Consulta: subjectFacets:"16S rRNA"
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ANALISIS MOLECULAR EN GASTROPODOS CHILENOS COMERCIALES BASADOS EN LAS SECUENCIAS 16S rRNA,. COI Y ITS1-5.8S rDNA-ITS2
Provedor de dados: 72
Autores: Aguilera-Muñoz,Felipe; Lafarga-Cruz,Fabiola; Gallardo-Escárate,Cristian.
Gastropod mollusks are part of the principal marine resources cultivated and commercialized in Chile. There are native Chilean species such as loco (Concholepas concholepas), locate (Thais chocolata), trumulco snail (Chorus giganteus), keyhole limpets (Fissurella spp.), tegula snail (Tegula atra) as well as exotic species such as red abalone (Haliotis rufescens) and Japanese abalone (Haliotis discus hannai). Despite their importance as marine resources, molecular genetic studies establishing phylogenetic relationships and estimating population genetic parameters are scarce. The aim of this study is to establish a molecular approach among the main commercial gastropod species in Chile. The mitochondrial genes 16S rRNA and COI, and the nuclear ribosomal...
Tipo: Journal article
Palavras-chave: 16S rRNA; COI; ITSl-5.8SrDNA-ITS2; Gastropod mollusks; Phylogenetic relationships.
Ano: 2009
URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0717-65382009000100003

Genetic differentiation of Macrodon ancylodon (Sciaenidae, Perciformes) populations in Atlantic coastal waters of South America as revealed by mtDNA analysis
Provedor de dados: 74
Autores: Santos,Simôni; Schneider,Horacio; Sampaio,Iracilda.
The king weakfish (pescada-gó in Portuguese - Macrodon ancylodon (Sciaenidae), a demersal (bottom-feeding) species found in South America Atlantic coastal waters from the Gulf of Paria in Venezuela to Baia Blanca in Argentina, is an economically important species because of its abundance and wide acceptance by consumers. Because of its wide distribution this fish may be subject to geographic isolation and this may have resulted in distinct populations along its coastal range. Considering that this species represents an important economic resource, confirmation of whether M. ancylodon is a single species or there are different genetic stocks spread over its wide distribution would be an important contribution to conservation policies and population...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Macrodon ancylodon; Sciaenidae; Perciformes; 16S rRNA; Cytochrome b; Genetic differentiation.
Ano: 2003
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572003000200008

The history of the introduction of the giant river prawn, Macrobrachium cf. rosenbergii (Decapoda, Palaemonidae), in Brazil: new insights from molecular data
Provedor de dados: 74
Autores: Iketani,Gabriel; Pimentel,Luciana; Silva-Oliveira,Glaúcia; Maciel,Cristiana; Valenti,Wagner; Schneider,Horacio; Sampaio,Iracilda.
The giant river prawn, Macrobrachium cf. rosenbergii, is one of the most cultivated freshwater prawns in the world and has been introduced into more than 40 countries. In some countries, this prawn is considered an invasive species that requires close monitoring. Recent changes in the taxonomy of this species (separation of M. rosenbergii and M. dacqueti) require a re-evaluation of introduced taxa. In this work, molecular analyses were used to determine which of these two species was introduced into Brazil and to establish the geographic origin of the introduced populations that have invaded Amazonian coastal waters. The species introduced into Brazil was M. dacqueti through two introduction events involving prawns originating from Vietnam and either...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Bioinvasion; Exotic species; Giant river prawn; Macrobrachium dacqueti; COI; 16S rRNA; Amazonia.
Ano: 2011
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1415-47572011000100025

Approches culturales et moléculaires des assemblages microbiens associés aux polychètes hydrothermaux de la famille Alvinellidae
Provedor de dados: 5
Autores: Alain, Karine.
Cultural and molecular approaches were used to analyse the microbial assemblages associated to the deep-sea hydrothermal vent polychaete worms of the family Alvinellidae. In a first part of the work, the populations associated to three alvinellid species from the Juan de Fuca Ridge (Paralvinella palmiformis, Paralvinella pandorae and Paralvinella sulfincola) were identified by phylogenetic analyses. A wide microbial diversity was detected, like a great number of new sequences or of sequences belonging to species previously unidentified at deep-sea hydrothermal vents. All the libraries were found to be dominated by sequences affiliated to the epsilon-Proteobacteria.  In other respects, fermentative micro-organisms belonging to the Thermococcales, the...
Tipo: Text
Palavras-chave: Paralvinella; Alvinella; 16S rRNA; Thermophile; Hydrothermal vent; Paralvinella; Alvinella; ARNr 16S; Thermophile; Source hydrothermale.
Ano: 2003
URL: http://archimer.ifremer.fr/doc/2005/these-332.pdf

Spatial comparison of total vs. active bacterial populations by coupling genetic fingerprinting and clone library analyses in the NW Mediterranean Sea
Provedor de dados: 5
Autores: Rodriguez-blanco, Arturo; Ghiglione, Jean-francois; Catala, Philippe; Casamayor, Emilio O.; Lebaron, Philippe.
Spatial distributions of both total (i.e. 16S rDNA-based fingerprints) and active (i.e. 16S rRNA-based fingerprints) bacterial populations, together with total bacterial activity measured by (3)H-leucine incorporation, were studied along a 98 km transect in the NW Mediterranean Sea. Capillary electrophoresis-single strand conformation polymorphism (CE-SSCP) fingerprinting was coupled to a clone library, allowing CE-SSCP peaks identification and the monitoring of the spatial variation of bacterial phylotypes. Up to 80% of the community peaks matched those obtained from clone library sequences, accounting for 86.7% of the total fingerprinting area. A good agreement was found between the relative abundance of Prochlorococcus in the CE-SSCP fingerprints and...
Tipo: Text
Palavras-chave: CE-SSCP fingerprinting; 16S rRNA; Spatial distribution; Bacterial diversity and activity Prochlorococcus; SAR11; Gammaproteobacteria.
Ano: 2009
URL: https://archimer.ifremer.fr/doc/00243/35433/33965.pdf

High diversity and pan-oceanic distribution of deep-sea polychaetes: Prionospio and Aurospio (Annelida: Spionidae) in the Atlantic and Pacific Ocean
Provedor de dados: 5
Autores: Guggolz, Theresa; Meißner, Karin; Schwentner, Martin; Dahlgren, Thomas G.; Wiklund, Helena; Bonifácio, Paulo; Brandt, Angelika.
Prionospio Malmgren 1867 and Aurospio Maciolek 1981 (Annelida: Spionidae) are polychaete genera commonly found in the deep sea. Both genera belong to the Prionospio complex, whose members are known to have limited distinguishing characters. Morphological identification of specimens from the deep sea is challenging, as fragmentation and other damages are common during sampling. These issues impede investigations into the distribution patterns of these genera in the deep sea. In this study, we employ two molecular markers (16S rRNA and 18S) to study the diversity and the distribution patterns of Prionospio and Aurospio from the tropical North Atlantic, the Puerto Rico Trench and the central Pacific. Based on different molecular analyses (Automated Barcode...
Tipo: Text
Palavras-chave: Distribution patterns; Haplotype networks; Vema-Fracture-Zone; Clarion-Clipperton Fracture Zone; 16S rRNA; 18S.
Ano: 2020
URL: https://archimer.ifremer.fr/doc/00610/72216/71015.pdf

Presence and activity of anaerobic ammonium-oxidizing bacteria at deep-sea hydrothermal vents
Provedor de dados: 5
Autores: Byrne, Nathalie; Strous, Marc; Crepeau, Valentin; Kartal, Boran; Birrien, Jean-louis; Schmid, Markus; Lesongeur, Francoise; Schouten, Stefan; Jaeschke, Andrea; Jetten, Mike; Prieur, Daniel; Godfroy, Anne.
Recent studies indicate that ammonia is an important electron donor for the oxidation of fixed nitrogen, both in the marine water column and sediments. This process, known as anammox, has so far only been observed in a large range of temperature habitats. The present study investigated the role of anammox in hydrothermal settings. During three oceanographic expeditions to the Mid-Atlantic Ridge, hydrothermal samples were collected from five vent sites, at depths ranging from 750 to 3650m from cold to hot habitats. Evidence for the occurrence of anammox in these particular habitats was demonstrated by concurrent surveys, including the amplification of 16S rRNA gene sequences related to known anammox bacteria, ladderanes lipids analysis and measurement of a...
Tipo: Text
Palavras-chave: Hydrothermal vent; Ladderanes; 16S rRNA; Activity; Micro organisms; Anammox.
Ano: 2009
URL: http://archimer.ifremer.fr/doc/2009/publication-6921.pdf

