bluuebunny/crossref_metadata_2025_split huggingface dataset:
A Lagrangian Analysis of Deep Convective Systems and Their Local Environmental Effects
Authors: Duncan David I. , Kummerow Christian D. , Elsaesser Gregory S. 
Published: November 2013

Abstract
Life cycles of deep convective raining systems are documented through use of a Lagrangian tracking algorithm applied to high-resolution Climate Prediction Center morphing technique (CMORPH) rainfall data, permitting collocation with related environmental ancillary fields and the International Satellite Cloud Climatology Project (ISCCP) cloud states (Rossow et al. 2005). System life cycles are described in terms of propagation speed, duration, and dominant cloud structures. Tracked systems are usually associated with the ISCCP weather state 1 (WS1) deep convection cloud state and an independent, microwave-based deep convective precipitation regime developed here. The distribution and characteristics of tracked systems are found to be similar between ocean basins in terms of system speed and duration, with westward-propagating systems predominant in every basin.
The effects that these systems have on environmental parameters are assessed, stratified according to their average propagation speed and by ocean basin. Regardless of system speed the net effect on the environment is similar, with the largest difference being how quickly changes occur, with net surface radiation decreasing about 150 W m−2 and total precipitable water perturbed by 5–7 kg m−2; sea surface temperature (SST) drops 0.2°–0.3°C over 24 h, with system speed affecting how long SSTs remain depressed. The observed drop in SST is partly caused by the presence of widespread, optically thick clouds that greatly decrease the net surface radiative flux. Quick changes in SSTs caused by tracked systems are captured by buoys but not represented well in gridded SST products, as these regions remain largely under the precipitating cloud cover associated with these systems.
Improvements in LICOM2. Part I: Vertical Mixing
Authors: Huang Wen-Yu , Wang Bin , Yu Yong-Qiang , Li Li-Juan 
Published: November 2013

Abstract
Better computational stability is achieved in an improved version of the National Key Laboratory of Numerical Modeling for Atmospheric Sciences and Geophysical Fluid Dynamics (LASG)/Institute of Atmospheric Physics (IAP) Climate Ocean Model, version 2 (LICOM2, the standard version), after improvements to the implementations of the vertical mixing, mesoscale eddy parameterization, and bottom drag schemes. The large warm biases of LICOM2 in the western Pacific Ocean and eastern Indian Ocean warm pool and on the east coast of the Pacific Ocean are significantly improved. The salinity bias in the tropical Pacific Ocean related to the warm bias of the warm pool is also alleviated. The simulation of the Atlantic meridional overturning circulation is improved because of enhanced vertical mixing in the high latitudes of the North Atlantic Ocean. The new version also presents a stronger Deacon cell, and thus a more powerful Antarctic Circumpolar Current that is closer to the observation, due to weaker southward mesoscale eddy transport in the Southern Ocean.
Observations of the Boundary Layer near Tornadoes and in Supercells Using a Mobile, Collocated, Pulsed Doppler Lidar and Radar
Authors: Bluestein Howard B. , Houser Jana B. , French Michael M. , Snyder Jeffrey C. , Emmitt George D. , PopStefanija Ivan , Baldi Chad , Bluth Robert T. 
Published: November 2013

Abstract
During the Second Verification of the Origins of Rotation in Tornadoes Experiment (VORTEX2), in the spring of 2010, a mobile and pulsed Doppler lidar system [the Truck-Mounted Wind Observing Lidar Facility (TWOLF)] mounted on a truck along with a mobile, phased-array, X-band Doppler radar system [Mobile Weather Radar–2005 X-band, phased array (MWR-05XP)] was used to complement Doppler velocity coverage in clear air near the radar–lidar facility and to provide high-spatial-resolution vertical cross sections of the Doppler wind field in the clear-air boundary layer near and in supercells. It is thought that the magnitude and direction of vertical shear and possibly the orientation and spacing of rolls in the boundary layer have significant effects on both supercell and tornado behavior; MWR-05XP and TWOLF can provide data that can be used to measure vertical shear and detect rolls. However, there are very few detailed, time-dependent and spatially varying observations throughout the depth of the boundary layer of supercells and tornadoes.
This paper discusses lidar and radar data collected in or near six supercells. Features seen by the lidar included gust fronts, horizontal convective rolls, and small-scale vortices. The lidar proved useful at detecting high-spatial-resolution, clear-air returns at close range, where the radar was incapable of doing so, thus providing a more complete picture of the boundary layer environment ahead of supercells. The lidar was especially useful in areas where there was ground-clutter contamination. When there was precipitation and probably insects, and beyond the range of the lidar, where there was no ground-clutter contamination, the radar was the more useful instrument. Suggestions are made for improving the system and its use in studying the tornado boundary layer.
Anterior Talofibular Ligament Ruptures, Part 2
Authors: Clanton Thomas O. , Viens Nicholas A. , Campbell Kevin J. , LaPrade Robert F. , Wijdicks Coen A. 
Published: November 2013

