bluuebunny/crossref_metadata_2025_split huggingface dataset:
The secret jazz fan: a tale of sublimation featuring film and music
Authors: Kerrigan Finola , Dennis Noel 
Published: May 2011

PurposeThe purpose of this paper is to investigate the way in which film can introduce jazz to a wider audience.Design/methodology/approachThis study applies the method of subjective personal introspection (SPI) to the area of film and music consumption. The paper reports on insights provided by two researchers through using SPI to investigate their relationships to film and jazz music. In so doing, the paper adopts a Bourdieuian frame in applying a reflexive methodological approach and considering the role of cultural and symbolic capital in influencing these consumption practices.FindingsThis paper found that aside from the recognition problem facing jazz, episodes of sublimation may prevent potential audiences from increasing consumption of jazz music.Research limitations/implicationsIn common with all SPI studies, the focus of the research is very narrow. While the indepth insight provided here is of use to scholars of arts consumption, further research should explore the prevalence of sublimination in arts communities in order to extend this further.Practical implicationsThis study moves our understanding of why consumers may not develop their consumption relationship with jazz music. The findings can be used by jazz professionals in addressing ways in which consumers may overcome their lack of cultural capital and the emphasis placed on this by the wider jazz consumption community.Social implicationsThe paper investigates issues of inclusion and exclusion which should have wider social relevance.Originality/valueThe paper addresses the issue of participation in the arts and should be of value to academics and arts marketing practitioners alike.
And then we come to the brand: academic insights from international bestsellers
Authors: Brown Stephen 
Published: May 2011

PurposeThe literary world is an elitist enclave, where anti‐marketing rhetoric is regularly encountered. This paper aims to show that the book trade has always been hard‐nosed and commercially driven.Design/methodology/approachThis paper is less a review of the literature, or a theoretical treatise, than a selective revelation of the commercial realities of the book business.FindingsThe paper shows that the cultural industries in general and the book business in particular were crucibles of marketing practice long before learned scholars started taking notice. It highlights the importance of luck, perseverance and, not least, marketing nous in the “manufacture” of international bestsellers.Research limitations/implicationsBy highlighting humankind's deep‐seated love of narrative – its clear preference for fiction over fact – this paper suggests that marketing scholars should reconsider their preferred mode of research representation. Hard facts are all very well, but they are less palatable than good stories, well told.Originality/valueThe paper makes no claim to originality. It recovers what we already know but appear to have forgotten in our non‐stop pursuit of scientific respectability.
Validation of Internal Controls for Extraction and Amplification of Nucleic Acids from Enteric Viruses in Water Samples
Authors: Hata Akihiko , Katayama Hiroyuki , Kitajima Masaaki , Visvanathan Chettiyappan , Nol Chea , Furumai Hiroaki 
Published: May 2011

ABSTRACT
Inhibitors that reduce viral nucleic acid extraction efficiency and interfere with cDNA synthesis and/or polymerase activity affect the molecular detection of viruses in aquatic environments. To overcome these significant problems, we developed a methodology for assessing nucleic acid yields and DNA amplification efficiencies for environmental water samples. This involved adding particles of adenovirus type 5 and murine norovirus and newly developed primer-sharing controls, which are amplified with the same primer pairs and result in the same amplicon sizes as the targets, to these samples. We found that nucleic acid loss during the extraction process, rather than reverse transcription-PCR (RT-PCR) inhibition, more significantly attributed to underestimation of the presence of viral genomes in the environmental water samples tested in this study. Our success rate for satisfactorily amplifying viral RNAs and DNAs by RT-PCR was higher than that for obtaining adequate nucleic acid preparations. We found that inhibitory properties were greatest when we used larger sample volumes. A magnetic silica bead-based RNA extraction method effectively removed inhibitors that interfere with viral nucleic acid extraction and RT-PCR. To our knowledge, this is the first study to assess the inhibitory properties of environmental water samples by using both control virus particles and primer-sharing controls.
Cellular Response of the Amoeba Acanthamoeba castellanii to Chlorine, Chlorine Dioxide, and Monochloramine Treatments
Authors: Mogoa Emerancienne , Bodet Charles , Morel Franck , Rodier Marie-Hélène , Legube Bernard , Héchard Yann 
Published: May 2011