Archaeal Methane Cycling Communities Associated with Gassy Subsurface Sediments of Marennes-Oleron Bay (France)
Provedor de dados: 5
Autores: Roussel, Erwan; Sauvadet, Anne Laure; Allard, Jonathan; Chaduteau, Carine; Richard, Pierre; Cambon Bonavita, Marie-anne; Chaumillon, Eric.
In Marennes-Oleron Bay, a macro-tidal bay located on the French Atlantic coast, kilometer-scale acoustic turbidity reveals an accumulation of free gas in the sediment. Large concentrations of organic matter and rapid sedimentation rates provide ideal settings for biogenic methane cycling. We integrate seismic, sedimentologic, biogeochemical and molecular genetic approaches to determine whether microbial methane cycling is involved in this process. Here we show that the acoustic turbidity upper boundary matched with X-ray facies displaying fissures with the highest methane concentrations, demonstrating the existence of methane bubbles in the sediment. 16S rRNA and mcrA gene clone libraries were dominated by sequences affiliated to the three known ANME...
Tipo: Text
Palavras-chave: Sediment; Methane; McrA; 16S rRNA; Archaea.
Ano: 2009
URL: http://archimer.ifremer.fr/doc/2009/publication-6165.pdf

Symbioses bactériennes de bivalves mytilidés associés aux sources de fluides en domaine océanique profond : diversité, rôle nutritionnel et influence de l'environnement
Provedor de dados: 5
Autores: Duperron, Sebastien.
Symbiotic associations between chemosynthetic bacteria and invertebrates are one of the major sources of primary production in deep-sea chemosynthesis-based ecosystems. Mussels of the genus Bathymodiolus (Bivalvia: Mytilidae) occur worldwide and can dominate the animal community at methane-rich cold seeps and sulfide-rich hydrothermal vents. Some species are associated with both sulfide-oxidizing and methanotrophic bacteria. These mussels are thus a good model for studying the diversity, role and ecology of multiple symbiotic associations, which are still poorly understood. For the present study, several species of mytilids were collected from seep and vent sites situated at depths from 850 to 3300 meters using submersibles. Symbiotic bacteria associated...
Tipo: Text
Palavras-chave: Mid Atlantic Ridge Eastern Mediterranean Gulf of Guinea Gulf of Mexico Chemosynthesis Hydrothermal vents Cold seeps Lipid analysis Stable isotopes CFB; 16S rRNA; APS; RubisCO; PmoA Methylotrophic bacteria Methanotrophic bacteria Sulfide oxidizing bacteria Idas Bathymodiolus Symbiosis Chimiosynthèse Sources hydrothermales Sources de fluides froids Analyse lipidique Isotopes stables Ride Médio Atlantique Méditerranée orientale Golfe de Guinée Golfe du Mexique CFB; ARNr 16S; APS; RubisCO; PmoA Bactéries méthylotrophes Bactéries méthanotrophes Bactéries sulfoxydantes Idas Bathymodiolus Symbiose.
Ano: 2005
URL: http://archimer.ifremer.fr/doc/2005/these-2082.pdf

A dual symbiosis shared by two mussel species, Bathymodiolus azoricus and Bathymodiolus puteoserpentis (Bivalvia : Mytilidae), from hydrothermal vents along the northern Mid-Atlantic Ridge
Provedor de dados: 5
Autores: Duperron, Sebastien; Bergin, C; Zielinski, F; Blazejak, A; Pernthaler, A; Mckiness, Z; Dechaine, E; Cavanaugh, C; Dubilier, Nicole.
Bathymodiolus azoricus and Bathymodiolus puteoserpentis are symbiont-bearing mussels that dominate hydrothermal vent sites along the northern Mid-Atlantic Ridge (MAR). Both species live in symbiosis with two physiologically and phylogenetically distinct Gammaproteobacteria: a sulfur-oxidizing chemoautotroph and a methane-oxidizer. A detailed analysis of mussels collected from four MAR vent sites (Menez Gwen, Lucky Strike, Rainbow, and Logatchev) using comparative 16S rRNA sequence analysis and fluorescence in situ hybridization (FISH) showed that the two mussel species share highly similar to identical symbiont phylotypes. FISH observations of symbiont distribution and relative abundances showed no obvious differences between the two host species. In...
Tipo: Text
Palavras-chave: Bacteria; Phylogeny; Fluorescence in situ hybridization (FISH); Methane oxidizer; Sulfur oxidizer; 16S rRNA; Endosymbiosis.
Ano: 2006
URL: http://archimer.ifremer.fr/doc/2006/publication-1864.pdf

Genomic ecology of Marine Group II, the most common marine planktonic Archaea across the surface ocean
Provedor de dados: 5
Autores: Pereira, Olivier; Hochart, Corentin; Auguet, Jean-christophe; Debroas, Didier; Galand, Pierre E.
Planktonic Archaea have been detected in all the world's oceans and are found from surface waters to the deep sea. The two most common Archaea phyla are Thaumarchaeota and Euryarchaeota. Euryarchaeota are generally more common in surface waters, but very little is known about their ecology and their potential metabolisms. In this study, we explore the genomic ecology of the Marine Group II (MGII), the main marine planktonic Euryarchaeota, and test if it is composed of different ecologically relevant units. We re‐analyzed Tara Oceans metagenomes from the photic layer and the deep ocean by annotating sequences against a custom MGII database and by mapping gene co‐occurrences. Our data provide a global view of the distribution of Euryarchaeota, and more...
Tipo: Text
Palavras-chave: 16S rRNA; Euryarchaeota; Global ocean; Metagenomics; Poseidoniales; Proteorhodopsin.
Ano: 2019
URL: https://archimer.ifremer.fr/doc/00505/61676/65607.pdf

Phylogenetic characterization of the bacterial assemblage associated with mucous. secretions of the hydrothermal vent polychaete Paralvinella palmiformis
Provedor de dados: 5
Autores: Alain, Karine; Olagnon, Michel; Desbruyeres, Daniel; Page, Antoine; Barbier, Georges; Juniper, Kim; Querellou, Joel; Cambon-bonavita, Marie-anne.
As part of an ongoing examination of microbial diversity associated with hydrothermal vent polychaetes of the family Alvinellidae, we undertook a culture-independent molecular analysis of the bacterial assemblage associated with mucous secretions of the Northeastern Pacific vent polychaete Paralvinella palmiformis. Using a molecular 16S rDNA-based phylogenetic approach, clone libraries were constructed from two samples collected from active sulfide edifices in two hydrothermal vent fields. In both cases, clone libraries were largely dominated by epsilon-Proteobacteria. Phylotypes belonging to the Cytophaga-Flavobacteria and to the Verrucomicrobia were also largely represented within the libraries. The remaining sequences were related to the taxonomic...
Tipo: Text
Palavras-chave: Proteobacteria; 16S rRNA; Microbial diversity; Phylogeny; Hydrothermal vent; Paralvinella palmiformis.
Ano: 2002
URL: https://archimer.ifremer.fr/doc/2002/publication-661.pdf

Cyanobacterial populations that build 'kopara' microbial mats in Rangiroa, Tuamotu Archipelago, French Polynesia
Provedor de dados: 5
Autores: Richert, Laurent; Golubic, Stjepko; Le Guedes, Roland; Herve, Annie; Payr, Claude.
Cyanobacterial populations, the primary producers and builders of 'kopara' microbial mats were studied in four selected ponds along the rim of the Rangiroa Atoll, French Polynesia using a polyphasic approach. Seven isolates were maintained in uni-cyanobacterial cultures, characterized morphotypically and phylogenetically by evaluating sequences of the 16S rRNA gene of about 620 base pairs in length. Cyanobacteria in natural populations were analyzed microscopically, characterized morphotypically, and compared with cultured strains. Three of the isolates were identified in the field samples: Lyngbya aestuarii, Johannesbaptistia pellucida and Chroococcus submarinus were present in the mats only as minor components, whereas the species of Schizothrix that...
Tipo: Text
Palavras-chave: 16S rRNA; Polyphasic approach; Phylogeny; Microbial mats; Microbial ecology; Kopara; Diversity; Cyanobacteria; Culture.
Ano: 2006
URL: http://archimer.ifremer.fr/doc/2006/publication-2050.PDF