Background: Anatomic reconstructions of the lateral ankle ligaments with grafts have been proposed for patients with generalized ligamentous laxity, long-standing instability with attenuated native tissues, varus hindfoot misalignment, or failed prior lateral ligament surgery and for very large patients or elite athletes because of increased demands. Hypothesis: Anatomic reconstruction of the anterior talofibular ligament (ATFL) using a semitendinosus allograft fixed with biocomposite interference fit screws would have similar biomechanical properties to the intact ATFL at time zero in a cadaveric model. Study Design: Controlled laboratory study. Methods: Allograft reconstruction of the ATFL was performed in 6 fresh-frozen cadaveric ankles. The specimens were loaded to failure to determine the strength and stiffness of the reconstruction and compared with data from 6 cadaveric specimens with intact ATFLs. Results: The mean ultimate load to failure of the allograft reconstruction (170.7 ± 54.8 N) was not significantly different from that of the intact ATFL (154.0 ± 63.7 N). The mean stiffness of the allograft reconstruction (23.1 ± 9.3 N/mm) was also not significantly different from that of the intact ATFL (14.5 ± 4.4 N/mm). Conclusion: Anatomic reconstruction of the ATFL with allografts demonstrated similar strength and stiffness to the native ligament at time zero in a fresh-frozen cadaveric model. Clinical Relevance: This technique of anatomic reconstruction of the ATFL with allografts has biomechanical validation for use in clinical situations where a Broström repair of the lateral ankle ligaments is unlikely to be successful or has previously failed.
Nystagmus following acute avermectins poisoning
Authors: Wenjie Wang , Houqing Lu , Ping Zhong , Gengyun Sun 
Published: November 2013

Background: Acute pesticide poisoning is a major public health problem in the world. Most pesticides are toxic to human beings, because of diverse components resulting in different reaction. Objective: As clinicians identify various symptoms due to pesticide poisoning, it is necessary for the diagnosis and treatment for treating such toxins. Accidents associated with acute avermectins poisoning are rarely reported, especially self-induced nystagmus. In the present study, a case of human abamectin poisoning with relevant toxic effects has been reported. Conclusions: Acute avermectins poisoning-induced nystagmus may be affected due to the vestibular cerebellar system, but the exact mechanism and pharmacological basis is still worthy of further study.
The Association between Maternal Perception of Obstetric and Pediatric Care Providers’ Attitudes and Exclusive Breastfeeding Outcomes
Authors: Ramakrishnan Rema , Oberg Charles N. , Kirby Russell S. 
Published: November 2013