ABSTRACT

Acanthamoeba castellanii
is a free-living amoebae commonly found in water systems. Free-living amoebae might be pathogenic but are also known to bear phagocytosis-resistant bacteria, protecting these bacteria from water treatments. The mode of action of these treatments is poorly understood, particularly on amoebae. It is important to examine the action of these treatments on amoebae in order to improve them. The cellular response to chlorine, chlorine dioxide, and monochloramine was tested on
A. castellanii
trophozoites. Doses of disinfectants leading to up to a 3-log reduction were compared by flow cytometry and electron microscopy. Chlorine treatment led to size reduction, permeabilization, and retraction of pseudopods. In addition, treatment with chlorine dioxide led to a vacuolization of the cytoplasm. Monochloramine had a dose-dependent effect. At the highest doses monochloramine treatment resulted in almost no changes in cell size and permeability, as shown by flow cytometry, but the cell surface became smooth and dense, as seen by electron microscopy. We show that these disinfectants globally induced size reduction, membrane permeabilization, and morphological modifications but that they have a different mode of action on
A. castellanii
.
Lichenicidin Biosynthesis in Escherichia coli:
licFGEHI
Immunity Genes Are Not Essential for Lantibiotic Production or Self-Protection
Authors: Caetano Tânia , Krawczyk Joanna M. , Mösker Eva , Süssmuth Roderich D. , Mendo Sónia 
Published: May 2011

ABSTRACT

This study demonstrated, for the first time, that immunity genes
licFGEHI
are not essential for self-protection and production of the two-component lantibiotic lichenicidin in the Gram-negative heterologous host
Escherichia coli
BLic5. Additionally, it was experimentally demonstrated that lichenicidin lantibiotics are active against the
E. coli
imp4213
strain, a mutant strain possessing a permeable outer membrane.
Aeration Controls the Reduction and Methylation of Tellurium by the Aerobic, Tellurite-Resistant Marine Yeast Rhodotorula mucilaginosa
Authors: Ollivier Patrick R. L. , Bahrou Andrew S. , Church Thomas M. , Hanson Thomas E. 
Published: May 2011

ABSTRACT

We previously described a marine, tellurite-resistant strain of the yeast
Rhodotorula mucilaginosa
that both precipitates intracellular Te(0) and volatilizes methylated Te compounds when grown in the presence of the oxyanion tellurite. The uses of microbes as a “green” route for the production of Te(0)-containing nanostructures and for the remediation of Te-oxyanion wastes have great potential, and so a more thorough understanding of this process is required. Here, Te precipitation and volatilization catalyzed by
R. mucilaginosa
were examined in continuously aerated and sealed (low oxygen concentration) batch cultures. Continuous aeration was found to strongly promote Te volatilization while inhibiting Te(0) precipitation. This differs from the results in sealed batch cultures, for which tellurite reduction to Te(0) was found to be very efficient. We show also that volatile Te species may be degraded rapidly in medium and converted to the particulate form by biological activity. Further experiments revealed that Te(0) precipitates produced by
R. mucilaginosa
can be further transformed to volatile and dissolved Te species. However, it was not clearly determined whether Te(0) is a required intermediate for Te volatilization. Based on these results, we conclude that low oxygen concentrations will be the most efficient for production of Te(0) nanoparticles while limiting the production of toxic volatile Te species, although the production of these compounds may never be completely eliminated.
Disruption of a Type II Endonuclease (TDE0911) Enables Treponema denticola ATCC 35405 To Accept an Unmethylated Shuttle Vector
Authors: Bian Jiang , Li Chunhao 
Published: May 2011

ABSTRACT

The oral spirochete
Treponema denticola
is associated with human periodontal disease.
T. denticola
ATCC 35405 and ATCC 33520 are two routinely used laboratory strains. Compared to
T. denticola
ATCC 33520, ATCC 35405 is more virulent but less accessible to genetic manipulations. For instance, the shuttle vectors of ATCC 33520 cannot be transformed into strain ATCC 35405. The lack of a shuttle vector has been a barrier to study the biology and virulence of
T. denticola
ATCC 35405. In this report, we hypothesize that
T. denticola
ATCC 35405 may have a unique DNA restriction-modification (R-M) system that prevents it from accepting the shuttle vectors of ATCC 33520 (e.g., the shuttle plasmid pBFC). To test this hypothesis, DNA restriction digestion, PCR, and Southern blot analyses were conducted to identify the differences between the R-M systems of these two strains. DNA restriction digestion analysis of these strains showed that only the cell extract from ATCC 35405 was able to digest pBFC. Consistently, PCR and Southern blot analyses revealed that the genome of
T. denticola
ATCC 35405 encodes three type II endonucleases that are absent in ATCC 33520. Among these three endonucleases, TDE0911 was predicted to cleave unmethylated double-stranded DNA and to be most likely responsible for the cleavage of unmethylated pBFC. In agreement with this prediction, the mutant of
TDE0911
failed to cleave unmethylated pBFC plasmid, and it could accept the unmethylated shuttle vector. The study described here provides us with a new tool and strategy to genetically manipulate
T. denticola
, in particular ATCC 35405, and other strains that may carry similar endonucleases.
Small-Molecule Inhibition of Choline Catabolism in Pseudomonas aeruginosa and Other Aerobic Choline-Catabolizing Bacteria
Authors: Fitzsimmons Liam F. , Flemer Stevenson , Wurthmann A. Sandy , Deker P. Bruce , Sarkar Indra Neil , Wargo Matthew J. 
Published: May 2011