Genetic characterisation of oyster populations along the north-eastern coast of Tunisia
Provedor de dados: 5
Autores: Dridi, S.; Romdhane, M. S.; Heurtebise, Serge; El Cafsi, M.; Boudry, Pierre; Lapegue, Sylvie.
The taxonomy of oysters has been traditionally based on characteristics of the shell. More recently, the analysis of protein and DNA polymorphism has provided a means to overcome difficulties in distinguishing the different species of oysters based solely on shell morphology. In order to identify oysters of the Tunisian north-east coast, we sequenced a 16S rRNA mitochondrial fragment from 68 oysters sampled from the Bizert Lagoon and the Gulf of Hammamet in northern Tunisia. Comparison of oyster 16S rRNA sequences available in GenBank showed the presence of both Ostreola stentina and Crassostrea gigas in our samples, which could not be detected on the basis of shell morphology only. These data confirmed that C. gigas, a non-native species, is now...
Tipo: Text
Palavras-chave: 16S rRNA; Crassostrea gigas; Genetics; Mediterranean Sea; Ostreola stentina; Polymorphism.
Ano: 2008
URL: http://archimer.ifremer.fr/doc/00000/11063/7820.pdf

Integrating molecular identification of pelagic eggs with geostatistical mapping to improve the delineation of North Sea fish spawning grounds
Provedor de dados: 5
Autores: Lelievre, Stephanie; Jerome, Marc; Maes, Gregory E.; Vaz, Sandrine; Calaivany, Sachidhanandam; Verrez-bagnis, Veronique.
Maps of the spawning grounds of commercially important fishes are necessary when assessing the level of connectivity between life stages of fishes and for identifying ecologically valuable marine areas. A first step toward mapping the spawning grounds is a reliable and rapid species identification of pelagic fish eggs to assess the spatio-temporal distribution of spawning aggregations. As many species have similar egg sizes and morphology, the molecular validation of visually identified eggs is often essential for the use of such data in fisheries management. In the present study, we developed a rapid 16S rRNA PCR-restriction fragment length polymorphism (RFLP) assay to distinguish between formalin-fixed fish eggs of dab Limanda limanda, flounder...
Tipo: Text
Palavras-chave: Fish eggs; PCR-RFLP; 16S rRNA; Geostatistical analyses; Distribution; Spawning grounds.
Ano: 2012
URL: http://archimer.ifremer.fr/doc/00059/16999/14536.pdf

Development of in situ hybridisation using 16S rRNA gene to monitor black-lip pearl oyster, Pinctada margaritifera, larvae in plankton samples
Provedor de dados: 5
Autores: Thomas, Yoann; Belliard, Corinne; Garen, Pierre; Gueguen, Yannick; Montagnani, Caroline.
In French Polynesia, the black-lip pearl oyster Pinctada margaritifera has been farmed to produce pearls since the 1980s, forming the basis of a major industry. The sustainability of this activity relies on spat collection in the lagoons. However, pearl oyster spat can be difficult to identify for the evaluation of stock variations. It is especially hard to distinguish Pinctada spp. larvae at a very early stage of development. In the present study, a whole- mount in situ hybridisation (ISH) technique was developed to allow the discrimination of larvae of closely-related pearl oyster species found in the French Polynesian atolls. Using specific ribosomal 16S-DNA sequence data, we were able to successfully differentiate between Pinctada margaritifera and...
Tipo: Text
Palavras-chave: Whole larvae in situ hybridisation; 16S rRNA; Plankton; Species identification; Pearl oyster; Pinctada margaritifera.
Ano: 2011
URL: http://archimer.ifremer.fr/doc/00035/14603/11923.pdf

The highly variable microbiota associated to intestinal mucosa correlates with growth and hypoxia resistance of sea bass, Dicentrarchus labrax, submitted to different nutritional histories
Provedor de dados: 5
Autores: Gatesoupe, Francois-joel; Huelvan, Christine; Le Bayon, Nicolas; Le Delliou, Herve; Madec, Lauriane; Mouchel, Olivier; Quazuguel, Patrick; Mazurais, David; Zambonino-infante, Jose-luis.
Background  The better understanding of how intestinal microbiota interacts with fish health is one of the key to sustainable aquaculture development. The present experiment aimed at correlating active microbiota associated to intestinal mucosa with Specific Growth Rate (SGR) and Hypoxia Resistance Time (HRT) in European sea bass individuals submitted to different nutritional histories: the fish were fed either standard or unbalanced diets at first feeding, and then mixed before repeating the dietary challenge in a common garden approach at the juvenile stage. Results  A diet deficient in essential fatty acids (LH) lowered both SGR and HRT in sea bass, especially when the deficiency was already applied at first feeding. A protein-deficient diet with high...
Tipo: Text
Palavras-chave: Host-microbe interaction; 16S rRNA; Pyrosequencing; Autochthonous bacteria; Alternative feed ingredients; Physiological status.
Ano: 2016
URL: https://archimer.ifremer.fr/doc/00356/46719/46590.pdf

Hierarchical analysis of mtDNA variation and the use of mtDNA for isopod (Crustacea: Peracarida: Isopoda) systematics
Provedor de dados: 16
Autores: Wetzer, R.
Carefully collected molecular data and rigorous analyses are revolutionizing today’s phylogenetic studies. Although molecular data have been used to estimate various invertebrate phylogenies lor more than a decade, this study is the first survey of different regions of mitochondrial DNA in isopod crustaceans assessing sequence divergence and hence the usefulness of these regions to infer phylogeny at different hierarchical levels. 1 evaluate three loci from the mitochondrial genome (two ribosomal RNAs (12S, 16S) and one protein-coding (COI)) for their appropriateness in inferring isopod phylogeny at the suborder level and below. The patterns are similar for all three loci with the most speciose suborders of isopods also having the most divergent...
Tipo: Article / Letter to the editor
Palavras-chave: Mitochondrial DNA; Isopod; Crustacea; Molecular; 12S rRNA; 16S rRNA; COI.
Ano: 2001
URL: http://www.repository.naturalis.nl/record/534397

Dual Presence of Anaplasma phagocytophilum and Its Closely Related Anaplasma sp. in Ixodid Ticks in Hokkaido, Japan, and Their Specific Molecular Detection
Provedor de dados: 19
Autores: YBAÑEZ, Adrian Patalinghug; MATSUMOTO, Kotaro; KISHIMOTO, Toshio; YOKOYAMA, Naoaki; INOKUMA, Hisashi; 松本, 高太郎; 横山, 直明; 猪熊, 壽.
Anaplasma phagocytophilum causes human granulocytic anaplasmosis (HGA) and tick-borne fever in ruminants. A closely related and potentially novel Anaplasma sp. in Japan was recently characterized. The aims of the study were to provide molecular evidence for the presence of these 2 species in Japan, and to develop a reliable PCR method based on the nucleotide differences within the citrate synthase (gltA) gene. DNA samples from 182 ixodid ticks (134 Ixodes persulcatus, 35 Haemaphysalis douglasii and 13 I. ovatus) collected from 2 sites in Hokkaido, Japan, were screened for A. phagocytophilum and its closely related Anaplasma sp. (herein designated as Anaplasma sp. Japan) using 16S rRNA PCR, revealing a combined prevalence rate of 27.5% (50 samples). The...
Palavras-chave: 16S rRNA; Anaplasma phagocytophilum; Anaplasma sp.; GltA; GroEL.
Ano: 2012
URL: http://ir.obihiro.ac.jp/dspace/handle/10322/3839

