bluuebunny/crossref_metadata_2025_split huggingface dataset:
Early Detection of Circulating Antigen and IgM-Associated Immune Complexes during Experimental Mycobacterium bovis Infection in Cattle
Authors: Lyashchenko Konstantin P. , Greenwald Rena , Sikar-Gang Alina , Sridhara Archana A. , Johnathan Ashley , Lambotte Paul , Esfandiari Javan , Maggioli Mayara F. , Thacker Tyler C. , Palmer Mitchell V. , Waters W. Ray 
Published: April 2017

ABSTRACT

The presence of circulating antigen in cattle experimentally infected with
Mycobacterium bovis
was demonstrated using dual-path platform (DPP) technology. The antigen capture immunoassays employed rabbit polyclonal antibody recognizing predominantly
M. tuberculosis
complex-specific epitopes and were able to detect soluble substances and whole cells of mycobacteria. The antigen found in serum appeared to be mostly bound to IgM, but not to IgG, within the immune complexes formed at early stages of
M. bovis
infection. The antigen was also detected in bile and urine, indicating possible clearance pathways. The data correlation analyses supported the idea of the role of IgM responses in antigen persistence during
M. bovis
infection. The antigen was detectable in serum months prior to detectable antibody seroconversion. This proof-of-concept study suggested the potential for improved immunodiagnostics for bovine tuberculosis.
Draft Genome Sequence of Roseomonas mucosa Strain AU37, Isolated from a Peripheral Intravenous Catheter
Authors: Abu Choudhury Md , Wailan Alexander M. , Sidjabat Hanna E. , Zhang Li , Marsh Nicole , Rickard Claire M. , Davies Mark R. , McMillan David J. 
Published: April 2017

ABSTRACT

Roseomonas mucosa
is an opportunistic pathogen that causes infections in humans and is often associated with vascular catheter-related bacteremia. Here, we report the draft genome sequence of
Roseomonas mucosa
strain AU37, isolated from a peripheral intravenous catheter tip.
Insights into the Psychrophilic and Sea Ice-Specific Lifestyle of
Marinobacter
sp. Strain AC-23: a Genomic Approach
Authors: Kapse Neelam , Singh Purnima , Roy Utpal , Singh Shiv Mohan , Dhakephalkar Prashant K. 
Published: April 2017

ABSTRACT

Marinobacter
sp. strain AC-23 was isolated from Kongsfjorden in the Arctic. Here, we report the first draft genome sequence of a putative novel species of the genus
Marinobacter
comprising 4,149,715 bp, with a mean G+C content of 54.4%. The draft genome sequence will aid in understanding the psychrophilic and sea ice-specific lifestyle.
The Genome Sequence of Avibacterium paragallinarum Strain CL Has a Large Repertoire of Insertion Sequence Elements
Authors: Horta-Valerdi Guillermo , Sanchez-Alonso Maria Patricia , Perez-Marquez Victor M. , Negrete-Abascal Erasmo , Vaca-Pacheco Sergio , Hernandez-Gonzalez Ismael , Gomez-Lunar Zulema , Olmedo-Álvarez Gabriela , Vázquez-Cruz Candelario 
Published: April 2017

ABSTRACT

The draft genome sequence of
Avibacterium paragallinarum
strain CL serovar C is reported here. The genome comprises 154 contigs corresponding to 2.4 Mb with 41% G+C content and many insertion sequence (IS) elements, a characteristic not previously reported in
A. paragallinarum
.
Draft Genome Sequence of Methicillin-Resistant Staphylococcus aureus Strain LC33 Isolated from Human Breast Milk
Authors: de Almeida Jéssica B. , de Carvalho Suzi P. , de Freitas Leandro M. , Guimarães Ana Marcia S. , do Nascimento Naíla C. , dos Santos Andrea P. , Messick Joanne B. , Timenetsky Jorge , Marques Lucas M. 
Published: April 2017

