bluuebunny/crossref_metadata_2025_split huggingface dataset:
Lysophosphatidic acid stimulates hyaluronan production by mouse cumulus–oocyte complexes
Authors: Kuwahara Emi , Yamamoto Junpei , Yano Yuya , Omura Midori , Kuwahara Akira , Irahara Minoru , Tokumura Akira 
Published: October 2013

AbstractPurposeIn mammals, cumulus expansion due to increased synthesis of hyaluronan was suggested to correlate with modification of the gap junction between cumulus cells and the oocyte, leading to cumulus expansion. We examined whether lysophosphatidic acid, a lipid mediator detected in mammalian body fluids, stimulates significant production of hyaluronan and thus affects mouse cumulus expansion in vitro.MethodsCumulus–oocyte complexes isolated from the gonadotropin‐treated ovaries of B6C3F1 mice were exposed to lysophosphatidic acid in the presence and absence of 0.3 % fetal bovine serum for measurement of cumulus expansion and released hyaluronan, respectively.ResultsExogenously added lysophosphatidic acid concentration‐dependently stimulated production of hyaluronan in the cumulus cell–oocyte complex, and the stimulatory effect of lysophosphatidic acid on hyaluronan production was mediated through the signal pathways, including LPA receptor‐Gi coupling, EGF receptor transactivation, and activations of phosphatidylinositol‐specific phospholipase C, protein kinase C and mitogen‐activated protein kinases. LPA increased mRNA expression of tumor necrosis α‐induced protein 6, a hyaluronan‐binding protein, and expansion of cumulus cell–oocyte complex.ConclusionsLysophosphatidic acid in follicular fluids may participate in physiological cumulus expansion before ovulation by stimulating production of hyaluronan and proteins that enable the association of hyaluronan with cumulus cells and oocytes.
Induced Pluripotent Stem Cells Are Sensitive to DNA Damage
Authors: Zhang Minjie , Yang Caiyun , Liu Huixian , Sun Yingli 
Published: October 2013

Abstract
Induced pluripotent stem cells (iPSCs) resemble embryonic stem cells (ESCs) in morphology, gene expression and in vitro differentiation, raising new hope for personalized clinical therapy. While many efforts have been made to improve reprogramming efficiency, significant problems such as genomic instability of iPSCs need to be addressed before clinical therapy. In this study, we try to figure out the real genomic state of iPSCs and their DNA damage response to ionizing radiation (IR). We found that iPSC line 3FB4-1 had lower DNA damage repair ability than mouse embryonic fibroblast (MEF) cells, from which 3FB4-1line was derived. After the introduction of DNA damage by IR, the number of γ-H2AX foci in 3FB4-1 increased modestly compared to a large increase seen in MEF, albeit both significantly (P  &lt; 0.01). In addition, whole-genome sequencing analysis showed that after IR, 3FB4-1 possessed more point mutations than MEF and the point mutations spread all over chromosomes. These observations provide evidence that iPSCs are more sensitive to ionizing radiation and their relatively low DNA damage repair capacity may account for their high radiosensitivity. The compromised DNA damage repair capacity of iPSCs should be considered when used in clinical therapy.
Landscape evolution of the Ulan Buh Desert in northern China during the late Quaternary
Authors: Chen Fahu , Li Guoqiang , Zhao Hui , Jin Ming , Chen Xuemei , Fan Yuxin , Liu Xiaokang , Wu Duo , Madsen David 
Published: October 2013

AbstractThe evolution of arid environments in northern China was a major environmental change during the Quaternary. Here we present the dating and environmental proxy results from a 35 m long core (A-WL10ZK-1) collected from the Ulan Buh Desert (UBD), along with supplemental data from four other cores. The UBD is one of the main desert dune fields in China and our results indicate the UBD has undergone complex evolution during the late Quaternary. Most of the present UBD was covered by a Jilantai-Hetao Mega-paleolake lasting until ~ 90 ka ago. A sandy desert environment prevailed throughout the UBD during the last glacial period and early Holocene. A wetland environment characterized by the formation of numerous interdunal ponds in the northern UBD occurred at ~ 8–7 ka, although a dune field persisted in the southern UBD. The modern UBD landscape formed after these wetlands dried up. During the last 2000 years, eolian sand from the Badain Jaran Desert has invaded the northern UBD, while farming and overgrazing resulted in the formation of the eastern UBD. We suggest that the formation of UBD landforms is related to the disintegration of the megalake Jilantai-Hetao and to summer monsoon changes during the last glaciation and Holocene.
The other side of the coin: the downside of Norway's savings of petroleum rents
Authors: Hannesson Rögnvaldur 
Published: October 2013

