bluuebunny/crossref_metadata_2025_split huggingface dataset:
KefF, the Regulatory Subunit of the Potassium Efflux System KefC, Shows Quinone Oxidoreductase Activity
Authors: Lyngberg Lisbeth , Healy Jessica , Bartlett Wendy , Miller Samantha , Conway Stuart J. , Booth Ian R. , Rasmussen Tim 
Published: July 2011

ABSTRACT

Escherichia coli
and many other Gram-negative pathogenic bacteria protect themselves from the toxic effects of electrophilic compounds by using a potassium efflux system (Kef). Potassium efflux is coupled to the influx of protons, which lowers the internal pH and results in immediate protection. The activity of the Kef system is subject to complex regulation by glutathione and its S conjugates. Full activation of KefC requires a soluble ancillary protein, KefF. This protein has structural similarities to oxidoreductases, including human quinone reductases 1 and 2. Here, we show that KefF has enzymatic activity as an oxidoreductase, in addition to its role as the KefC activator. It accepts NADH and NADPH as electron donors and quinones and ferricyanide (in addition to other compounds) as acceptors. However, typical electrophilic activators of the Kef system, e.g.,
N
-ethyl maleimide, are not substrates. If the enzymatic activity is disrupted by site-directed mutagenesis while retaining structural integrity, KefF is still able to activate the Kef system, showing that the role as an activator is independent of the enzyme activity. Potassium efflux assays show that electrophilic quinones are able to activate the Kef system by forming S conjugates with glutathione. Therefore, it appears that the enzymatic activity of KefF diminishes the redox toxicity of quinones, in parallel with the protection afforded by activation of the Kef system.
Genome Sequence of the Ethanol-Producing Zymomonas mobilis subsp. pomaceae Lectotype Strain ATCC 29192
Authors: Kouvelis Vassili N. , Davenport Karen W. , Brettin Thomas S. , Bruce David , Detter Chris , Han Cliff S. , Nolan Matt , Tapia Roxanne , Damoulaki Agni , Kyrpides Nikos C. , Typas Milton A. , Pappas Katherine M. 
Published: July 2011

ABSTRACT

Zymomonas mobilis
is an alphaproteobacterium studied for bioethanol production. Different strains of this organism have been hitherto sequenced; they all belong to the
Z. mobilis
subsp.
mobilis
taxon. Here we report the finished and annotated genome sequence of strain ATCC 29192, a cider-spoiling agent isolated in the United Kingdom. ATCC 29192 is the lectotype of the second-best-characterized subspecies of
Z. mobilis
,
Z. mobilis
subsp.
pomaceae
. The nucleotide sequence of ATCC 29192 deviates from that of
Z. mobilis
subsp.
mobilis
representatives, which justifies its distinct taxonomic positioning and proves particularly useful for comparative and functional genomic analyses.
Complete Genome Sequence of the Commensal Streptococcus salivarius Strain JIM8777
Authors: Guédon Eric , Delorme Christine , Pons Nicolas , Cruaud Corinne , Loux Valentin , Couloux Arnaud , Gautier Céline , Sanchez Nicolas , Layec Séverine , Galleron Nathalie , Almeida Mathieu , van de Guchte Maarten , Kennedy Sean P. , Ehrlich S. Dusko , Gibrat Jean-François , Wincker Patrick , Renault Pierre 
Published: July 2011

ABSTRACT

The commensal bacterium
Streptococcus salivarius
is a prevalent species of the human oropharyngeal tract with an important role in oral ecology. Here, we report the complete 2.2-Mb genome sequence and annotation of strain JIM8777, which was recently isolated from the oral cavity of a healthy, dentate infant.
Complete Genome Sequence of the Clinical Streptococcus salivarius Strain CCHSS3
Authors: Delorme Christine , Guédon Eric , Pons Nicolas , Cruaud Corinne , Couloux Arnaud , Loux Valentin , Chiapello Hélène , Poyart Claire , Gautier Céline , Sanchez Nicolas , Almeida Mathieu , Kennedy Sean P. , Ehrlich S. Dusko , Gibrat Jean-François , Wincker Patrick , Renault Pierre 
Published: July 2011

ABSTRACT

Streptococcus salivarius
is a commensal species commonly found in the human oral cavity and digestive tract, although it is also associated with human infections such as meningitis, endocarditis, and bacteremia. Here, we report the complete sequence of
S. salivarius
strain CCHSS3, isolated from human blood.
Draft Genome Sequence of the Paenibacillus polymyxa Type Strain (ATCC 842
T
), a Plant Growth-Promoting Bacterium
Authors: Jeong Haeyoung , Park Soo-Young , Chung Won-Hyong , Kim Sun Hong , Kim Namshin , Park Seung-Hwan , Kim Jihyun F. 
Published: July 2011