ABSTRACT

Here, we report the draft genome sequence of
Staphylococcus aureus
strain LC33, isolated from human breast milk in Brazil. This microorganism has been typed as ST1/t127/sccmecV. To our knowledge, this is the first draft genome sequence of a methicillin-resistant
S. aureus
strain isolated from human breast milk.
Genome Sequence of Pasteurella multocida Razi 0002 of Avian Origin
Authors: Sprague Lisa D. , Tadayon Keyvan 
Published: April 2017

ABSTRACT

We report here on the genome sequence of
Pasteurella multocida
Razi 0002 of avian origin, isolated in Iran. The genome has a size of 2,289,036 bp, a G+C content of 40.3%, and is predicted to contain 2,079 coding sequences.
Complete Genome Sequence of Komagataeibacter hansenii Strain HUM-1
Authors: Pfeffer Sarah , Santos Richard , Ebels Marcus , Bordbar Darius , Brown R. Malcolm 
Published: April 2017

ABSTRACT

This study reports the release of the complete nucleotide sequence of
Komagataeibacter hansenii
HUM-1, a new efficient producer of cellulose. Elucidation of the genome may provide more information to aid in understanding the genes necessary for cellulose biosynthesis.
Complete Genome Sequence of Komagataeibacter hansenii LMG 23726
T
Authors: Pfeffer Sarah , Santos Richard , Ebels Marcus , Bordbar Darius , Brown R. Malcolm 
Published: April 2017

ABSTRACT

This study reports the release of the complete nucleotide sequence of
Komagataeibacter hansenii
LMG 23726
T
. This organism is a cellulose producer, and its genome may provide more information to aid in the understanding of the genes necessary for cellulose biosynthesis.
Draft Genome Sequence of the Fish Pathogen Flavobacterium columnare Strain CSF-298-10
Authors: Evenhuis Jason P. , LaPatra Scott E. , Graf Joerg 
Published: April 2017

ABSTRACT

We announce here the draft genome assembly of
Flavobacterium columnare
CSF-298-10, a strain isolated from an outbreak of columnaris disease at a commercial trout farm in Hagerman Valley, Idaho, USA. The complete genome consists of 13 contigs totaling 3,284,579 bp, with an average G+C content of 31.5% and 2,933 predicted coding genes.
Permanent Draft Genome Sequences of Three
Frankia
sp. Strains That Are Atypical, Noninfective, Ineffective Isolates
Authors: Gueddou Abdellatif , Swanson Erik , Ktari Amir , Nouioui Imen , Hezbri Karima , Ghodhbane-Gtari Faten , Simpson Stephen , Morris Krystalynne , Thomas W. Kelley , Sen Arnab , Gtari Maher , Tisa Louis S. 
Published: April 2017

ABSTRACT

Here, we present draft genome sequences for three atypical
Frankia
strains (lineage 4) that were isolated from root nodules but are unable to reinfect actinorhizal plants. The genome sizes of
Frankia
sp. strains EUN1h, BMG5.36, and NRRL B16386 were 9.91, 11.20, and 9.43 Mbp, respectively.
Drifted Influenza A and B Viruses Collected by a Water-Based Condensation Growth Air Sampler in a Student Health Care Center during an Influenza Outbreak
Authors: Bonny Tania S. , Pan Maohua , Loeb Julia C. , Jiang Xiao , Eiguren-Fernandez Arantzazu , Hering Susanne , Fan Z. Hugh , Wu Chang-Yu , Lednicky John A. 
Published: April 2017

ABSTRACT
A viable virus aerosol sampler (VIVAS) effectively collected viable influenza A and B viruses from air inside a student health care center during an influenza outbreak. The viruses had “drifted” genes, showcasing the usefulness of the VIVAS for air sampling and noninvasive surveillance of viruses in circulation.
Draft Genome Sequences of Tetragenococcus muriaticus Strains 3MR10-3 and PMC-11-5 Isolated from Thai Fish Sauce during Natural Fermentation
Authors: Chuea-nongthon Chokchai , Rodtong Sureelak , Yongsawatdigul Jirawat , Steele James L. 
Published: April 2017