ABSTRACTCholine is abundant in association with eukaryotes and plays roles in osmoprotection, thermoprotection, and membrane biosynthesis in many bacteria. Aerobic catabolism of choline is widespread among soil proteobacteria, particularly those associated with eukaryotes. Catabolism of choline as a carbon, nitrogen, and/or energy source may play important roles in association with eukaryotes, including pathogenesis, symbioses, and nutrient cycling. We sought to generate choline analogues to study bacterial choline catabolismin vitroandin situ. Here we report the characterization of a choline analogue, propargylcholine, which inhibits choline catabolism at the level of Dgc enzyme-catalyzed dimethylglycine demethylation inPseudomonas aeruginosa. We used genetic analyses and13C nuclear magnetic resonance to demonstrate that propargylcholine is catabolized to its inhibitory form, propargylmethylglycine. Chemically synthesized propargylmethylglycine was also an inhibitor of growth on choline. Bioinformatic analysis suggests that there are genes encoding DgcA homologues in a variety of proteobacteria. We examined the broader utility of propargylcholine and propargylmethylglycine by assessing growth of other members of the proteobacteria that are known to grow on choline and possess putative DgcA homologues. Propargylcholine showed utility as a growth inhibitor inP. aeruginosabut did not inhibit growth in other proteobacteria tested. In contrast, propargylmethylglycine was able to inhibit choline-dependent growth in all tested proteobacteria, includingPseudomonas mendocina,Pseudomonas fluorescens,Pseudomonas putida,Burkholderia cepacia,Burkholderia ambifaria, andSinorhizobium meliloti. We predict that chemical inhibitors of choline catabolism will be useful for studying this pathway in clinical and environmental isolates and could be a useful tool to study proteobacterial choline catabolismin situ.
Secretion of Anti-Plasmodium Effector Proteins from a Natural Pantoea agglomerans Isolate by Using PelB and HlyA Secretion Signals
Authors: Bisi Dawn C. , Lampe David J. 
Published: May 2011

ABSTRACT

The insect-vectored disease malaria is a major world health problem. New control strategies are needed to supplement the current use of insecticides and medications. A genetic approach can be used to inhibit development of malaria parasites (
Plasmodium
spp.) in the mosquito host. We hypothesized that
Pantoea agglomerans
, a bacterial symbiont of
Anopheles
mosquitoes, could be engineered to express and secrete anti-
Plasmodium
effector proteins, a strategy termed paratransgenesis. To this end, plasmids that include the
pelB
or
hlyA
secretion signals from the genes of related species (pectate lyase from
Erwinia carotovora
and hemolysin A from
Escherichia coli
, respectively) were created and tested for their efficacy in secreting known anti-
Plasmodium
effector proteins (SM1, anti-Pbs21, and PLA2) in
P. agglomerans
and
E. coli
.
P. agglomerans
successfully secreted HlyA fusions of anti-Pbs21 and PLA2, and these strains are under evaluation for anti-
Plasmodium
activity in infected mosquitoes. Varied expression and/or secretion of the effector proteins was observed, suggesting that the individual characteristics of a particular effector may require empirical testing of several secretion signals. Importantly, those strains that secreted efficiently grew as well as wild-type strains under laboratory conditions and, thus, may be expected to be competitive with the native microbiota in the environment of the mosquito midgut.
Development of a Real-Time PCR Assay for Detection and Quantification of Rhizobium leguminosarum Bacteria and Discrimination between Different Biovars in Zinc-Contaminated Soil
Authors: Macdonald Catriona A. , Clark Ian M. , Hirsch Penny R. , Zhao Fang-Jie , McGrath Steve P. 
Published: May 2011