Abstract
The Norwegian government gets a substantial income from oil and gas extraction, both through taxes and partnerships with oil companies. In recent years (2009–2011), this has amounted to about 25% of government revenues. The Norwegian parliament has endorsed a savings guideline aimed at preserving petroleum wealth. Actual savings of petroleum revenues are compared with what this guideline stipulates, and the guideline itself is compared to the Hicksian permanent income rule for wealth preservation. While the Norwegian savings policy has been successful from a macroeconomic perspective it has been less so from a microeconomic perspective. Over the last 15 years expenditure on disability and sick leave has increased rapidly while expenditure on transportation infrastructure has stagnated. These trends are compared with the trends in similar expenditures in Sweden and Denmark. On the basis of the Norwegian experience, I discuss to what extent institutional design can guard against misinformation or misaligned incentives and to what extent the Norwegian petroleum fund design could be useful for underdeveloped but resource rich countries.
Microenzymatic Evaluation of Oat (Avena sativa L.) β‐Glucan for High‐Throughput Phenotyping
Authors: Newell Mark A. , Kim Hyun Jung , Asoro Franco G. , Lauter Adrienne Moran , White Pamela J. , Scott M. Paul , Jannink Jean‐Luc 
Published: October 2013

ABSTRACTOats (Avena sativa L.) have received significant attention for their positive and consistent health benefits when consumed as a whole grain food, attributed in part to mixed‐linkage (1‐3,1‐4)‐β‐d‐glucan (referred to as β‐glucan). Unfortunately, the standard enzymatic method of measurement for oat β‐glucan is costly and does not provide the high‐throughput capability needed for plant breeding in which thousands of samples are measured over a short period of time. The objective of this research was to test a microenzymatic approach for high‐throughput phenotyping of oat β‐glucan. Fifty North American elite lines were chosen to span the range of possible values encountered in elite oats. Pearson and Spearman correlations (r) ranged from 0.81 to 0.86 between the two methods. Although the microenzymatic method did contain bias compared with the results for the standard streamlined method, this bias did not substantially decrease its ability to determine β‐glucan content. In addition to a substantial decrease in cost, the microenzymatic approach took as little as 6% of the time compared with the streamlined method. Therefore, the microenzymatic method for β‐glucan evaluation is an alternative method that can enhance high‐throughput phenotyping in oat breeding programs.
First Report on Natural Infection of Paeonia tenuifolia by ‘Candidatus Phytoplasma solani’ in Serbia
Authors: Adamovic D. , Djalovic I. , Mitrovic P. , Kojic S. , Pivic R. , Josic D. 
Published: October 2013

Peony (Paeonia tenuifolia L.) is a herbaceous perennial plant known for its beautiful and showy flowers. In Serbia it is native to the Deliblato Sands and is used as an ornamental and medicinal plant in folk medicine. This plant species has become a rarity and for that reason peony was introduced into a botanical collection near Backi Petrovac (northern Serbia), where it has been maintained since 1988. Reddening of lower leaves observed on 10% of plants (5 of 50) in the collection at flowering in May 2012 gradually progressed throughout affected plants by the seed maturation stage. Five leaves from each of three reddened and three symptomless plants were sampled at the end of July 2012. Total nucleic acid was extracted separately from individual leaves (30 samples) using the CTAB (cetyltrimethylammonium bromide) method (2). A nested PCR assay using universal primer pairs P1/P7, followed by R16F2n/R16R2 (4), amplified 16S rDNA fragments of 1.8 and 1.2 kb, respectively. DNA from all three reddened plants (15 samples) yielded 1.2-kb amplicons after nested PCRs. Restriction fragment length polymorphism (RFLP) patterns obtained by digestion of nested products with endonucleases AluI, TruI, HpaII, or HhaI (Thermo Scientific, Lithuania) (4) were identical to those of the STOL reference strain included for comparative purposes, indicating that symptoms were consistently associated with plant infection by ‘Ca. Phytoplasma solani’ (Stolbur) phytoplasma. The 16S rDNA amplicons from two peony plants (1.2 kb from B15 and 1.8 from B18) were sequenced (GenBank Accession No. KC960487 and KF614623, respectively). BLAST analysis revealed a 100% identity between the sequences and GenBank sequences of Stolbur phytoplasma, subgroup 16SrXII-A phytoplasma, previously detected in maize (JQ730750) in Serbia and red clover (EU814644.1) in the Czech Republic. Phytoplasma associated diseases of other species of the genus Paeonia (P. lactiflora Pall. and P. suffruticosa Andrews) have been described elsewhere. Disease symptoms on P. lactiflora from Chile were associated with the phytoplasma that belongs to the ribosomal subgroup 16SrVII-A (‘Ca. Phytoplasma fraxini’) (1). Also, Stolbur phytoplasma from the 16SrXII group was detected on P. suffruticosa plants in China, manifesting yellowing symptoms (3). To our knowledge, this is the first report of naturally occurring Stolbur phytoplasma disease of P. tenuifolia L. in Serbia. References: (1) N. Arismendi et al. Bull. Insectol. 64:S95, 2011. (2) X. Daire et al. Eur. J. Plant Pathol. 103:507, 1997. (3) Y. Gao et al. J. Phytopathol. 161:197, 2013. (4) I. M. Lee et al. Int. J. Syst. Bacteriol. 48:1153, 1998.
Utility as a rationale for choosing observer performance assessment paradigms for detection tasks in medical imaging
Authors: Wunderlich Adam , Abbey Craig K. 
Published: October 2013