ABSTRACT

Tetragenococcus muriaticus
strains 3MR10-3 and PMC-11-5 are homofermentative halophilic lactic acid bacteria isolated from Thai fish sauce during natural fermentation. Their draft genomes were sequenced. Our interest in these organisms is related to their impact on fish sauce flavor and their high osmotolerance.
Whole-Genome Sequence of Staphylococcus hominis Strain J31 Isolated from Healthy Human Skin
Authors: Coates-Brown Rosanna , Horsburgh Malcolm J. 
Published: April 2017

ABSTRACT

We report here the first whole-genome sequence of a skin-associated strain of
Staphylococcus hominis
determined using the PacBio long-read sequencing platform.
S. hominis
is a major commensal of the skin microflora. This genome sequence adds to our understanding of this species and will aid studies of gene traffic between staphylococci.
Draft Genome Sequences of Several Fungal Strains Selected for Exposure to Microgravity at the International Space Station
Authors: Singh Nitin K. , Blachowicz Adriana , Romsdahl Jillian , Wang Clay , Torok Tamas , Venkateswaran Kasthuri 
Published: April 2017

ABSTRACTThe whole-genome sequences of eight fungal strains that were selected for exposure to microgravity at the International Space Station are presented here. These baseline sequences will help to understand the observed production of novel bioactive compounds.
Complete Genome Sequences of Porcine Parvovirus 2 Isolated from Swine in the Republic of Korea
Authors: Lee Ju-Yeon , Kim Eun-ju , Cho In-soo , Lee Kyoung-Ki , Shin Yeun-Kyung 
Published: April 2017

ABSTRACT
Here, we report sequences of the porcine parvovirus 2 (PPV2) genome, isolated from pigs in the Republic of Korea in 2016. The sequences of open reading frames 1 and 2 (ORF1 and ORF2) had a 98.8 to 98.9% homology with the US135 strain and 98.8% homology with the US523 strain, respectively. This is the first study to report the PPV2 genome in South Korean pigs.
Update on Antimicrobial Resistance in Clostridium difficile: Resistance Mechanisms and Antimicrobial Susceptibility Testing
Authors: Peng Zhong , Jin Dazhi , Kim Hyeun Bum , Stratton Charles W. , Wu Bin , Tang Yi-Wei , Sun Xingmin 
Published: April 2017

ABSTRACT

Oral antibiotics such as metronidazole, vancomycin and fidaxomicin are therapies of choice for
Clostridium difficile
infection. Several important mechanisms for
C. difficile
antibiotic resistance have been described, including the acquisition of antibiotic resistance genes via the transfer of mobile genetic elements, selective pressure
in vivo
resulting in gene mutations, altered expression of redox-active proteins, iron metabolism, and DNA repair, as well as via biofilm formation. This update summarizes new information published since 2010 on phenotypic and genotypic resistance mechanisms in
C. difficile
and addresses susceptibility test methods and other strategies to counter antibiotic resistance of
C. difficile
.
Non-
pncA
Gene-Mutated but Pyrazinamide-Resistant Mycobacterium tuberculosis: Why Is That?
Authors: Werngren Jim , Alm Erik , Mansjö Mikael 
Published: April 2017