ABSTRACT

Paenibacillus polymyxa
is an endospore-forming Gram-positive soil bacterium that is well-known for its ability to promote plant growth. Here we report the draft genome sequence of
P. polymyxa
ATCC 842
T
, the type strain of the species
P. polymyxa
, and the family
Paenibacillaceae
. The
P. polymyxa
genome contains a repertoire of biosynthetic genes for antibiotics and hydrolytic enzymes that account for its beneficial effects in the rhizosphere to the host plants it associates with.
Genome Sequence of the Nonpathogenic Listeria monocytogenes Serovar 4a Strain M7
Authors: Chen Jianshun , Xia Ye , Cheng Changyong , Fang Chun , Shan Ying , Jin Gulei , Fang Weihuan 
Published: July 2011

ABSTRACTThis report presents the complete and annotated genome sequence of the naturally nonpathogenicListeria monocytogenesserovar 4a strain M7, isolated from cow's milk in Zhejiang province, China.
Draft Genome Sequence of Gordonia neofelifaecis NRRL B-59395, a Cholesterol-Degrading Actinomycete
Authors: Ge Fanglan , Li Wei , Chen Guiying , Liu Yuchang , Zhang Guangxiang , Yong Bin , Wang Qiong , Wang Nan , Huang Zhumei , Li Weitian , Wang Jing , Wu Cheng , Xie Qian , Liu Gang 
Published: July 2011

ABSTRACT

We report a draft sequence of the genome of
Gordonia neofelifaecis
NRRL B-59395, a cholesterol-degrading actinomycete isolated from fresh feces of a clouded leopard (
Neofelis nebulosa
). As predicted, the reported genome contains several gene clusters for cholesterol degradation. This is the second available genome sequence of the family
Gordoniaceae
.
Genome Sequence of Lactobacillus salivarius GJ-24, a Probiotic Strain Isolated from Healthy Adult Intestine
Authors: Cho Yong-Joon , Choi Jae Kyoung , Kim Ji-Hee , Lim Yea-Seul , Ham Jun-Sang , Kang Dae-Kyung , Chun Jongsik , Paik Hyun-Dong , Kim Geun-Bae 
Published: July 2011

ABSTRACT

The draft genome sequence of
Lactobacillus salivarius
GJ-24 isolated from the feces of healthy adults was determined. Its properties, including milk fermentation activity and bacteriocin production, suggest its potential uses as a probiotic lactic acid bacterium and start culture for dairy products.
Whole-Genome Sequence of a Multidrug-Resistant Clinical Isolate of Acinetobacter lwoffii
Authors: Hu Yongfei , Zhang Wei , Liang Hui , Liu Liping , Peng Guojun , Pan Yuanlong , Yang Xi , Zheng Beiwen , Gao George F. , Zhu Baoli , Hu Hongyan 
Published: July 2011

ABSTRACT

Acinetobacter lwoffii
has been considered an opportunistic pathogen that can cause nosocomial infections in humans. Here, we present the genome sequence of
A. lwoffii
WJ10621, a multidrug-resistant clinical isolate that carries a plasmid with the NDM-1 resistance gene.
Genome Sequence of
Rhodococcus
sp. Strain R04, a Polychlorinated-Biphenyl Biodegrader
Authors: Yang Xiuqing , Xue Rui , Shen Chong , Li Shuren , Gao Chong , Wang Qi , Zhao Xiaoxia 
Published: July 2011

ABSTRACT

The genus
Rhodococcus
has proved to be a promising option for the cleanup of polluted sites and application of a microbial biocatalyst.
Rhodococcus
sp. strain R04, isolated from oil-contaminated soil, can biodegrade polychlorinated biphenyls. Here we report the draft genome sequence of
Rhodococcus
sp. strain R04, which could be used to predict genes for xenobiotic biodegradation and provide important insights into the applications of this strain.
Genome Sequence of the Newly Isolated Chemolithoautotrophic Bradyrhizobiaceae Strain SG-6C
Authors: Pearce Stephen L. , Pandey Rinku , Dorrian Susan J. , Russell Robyn J. , Oakeshott John G. , Pandey Gunjan 
Published: July 2011