Molecular analysis of the bacterial diversity in a specialized consortium for diesel oil degradation
Provedor de dados: 90
Autores: Paixão,Douglas Antonio Alvaredo; Dimitrov,Mauricio Rocha; Pereira,Rodrigo Matheus; Accorsini,Fábio Raphael; Vidotti,Maria Benincasa; Lemos,Eliana Gertrudes de Macedo.
Diesel oil is a compound derived from petroleum, consisting primarily of hydrocarbons. Poor conditions in transportation and storage of this product can contribute significantly to accidental spills causing serious ecological problems in soil and water and affecting the diversity of the microbial environment. The cloning and sequencing of the 16S rRNA gene is one of the molecular techniques that allows estimation and comparison of the microbial diversity in different environmental samples. The aim of this work was to estimate the diversity of microorganisms from the Bacteria domain in a consortium specialized in diesel oil degradation through partial sequencing of the 16S rRNA gene. After the extraction of DNA metagenomics, the material was amplified by...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: PCR; Cloning; 16S rRNA; Metagenomics; Soil; Biosurfactants.
Ano: 2010
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0100-06832010000300019

Effects of Simulated Nitrogen Deposition and Precipitation Manipulation on Soil Microorganisms in the Desert Steppe of Northern China
Provedor de dados: 90
Autores: Meiqing,Jia; Jing,Huang; Yinghua,Yang; Guodong,Han; Guogang,Zhang.
ABSTRACT: Soil microorganisms are influenced by climate change. However, the effect of climate change on soil cultivable bacteria are unclear. In this study, the composition and diversity of the soil cultivable bacterial community were explored by a dilution–plate method, PCR, and 16S rRNA sequencing in a desert steppe of northern China after repeated NH4NO3 amendments and precipitation manipulation for seven years. The experimental treatments were as follows: control (CK), N addition (+N), N addition plus water addition (+N+W), and N addition plus water reduction (+N-W). Among the treatment groups, 11 genera and 17 bacterial species were isolated. Nitrogen addition and precipitation manipulation significantly increased the number of cultivable bacteria in...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Soil microorganisms; Climate change; 16S rRNA.
Ano: 2019
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0100-06832019000100400

Isolation, Characterization and Symbiotic Efficiency of Nitrogen-Fixing and Heavy Metal-Tolerant Bacteria from a Coalmine Wasteland
Provedor de dados: 90
Autores: Ferreira,Paulo Ademar Avelar; Dahmer,Sabrina de Fatima Barbosa; Backes,Tais; Silveira,Andressa de Oliveira; Jacques,Rodrigo Josemar Seminoti; Zafar,Mohsin; Pauletto,Eloy Antonio; Santos,Marco Antônio Oliveira dos; Silva,Krisle da; Giachini,Admir José; Antoniolli,Zaida Inês.
ABSTRACT: Areas affected by coal mining can be recovered by revegetation with leguminous plants associated with nitrogen-fixing bacteria. This study addressed the isolation and characterization of native nitrogen-fixing bacteria from coalmine wasteland under different vegetation restoration approaches using Macroptilium atropurpureum (DC) Urb and Vicia sativa L. as trap plants. The bacteria were characterized and identified on the basis of 16S rRNA sequences. Additionally, nitrogen-fixing strains were characterized for tolerance to high heavy metal and low pH levels, as well as for their effect on growth, nodulation, and symbiotic efficiency of M. atropurpureum and V. sativa. Soil samples were taken from the rhizosphere of eight areas, between 6 and 20...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Diversity; 16S rRNA; Rhizobium; Bradyrhizobium; Burkholderia.
Ano: 2018
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0100-06832018000100420

Characterization of bacterial endophytes from the roots of native and cultivated Brazil nut trees (Bertholletia excelsa)
Provedor de dados: 36
Autores: CHALITA,Patrícia Bombonati; FARIAS,Eliane do Nascimento Cunha; COSTA,Ismaele Breckenfeld da; SOUSA,Brenda Ferreira; SANTOS,Marco Antônio Oliveira dos; ALBUQUERQUE,Teresinha Costa Silveira de; VITAL,Marcos José Salgado; SILVA,Krisle da.
ABSTRACT Brazil nut is a very important nontimber forest product in the Amazon region. Propagation of this tree still represents a challenge due to slow and uneven seed germination. In this context, plant growth-promoting bacteria can facilitate the process of propagation. The aims of this study were to isolate and characterize endophytic bacteria from the roots of Brazil nut trees in native terra firme forest and cultivation areas in northern Brazil, and to identify mechanisms by which bacteria act in plant growth promotion. Overall, 90 bacterial isolates were obtained from the roots of Brazil nut trees in monoculture, agroforestry and native forest areas by using different semisolid media. The isolates were characterized by sequencing the 16S rRNA gene....
Tipo: Info:eu-repo/semantics/article
Palavras-chave: 16S rRNA; Phosphate solubilization; Indole compounds; Biological nitrogen fixation; Plant growth-promotion bacteria; Amazon.
Ano: 2019
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0044-59672019000400257

Diversity and capacity to promote maize growth of bacteria isolated from the Amazon region
Provedor de dados: 36
Autores: SILVA,Krisle da; PERIN,Liamara; GOMES,Maria de Lourdes; BARAÚNA,Alexandre Cardoso; PEREIRA,Gilmara Maria Duarte; MOSQUEIRA,Cátia Aparecida; COSTA,Ismaele Breckenfeld da; O'HARA,Graham; ZILLI,Jerri Édson.
ABSTRACT Maize plants can establish beneficial associations with plant growth-promoting bacteria. However, few studies have been conducted on the characterization and inoculation of these bacteria in the Amazon region. This study aimed to characterize endophytic bacteria isolated from maize in the Amazon region and to assess their capacity to promote plant growth. Fifty-five bacterial isolates were obtained from maize grown in two types of ecosystems, i.e., a cerrado (savanna) and a forest area. The isolates were characterized by the presence of the nifH gene, their ability to synthesize indole-3-acetic acid (IAA) and solubilize calcium phosphate (CaHPO4), and 16S rRNA partial gene sequencing. Twenty-four bacteria contained the nifH gene, of which seven...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Biological nitrogen fixation; Zea mays L.; 16S rRNA.
Ano: 2016
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0044-59672016000200111

New records of Leptospira spp. in wild marsupials and a rodent in the eastern Brazilian Amazon through PCR detection
Provedor de dados: 36
Autores: SOUZA ROCHA,Katarine de; SCHUPP DE SENA MESQUITA,Gleiciane; SILVA FERREIRA,Maeli Fernanda; LEITE BARROS,Flávia de Nazaré; MACEDO,Renata Cecília Soares de Lima; ARAÚJO SARAIVA,Elane de; MENDES-OLIVEIRA,Ana Cristina; DUARTE CERQUEIRA,Valíria; SCOFIELD,Alessandra; GOES CAVALCANTE,Gustavo; ABEL,Isis; GUIMARÃES DE MORAES,Carla Cristina.
ABSTRACT We analyzed the presence of Leptospira spp. in liver and kidney tissue of wild marsupials and rodents trapped in a periurban forest in the eastern Brazilian Amazon. We examined 25 individuals of four marsupial and seven rodent species for the presence of the 16S rRNA gene of Leptospira in the DNA extracted from 47 liver and kidney tissue samples using PCR. We detected positive samples in 12% (3/25) of the individuals, in kidney fragments of two marsupial species (Didelphis marsupialis and Marmosops pinheiroi) and in a liver fragment of one rodent species (Echimys chrysurus). These are the first records of Leptospira spp. in M. pinheiroi and E. chrysurus and it is the first molecular survey of marsupials and rodents in the Brazilian Amazon.
Tipo: Info:eu-repo/semantics/report
Palavras-chave: Didelphimorphia; Rodentia; Live traps; Kidney; Liver; 16S rRNA.
Ano: 2020
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0044-59672020000400305