ABSTRACT

Pyrazinamide (PZA) is a key component for the effective treatment of drug-susceptible and PZA-susceptible multidrug-resistant (MDR
PZA-S
) tuberculosis (TB).
pncA
gene mutations are usually detected in a clear majority (>90%) of PZA-resistant strains but obviously not in all. Rapid and reliable PZA drug susceptibility testing (DST) is critical whenever PZA is to be used in a treatment regimen, not least for the treatment of MDR
PZA-S
TB. In this study, we selected 26 PZA-resistant isolates reported to carry a wild-type
pncA
gene. To confirm resistance, susceptibility testing was repeated using 100 mg/liter and 200 mg/liter PZA for all the 26 isolates and Sanger sequencing was repeated on the 18 isolates that remained PZA resistant. Apart from the eight isolates initially misclassified as PZA resistant, the retests identified three factors responsible for the phenotype-genotype discrepancy:
panD
or
rpsA
mutations identified by whole-genome sequencing (WGS) (
n
= 7), heteroresistance (
n
= 8), and mixed populations with
Mycobacterium avium
(
n
= 3). Additionally, we performed WGS on 400 PZA-susceptible isolates and 15 consecutive MDR
PZA-R
clinical isolates. Of the 400 PZA-susceptible isolates, only 1 harbored a nonsynonymous
pncA
mutation (Thr87Met), whereas a nonsynonymous
rpsA
mutation was found in 17 isolates. None of these isolates carried a nonsynonymous
panD
mutation, while all 15 of the MDR
PZA-R
isolates harbored a nonsynonymous
pncA
mutation. Our findings indicate that it is necessary to consider the occurrence of
panD
mutations in PZA-resistant isolates, as well as heteroresistance, for the development and evaluation of new molecular techniques to ensure high-quality DST performance. The identification of nonsynonymous
rpsA
mutations in both PZA-susceptible and PZA-resistant isolates also implies that further studies are needed in order to determine the role of
rpsA
in PZA resistance.
Update on Malaria Diagnostics and Test Utilization
Authors: Mathison Blaine A. , Pritt Bobbi S. 
Published: April 2017

ABSTRACT
Malaria is a potentially life-threatening disease requiring rapid diagnosis and treatment. Although microscopic examination of thick and thin blood films remains the gold standard for laboratory diagnosis, rapid antigen tests and nucleic acid amplification methods may also play a useful role in detection of acute infection. This review discusses the advantages and disadvantages of the commonly used diagnostic methods and provides important practice points for optimal malaria test utilization.
Factors associated with participation in resistance training: a systematic review
Authors: Rhodes Ryan E , Lubans David R , Karunamuni Nandini , Kennedy Sarah , Plotnikoff Ronald 
Published: April 2017

ObjectiveRegular participation in resistance training (RT) is critical to health and recommended in most international physical activity guidelines. Few people, however, participate in RT. The purpose of this review was to assess the demographic, behavioural, intrapersonal, interpersonal and environmental factors associated with participating in RT.Data sourcesEligible studies were from English peer-reviewed published articles that examined correlates or determinants of RT in adult samples. Searches were performed from August 2015 to April 2016 in six databases.ResultsWe identified 51 independent data sets, from nine countries, primarily of moderate to high quality, and 23 factors related to participating in RT. Education, perceived health status, quality of life, affective judgements, self-efficacy, intention, self-regulation behaviours, subjective norm and programme leadership were associated with RT.ConclusionLow education levels and poor health status were associated with low participation rates in RT. Intrapersonal factors including affective judgements, self-efficacy, and self-regulation behaviours, and interpersonal factors including subjective norms and programme leadership may be important for promoting RT behaviours.
Air pollution and the incidence of ischaemic and haemorrhagic stroke in the South London Stroke Register: a case–cross-over analysis
Authors: Butland B K , Atkinson R W , Crichton S , Barratt B , Beevers S , Spiridou A , Hoang U , Kelly F J , Wolfe C D 
Published: April 2017

