptibility testing (DST) to determine the extent of resistance to each agent and cross-resistance between agents. These results were compared with polymorphisms in the DNA sequences of riboso...
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PMID: 20032248
PDF is available here.
PDF is available here.
Abstract
We investigated the abundance, community structure, and diversity of Bacteria and Archaea along these gradients to further distinguish the ecologies of these domains outside their established physiological range. Quantitative PCR was used to enumerate 16S rRNA gene abundances of Bacteria, Archaea, a...
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PMID: 19948847
PDF is available here.
PDF is available here.
Abstract
We report for the first time the taxonomic and phylogenetic description of three C. lamprauges isolates recovered from sheep with rhinopharyngeal entomophthoramycosis. The distinctive clinical and pathological features of C. lamprauges are compared with those of other Conidiobolus spp. affecting she...
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PMID: 20007391
PDF is available here.
PDF is available here.
Abstract
Stable isotope probing (SIP) was used to identify the aerobic toluene-degrading microorganism in soil microcosms. Several approaches (terminal restriction fragment length polymorphism, 16S rRNA gene sequencing, and quantitative PCR) provided evidence that the microorganism responsible was a member o...
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PMID: 20008173
PDF is available here.
PDF is available here.
Abstract
We performed PCR-RFLP to separate Ceriodaphnia dubia, an exotic species in Brazil and the native species Ceriodaphnia silvestrii, widely distributed in Brazilian freshwater. The RFLP analysis of the ITS1-5.8S-ITS2 region of rRNA genes showed to be different between C. dubia and C. silvestrii when us...
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PMID: 20231967
PDF is available here.
PDF is available here.
Abstract
We encountered two groups of isolates that have morphologies that differ from any previously described species within their group. We sequenced the nuclear small subunit ribosomal RNA gene (SSU rDNA) of selected isolates from the two groups and found sequences from both groups to be distinct from al...
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PMID: 20524591
PDF is available here.
PDF is available here.
Mikrobiologiia (79)5 2010
Abstract
The use of 16S rRNA gene has been a "golden" method to determine the diversity of microbial communities in environmental samples, phylogenetic relationships of prokaryotes and taxonomic position of newly isolated organisms. However due to the presence of multiple heterogeneous 16S rRNA gene copies i...
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PMID: 21090508
PDF is available here.
PDF is available here.
Abstract
In a study on soil microfungi from different countries two new hyphomycetes were found. The first one, Ramophialophora humicola, isolated from a soil sample collected in Ronda (Spain), is characterized by producing profusely branched conidiophores ending in sterile, sometimes swollen apices, and sub...
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PMID: 20524593
PDF is available here.
PDF is available here.