keyword
MENU ▼
Read by QxMD icon Read
search

Uncultivated

keyword
https://www.readbyqxmd.com/read/28423426/the-invasive-liriomyza-huidobrensis-diptera-agromyzidae-understanding-its-pest-status-and-management-globally
#1
Phyllis G Weintraub, Sonja J Scheffer, Diedrich Visser, Graciela Valladares, Alberto Soares Correa, B Merle Shepard, Aunu Rauf, Sean T Murphy, Norma Mujica, Charles MacVean, Jürgen Kroschel, Miriam Kishinevsky, Ravindra C Joshi, Nina S Johansen, Rebecca H Hallett, Hasan S Civelek, Bing Chen, Helga Blanco Metzler
Liriomyza huidobrensis (Blanchard) is native to South America but has expanded its range and invaded many regions of the world, primarily on flowers and to a lesser extent on horticultural product shipments. As a result of initial invasion into an area, damage caused is usually significant but not necessarily sustained. Currently, it is an economic pest in selected native and invaded regions of the world. Adults cause damage by puncturing abaxial and adaxial leaf surfaces for feeding and egg laying sites. Larvae mine the leaf parenchyma tissues which can lead to leaves drying and wilting...
January 1, 2017: Journal of Insect Science
https://www.readbyqxmd.com/read/28396823/genomic-comparisons-of-a-bacterial-lineage-that-inhabits-both-marine-and-terrestrial-deep-subsurface-systems
#2
Sean P Jungbluth, Tijana Glavina Del Rio, Susannah G Tringe, Ramunas Stepanauskas, Michael S Rappé
It is generally accepted that diverse, poorly characterized microorganisms reside deep within Earth's crust. One such lineage of deep subsurface-dwelling bacteria is an uncultivated member of the Firmicutes phylum that can dominate molecular surveys from both marine and continental rock fracture fluids, sometimes forming the sole member of a single-species microbiome. Here, we reconstructed a genome from basalt-hosted fluids of the deep subseafloor along the eastern Juan de Fuca Ridge flank and used a phylogenomic analysis to show that, despite vast differences in geographic origin and habitat, it forms a monophyletic clade with the terrestrial deep subsurface genome of "Candidatus Desulforudis audaxviator" MP104C...
2017: PeerJ
https://www.readbyqxmd.com/read/28392745/cultivation-strategies-for-growth-of-uncultivated-bacteria
#3
Sonia R Vartoukian
BACKGROUND: The majority of environmental bacteria and around a third of oral bacteria remain uncultivated. Furthermore, several bacterial phyla have no cultivable members and are recognised only by detection of their DNA by molecular methods. Possible explanations for the resistance of certain bacteria to cultivation in purity in vitro include: unmet fastidious growth requirements; inhibition by environmental conditions or chemical factors produced by neighbouring bacteria in mixed cultures; or conversely, dependence on interactions with other bacteria in the natural environment, without which they cannot survive in isolation...
November 2016: Journal of Oral Biosciences
https://www.readbyqxmd.com/read/28387771/who-lives-in-a-fungus-the-diversity-origins-and-functions-of-fungal-endobacteria-living-in-mucoromycota
#4
Paola Bonfante, Alessandro Desirò
Bacterial interactions with plants and animals have been examined for many years; differently, only with the new millennium the study of bacterial-fungal interactions blossomed, becoming a new field of microbiology with relevance to microbial ecology, human health and biotechnology. Bacteria and fungi interact at different levels and bacterial endosymbionts, which dwell inside fungal cells, provide the most intimate example. Bacterial endosymbionts mostly occur in fungi of the phylum Mucoromycota and include Betaproteobacteria (Burkhoderia-related) and Mollicutes (Mycoplasma-related)...
April 7, 2017: ISME Journal
https://www.readbyqxmd.com/read/28382330/metatranscriptomics-supports-the-mechanism-for-biocathode-electroautotrophy-by-candidatus-tenderia-electrophaga
#5
Brian J Eddie, Zheng Wang, W Judson Hervey, Dagmar H Leary, Anthony P Malanoski, Leonard M Tender, Baochuan Lin, Sarah M Strycharz-Glaven
Biocathodes provide a stable electron source to drive reduction reactions in electrotrophic microbial electrochemical systems. Electroautotrophic biocathode communities may be more robust than monocultures in environmentally relevant settings, but some members are not easily cultivated outside the electrode environment. We previously used metagenomics and metaproteomics to propose a pathway for coupling extracellular electron transfer (EET) to carbon fixation in "Candidatus Tenderia electrophaga," an uncultivated but dominant member of an electroautotrophic biocathode community...
March 2017: MSystems