ABSTRACTStrain SG-6C (DSM 23264, CCM 7827) is a chemolithoautotrophic bacterium of the familyBradyrhizobiaceae. It can also grow heterotrophically under appropriate environmental conditions. Here we report the annotated genome sequence of this strain in a single 4.3-Mb circular scaffold.
Genome Sequence of Lactobacillus cypricasei KCTC 13900
Authors: Kim Dae-Soo , Choi Sang-Haeng , Kim Dong-Wook , Kim Ryong Nam , Nam Seong-Hyeuk , Kang Aram , Kim Aeri , Park Hong-Seog 
Published: July 2011

ABSTRACTLactobacillus cypricaseiKCTC 13900 is important in the generation of particular flavors and in other ripening processes associated with specific cheeses. Here, we announce the draft genome sequence ofLactobacillus cypricaseiKCTC 13900, isolated from cheeses, and describe major findings from its annotation.
Complete Genome Sequence of the Type Strain Cupriavidus necator N-1
Authors: Poehlein Anja , Kusian Bernhard , Friedrich Bärbel , Daniel Rolf , Bowien Botho 
Published: July 2011

ABSTRACT

Here we announce the complete genome sequence of the copper-resistant bacterium
Cupriavidus necator
N-1, the type strain of the genus
Cupriavidus
. The genome consists of two chromosomes and two circular plasmids. Based on genome comparison, the chromosomes of
C. necator
N-1 share a high degree of similarity with the two chromosomal replicons of the bioplastic-producing hydrogen bacterium
Ralstonia eutropha
H16. The two strains differ in their plasmids and the presence of hydrogenase genes, which are absent in strain N-1.
Draft Genome Sequence of Lactobacillus mali KCTC 3596
Authors: Kim Dong-Wook , Choi Sang-Haeng , Kang Aram , Nam Seong-Hyeuk , Kim Dae-Soo , Kim Ryong Nam , Kim Aeri , Park Hong-Seog 
Published: July 2011

ABSTRACT

We announce the draft genome sequence of the type strain
Lactobacillus mali
KCTC 3596 (2,652,969 bp, with a G+C content of 36.0%), which is one of the most prevalent lactic acid bacteria present during the manufacturing process of apple juice. The genome consists of 122 large contigs (>100 bp). All of the contigs were assembled by Newbler Assembler 2.3 (454 Life Science).
Collagen triple helix repeat containing 1 protein, periostin and versican in primary and metastatic breast cancer: an immunohistochemical study
Authors: Kharaishvili Gvantsa , Cizkova Magdalena , Bouchalova Katerina , Mgebrishvili Giorgi , Kolar Zdenek , Bouchal Jan 
Published: July 2011

BackgroundCollagen triple helix repeat containing 1 (CTHRC1) affects Wnt signalling, collagen deposition and bone formation. It is an extracellular matrix protein which is also abnormally expressed in the tumour microenvironment. CTHRC1 has not been studied in breast cancer by immunohistochemistry.AimsTo examine expression of CTHRC1 together with periostin and versican in breast cancer patients and investigate its association with clinicopathological characteristics.MethodsThe formalin-fixed paraffin-embedded tissues of 173 invasive carcinomas (classified into WHO histotypes and luminal, triple negative and Her2 subtypes), as well as normal tissues, precursor lesions and metastatic lymph nodes were stained by relevant antibodies, assessed semiquantitatively by histoscore and statistically evaluated.ResultsExpression of CTHRC1, versican and periostin was significantly higher in breast cancer than in normal tissue or precursor lesions. CTHRC1 stromal expression was enhanced in triple negative cases and also in patients with bone metastasis. Periostin expression was high in primary tumours, in particular triple negative ones, and also in their lymph node metastases. Cox regression analysis showed that in patients with high periostin, the risk of bone metastases increased with increased CTHRC1 expression.ConclusionsCTHRC1 and periostin play important roles in breast cancer progression. These preliminary results show that combined evaluation of CTHRC1 and periostin could serve as a potential marker for breast cancer bone metastasis; the other observations contribute to the description of the tumour microenvironment, with implications for lymph node and bone metastasis.
Retrospective case series analysis of penicillin allergy testing in a UK specialist regional allergy clinic
Authors: Richter A G , Wong G , Goddard S , Heslegrave J , Derbridge C , Srivastava S , Diwakar L , Huissoon A P , Krishna M T 
Published: July 2011