ABSTRACT

Primers were designed to target 16S rRNA and
nodD
genes of
Rhizobium leguminosarum
from DNA extracted from two different soil types contaminated with Zn applied in sewage sludge. Numbers of rhizobia estimated using 16S rRNA gene copy number showed higher abundance than those estimated by both
nodD
and the most-probable-number (MPN) enumeration method using a plant trap host. Both 16S rRNA gene copies and the MPN rhizobia declined with increased levels of Zn contamination, as did the abundance of the functional gene
nodD
, providing compelling evidence of a toxic effect of Zn on
R. leguminosarum
populations in the soil. Regression analysis suggested the total Zn concentration in soil as a better predictor of rhizobial numbers than both NH
4
NO
3
-extractable and soil solution Zn.
R. leguminosarum
bv. viciae
nodD
gene copies were generally less sensitive to Zn than
R. leguminosarum
bv. trifolii
nodD.
The latter were generally below detection limits at Zn levels of >250 mg kg
−1
. Although there were differences in the actual numbers estimated by each approach, the response to Zn was broadly similar across all methods. These differences were likely to result from the fact that the molecular approaches assess the potential for nodulation while the MPN approach assesses actual nodulation. The results demonstrate that the use of targeted gene probes for assessing environmental perturbations of indigenous soil rhizobial populations may be more sensitive than the conventional plant bioassay and MPN methods.
Culture-Independent Analysis of Bacterial Fuel Contamination Provides Insight into the Level of Concordance with the Standard Industry Practice of Aerobic Cultivation
Authors: White Judith , Gilbert Jack , Hill Graham , Hill Edward , Huse Susan M. , Weightman Andrew J. , Mahenthiralingam Eshwar 
Published: May 2011

ABSTRACT

Bacterial diversity in contaminated fuels has not been systematically investigated using cultivation-independent methods. The fuel industry relies on phenotypic cultivation-based contaminant identification, which may lack accuracy and neglect difficult-to-culture taxa. By the use of industry practice aerobic cultivation, 16S rRNA gene sequencing, and strain genotyping, a collection of 152 unique contaminant isolates from 54 fuel samples was assembled, and a dominance of
Pseudomonas
(21%),
Burkholderia
(7%), and
Bacillus
(7%) was demonstrated. Denaturing gradient gel electrophoresis (DGGE) of 15 samples revealed
Proteobacteria
and
Firmicutes
to be the most abundant phyla. When 16S rRNA V6 gene pyrosequencing of four selected fuel samples (indicated by “JW”) was performed,
Betaproteobacteria
(42.8%) and
Gammaproteobacteria
(30.6%) formed the largest proportion of reads; the most abundant genera were
Marinobacter
(15.4%; JW57),
Achromobacter
(41.6%; JW63),
Burkholderia
(80.7%; JW76), and
Halomonas
(66.2%; JW78), all of which were also observed by DGGE. However, the
Clostridia
(38.5%) and
Deltaproteobacteria
(11.1%) identified by pyrosequencing in sample JW57 were not observed by DGGE or aerobic culture. Genotyping revealed three instances where identical strains were found: (i) a
Pseudomonas
sp. strain recovered from 2 different diesel fuel tanks at a single industrial site; (ii) a
Mangroveibacter
sp. strain isolated from 3 biodiesel tanks at a single refinery site; and (iii) a
Burkholderia
vietnamiensis
strain present in two unrelated automotive diesel samples. Overall, aerobic cultivation of fuel contaminants recovered isolates broadly representative of the phyla and classes present but lacked accuracy by overrepresenting members of certain groups such as
Pseudomonas
.
Patchwork Assembly of
nag
-Like Nitroarene Dioxygenase Genes and the 3-Chlorocatechol Degradation Cluster for Evolution of the 2-Chloronitrobenzene Catabolism Pathway in Pseudomonas stutzeri ZWLR2-1
Authors: Liu Hong , Wang Shu-Jun , Zhang Jun-Jie , Dai Hui , Tang Huiru , Zhou Ning-Yi 
Published: May 2011