BackgroundFew European studies investigating associations between short-term exposure to air pollution and incident stroke have considered stroke subtypes. Using information from the South London Stroke Register for 2005–2012, we investigated associations between daily concentrations of gaseous and particulate air pollutants and incident stroke subtypes in an ethnically diverse area of London, UK.MethodsModelled daily pollutant concentrations based on a combination of measurements and dispersion modelling were linked at postcode level to incident stroke events stratified by haemorrhagic and ischaemic subtypes. The data were analysed using a time-stratified case–cross-over approach. Conditional logistic regression models included natural cubic splines for daily mean temperature and daily mean relative humidity, a binary term for public holidays and a sine–cosine annual cycle. Of primary interest were same day mean concentrations of particulate matter <2.5 and <10 µm in diameter (PM2.5, PM10), ozone (O3), nitrogen dioxide (NO2) and NO2+nitrogen oxide (NOX).ResultsOur analysis was based on 1758 incident strokes (1311 were ischaemic and 256 were haemorrhagic). We found no evidence of an association between all stroke or ischaemic stroke and same day exposure to PM2.5, PM10, O3, NO2or NOX. For haemorrhagic stroke, we found a negative association with PM10suggestive of a 14.6% (95% CI 0.7% to 26.5%) fall in risk per 10 µg/m3increase in pollutant.ConclusionsUsing data from the South London Stroke Register, we found no evidence of a positive association between outdoor air pollution and incident stroke or its subtypes. These results, though in contrast to recent meta-analyses, are not inconsistent with the mixed findings of other UK studies.
Randomised controlled trial of a sexual risk reduction intervention for STI prevention among men who have sex with men in the USA
Authors: Eaton Lisa A , Kalichman Seth C , Kalichman Moira O , Driffin Daniel D , Baldwin Robert , Zohren Larissa , Conway-Washington Christopher 
Published: April 2017

ObjectivesNovel interventions to address sexual risk taking and slow rates of STIs are urgently needed, in particular among black men who have sex with men (MSM) in the USA. Serosorting, or limiting condomless sex acts to partners of the same HIV status, is commonly practised among MSM, yet can lead to STI and remains largely unaddressed by public health agencies.MethodsA two-arm, randomised controlled trial was conducted from 2012 to 2015. This trial assessed the effects of a single-session, sexual partner selection and risk decision intervention (experimental arm) versus a single-session, Centers for Disease Control and Prevention-based, sexual risk reduction intervention (control arm) on psychosocial measures, sexual risk taking and STI.ResultsAt study follow-ups, multiple beneficial changes were observed on sexual risk beliefs measures (ie, changes in serosorting and condom use beliefs, and HIV risk perceptions) and sexual risk taking among the experimental arm relative to the control arm. Overall main effects, however, of the intervention on STI outcomes on year-long follow-ups were non-significant. There was evidence for short-term effects on STI outcomes, and self-report of multiple STIs and STI symptoms demonstrated positive effects over the follow-up period.ConclusionsBrief interventions to address sexual risk taking can result in short-term beneficial outcomes and can be incorporated into currently existing infrastructure at healthcare agencies. Additional intervention will be necessary for demonstrating long-term results.Trial registration numberNCT02128594.
Feldspar alteration and Fe minerals: origin, distribution and implications for sandstone reservoir quality in estuarine sediments
Authors: Daneshvar Ehsan , Worden Richard H. 
Published: April 2017

Abstract
The occurrence and distribution of minerals in modern sedimentary systems hold many clues to help unravel the origin and distribution of reservoir quality-controlling minerals in ancient and deeply buried sandstones, but few quantitative studies have been undertaken. Here we have used a range of techniques including X-ray diffraction, scanning electron microscopy and fully automated mineralogical QEMSCAN analysis to provide a comprehensive understanding of mineral composition and distribution within the post-glacial, clastic sediments of the Ravenglass Estuary, NW England. The Ravenglass Estuary is fed by two main rivers: one drains a granite-dominated hinterland, the other drains a hinterland that contains andesite and Triassic red bed sandstones. The granite-supplied arm has slightly more quartz-rich and Fe mineral-poor sediment than the andesite- and red bed-supplied sediment. The provenance signals are muted for feldspar and mica minerals heavy-mineral garnet populations seem to be sensitive to provenance. Detrital K-feldspar grains are preferentially associated with illite-dominated clay mineral coats, whereas all plagioclase mineral grains are preferentially associated with kaolinite-dominated clay mineral coats. This can be explained by rapid early diagenesis in the sediment with K-feldspar grain surfaces replaced by illite and plagioclase grain surfaces replaced by kaolinite. The andesite- and red bed-supplied sediment contains twice the amount of Fe minerals, which are dominated by chlorite, than the granite-supplied sediment. Chlorite rarely is associated with grain coatings on feldspar grains, possibly because it is predominantly a detrital mineral. Detrital Fe minerals seem to be locally replaced by pyrite due to bacterial sulphate reduction, suggesting that some early diagenetic processes may serve to lock away iron and prevent it from creating Fe-rich clay minerals.
Petrology and U–Pb geochronology of zircon in a suite of charnockitic gneisses from parts of the Chotanagpur Granite Gneiss Complex (CGGC): evidence for the reworking of a Mesoproterozoic basement during the formation of the Rodinia supercontinent
Authors: Mukherjee Subham , Dey Anindita , Sanyal Sanjoy , Ibanez-Mejia Mauricio , Dutta Upama , Sengupta Pulak 
Published: April 2017