IntroductionPenicillin allergy is the most common drug allergy. Skin testing for the major (PPL) and minor determinants (MDMs) of penicillin offers increased sensitivity and specificity overin vitrotesting alone. Following a worldwide absence of reagents, a new kit was licensed in the UK in 2008 (Diater, Spain) and this report evaluates its use in a UK specialist allergy clinic.MethodsProspective data on 50 consecutive patients tested with the new reagents were collected. The departmental protocol is adapted from the 2003 EAACI position paper.Results14% (7/50) and 12% (6/50) of patients were diagnosed with immediate and non-immediate reactions respectively. The negative predictive value of the PPL and MDM reagents at the neat concentration for an immediate reaction was 93% (true negatives 37, false negatives 3). Two patients experienced systemic reactions to DPT in the absence of demonstrable specific IgE. None of the patients were diagnosed using skin prick testing alone or at lower concentrations of IDT. Five patients were diagnosed at the IDT stage and two at the DPT stage in the absence of demonstrable specific IgE. Six patients were diagnosed with non-immediate reactions, two on IDT alone and four following IDT and DPT.ConclusionThe new PPL and MDM determinants offer enhanced sensitivity when evaluating β-lactam hypersensitivity; however, there are limitations to the current testing regimens. The UK would benefit from local guidelines, which incorporate the new reagents and acknowledge the high amoxicillin prescription rate and the relatively lower specialist-to-patient ratio in this country.
S8.4 Laboratory harmonisation and quality-assurance issues: challenges and opportunities
Authors: Ison C 
Published: July 2011

There are significant gaps in gonococcal susceptibility data particularly in high-burden countries. Laboratory detection of gonococci with reduced susceptibility to azithromycin and cephalosporins is of particular concern. Coordinated and standardised laboratory testing approaches that ensure quality assurance are vital to detect emerging resistance and optimise treatment.This presentation will explore current gaps and identify opportunities, including roles of laboratory networks, in building regional diagnostic capacity.
S8.5 Global action plan to combat antimicrobial resistance inNeisseria gonorrhoeae: challenges and opportunities
Authors: Ndowa F J 
Published: July 2011

The WHO is drafting a strategic response to the threat of untreatableNeisseria gonorrhoeae. The main objective of the Global Action Plan to combat AMR inN gonorrhoeaeis to devise nationally and regionally appropriate public health actions to address this global threat. This includes technical and programmatic guidance to countries, regions and global stakeholders.This presentation will discuss the basic elements of the draft WHO Action Plan.
S10.3 Sexual health in MSM—coordination and agenda setting in Europe
Authors: Van de Laar M 
Published: July 2011

The European Centre for Disease Prevention and Control (ECDC) has a strong mandate with respect to surveillance of communicable disease in the European Union but a less strong mandate regarding prevention and control as this remains the responsibility of individual Member States. However, ECDC has produced several guidance documents and user-friendly toolkits to support public health decision makers and experts in the Member States to strengthen available prevention and control activities.In the light of (1) increasing trends of STI and the continuous rise in the number of newly diagnosed HIV infections among MSM and (2) the evidence for increased high-risk sexual behaviour and the widespread sexual mixing among MSM in Western Europe, ECDC has assessed effectiveness of behavioural and psychosocial HIV/STI prevention interventions for MSM in Europe and concluded that there is an overall deficit in outcome evaluations of interventions aimed at reducing HIV/STI risk behaviour among MSM in Europe.Following this background, ECDC has launched an additional project to include a review and assessment of the following: interventions aiming at knowledge, attitudes and beliefs and influencing psychological and social risk correlates (eg, media campaigns, interpersonal education programmes, sexual health education, safer sex promotion, detached education, outreach work, prevention counselling, peer education, community level interventions). Interventions aiming at lowering the risk of behaviour (eg, condom distribution, provision of paraphernalia for safer sex) The final report contains a compilation and summary of publications regarding outbreaks and increasing trends of HIV and STI, an update of different prevention interventions targeted at MSM as well of interventions planned and carried out within the framework of programmatic responses to the HIV epidemic as well as interventions following outbreaks or other events, a review of evaluation of different interventions and synthesis the evidence base for preventive interventions, and a synopsis of identified knowledge gaps.Based on the review and the assessment, a platform for multidisciplinary expert consultation will be organised in August 2011 (including epidemiologists, prevention experts, social behaviour scientists, representatives of civil society, Member States, NGOs, and other key stakeholders) to discuss the needs and challenges for coordination at EU level.
S13.3 An empirical evaluation of respondent-driven sampling
Authors: McCreesh N , Frost S , Seeley J , Katongole J , Tarsh M Ndagire , Ndungutse R , Jichi F , Maher D , Sonnenberg P , Copas A , Hayes R J , White R G 
Published: July 2011