Molecular identification of a cyclodextrin glycosyltransferase-producing microorganism and phylogenetic assessment of enzymatic activities
Provedor de dados: 42
Autores: LANDRIEL,SOLEDAD CAMINATA; CASTILLO,JULIETA D.L.M.; TABOGA,OSCAR A.; FERRAROTTI,SUSANA A.; GOTTLIEB,ALEXANDRA M.; COSTA,HERNÁN.
Abstract: Cyclodextrin glycosyltransferases (CGTases) are important enzymes in the biotechnology field because they catalyze starch conversion into cyclodextrins and linear oligosaccharides, which are used in food, pharmaceutical and cosmetic industries. The CGTases are classified according to their product specificity in α-, β-, α/β- and γ-CGTases. As molecular markers are the preferred tool for bacterial identification, we employed six molecular markers (16S rRNA, dnaK, gyrB, recA, rpoB and tufA) to test the identification of a CGTase-producing bacterial strain (DF 9R) in a phylogenetic context. In addition, we assessed the phylogenetic relationship of CGTases along bacterial evolution. The results obtained here allowed us to identify the strain DF 9R as...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Cyclodextrin glycosyltransferases; Housekeeping genes; Paenibacillus; 16S rRNA.
Ano: 2019
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0001-37652019000500620

Detection of Borrelia-specific 16S rRNA sequence in total RNA extracted from Ixodes ricinus ticks
Provedor de dados: 45
Autores: Radulović,Ž.; Milutinović,M.; Tomanović,S.; Mulenga,A.
A reverse transcriptase - polymerase chain reaction based assay for Borrelia species detection in ticks was developed. The method was based on amplification of 552 nucleotide bases long sequence of 16S rRNA, targeted by Borrelia specific primers. In the present study, total RNA extracted from Ixodes ricinus ticks was used as template. The results showed higher sensitivity for Borrelia detection as compared to standard dark-field microscopy. Method specificity was confirmed by cloning and sequencing of obtained 552 base pairs long amplicons. Phylogenetic analysis of obtained sequences showed that they belong to B. lusitaniae and B. afzelii genospecies. RT-PCR based method presented in this paper could be very useful as a screening test for detecting...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Borrelia; RT-PCR; 16S rRNA; Ixodes ricinus.
Ano: 2010
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0102-09352010000400015

The complete sequence of the mitochondrial genome of the Chinook salmon, Oncorhynchus tshawytscha
Provedor de dados: 48
Autores: WILHELM,VIVIAN; VILLEGAS,JAIME; MIQUEL,ÁLVARO; ENGEL,ESTEBAN; BERNALES,SEBASTIÁN; VALENZUELA,PABLO D.T.; BURZIO,LUIS O.
The complete sequence of the mitochondrial genome of Chinook salmon, Oncorhynchus tshawytscha, has been determined. The circular genome consisting of 16,644 base pairs encodes thirteen proteins, the 12S and 16S ribosomal RNAs, and 22 transfer RNAs. These genes are ordered in the same way as most other vertebrates. The nucleotide and amino acid sequences of the ribosomal RNAs and the thirteen protein-coding genes were compared with those of other salmonids such as Oncorhynchus mykiss, Salmo salar, Salvelinus fontinalis, Salvelinus alpinus and Coregonus lavaretus. The sequence features of the control region (D-loop), the origin of L-strand replication and a putative peptide codified by the 16S mitochondrial RNA are described and discussed.
Tipo: Journal article
Palavras-chave: Salmonids; Mitochondria; Genome; Peptides; 16S rRNA.
Ano: 2003
URL: http://www.scielo.cl/scielo.php?script=sci_arttext&pid=S0716-97602003000200012

Diversity of the Potential 2-Methylisoborneol-Producing Genotypes in Thai Strains of Planktothricoides (Cyanobacteria)
Provedor de dados: 52
Autores: Tawong,Wittaya.
ABSTRACT The genus Planktothricoides Suda &amp; Watanabe is considered as a 2-methylisoborneol (MIB) producer, affecting water quality and aquatic animal products worldwide. To date, there is limited information about the diversity of this genus from Thailand. In this study, Thai Planktothricoides strains were isolated from fish ponds and reservoirs in North, Northeast and Central regions for morphological examination, phylogenetic analyses based on 16S rRNA, rbcLX and MIB synthase genes as well as GC/MS/MS analyses. The morphological results and the 16S rRNA and rbcLX phylogenies of Thai Planktothricodes strains enabled them to be designated as Planktothricoides raciborskii. Cell dimensions of Thai strains tested were in 1.86 to 5.96 µm length (L), 2.83...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: 2-methylisoborneol; Filamentous cyanobacteria; 16S rRNA; MIB synthase; Thailand.
Ano: 2017
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1516-89132017000100433

Endophytic Microbiota Associated with the Root Tips and Leaves of Baccharis dracunculifolia
Provedor de dados: 52
Autores: Santana,Raiana S. M.; Fernandes,G. W.; Ávila,Marcelo P.; Reis,Mariana P.; Araújo,Flávio M. G. de; Salim,Anna C. M.; Oliveira,Guilherme; Chartone-Souza,Edmar; Nascimento,Andréa M. A.
ABSTRACT Although endophytic bacteria impact the health, and ultimately the fitness, of their hosts, our understanding of the diversity of endophytic species remains limited. Here we report on the endophytic microbiota inhabiting the roots, healthy leaves and leaves attacked by a gall-inducing insect of Baccharis dracunculifolia, a species of major economic relevance in South America, using 16S rRNA gene new generation sequencing. Rhodoplanes and Nitrospira were well represented in the communities of roots and leaves; known to be important for nitrogen cycling. The difference in bacterial diversity between healthy and galled leaves was not pronounced. The leaves seem to harbor specialized bacteria with high tolerances to abiotic stresses such as wide...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Baccharis dracunculifolia; Endophytic bacteria; 16S rRNA.
Ano: 2016
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1516-89132016000100433

Ardra profiles of bacteria and archaea in mangrove sediments with different levels of contamination in the estuarine complex of Paranaguá, Brazil
Provedor de dados: 52
Autores: Ribeiro,Catherine Gérikas; Steffens,Maria Berenice Reynaud; Etto,Rafael Mazer; Galvão,Carolina Weigert; Martins,César de Castro; Pedrosa,Fábio de Oliveira; Kolm,Hedda Elisabeth.
The mangrove's sediments from the coastal areas under human activities may contain significant contaminations by hydrocarbons, even when there are no visual evidences of it. The microorganisms are essential to these ecosystems, especially in the control of their chemical environment. Sediment samples were collected in two regions under different environment conditions (pristine and contaminated) of the Paranaguá Estuarine Complex (Paranaguá Bay and Laranjeiras Bay), Brazil. Aliphatic hydrocarbons were determined by the GC-FID to assess the status of contamination of the studied areas. The total DNA was extracted from these samples. The 16S rRNA gene was amplified by the PCR reactions with the pair of primers 21F and 958R for the archaeal domain, and 27F...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Diversity; Mangroves; Archaea; Bacteria; 16S rRNA; ARDRA; Aliphatic hydrocarbons.
Ano: 2013
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1516-89132013000200013

Diversity of Endophytic and Epiphytic Bacteria From Sugarcane in Khuzestan, Iran
Provedor de dados: 52
Autores: Rezamahalleh,Hossein Moazzen; Khodakaramian,Gholam; Hassanzadeh,Nader.
Abstract Diverse microorganisms are living as endophytes in plant tissues and as epiphytes on plant surfaces in nature. Commercial formulations of bacteria antagonist to plant pathogenic microbes and ice nucleation active bacteria have been utilized as an environmentally safe method to manage plant disease and to prevent frost damage respectively. Bacteria were isolated from the leaf and sheath of sugarcane (CP69-1026 CP57-614, CP48-103, CP73-21, and CP70-1143 cultivars) verities grown in the ﬁeld in Khuzestan province, Iran. Bacteria were found in both sheaths and leaves of sugarcane plants which they were signiﬁcantly higher in density in leaves and which most were endophytic. The bacterial strains were 10 groups on the basis of the biochemical...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: 16S rRNA; Diversity; Endophytic bacteria; Sugarcane; Khuzestan.
Ano: 2019
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1516-89132019000100429