ABSTRACT

Pseudomonas stutzeri
ZWLR2-1 utilizes 2-chloronitrobenzene (2CNB) as a sole source of carbon, nitrogen, and energy. To identify genes involved in this pathway, a 16.2-kb DNA fragment containing putative 2CNB dioxygenase genes was cloned and sequenced. Of the products from the 19 open reading frames that resulted from this fragment, CnbAc and CnbAd exhibited striking identities to the respective α and β subunits of the Nag-like ring-hydroxylating dioxygenases involved in the metabolism of nitrotoluene, nitrobenzene, and naphthalene. The encoding genes were also flanked by two copies of insertion sequence IS
6100
. CnbAa and CnbAb are similar to the ferredoxin reductase and ferredoxin for anthranilate 1,2-dioxygenase from
Burkholderia cepacia
DBO1.
Escherichia coli
cells expressing
cnbAaAbAcAd
converted 2CNB to 3-chlorocatechol with concomitant nitrite release. Cell extracts of
E. coli
/pCNBC exhibited chlorocatechol 1,2-dioxygenase activity. The
cnbCDEF
gene cluster, homologous to a 3-chlorocatechol degradation cluster in
Sphingomonas
sp. strain TFD44, probably contains all of the genes necessary for the conversion of 3-chlorocatechol to 3-oxoadipate. The patchwork-like structure of this catabolic cluster suggests that the
cnb
cluster for 2CNB degradation evolved by recruiting two catabolic clusters encoding a nitroarene dioxygenase and a chlorocatechol degradation pathway. This provides another example to help elucidate the bacterial evolution of catabolic pathways in response to xenobiotic chemicals.
Selective Quantification of Viable Escherichia coli Bacteria in Biosolids by Quantitative PCR with Propidium Monoazide Modification
Authors: Taskin Bilgin , Gozen Ayse Gul , Duran Metin 
Published: May 2011

ABSTRACT

Quantitative differentiation of live cells in biosolids samples, without the use of culturing-based approaches, is highly critical from a public health risk perspective, as recent studies have shown significant regrowth and reactivation of indicator organisms. Persistence of DNA in the environment after cell death in the range of days to weeks limits the application of DNA-based approaches as a measure of live cell density. Using selective nucleic acid intercalating dyes like ethidium monoazide (EMA) and propidium monoazide (PMA) is one of the alternative approaches to detecting and quantifying viable cells by quantitative PCR. These compounds have the ability to penetrate only into dead cells with compromised membrane integrity and intercalate with DNA via their photoinducible azide groups and in turn inhibit DNA amplification during PCRs. PMA has been successfully used in different studies and microorganisms, but it has not been evaluated sufficiently for complex environmental samples such as biosolids. In this study, experiments were performed with
Escherichia coli
ATCC 25922 as the model organism and the
uidA
gene as the target sequence using real-time PCR via the absolute quantification method. Experiments with the known quantities of live and dead cell mixtures showed that PMA treatment inhibits PCR amplification from dead cells with over 99% efficiency. The results also indicated that PMA-modified quantitative PCR could be successfully applied to biosolids when the total suspended solids (TSS) concentration is at or below 2,000 mg·liter
−1
.
Shewanella oneidensis MR-1 Sensory Box Protein Involved in Aerobic and Anoxic Growth
Authors: Sundararajan A. , Kurowski J. , Yan T. , Klingeman D. M. , Joachimiak M. P. , Zhou J. , Naranjo B. , Gralnick J. A. , Fields M. W. 
Published: May 2011

ABSTRACTAlthough little is known of potential function for conserved signaling proteins, it is hypothesized that such proteins play important roles to coordinate cellular responses to environmental stimuli. In order to elucidate the function of a putative sensory box protein (PAS domains) inShewanella oneidensisMR-1, the physiological role of SO3389 was characterized. The predicted open reading frame (ORF) encodes a putative sensory box protein that has PAS, GGDEF, and EAL domains, and an in-frame deletion mutant was constructed (ΔSO3389) with approximately 95% of the ORF deleted. Under aerated conditions, wild-type and mutant cultures had similar growth rates, but the mutant culture had a lower growth rate under static, aerobic conditions. Oxygen consumption rates were lower for mutant cultures (1.5-fold), and wild-type cultures also maintained lower dissolved oxygen concentrations under aerated growth conditions. When transferred to anoxic conditions, the mutant did not grow with fumarate, iron(III), or dimethyl sulfoxide (DMSO) as electron acceptors. Biochemical assays demonstrated the expression of differentc-type cytochromes as well as decreased fumarate reductase activity in the mutant transferred to anoxic growth conditions. Transcriptomic studies showed the inability of the mutant to up-express and down-express genes, includingc-type cytochromes (e.g., SO4047/SO4048, SO3285/SO3286), reductases (e.g., SO0768, SO1427), and potential regulators (e.g., SO1329). The complemented strain was able to grow when transferred from aerobic to anoxic growth conditions with the tested electron acceptors. The modeled structure for the SO3389 PAS domains was highly similar to the crystal structures of FAD-binding PAS domains that are known O2/redox sensors. Based on physiological, genomic, and bioinformatic results, we suggest that the sensory box protein, SO3389, is an O2/redox sensor that is involved in optimization of aerobic growth and transitions to anoxia inS. oneidensisMR-1.