Background: Exclusive breastfeeding is recommended for 6 months. Successful breastfeeding requires support from family members, peers, and health care professionals. Objective: This study aimed to determine the association between maternal perception of the attitudes of obstetric and pediatric care providers about infant feeding during the neonatal period and exclusive breastfeeding at 1, 3, and 6 months. Methods: The study sample consisted of 1602 women from the Infant Feeding Practices Study II (2005-2007), a longitudinal study of women in the United States. Analyses included chi-square and Fisher’s exact tests and logistic regression models. Results: Mothers who perceived that the obstetric care provider favored exclusive breastfeeding were significantly more likely to exclusively breastfeed their infants at 1 and 3 months (odds ratio [OR] = 1.73, 95% confidence interval [CI], 1.33-2.24; and OR = 1.41, 95% CI, 1.09-1.80, respectively) as compared to mothers who perceived that the obstetric care provider was neutral about the type of infant feeding. Similarly, mothers who perceived that the pediatric care provider favored exclusive breastfeeding had higher odds of exclusively breastfeeding their infants at 1 and 3 months (OR = 1.53, 95% CI, 1.17-1.99; and OR = 1.51, 95% CI, 1.17-1.95, respectively) as compared to mothers who perceived that the pediatric care provider was neutral about the type of infant feeding. The association was no longer significant at 6 months. Conclusion: Maternal perception of obstetric and pediatric care providers’ preference for exclusive breastfeeding during the neonatal period is associated with exclusive breastfeeding until 3 months.
Return to Sport and Performance After Microfracture in the Knees of National Basketball Association Players
Authors: Harris Joshua D. , Walton David M. , Erickson Brandon J. , Verma Nikhil N. , Abrams Geoffrey D. , Bush-Joseph Charles A. , Bach Bernard R. , Cole Brian J. 
Published: November 2013

Background: Use of microfracture in the knees of National Basketball Association (NBA) players is controversial. Hypotheses: (1) There would be a high rate of return to sport (RTS) in NBA players following microfracture, (2) players would RTS the season following surgery, (3) preoperative player performance would not be significantly different on RTS, and (4) there would be no significant difference in RTS rate or postoperative performance in players undergoing microfracture in comparison with an age-, position-, NBA experience–, and performance-matched control group. Study Design: Cohort study; Level of evidence, 3. Methods: NBA players undergoing microfracture were evaluated. Age-, body mass index–, position-, NBA experience–, and performance-matched controls were selected from the NBA during the same years as those undergoing microfracture. An index year was selected (controls) to match the number of seasons of NBA experience in microfracture cases. RTS and performance were analyzed and compared between cases and controls. Student t tests were performed for analysis of within- and between-group variables. Results: A total of 41 NBA players underwent microfracture and were compared with 41 demographic- and performance-matched controls. Rate of RTS after microfracture was 73% in the NBA and 83% in professional basketball (NBA, D-league, and International Basketball Federation [FIBA]). Time to RTS in NBA was 9.20 ± 4.88 months. Seventy-one percent (29/41) of players RTS the season following microfracture. Length of NBA career following microfracture (4.10 ± 3.91 years) was not significantly different from controls. After microfracture, case athletes played fewer games per season and with fewer points and steals per game (relative to premicrofracture; P < .05). Performance was better in control (after index year) versus case players (after microfracture) with regard to points per game, games played per season, and field goal and free throw percentage ( P < .05). Conclusion: Eighty-three percent of NBA players undergoing microfracture returned to professional basketball. Career length was not significantly different between players undergoing microfracture and controls. However, following microfracture, players competed in fewer games per season with fewer points and steals.
A SNP in the 5′ flanking region of the myostatin-1b gene is associated with harvest traits in Atlantic salmon (Salmo salar)
Authors: Peñaloza Carolina , Hamilton Alastair , Guy Derrick R , Bishop Stephen C , Houston Ross D 
Published: November 2013

Abstract

Background
Myostatin (MSTN) belongs to the transforming growth factor-β superfamily and is a potent negative regulator of skeletal muscle development and growth in mammals. Most teleost fish possess two MSTN paralogues. However, as a consequence of a recent whole genome-duplication event, salmonids have four: MSTN-1 (−1a and -1b) and MSTN-2 (−2a and -2b). Evidence suggests that teleost MSTN plays a role in the regulation of muscle growth. In the current study, the MSTN-1b gene was re-sequenced and screened for SNP markers in a commercial population of Atlantic salmon. After genotyping 4,800 progeny for the discovered SNPs, we investigated their association with eight harvest traits - four body-weight traits, two ratios of weight traits, flesh colour and fat percentage - using a mixed model association analysis.