Purpose:Studies of lesion detectability are often carried out to evaluate medical imaging technology. For such studies, several approaches have been proposed to measure observer performance, such as the receiver operating characteristic (ROC), the localization ROC (LROC), the free‐response ROC (FROC), the alternative free‐response ROC (AFROC), and the exponentially transformed FROC (EFROC) paradigms. Therefore, an experimenter seeking to carry out such a study is confronted with an array of choices. Traditionally, arguments for different approaches have been made on the basis of practical considerations (statistical power, etc.) or the gross level of analysis (case‐level or lesion‐level). This article contends that a careful consideration of utility should form the rationale for matching the assessment paradigm to the clinical task of interest.Methods:In utility theory, task performance is commonly evaluated with total expected utility, which integrates the various event utilities against the probability of each event. To formalize the relationship between expected utility and the summary curve associated with each assessment paradigm, the concept of a “natural” utility structure is proposed. A natural utility structure is defined for a summary curve when the variables associated with the summary curve axes are sufficient for computing total expected utility, assuming that the disease prevalence is known.Results:Natural utility structures for ROC, LROC, FROC, AFROC, and EFROC curves are introduced, clarifying how the utilities of correct and incorrect decisions are aggregated by summary curves. Further, conditions are given under which general utility structures for localization‐based methodologies reduce to case‐based assessment.Conclusions:Overall, the findings reveal how summary curves correspond to natural utility structures of diagnostic tasks, suggesting utility as a motivating principle for choosing an assessment paradigm.
Complete Genome Sequence of Encapsulated Haemophilus influenzae Type f KR494, an Invasive Isolate That Caused Necrotizing Myositis
Authors: Su Yu-Ching , Hörhold Franziska , Singh Birendra , Riesbeck Kristian 
Published: October 2013

ABSTRACT

Haemophilus influenzae
serotype f (Hif) is an etiologic agent of bacterial invasive disease. Here, we report the first annotated genome sequence of the Hif strain KR494, which was isolated from a patient suffering from sepsis and necrotizing myositis. The genome sequence will increase the understanding of Hif pathogenesis.
Genome Sequence of Marine Bacterium
Idiomarina
sp. Strain 28-8, Isolated from Korean Ark Shells
Authors: Kim Woo-Jin , Kim Young-Ok , Kim Dong-Gyun , Nam Bo-Hye , Kong Hee Jeong , Jung Hyungtaek , Lee Sang-Jun , Kim Dong-Wook , Kim Dae-Soo , Chae Sung-Hwa 
Published: October 2013

ABSTRACT

Idiomarina
sp. strain 28-8 is an aerobic, Gram-negative, flagellar bacterium isolated from the bodies of ark shells (
Scapharca broughtonii
) collected from underwater sediments in Gangjin Bay, South Korea. Here, we present the draft genome sequence of
Idiomarina
sp. 28-8 (2,971,606 bp, with a G+C content of 46.9%), containing 2,795 putative coding sequences.
Genome Sequence of the Fructan-Degrading Organism
Marinimicrobium
sp. Strain LS-A18, Isolated from a Marine Solar Saltern
Authors: Lu Wei-Dong , Pang Hai-Qiang , Guo Li-Zhong 
Published: October 2013