Characterization of Some Efficient Cellulase Producing Bacteria Isolated from Pulp and Paper Mill Effluent Contaminated Soil
Provedor de dados: 52
Autores: Reddy,Kondakindi Venkateswar; Vijayalashmi,Tatiparti; Ranjit,Pabbati; Raju,Maddela Naga.
ABSTRACT The wide variety of bacteria in the environment permits screening for more efficient cellulases to help overcome current challenges in biofuels production. This study focuses on the isolation of efficient cellulase producing bacteria found in pulp and paper mill effluent contaminated soil which can be considered for use in large scale biorefining. Four different bacterial strains were isolated and screened for cellulase production by using CMC agar medium. All isolates showed cellulase activity these strains were further characterized by morphological, physiological, biochemical and 16S rRNA gene analyses. These isolates were identified as two Bacillus subtilis sub sps, Bacillus mojavensis and Bacillus cereus.
Tipo: Info:eu-repo/semantics/article
Palavras-chave: CMC Agar; Cellulolytic Bacteria; Molecular identification; 16S rRNA; Cellulolytic activity.
Ano: 2017
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1516-89132017000100442

Cervical spondylitis and spinal abscess due to Actinomyces meyeri
Provedor de dados: 55
Autores: Duvignaud,Alexandre; Ribeiro,Emmanuel; Moynet,Daniel; Longy-Boursier,Maïté; Malvy,Denis.
Human actinomycosis with involvement of the spine is a rare condition although it has been first described a long time ago. It is probably underrecognized since its clinical presentation is often misleading and accurate bacteriological diagnosis is challenging. We herein report a rare case of cervical actinomycosis with paravertebral abscess and spondylitis imputed to an infection by Actinomyces meyeri in a 52-year-old immunocompetent Caucasian man. A. meyeri should be considered as a potential cause for subacute or chronic spondylitis, even in immunocompetent subjects. Modern diagnostic tools such as Matrix-Assisted Laser Desorption–Ionization Time of Flight mass spectrometry and 16S rRNA sequencing are efficient for accurate microbiological identification.
Tipo: Info:eu-repo/semantics/report
Palavras-chave: Actinomyces; Spondylitis; MALDI–TOF mass spectrometry; 16S rRNA.
Ano: 2014
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1413-86702014000100106

Diversity of 16S rRNA genes from bacteria of sugarcane rhizosphere soil
Provedor de dados: 56
Autores: Pisa,G.; Magnani,G.S.; Weber,H.; Souza,E.M.; Faoro,H.; Monteiro,R.A.; Daros,E.; Baura,V.; Bespalhok,J.P.; Pedrosa,F.O.; Cruz,L.M.
Sugarcane is an important agricultural product of Brazil, with a total production of more than 500 million tons. Knowledge of the bacterial community associated with agricultural crops and the soil status is a decisive step towards understanding how microorganisms influence crop productivity. However, most studies aim to isolate endophytic or rhizosphere bacteria associated with the plant by culture-dependent approaches. Culture-independent approaches allow a more comprehensive view of entire bacterial communities in the environment. In the present study, we have used this approach to assess the bacterial community in the rhizosphere soil of sugarcane at different times and under different nitrogen fertilization conditions. At the high taxonomic level, few...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: 16S rRNA; Biodiversity; Nitrogen fixation; Bacteria; Sugarcane; Soil.
Ano: 2011
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0100-879X2011001200004

Molecular characterization of bacterial populations of different soils
Provedor de dados: 58
Autores: Pereira,Rodrigo Matheus; Silveira,Érico Leandro da; Scaquitto,Denilson César; Pedrinho,Eliamar Aparecida Nascimbém; Val-Moraes,Silvana Pompéia; Wickert,Ester; Carareto-Alves,Lúcia Maria; Lemos,Eliana Gertrudes de Macedo.
Until recently, few studies were carried out in Brazil about diversity of bacterial soil communities. Aiming to characterize the bacterial population in the soil through 16S rRNA analysis, two types of soil have been analyzed: one of them characterized by intensive use where tomato, beans and corn were cultivated (CS); the other analyzed soil was under forest (FS), unchanged by man; both located in Guaíra, São Paulo State, Brazil. Using specific primers, 16S rRNA genes from metagenomic DNA in both soils were amplified by PCR, amplicons were cloned and 139 clones from two libraries were partially sequenced. The use of 16S rRNA analysis allowed identification of several bacterial populations in the soil belonging to the following phyla: Acidobacteria,...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Metagenome; Microbial diversity; 16S rRNA.
Ano: 2006
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822006000400007

Archaea diversity in vegetation gradients from the Brazilian Cerrado
Provedor de dados: 58
Autores: Araujo,Ademir Sergio Ferreira de; Mendes,Lucas Wiliam; Bezerra,Walderly Melgaço; Nunes,Luis Alfredo Pinheiro Leal; Lyra,Maria do Carmo Catanho Pereira de; Figueiredo,Marcia do Vale Barreto; Melo,Vania Maria Maciel.
Abstract We used 16S rRNA sequencing to assess the archaeal communities across a gradient of Cerrado. The archaeal communities differed across the gradient. Crenarcheota was the most abundant phyla, with Nitrosphaerales and NRPJ as the predominant classes. Euryachaeota was also found across the Cerrado gradient, including the classes Metanocellales and Methanomassiliicoccaceae.
Tipo: Info:eu-repo/semantics/other
Palavras-chave: Microbial ecology; Soil microbiology; 16S rRNA; Tropical soils.
Ano: 2018
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822018000300522

Characterization of Leptospira borgpetersenii isolates from field rats (Rattus norvegicus) by 16S rRNA and lipL32 gene sequencing
Provedor de dados: 58
Autores: Vedhagiri,Kumaresan; Natarajaseenivasan,Kalimuthusamy; Prabhakaran,Shanmugarajan G.; Selvin,Joseph; Narayanan,Ramasamy; Shouche,Yogesh S.; Vijayachari,Paluru; Ratnam,Sivalingam.
The main goal of this study was to evaluate the prevalence of leptospirosis among field rodents of Tiruchirappalli district, Tamil Nadu, India. In total 35 field rats were trapped and tested for seroprevalence by the microscopic agglutination test (MAT). Isolation of leptospires was performed from blood and kidney tissues and characterized to serovar level. Genomospecies identification was carried out using 16S rRNA and lipL32 gene sequencing. The molecular phylogeny was constructed to find out species segregation. Seroprevalence was about 51.4 %, and the predominant serovars were Autumnalis, Javanica, Icterohaemorrhagiae and Pomona. Two isolates from the kidneys were identified as serovar Javanica of Serogroup Javanica, and sequence based molecular...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Leptospirosis; Leptospira borgpetersenii; LipL32; 16S rRNA.
Ano: 2010
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822010000100022

Genetic diversity of Rhizobia isolates from Amazon soils using cowpea (Vigna unguiculata) as trap plant
Provedor de dados: 58
Autores: Silva,F.V.; Simões-Araújo,J.L.; Silva Júnior,J.P.; Xavier,G.R.; Rumjanek,N.G.
The aim of this work was to characterize rhizobia isolated from the root nodules of cowpea (Vigna unguiculata) plants cultivated in Amazon soils samples by means of ARDRA (Amplified rDNA Restriction Analysis) and sequencing analysis, to know their phylogenetic relationships. The 16S rRNA gene of rhizobia was amplified by PCR (polymerase chain reaction) using universal primers Y1 and Y3. The amplification products were analyzed by the restriction enzymes HinfI, MspI and DdeI and also sequenced with Y1, Y3 and six intermediate primers. The clustering analysis based on ARDRA profiles separated the Amazon isolates in three subgroups, which formed a group apart from the reference isolates of Bradyrhizobium japonicum and Bradyrhizobium elkanii. The clustering...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: BNF; Bacteria; 16S rRNA; ARDRA; Sequencing.
Ano: 2012
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822012000200033

Role of wild birds as carriers of multi-drug resistant Escherichia coli and Escherichia vulneris
Provedor de dados: 58
Autores: Shobrak,Mohammed Y.; Abo-Amer,Aly E.
Emergence and distribution of multi-drug resistant (MDR) bacteria in environments pose a risk to human and animal health. A total of 82 isolates of Escherichia spp. were recovered from cloacal swabs of migrating and non-migrating wild birds. All bacterial isolates were identified and characterized morphologically and biochemically. 72% and 50% of isolates recovered from non-migrating and migrating birds, respectively, showed positive congo red dye binding (a virulence factor). Also, hemolysin production (a virulence factor) was showed in 8% of isolates recovered from non-migrating birds and 75% of isolates recovered from migrating birds. All isolates recovered from non-migrating birds were found resistant to Oxacillin while all isolates recovered from...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: E. coli; E. vulneris; Multi-drug resistance (MDR); Migrating and non-migrating birds; Congo red binding; Hemolysin; API 20E; 16S rRNA; Plasmid profile.
Ano: 2014
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822014000400010