ObjectiveRespondent-driven sampling (RDS) is an increasingly widely used variant of snowball sampling, that proponents claim can provide unbiased estimates. RDS has not been rigorously evaluated in the field. This study evaluated RDS by comparing estimates from an RDS survey with total-population data.MethodsTotal-population data on age, tribe, religion, socioeconomic status, sexual activity and HIV status were available on a population of 2402 male household-heads from an open cohort in rural Uganda. An RDS survey was carried out in this population, employing current RDS methods of sampling (RDS-sample) and statistical inference (RDS-estimates). Analyses were repeated for the full RDS sample and a small sample of the first 250 recruits (including 10 seeds).Results927 household-heads were recruited (including 10 seeds). Full and small RDS-samples were largely representative of the total-population for most variables, but under-represented men who were younger, of higher socioeconomic status, and with unknown sexual activity and HIV status. RDS statistical inference methods failed to reduce these biases. Only 31–37% (depending on method and sample size) of RDS-estimates were closer to the true population proportions than the RDS-sample proportions. Only 50–74% of RDS bootstrap 95% CIs included the population proportion.ConclusionsRDS produced a generally representative sample of this well-connected non-hidden population. However, current RDS inference methods failed to reduce bias when it occurred. Whether RDS can collect the data required to reliably remove bias and measure precision during analysis is unresolved. As such, although RDS may be a feasible and cost-effective method for sampling hidden or hard-to-reach populations, RDS should still be regarded as a (potentially superior) form of convenience sample, and caution is required when interpreting findings from RDS studies.
S2.2 Increasing access to HIV and syphilis screening in remote areas using rapid tests
Authors: Benzaken A , Pinto V M , Carvalho C H , Peeling R 
Published: July 2011

BackgroundSyphilis continues to be a public health problem in Brazil, particularly among populations with limited access to health services. Indigenous populations, who live in remote locations in the interior of the Amazon forest, are of even greater concern. Traditional laboratory tests for the diagnosis of syphilis are scarce in these regions. The objective of this presentation is to describe the implementation of rapid tests (RT) in the Amazon region.MethodsWe trained health professionals of 9 Special Indigenous Health Districts (DSEI) to screen the sexually active population (over 10 years of age) for syphilis and HIV using RT with Quality Assurance (QA).ResultsIn total, 509 health professionals were trained and 160 units participated in the screening efforts. From a sexually active population of 83 311 indigenous people 38 799 (47%) were tested, of whom 594 (1.5%) tested positive for syphilis. 44/3650 pregnant women (1.3%) tested positive for syphilis, and 3 for HIV (0.1%). There is extensive variation between the rate of syphilis and HIV positivity between DSEIs (Abstract S2.2 table 1). The external QA performance was important in assuring correct results as initial scores were 77.1% for the HIV test and 61.5% for the syphilis test.Abstract S2.2 Table 1Syphilis and HIV screening progressDSEI# Screened / sexually active population (%)Syphilis prevalence in sexually active populationHIV prevalence in sexually active populationSyphilis prevalence in pregnant womenHIV prevalence in pregnant womenManaus5.957/10.980 (54.2%)1.51%0.08%3/327 (0.93%)0/323 (0.0%)Yanomani1.757/4.317 (40.7%)0.06%0.17%1/284 (0.35%)2/284 (0.70%)Leste roraima2.666/4.038 (66.0%)0.41%0.08%2/567 (0.40%)0/472 (0.0%)Alto solimões19.147/25.322 (75.6%)1.90%0.13%30/1.412 (2.27%)0/1.272 (0.0%)Parintins2.324/4.904 (47.4%)0.34%0.04%1/254 (0.39%)0/253 (0.0%)Alto rio Negro4.892/19.872 (24.6%)0.72%0.08%4/639 (0.72%)0/561 (0.0%)Médio solimões580/9.092 (6.4%)2.59%0.0%0/77 (0.0%)0/76 (0.0%)Médio purus330/2.950 (11.2%)0%0.0%0/20 (0.0%)0/20 (0.0%)Vale do javari1.147/2.563 (44.7%)6.10%0.17%3/70 (4.29%)1/70 (1.43%)Total38.799/83.311 (46.6%)594/38.799 (1.53%)41/38.799 (0.11%)44/3.650 (1.29%)3/3.650 (0.09%)ConclusionsThis project has demonstrated to policy makers in Brazil the existence of syphilis and HIV among indigenous people and the feasibility of addressing it. As a result of this work, it is now government policy to use RT to screen for HIV and syphilis with QA in remote regions of Brazil. This project provided a model for the introduction of point of care tests supported by a QA programme in remote regions.