ABSTRACT

Marinimicrobium
sp. strain LS-A18 is a fructan-degrading organism isolated from a brine sample from a marine solar saltern in Jiaozhou Bay, China. The draft genome sequence of this bacterium is 3,815,107 bp in length, with a G+C content of 59.03%. To our knowledge, this is the first genome announcement of a fructan-degrading strain of the genus
Marinimicrobium
.
Complete Genome Sequence of Reticuloendotheliosis Virus Strain MD-2, Isolated from a Contaminated Turkey Herpesvirus Vaccine
Authors: Li Junping , Yang Chenghuai , Li Qihong , Li Huijiao , Xia Yecai , Liu Dan , Yu Kangzhen , Yang Hanchun 
Published: October 2013

ABSTRACT
Here, we present the complete genomic sequence of a reticuloendotheliosis virus (REV) isolated from a contaminated turkey herpesvirus (HVT) vaccine. This report will be helpful for epidemiological studies on REV infection in avian flocks.
Draft Genome Sequence of Aeromonas salmonicida subsp.
achromogenes
AS03, an Atypical Strain Isolated from Crucian Carp (
Carassius carassius
) in the Republic of Korea
Authors: Han Jee Eun , Kim Ji Hyung , Shin Sang Phil , Jun Jin Woo , Chai Ji Young , Park Se Chang 
Published: October 2013

ABSTRACT

We present the draft genome sequence of
Aeromonas salmonicida
subsp.
achromogenes
strain AS03, an atypical
A. salmonicida
strain that causes erythrodermatitis in crucian carp (
Carassius carassius
). This is the first genome sequence report of
A. salmonicida
subsp.
achromogenes
, one of the four subspecies of atypical
A. salmonicida
.
Complete Genome Sequence of a New Tobamovirus Naturally Infecting Tomatoes in Mexico
Authors: Li Rugang , Gao Shan , Fei Zhangjun , Ling Kai-Shu 
Published: October 2013

ABSTRACT
The complete genomic sequence of a new tobamovirus in tomatoes was determined through deep sequencing and assembly of small RNAs, then validated through Sanger sequencing. Based on the low sequence identity (≤85%) to known viruses and a close phylogenetic relationship to tobamoviruses, it was identified as a new species.
Draft Genome Sequence of Aeromonas veronii Hm21, a Symbiotic Isolate from the Medicinal Leech Digestive Tract
Authors: Bomar Lindsey , Stephens W. Zac , Nelson Michael C. , Velle Katrina , Guillemin Karen , Graf Joerg 
Published: October 2013

ABSTRACT

Aeromonas veronii
strain Hm21 was isolated from the digestive tract of the medicinal leech
Hirudo verbana
and has been used to identify genes that are important for host colonization. This species is also a symbiont in the gut of zebrafish and is a pathogen of mammals and fish. We present here a 4.68-Mbp draft genome sequence for Hm21.
Whole-Genome Sequences of Five Oyster-Associated Bacteria Show Potential for Crude Oil Hydrocarbon Degradation
Authors: Chauhan Ashvini , Green Stefan , Pathak Ashish , Thomas Jesse , Venkatramanan Raghavee 
Published: October 2013

ABSTRACT

Draft genome sequences of oyster-associated
Pseudomonas stutzeri
strain MF28,
P. alcaligenes
strain OT69,
P. aeruginosa
strain WC55,
Stenotrophomonas maltophilia
strain MF89, and
Microbacterium maritypicum
strain MF109 are reported. Genome-wide surveys of these isolates suggest that the oyster microbiome, which remains largely understudied, has a strong potential to degrade crude oil.
Draft Genome Sequences of Two
Salmonella
Strains from the SARA Collection, SARA64 (Muenchen) and SARA33 (Heidelberg), Provide Insight into Their Antibiotic Resistance
Authors: Kroft Brenda S. , Brown Eric W. , Meng Jianghong , Gonzalez-Escalona Narjol 
Published: October 2013

ABSTRACT

The
Salmonella enterica
strains that are representatives of the
S. enterica
serovar Typhimurium complex in reference collection A (SARA) are closely related but exhibit differences in antibiotic resistance, which could have public health consequences. To better understand the mechanisms behind these resistances, we sequenced the genomes of two multidrug-resistant strains: SARA64 (Muenchen) and SARA33 (Heidelberg).
Asthma and risk of non-respiratory tract infection: a population-based case–control study
Authors: Bang Duk Won , Yang Hyeon J , Ryoo Eell , Al-Hasan Majdi N , Lahr Brian , Baddour Larry M , Yawn Barbara P , Juhn Young J 
Published: October 2013