Diversity of retrievable heterotrophic bacteria in Kongsfjorden, an Arctic fjord
Provedor de dados: 58
Autores: Sinha,Rupesh Kumar; Krishnan,Kottekkatu Padinchati; Hatha,Ammanamveetil Abdulla Mohamed; Rahiman,Mujeeb; Thresyamma,Divya David; Kerkar,Savita.
Abstract The diversity and abundance of retrievable pelagic heterotrophic bacteria in Kongsfjorden, an Arctic fjord, was studied during the summer of 2011 (June, August, and September). Retrievable bacterial load ranged from 103 to 107 CFU L−1 in June, while it was 104-106 CFU L−1 in August and September. Based on 16S rRNA gene sequence similarities, a higher number of phylotypes was observed during August (22 phylotypes) compared to that during June (6 phylotypes) and September (12 phylotypes). The groups were classified into four phyla: Firmicutes, Actinobacteria, Proteobacteria, and Bacteroidetes. Bacteroidetes was represented only by a single member Leewenhoekiella aequorea during the three months and was dominant (40%) in June. However, this dominance...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Kongsfjorden; Retrievable heterotrophic bacteria; 16S rRNA; Arctic fjord.
Ano: 2017
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822017000100051

Evaluation of short-chain-length polyhydroxyalkanoate accumulation in Bacillus aryabhattai
Provedor de dados: 58
Autores: Pillai,Aneesh Balakrishna; Kumar,Arjun Jaya; Thulasi,Kavitha; Kumarapillai,Harikrishnan.
Abstract This study was focused on the polyhydroxybutyrate (PHB) accumulation property of Bacillus aryabhattai isolated from environment. Twenty-four polyhydroxyalkanoate (PHA) producers were screened out from sixty-two environmental bacterial isolates based on Sudan Black B colony staining. Based on their PHA accumulation property, six promising isolates were further screened out. The most productive isolate PHB10 was identified as B. aryabhattai PHB10. The polymer production maxima were 3.264 g/L, 2.181 g/L, 1.47 g/L, 1.742 g/L and 1.786 g/L in glucose, fructose, maltose, starch and glycerol respectively. The bacterial culture reached its stationary and declining phases at 18 h and 21 h respectively and indicated growth-associated PHB production. Nuclear...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Bacillus aryabhattai PHB10; Polyhydroxybutyrate; Domestic sewerage; Polymer characterization; 16S rRNA.
Ano: 2017
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822017000300451

Effect of plant growth-promoting bacteria on the growth and fructan production of Agave americana L.
Provedor de dados: 58
Autores: De La Torre-Ruiz,Neyser; Ruiz-Valdiviezo,Víctor Manuel; Rincón-Molina,Clara Ivette; Rodríguez-Mendiola,Martha; Arias-Castro,Carlos; Gutiérrez-Miceli,Federico Antonio; Palomeque-Dominguez,Héctor; Rincón-Rosales,Reiner.
ABSTRACT The effect of plant growth-promoting bacteria inoculation on plant growth and the sugar content in Agave americana was assessed. The bacterial strains ACO-34A, ACO-40, and ACO-140, isolated from the A. americana rhizosphere, were selected for this study to evaluate their phenotypic and genotypic characteristics. The three bacterial strains were evaluated via plant inoculation assays, and Azospirillum brasilense Cd served as a control strain. Phylogenetic analysis based on the 16S rRNA gene showed that strains ACO-34A, ACO-40 and ACO-140 were Rhizobium daejeonense, Acinetobacter calcoaceticus and Pseudomonas mosselii, respectively. All of the strains were able to synthesize indole-3-acetic acid (IAA), solubilize phosphate, and had nitrogenase...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Agave; Inoculation; Bacteria; Inulin; 16S rRNA.
Ano: 2016
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822016000300587

Detection of carboxylesterase and esterase activity in culturable gut bacterial flora isolated from diamondback moth, Plutella xylostella (Linnaeus), from India and its possible role in indoxacarb degradation
Provedor de dados: 58
Autores: Ramya,Shanivarsanthe Leelesh; Venkatesan,Thiruvengadam; Srinivasa Murthy,Kottilingam; Jalali,Sushil Kumar; Verghese,Abraham.
Abstract Diamondback moth (DBM), Plutella xylostella (Linnaeus), is a notorious pest of brassica crops worldwide and is resistant to all groups of insecticides. The insect system harbors diverse groups of microbiota, which in turn helps in enzymatic degradation of xenobiotic-like insecticides. The present study aimed to determine the diversity of gut microflora in DBM, quantify esterase activity and elucidate their possible role in degradation of indoxacarb. We screened 11 geographic populations of DBM in India and analyzed them for bacterial diversity. The culturable gut bacterial flora underwent molecular characterization with 16S rRNA. We obtained 25 bacterial isolates from larvae (n = 13) and adults (n = 12) of DBM. In larval gut isolates,...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Plutella xylostella; Bacteria; 16S rRNA; Phylogeny; Carboxylesterase; Indoxacarb.
Ano: 2016
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822016000200327

Evaluation of bacterial diversity recovered from petroleum samples using different physical matrices
Provedor de dados: 58
Autores: Dellagnezze,Bruna Martins; Vasconcellos,Suzan Pantaroto de; Melo,Itamar Soares de; Santos Neto,Eugênio Vaz dos; Oliveira,Valéria Maia de.
ABSTRACT Unraveling the microbial diversity and its complexity in petroleum reservoir environments has been a challenge throughout the years. Despite the techniques developed in order to improve methodologies involving DNA extraction from crude oil, microbial enrichments using different culture conditions can be applied as a way to increase the recovery of DNA from environments with low cellular density for further microbiological analyses. This work aimed at the evaluation of different matrices (arenite, shale and polyurethane foam) as support materials for microbial growth and biofilm formation in enrichments using a biodegraded petroleum sample as inoculum in sulfate reducing condition. Subsequent microbial diversity characterization was carried out...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Bacterial diversity; Microbial enrichment; Petroleum reservoir; Physical support; 16S rRNA.
Ano: 2016
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822016000300712

Streptomyces globosus DK15 and Streptomyces ederensis ST13 as new producers of factumycin and tetrangomycin antibiotics
Provedor de dados: 58
Autores: Charousová,Ivana; Medo,Juraj; Hleba,Lukáš; Javoreková,Soňa.
ABSTRACT Fifty seven soil-borne actinomycete strains were assessed for the antibiotic production. Two of the most active isolates, designed as Streptomyces ST-13 and DK-15 exhibited a broad range of antimicrobial activity and therefore they were selected for HPLC fractionation against the most suppressed bacteria Staphylococcus aureus (ST-13) and Chromobacterium violaceum (DK-15). LC/MS analysis of extracts showed the presence of polyketides factumycin (DK15) and tetrangomycin (ST13). The taxonomic position of the antibiotic-producing actinomycetes was determined using a polyphasic approach. Phenotypic characterization and 16S rRNA gene sequence analysis of the isolates matched those described for members of the genus Streptomyces. DK-15 strain exhibited...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Streptomyces; 16S rRNA; MALDI-TOF MS; Tetrangomycin; Factumycin.
Ano: 2018
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822018000400816

Simultaneous biodegradation of phenol and cyanide present in coke-oven effluent using immobilized Pseudomonas putida and Pseudomonas stutzeri
Provedor de dados: 58
Autores: Singh,Utkarsh; Arora,Naveen Kumar; Sachan,Preeti.
ABSTRACT Discharge of coke-oven wastewater to the environment may cause severe contamination to it and also threaten the flora and fauna, including human beings. Hence before dumping it is necessary to treat this dangerous effluent in order to minimize the damage to the environment. Conventional technologies have inherent drawbacks however, biological treatment is an advantageous alternative method. In the present study, bacteria were isolated from the soil collected from the sites contaminated by coke-oven effluent rich in phenol and cyanide. Nucleotides sequence alignment and phylogenetic analysis showed the identity of the selected phenol and cyanide degrading isolates NAUN-16 and NAUN-1B as Pseudomonas putida and Pseudomonas stutzeri, respectively....
Tipo: Info:eu-repo/semantics/article
Palavras-chave: 16S rRNA; Biodegradation; Immobilization; Pseudomonas; Saw dust.
Ano: 2018
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822018000100038