https://www.readbyqxmd.com/read/28370791/cyanobacterial-ent-sterol-like-natural-products-from-a-deviated-ubiquinone-pathway
#6
Philipp Moosmann, Reiko Ueoka, Laura Grauso, Alfonso Mangoni, Brandon I Morinaka, Muriel Gugger, Jörn Piel
Natural products from marine animals show high potential for the development of new medicines, but drug development based on these compounds is commonly hampered by their low natural abundance. Since many of these metabolites are suspected or known to be produced by uncultivated bacterial symbionts, the rapidly growing diversity of sequenced prokaryotic genomes offers the opportunity to identify alternative, culturable sources of natural products computationally. In this work, we investigated the potential of using this sequenced resource to facilitate the production of meroterpenoid-like compounds related to those from marine sources...
March 30, 2017: Angewandte Chemie
https://www.readbyqxmd.com/read/28368387/retroelement-guided-protein-diversification-abounds-in-vast-lineages-of-bacteria-and-archaea
#7
Blair G Paul, David Burstein, Cindy J Castelle, Sumit Handa, Diego Arambula, Elizabeth Czornyj, Brian C Thomas, Partho Ghosh, Jeff F Miller, Jillian F Banfield, David L Valentine
Major radiations of enigmatic Bacteria and Archaea with large inventories of uncharacterized proteins are a striking feature of the Tree of Life(1-5). The processes that led to functional diversity in these lineages, which may contribute to a host-dependent lifestyle, are poorly understood. Here, we show that diversity-generating retroelements (DGRs), which guide site-specific protein hypervariability(6-8), are prominent features of genomically reduced organisms from the bacterial candidate phyla radiation (CPR) and as yet uncultivated phyla belonging to the DPANN (Diapherotrites, Parvarchaeota, Aenigmarchaeota, Nanoarchaeota and Nanohaloarchaea) archaeal superphylum...
April 3, 2017: Nature Microbiology
https://www.readbyqxmd.com/read/28367142/diurnal-dynamics-of-gaseous-and-dissolved-metabolites-and-microbiota-composition-in-the-bovine-rumen
#8
Henk J van Lingen, Joan E Edwards, Jueeli D Vaidya, Sanne van Gastelen, Edoardo Saccenti, Bartholomeus van den Bogert, André Bannink, Hauke Smidt, Caroline M Plugge, Jan Dijkstra
Diurnal patterns of ruminal fermentation metabolites and microbial communities are not commonly assessed when investigating variation in ruminal CH4 production. The aims of this study were to monitor diurnal patterns of: (i) gaseous and dissolved metabolite concentrations in the bovine rumen, (ii) H2 and CH4 emitted, and (iii) the rumen microbiota. Furthermore, the effect of dietary inclusion of linseed oil on these patterns was assessed. Four rumen cannulated multiparous cows were used in a cross-over design with two 17 days periods and two dietary treatments: a control diet and a linseed oil supplemented diet [40% maize silage, 30% grass silage, 30% concentrate on dry matter (DM) basis for both diets; fat contents of 33 vs...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/28359990/morphoanatomical-and-physiological-changes-in-bauhinia-variegata-l-as-indicators-of-herbicide-diuron-action
#9
Dêmily Andrômeda de Lima, Caroline Müller, Alan Carlos Costa, Priscila Ferreira Batista, Valdnéa Casagrande Dalvi, Marisa Domingos
The wide use of the herbicide diuron has compromised surrounding uncultivated areas, resulting in acute and/or chronic damage to non-target plants. Thus, the aim of this research was to evaluate physiological and morphoanatomical responses in Bauhinia variegata L. plants to different doses of diuron. Seedlings of 90-day-old B. variegata were transplanted into 10liter pots. After an acclimation period (about 30 days), treatments consisting of different diuron doses were applied: 0 (control), 400, 800, 1600, and 2400g ai ha(-1)...
March 27, 2017: Ecotoxicology and Environmental Safety
https://www.readbyqxmd.com/read/28350381/metagenome-sequencing-and-98-microbial-genomes-from-juan-de-fuca-ridge-flank-subsurface-fluids
#10
Sean P Jungbluth, Jan P Amend, Michael S Rappé
The global deep subsurface biosphere is one of the largest reservoirs for microbial life on our planet. This study takes advantage of new sampling technologies and couples them with improvements to DNA sequencing and associated informatics tools to reconstruct the genomes of uncultivated Bacteria and Archaea from fluids collected deep within the Juan de Fuca Ridge subseafloor. Here, we generated two metagenomes from borehole observatories located 311 meters apart and, using binning tools, retrieved 98 genomes from metagenomes (GFMs)...
March 28, 2017: Scientific Data
https://www.readbyqxmd.com/read/28341674/interbacterial-adhesion-networks-within-the-early-oral-biofilm-of-individual-human-hosts