Abstract

Understanding the evolution of the Chotanagpur Granite Gneiss Complex (CGGC) of the East Indian Shield is crucial to decipher the role of the Indian Shield in the formation of the Rodinia supercontinent. The area around Deoghar–Dumka exposes a suite of granulite-facies orthogneisses (variably retrogressed to amphibole–biotite gneiss) that enclose remnants of Palaeoproterozoic metasedimentary and meta-igneous rocks. Results from mineral chemistry, laser ablation inductively coupled plasma mass spectrometry (LA ICP-MS) U–Pb dating of zircon and limited bulk-rock compositions of the studied rocks suggest that the magmatic protoliths of the felsic orthogneisses had A-type chemistry, and that these were emplaced at approximately 1450 Ma presumably in a continental rift setting. Intense deformation and metamorphism of the felsic rock culminated at approximately 9 kbar and 850°C along an apparent geothermal gradient of 26°C km
−1
. These peak metamorphic conditions were successively followed by initially a steeply decompressive and then a weakly decompressive retrograde pressure–temperature path. The shape of the retrograde pressure–temperature path and the estimated geothermal gradient at the metamorphic peak are interpreted to be the products of continent–continent collision; U–Pb dates of metamorphic zircon overgrowths suggest an age of approximately 943 Ma for the collisional event. This study demonstrates that ‘Grenville-age’ orogenesis thoroughly reworked the approximately 1450 myr-old basement of the CGGC during the formation of the Rodinia supercontinent.
Meso-Neoproterozoic mid-crustal metamorphic record from the Ajmer–Shrinagar section, Rajasthan, India and its implication to the assembly of the Greater Indian Landmass during the Grenvillian-age orogenesis
Authors: Bose Sankar , Seth Pritha , Dasgupta Nilanjan 
Published: April 2017

Abstract

The Shrinagar–Ajmer section of the South Delhi Fold Belt exposes a package of medium-grade metasedimentary rocks intruded by synkinematic granite, and the entire package was thrust on top of the basement gneisses occurring further east. The metamorphic history is best developed in the staurolite schist that shows an overall increase in modal abundance of staurolite towards the east. Textural analyses, garnet zoning profiles, thermobarometric data and phase equilibria analyses show an increase in metamorphic pressure and temperature, reaching peak conditions of 592±12°C and 7.7±0.11 kbar.
In situ
monazite dating of a staurolite schist sample yields a pooled age of 980±22 Ma, which is assumed to be close to the age of the peak metamorphism. The Shrinagar granite was possibly emplaced close to the orogeny occurring at approximately 980 Ma and deformed by later events. The style and timing of metamorphism in the Shrinagar–Ajmer section match with the granulite-facies reworking of the basement rocks of the Aravalli–Delhi Mobile Belt. We envisage that the Grenvillian-age orogeny with its characteristic collisional style involved deep- to mid-crustal sections of the Aravalli–Delhi Mobile Belt. Our results further indicate that the Greater Indian Landmass was assembled during the formation of the supercontinent Rodinia.

Supplementary material:
Electron microprobe data of the garnet used for chemical zoning in Figure 5 are available at
https://doi.org/10.6084/m9.figshare.c.3738335