Results
Three novel SNPs were discovered in the MSTN-1b gene of Atlantic salmon. One of the SNPs, located within the 5′ flanking region (g.1086C > T), had a significant association with harvest traits (p < 0.05), specifically for: Harvest Weight (kg), Gutted Weight (kg), Deheaded Weight (kg) and Fillet Weight (kg). The haplotype-based association analysis was consistent with this result because the two haplotypes that showed a significant association with body-weight traits, hap4 and hap5 (p < 0.05 and p < 0.01, respectively), differ by a single substitution at the g.1086C > T locus. The alleles at g.1086C > T act in an additive manner and explain a small percentage of the genetic variation of these phenotypes.

Conclusions
The association analysis revealed that g.1086C > T had a significant association with all body-weight traits under study. Although the SNP explains a small percentage of the variance, our results indicate that a variation in the 5′ flanking region of the myostatin gene is associated with the genetic regulation of growth in Atlantic salmon.
De novo transcriptome sequencing of radish (Raphanus sativusL.) and analysis of major genes involved in glucosinolate metabolism
Authors: Wang Yan , Pan Yan , Liu Zhe , Zhu Xianwen , Zhai Lulu , Xu Liang , Yu Rugang , Gong Yiqin , Liu Liwang 
Published: November 2013

Abstract

Background
Radish (Raphanus sativus L.), is an important root vegetable crop worldwide. Glucosinolates in the fleshy taproot significantly affect the flavor and nutritional quality of radish. However, little is known about the molecular mechanisms underlying glucosinolate metabolism in radish taproots. The limited availability of radish genomic information has greatly hindered functional genomic analysis and molecular breeding in radish.

Results
In this study, a high-throughput, large-scale RNA sequencing technology was employed to characterize the de novo transcriptome of radish roots at different stages of development. Approximately 66.11 million paired-end reads representing 73,084 unigenes with a N50 length of 1,095 bp, and a total length of 55.73 Mb were obtained. Comparison with the publicly available protein database indicates that a total of 67,305 (about 92.09% of the assembled unigenes) unigenes exhibit similarity (e –value ≤ 1.0e-5) to known proteins. The functional annotation and classification including Gene Ontology (GO), Clusters of Orthologous Group (COG) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis revealed that the main activated genes in radish taproots are predominately involved in basic physiological and metabolic processes, biosynthesis of secondary metabolite pathways, signal transduction mechanisms and other cellular components and molecular function related terms. The majority of the genes encoding enzymes involved in glucosinolate (GS) metabolism and regulation pathways were identified in the unigene dataset by targeted searches of their annotations. A number of candidate radish genes in the glucosinolate metabolism related pathways were also discovered, from which, eight genes were validated by T-A cloning and sequencing while four were validated by quantitative RT-PCR expression profiling.

Conclusions
The ensuing transcriptome dataset provides a comprehensive sequence resource for molecular genetics research in radish. It will serve as an important public information platform to further understanding of the molecular mechanisms involved in biosynthesis and metabolism of the related nutritional and flavor components during taproot formation in radish.
Genome sequence and analysis of methylotrophic yeast Hansenula polymorpha DL1
Authors: Ravin Nikolai V , Eldarov Michael A , Kadnikov Vitaly V , Beletsky Alexey V , Schneider Jessica , Mardanova Eugenia S , Smekalova Elena M , Zvereva Maria I , Dontsova Olga A , Mardanov Andrey V , Skryabin Konstantin G 
Published: November 2013

AbstractBackgroundHansenula polymorphaDL1 is a methylotrophic yeast, widely used in fundamental studies of methanol metabolism, peroxisome biogenesis and function, and also as a microbial cell factory for production of recombinant proteins and metabolic engineering towards the goal of high temperature ethanol production.ResultsWe have sequenced the 9 MbpH. polymorphaDL1 genome and performed whole-genome analysis for theH. polymorphatranscriptome obtained from both methanol- and glucose-grown cells. RNA-seq analysis revealed the complex and dynamic character of theH. polymorphatranscriptome under the two studied conditions, identified abundant and highly unregulated expression of 40% of the genome in methanol grown cells, and revealed alternative splicing events. We have identified subtelomerically biased protein families inH. polymorpha, clusters of LTR elements at G + C-poor chromosomal loci in the middle of each of the sevenH. polymorphachromosomes, and established the evolutionary position ofH. polymorphaDL1 within a separate yeast clade together with the methylotrophic yeastPichia pastorisand the non-methylotrophic yeastDekkera bruxellensis. Intergenome comparisons uncovered extensive gene order reshuffling between the three yeast genomes. Phylogenetic analyses enabled us to reveal patterns of evolution of methylotrophy in yeasts and filamentous fungi.ConclusionsOur results open new opportunities for in-depth understanding of many aspects ofH. polymorphalife cycle, physiology and metabolism as well as genome evolution in methylotrophic yeasts and may lead to novel improvements toward the application ofH. polymorphaDL-1 as a microbial cell factory.
Pyoderma gangrenosum in refractory celiac disease: a case report
Authors: Sedda Silvia , Caruso Roberta , Marafini Irene , Campione Elena , Orlandi Augusto , Pallone Francesco , Monteleone Giovanni 
Published: November 2013