#11
Robert J Palmer, Nehal Shah, Alex Valm, Bruce Paster, Floyd Dewhirst, Taichi Inui, John O Cisar
Specific interbacterial adhesion, termed coaggregation, is well established for three early colonizers of the plaque biofilm: streptococci, actinomyces, and veillonellae. However, little is known about interactions of other early colonizers, and about the extent of interactions within the bacterial community from a single host. To address these gaps, subject-specific culture collections from two individuals were established using an intra-oral biofilm retrieval device. Molecular taxonomy (Human Oral Microbe Identification Microarray: HOMIM) of biofilm samples corroborated integrity and completeness of the collections...
March 24, 2017: Applied and Environmental Microbiology
https://www.readbyqxmd.com/read/28338684/seven-enzymes-create-extraordinary-molecular-complexity-in-an-uncultivated-bacterium
#12
Michael F Freeman, Maximilian J Helf, Agneya Bhushan, Brandon I Morinaka, Jörn Piel
Uncultivated bacteria represent a massive resource of new enzymes and bioactive metabolites, but such bacteria remain functionally enigmatic. Polytheonamides are potent peptide cytotoxins produced by uncultivated bacteria that exist as symbionts in a marine sponge. Outside glycobiology, polytheonamides represent the most heavily post-translationally modified biomolecules that are derived from amino acids. The biosynthesis of polytheonamides involves up to 50 site-specific modifications to create a membrane-spanning β-helical structure...
April 2017: Nature Chemistry
https://www.readbyqxmd.com/read/28314620/selenium-speciation-in-seleniferous-agricultural-soils-under-different-cropping-systems-using-sequential-extraction-and-x-ray-absorption-spectroscopy
#13
Hai-Bo Qin, Jian-Ming Zhu, Zhi-Qing Lin, Wen-Po Xu, De-Can Tan, Li-Rong Zheng, Yoshio Takahashi
Selenium (Se) speciation in soil is critically important for understanding the solubility, mobility, bioavailability, and toxicity of Se in the environment. In this study, Se fractionation and chemical speciation in agricultural soils from seleniferous areas were investigated using the elaborate sequential extraction and X-ray absorption near-edge structure (XANES) spectroscopy. The speciation results quantified by XANES technique generally agreed with those obtained by sequential extraction, and the combination of both approaches can reliably characterize Se speciation in soils...
March 14, 2017: Environmental Pollution
https://www.readbyqxmd.com/read/28283818/genome-sequences-of-a-capulavirus-infecting-plantago-lanceolata-in-the-%C3%A3-land-archipelago-of-finland
#14
Hanna Susi, Anna-Liisa Laine, Denis Filloux, Simona Kraberger, Kata Farkas, Pauline Bernardo, Mikko J Frilander, Darren P Martin, Arvind Varsani, Philippe Roumagnac
The discovery and full-genome sequences of two isolates of a fourth capulavirus species are reported. The viruses were discovered during a viral metagenomics survey of uncultivated Plantago lanceolata plants in the Åland archipelago of south western Finland. The newly discovered viruses apparently produce no symptoms in P. lanceolata. They have a genome organization that is very similar to that of the three known capulavirus species and additionally share between 62.9 and 67.1% genome-wide sequence identity with the isolates of these species...
March 10, 2017: Archives of Virology
https://www.readbyqxmd.com/read/28278219/development-and-performance-assessment-of-a-luminex-xmap%C3%A2-direct-hybridization-assay-for-the-detection-and-identification-of-indoor-air-fungal-contamination
#15
Xavier Libert, Ann Packeu, Fabrice Bureau, Nancy H Roosens, Sigrid C J De Keersmaecker
Considered as a public health problem, indoor fungal contamination is generally monitored using classical protocols based on culturing. However, this culture dependency could influence the representativeness of the fungal population detected in an analyzed sample as this includes the dead and uncultivable fraction. Moreover, culture-based protocols are often time-consuming. In this context, molecular tools are a powerful alternative, especially those allowing multiplexing. In this study a Luminex xMAP® assay was developed for the simultaneous detection of 10 fungal species which are most frequently in indoor air and that may cause health problems...
2017: PloS One
https://www.readbyqxmd.com/read/28273103/functional-metagenomics-reveals-novel-%C3%AE-galactosidases-not-predictable-from-gene-sequences
#16
Jiujun Cheng, Tatyana Romantsov, Katja Engel, Andrew C Doxey, David R Rose, Josh D Neufeld, Trevor C Charles