16S rRNA region based PCR protocol for identification and subtyping of Parvimonas micra
Provedor de dados: 58
Autores: Ota-Tsuzuki,C.; Brunheira,A.T.P.; Mayer,M.P.A.
The present study established a PCR protocol in order to identify Parvimonas micra and to evaluate the intra-species diversity by PCR-RFLP of 16S rRNA partial sequence. The data indicated that the protocol was able to identify this species which could be clustered in five genotypes.
Tipo: Info:eu-repo/semantics/article
Palavras-chave: PCR-RFLP; 16S rRNA; Anaerobic cocci.
Ano: 2008
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822008000400001

Prevalence and molecular analysis of Anaplasma platys in dogs in Lara, Venezuela
Provedor de dados: 58
Autores: Huang,Haibin; Unver,Ahmet; Perez,Miriam J.; Orellana,Nelson G.; Rikihisa,Yasuko.
Blood specimens from clinically normal military dogs and their trainers, in Lara, Venezuela were screened for Anaplasma platys, A. phagocytophilum, or Ehrlichia ewingii using 16S rRNA PCR tests. Sixteen percent (7/43) of dog specimens were positive by A. platys PCR test followed by sequencing of the PCR products, and all human blood specimens [25] were negative. All specimens from these dogs and humans were PCR negative for E. ewingii or A. phagocytophilum. Twelve Rhipicephalus sanguineus ticks removed from these dogs were negative for A. platys by reverse transcription PCR test. Almost the entire 16S rRNA gene (1,364 bp) and groESL operon (1,646 bp) sequences of A. platys isolated from a dog were determined, revealing that both sequences were closely...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: 16S rRNA; GroESL operon; Anaplasma platys; Dogs; Venezuela.
Ano: 2005
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822005000300002

Antibacterial activities of multi drug resistant Myroides odoratimimus bacteria isolated from adult flesh flies (Diptera: Sarcophagidae) are independent of metallo beta-lactamase gene
Provedor de dados: 58
Autores: Dharne,M.S.; Gupta,A.K.; Rangrez,A.Y.; Ghate,H.V.; Patole,M.S.; Shouche,Y.S.
Flesh flies (Diptera: Sarcophagidae) are well known cause of myiasis and their gut bacteria have never been studied for antimicrobial activity against bacteria. Antimicrobial studies of Myroides spp. are restricted to nosocomial strains. A Gram-negative bacterium, Myroides sp., was isolated from the gut of adult flesh flies (Sarcophaga sp.) and submitted to evaluation of nutritional parameters using Biolog GN, 16S rRNA gene sequencing, susceptibility to various antimicrobials by disc diffusion method and detection of metallo β-lactamase genes (TUS/MUS). The antagonistic effects were tested on Gram-negative and Gram-positive bacteria isolated from human clinical specimens, environmental samples and insect mid gut. Bacterial species included were Aeromonas...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Flesh fly; Myroides sp.; 16S rRNA; Antibacterial activity; Metallo beta-lactamase.
Ano: 2008
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822008000200035

Phenotypic, genetic and symbiotic characterization of Erythrina velutina rhizobia from Caatinga dry forest
Provedor de dados: 58
Autores: Rodrigues,Dalila Ribeiro; Silva,Aleksandro Ferreira da; Cavalcanti,Maria Idaline Pessoa; Escobar,Indra Elena Costa; Fraiz,Ana Carla Resende; Ribeiro,Paula Rose de Almeida; Ferreira Neto,Reginaldo Alves; Freitas,Ana Dolores Santiago de; Fernandes-Júnior,Paulo Ivan.
Abstract Erythrina velutina ("mulungu") is a legume tree from Caatinga that associates with rhizobia but the diversity and symbiotic ability of "mulungu" rhizobia are poorly understood. The aim of this study was to characterize "mulungu" rhizobia from Caatinga. Bacteria were obteined from Serra Talhada and Caruaru in Caatinga under natural regeneration. The bacteria were evaluated to the amplification of nifH and nodC and to metabolic characteristics. Ten selected bacteria identified by 16S rRNA sequences. They were tested in vitro to NaCl and temperature tolerance, auxin production and calcium phosphate solubilization. The symbiotic ability were assessed in an greenhouse experiment. A total of 32 bacteria were obtained and 17 amplified both symbiotic...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Biological nitrogen fixation; "Mulungu"; Diversity; Inoculant; 16S rRNA.
Ano: 2018
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822018000300503

Matrix Assisted Laser Desorption/Ionization Time of Flight Mass Spectrometry for identification of Clostridium species isolated from Saudi Arabia
Provedor de dados: 58
Autores: AlMogbel,Mohammed Suliman.
Abstract The aim of this study was to identify different Clostridium spp. isolated from currency notes from the Ha’il region of Saudi Arabia in September 2014 using MALDI–TOF-MS. Clostridium spp. were identified by Bruker MALDI–TOF-MS and compared with VITEK 2. The confirmation of the presence of different Clostridium spp. was performed by determining the sequence of the 16S ribosomal RNA gene. In this study, 144 Clostridium spp. were isolated. Among these specimens, MALDI–TOF-MS could identify 88.8% (128/144) of the isolates to the species level and 92.3% (133/144) to the genus level, whereas, VITEK 2 identified 77.7% of the (112/144) isolates. The correct identification of the 144 isolates was performed by sequence analysis of the 500 bp 16S rRNA gene....
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Clostridium species; MALDI–TOF-MS; VITEK 2; 16S rRNA.
Ano: 2016
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822016000200410

Bioprocessing of some agro-industrial residues for endoglucanase production by the new subsp.; Streptomyces albogriseolus subsp. cellulolyticus strain NEAE-J
Provedor de dados: 58
Autores: El-Naggar,Noura El-Ahmady; Abdelwahed,Nayera A.M.; Saber,Wesam I.A.; Mohamed,Asem A.
The use of low cost agro-industrial residues for the production of industrial enzymes is one of the ways to reduce significantly production costs. Cellulase producing actinomycetes were isolated from soil and decayed agricultural wastes. Among them, a potential culture, strain NEAE-J, was selected and identified on the basis of morphological, cultural, physiological and chemotaxonomic properties, together with 16S rDNA sequence. It is proposed that strain NEAE-J should be included in the species Streptomyces albogriseolus as a representative of a novel sub-species, Streptomyces albogriseolus subsp. cellulolyticus strain NEAE-J and sequencing product was deposited in the GenBank database under accession number JN229412. This organism was tested for its...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Agro-industrial residues; Endoglucanase production; Streptomyces albogriseolus; 16S rRNA; Scanning electron microscope.
Ano: 2014
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1517-83822014000200050

Antimicrobial activity of actinomycetes and characterization of actinomycin-producing strain KRG-1 isolated from Karoo, South Africa
Provedor de dados: 60
Autores: Charousová,Ivana; Medo,Juraj; Hleba,Lukáš; Císarová,Miroslava; Javoreková,Soňa.
In the present study we reported the antimicrobial activity of actinomycetes isolated from aridic soil sample collected in Karoo, South Africa. Eighty-six actinomycete strains were isolated and purified, out of them thirty-four morphologically different strains were tested for antimicrobial activity. Among 35 isolates, 10 (28.57%) showed both antibacterial and antifungal activity. The ethyl acetate extract of strain KRG-1 showed the strongest antimicrobial activity and therefore was selected for further investigation. The almost complete nucleotide sequence of the 16S rRNA gene as well as distinctive matrix-assisted laser desorption/ionization-time-of-flight/mass spectrometry (MALDI-TOF/MS) profile of whole-cell proteins acquired for strain KRG-1 led to...
Tipo: Info:eu-repo/semantics/article
Palavras-chave: Actinomycin/antimicrobial activity; Streptomyces; Soil; 16S rRNA; MALDI-TOF MS.
Ano: 2019
URL: http://www.scielo.br/scielo.php?script=sci_arttext&pid=S1984-82502019000100594