Abstract

Background
Pyoderma gangrenosum is an inflammatory neutrophilic dermatosis characterized by painful cutaneous ulcerations and often associated with systemic inflammatory and neoplastic diseases. Here we report the first case of pyoderma gangrenosum in a patient with refractory celiac disease.

Case presentation
A 52-year-old woman with a previously diagnosed refractory celiac disease resistant to steroids and immunosuppressive drugs presented to our hospital for a rapidly growing, painful inflammatory skin lesion of the left leg. Physical examination revealed a painful lesion with focal ulceration, necrosis and pus discharge with active inflammatory borders at the external part of the left leg. Histological evaluation of a skin biopsy and analysis of inflammatory cytokines and matrix-degrading proteases in lesional skin samples confirmed the clinical suspicion of pyoderma gangrenosum. Treatment with oral prednisone was rapidly followed by a complete healing of the skin lesion but no improvement of symptoms/signs of malabsorption.

Conclusion
Treatment of the patient with systemic steroids healed the skin lesion without improving the underlying refractory celiac disease. This observation raises the possibility that refractory celiac disease and pyoderma gangrenosum may be immunologically different.
Chemopreventive effects of berberine on intestinal tumor development in Apc
min/+mice
Authors: Cao Hailong , Song Shuli , Zhang Hui , Zhang Yujie , Qu Rui , Yang Boli , Jing Yang , Hu Tianhui , Yan Fang , Wang Bangmao 
Published: November 2013

Abstract

Background
Berberine, an isoquinoline alkaloid, has shown inhibitory effects on growth of several tumor cell lines in vitro. The aim of this study was to investigate chemopreventive effects of berberine on intestinal tumor development in Apc
min/+ mice.

Methods
Four-week old Apc
min/+ mice were treated with 0.05% or 0.1% berberine in drinking water for twelve weeks. The number and the size of tumors were measured to evaluate intestinal tumor development. Tissue sections were prepared for PCNA and Ki-67 immunostaining to detect cell proliferation, and TUNEL assay and cleaved caspase-3 immunostaining for apoptosis. Western blot analysis and immunostaining were performed to detect the activation of Wnt and epidermal growth factor receptor (EGFR) signaling pathways and COX-2 expression in the intestinal tumor cells. The prostaglandin E2 level in the small intestine was detected using ELISA.

Results
Compared with untreated Apc
min/+ mice, the total numbers of tumors in the small intestine and the colon were reduced by 39.6% and 62.5% in 0.05% and 0.1% berberine-treated mice, respectively. The numbers of tumors in proximal, middle, and distal segments of the small intestine in 0.1% berberine-treated mice were significantly reduced by 53.7%, 55.3%, and 76.5% respectively. Berberine treatment also decreased the numbers of all sizes of tumors (>2 mm, 1–2 mm, and <1 mm) in the small intestine. Berberine suppressed tumor cell proliferation and increased apoptosis. Furthermore, berberine decreased the activation levels of Wnt and EGFR signaling pathways, and down-regulated COX-2 expression in intestinal tumor cells and prostaglandin E2 production in the small intestine.

Conclusions
Berberine inhibits intestinal tumor development, which is correlated with its activity to suppress tumor cell proliferation and increase apoptosis in Apc
min/+ mice. Down-regulation of Wnt and EGFR signaling pathways and COX-2 expression by berberine may be involved in its anti-tumorigenic effects.