The techniques of metagenomics have allowed researchers to access the genomic potential of uncultivated microbes, but there remain significant barriers to determination of gene function based on DNA sequence alone. Functional metagenomics, in which DNA is cloned and expressed in surrogate hosts, can overcome these barriers, and make important contributions to the discovery of novel enzymes. In this study, a soil metagenomic library carried in an IncP cosmid was used for functional complementation for β-galactosidase activity in both Sinorhizobium meliloti (α-Proteobacteria) and Escherichia coli (γ-Proteobacteria) backgrounds...
2017: PloS One
https://www.readbyqxmd.com/read/28254264/influence-of-nitrogen-rich-substrates-on-biogas-production-and-on-the-methanogenic-community-under-mesophilic-and-thermophilic-conditions
#17
Bernhard Munk, Georg M Guebitz, Michael Lebuhn
Grass silage was evaluated as a possible substrate in anaerobic digestion for generation of biogas in mesophilic and thermophilic long-term operation. Furthermore, the molecular biological parameter Metabolic Quotient (MQ) was evaluated as early warning system to predict process disturbance. Since this substrate is rich in nitrogen, high ammonia concentration of up to 2.2 g * kgFM(-1) emerged. The high buffer capacity of the ammonium/ammonia system can disguise upcoming process acidification. At organic loading rates (OLR) below 1...
February 22, 2017: Anaerobe
https://www.readbyqxmd.com/read/28220773/new-crispr-cas-systems-discovered
#18
Hui Yang, Dinshaw J Patel
In bacteria and archaea, CRISPR-Cas adaptive immune systems utilize RNA-guided endonucleases to defend against invasion by foreign nucleic acids of bacteriophage, virus and plasmid origin. In a recent paper published in Nature, Burstein et al. identified the first Cas9 protein in uncultivated archaea and two novel CRISPR-CasX and CRISPR-CasY systems in uncultivated bacteria by capitalizing on analysis of terabase-scale metagenomic datasets from natural uncultivated organisms.
March 2017: Cell Research
https://www.readbyqxmd.com/read/28211847/syntrophic-linkage-between-predatory-carpediemonas-and-specific-prokaryotic-populations
#19
Emmo Hamann, Halina E Tegetmeyer, Dietmar Riedel, Sten Littmann, Soeren Ahmerkamp, Jianwei Chen, Philipp F Hach, Marc Strous
Most anoxic environments are populated by small (<10 μm) heterotrophic eukaryotes that prey on different microbial community members. How predatory eukaryotes engage in beneficial interactions with other microbes has rarely been investigated so far. Here, we studied an example of such an interaction by cultivating the anerobic marine flagellate, Carpediemonas frisia sp. nov. (supergroup Excavata), with parts of its naturally associated microbiome. This microbiome consisted of so far uncultivated members of the Deltaproteobacteria, Bacteroidetes, Firmicutes, Verrucomicrobia and Nanoarchaeota...
May 2017: ISME Journal
https://www.readbyqxmd.com/read/28197130/mineralizing-filamentous-bacteria-from-the-prony-bay-hydrothermal-field-give-new-insights-into-the-functioning-of-serpentinization-based-subseafloor-ecosystems
#20
Céline Pisapia, Emmanuelle Gérard, Martine Gérard, Léna Lecourt, Susan Q Lang, Bernard Pelletier, Claude E Payri, Christophe Monnin, Linda Guentas, Anne Postec, Marianne Quéméneur, Gaël Erauso, Bénédicte Ménez
Despite their potential importance as analogs of primitive microbial metabolisms, the knowledge of the structure and functioning of the deep ecosystems associated with serpentinizing environments is hampered by the lack of accessibility to relevant systems. These hyperalkaline environments are depleted in dissolved inorganic carbon (DIC), making the carbon sources and assimilation pathways in the associated ecosystems highly enigmatic. The Prony Bay Hydrothermal Field (PHF) is an active serpentinization site where, similar to Lost City (Mid-Atlantic Ridge), high-pH fluids rich in H2 and CH4 are discharged from carbonate chimneys at the seafloor, but in a shallower lagoonal environment...
2017: Frontiers in Microbiology
keyword
keyword
87604
1
2
Fetch more papers »
Fetching more papers... Fetching...
Read by QxMD. Sign in or create an account to discover new knowledge that matter to you.
Remove bar
Read by QxMD icon Read
×

Search Tips

Use Boolean operators: AND/OR

diabetic AND foot
diabetes OR diabetic

Exclude a word using the 'minus' sign

Virchow -triad

Use Parentheses

water AND (cup OR glass)

Add an asterisk (*) at end of a word to include word stems

Neuro* will search for Neurology, Neuroscientist, Neurological, and so on

Use quotes to search for an exact phrase

"primary prevention of cancer"
(heart or cardiac or cardio*) AND arrest -"American Heart Association"