ObjectivesAsthmatics have increased risks of airway-related infections. Little is known about whether this is true for non-airway-related serious infections such asEscherichia colibloodstream infection (BSI). We assessed whether asthma is associated with a risk of developing community-acquiredE coliBSI.DesignThe study was designed as a population-based retrospective case–control study.SettingThis population-based study was conducted in Olmsted County, Minnesota.ParticipantsThe study included 259 all eligible community-acquiredE coliBSI cases in Olmsted County, MN between 1998 and 2007 and 259 birthday-matched, gender-matched and residency-matched controls.Primary and secondary outcome measuresOnly community-acquiredE coliBSI cases as the primary outcome was included. Asthma status as an exposure was ascertained by predetermined criteria. An adjusted OR and 95% CI for the association between asthma and risk of community-acquiredE coliBSI was calculated using conditional logistic regression.ResultsOf 259 eligible cases, 179 (69%) were women and mean age was 61±22 years. Of the 259 cases 37 (14%) and 16 (6%) of 259 controls had a prior history of asthma (adjusted OR 2.74; 95% CI 1.11 to 6.76; p=0.029). The population attributable risk of asthma for community-acquiredE coliBSI was 9%. Although not statistically significant, there was a borderline association between having a history of food allergy and increased risk of community-acquiredE coliBSI (6% vs 2%; adjusted OR 3.51; 95% CI 0.94 to 13.11; p=0.062).ConclusionsBased on the findings of the current population-based, case–control investigation, a history of asthma may be associated with risk of community-acquiredE coliBSI. The impact of asthma on risk of microbial infections may go beyond airways.
Understanding the provenance and reservoir quality of the Sele Formation sandstones of the UK Central Graben utilizing detrital garnet suites
Authors: Kilhams Ben , Morton Andrew , Borella Riccardo , Wilkins Anne , Hurst Andrew 
Published: October 2013

Abstract
Detrital garnet suites have been demonstrated to be reliable indicators of the mineralogical and lithological characteristics of sediment source areas. This study applies garnet analysis to the Paleocene to Eocene Sele Formation deep-water sandstone units of the central North Sea. These stratigraphic units are economically important as they represent one of the main hydrocarbon reservoir intervals in this mature basin. The routing of turbidity currents into the Central Graben has been demonstrated to be related to axial fans (ultimately sourced from Lewisian and Moine basement rocks and Triassic sandstones to the NW) and lateral fans (ultimately sourced from the Dalradian basement rocks to the west). Garnet analysis suggests the majority of samples can be attributed to the axial fan system and that the lateral system contributed little to sandstone deposition east of the Gannet Fields. This contradicts previous seismic mapping work, which suggested that the lateral fan system dominated sedimentation as far east as the Merganser Field. This reinterpretation is potentially important for our understanding of sediment routing and its impact on the distribution of reservoir quality, particularly as this is believed to relate directly to proximity to the shelf.
MyoD Is a Tumor Suppressor Gene in Medulloblastoma
Authors: Dey Joyoti , Dubuc Adrian M. , Pedro Kyle D. , Thirstrup Derek , Mecham Brig , Northcott Paul A. , Wu Xiaochong , Shih David , Tapscott Stephen J. , LeBlanc Michael , Taylor Michael D. , Olson James M. 
Published: October 2013

Abstract
While medulloblastoma, a pediatric tumor of the cerebellum, is characterized by aberrations in developmental pathways, the majority of genetic determinants remain unknown. An unbiased Sleeping Beauty transposon screen revealed MyoD as a putative medulloblastoma tumor suppressor. This was unexpected, as MyoD is a muscle differentiation factor and not previously known to be expressed in cerebellum or medulloblastoma. In response to deletion of one allele of MyoD, two other Sonic hedgehog-driven mouse medulloblastoma models showed accelerated tumor formation and death, confirming MyoD as a tumor suppressor in these models. In normal cerebellum, MyoD was expressed in the proliferating granule neuron progenitors that are thought to be precursors to medulloblastoma. Similar to some other tumor suppressors that are induced in cancer, MyoD was expressed in proliferating medulloblastoma cells in three mouse models and in human medulloblastoma cases. This suggests that although expression of MyoD in a proliferating tumor is insufficient to prevent tumor progression, its expression in the cerebellum hinders medulloblastoma genesis. Cancer Res; 73(22); 6828–37. ©2013 AACR.