bluuebunny/crossref_metadata_2025_split huggingface dataset:
Self-induced dust traps around snow lines in protoplanetary discs
Authors: Vericel Arnaud , Gonzalez Jean-François 
Published: December 2019

ABSTRACT
Dust particles need to grow efficiently from micrometre sizes to thousands of kilometres to form planets. With the growth of millimetre to metre sizes being hindered by a number of barriers, the recent discovery that dust evolution is able to create ‘self-induced’ dust traps shows promises. The condensation and sublimation of volatile species at certain locations, called snow lines, are also thought to be important parts of planet formation scenarios. Given that dust sticking properties change across a snow line, this raises the question: how do snow lines affect the self-induced dust trap formation mechanism? The question is particularly relevant with the multiple observations of the carbon monoxide (CO) snow line in protoplanetary discs, since its effect on dust growth and dynamics is yet to be understood. In this paper, we present the effects of snow lines in general on the formation of self-induced dust traps in a parameter study, and then focus on the CO snow line. We find that for a range of parameters, a dust trap forms at the snow line where the dust accumulates and slowly grows, as found for the water snow line in a previous work. We also find that, depending on the grains’ sticking properties on either side of the CO snow line, it could be either a starting or braking point for dust growth and drift. This could provide clues to understand the link between dust distributions and snow lines in protoplanetary disc observations.
Expression quantitative trait loci in ABC transporters are associated with survival in 5-FU treated colorectal cancer patients
Authors: Vymetalkova Veronika , Rosa Fabio , Susova Simona , Bendova Petra , Levy Miroslav , Buchler Tomas , Kral Jan , Bartu Linda , Vodickova Ludmila , Hughes David J , Soucek Pavel , Naccarati Alessio , Kumar Rajiv , Vodicka Pavel , Pardini Barbara 
Published: December 2019

Abstract
The chemotherapeutic efficacy in colorectal cancer (CRC) is limited due to the inter-individual variability in drug response and the development of tumour resistance. ATP-binding cassette (ABC) transporters are crucial in the development of resistance by the efflux of anticancer agents from cancer cells. In this study, we identified 14 single nucleotide polymorphisms (SNPs) in 11 ABC transporter genes acting as an expression of quantitative trait loci (eQTLs), i.e. whose variation influence the expression of many downstream genes. These SNPs were genotyped in a case–control study comprising 1098 cases and 1442 healthy controls and analysed in relation to CRC development risk and patient survival. Considering a strict correction for multiple tests, we did not observe any significant association between SNPs and CRC risk. The rs3819720 polymorphism in the ABCB3/TAP2 gene was statistically significantly associated with shorter overall survival (OS) in the codominant, and dominant models [GA vs. GG, hazard ratio (HR) = 1.48; P = 0.002; AA vs. GG, HR = 1.70; P = 0.004 and GA + AA vs. GG, HR = 1.52; P = 0.0006]. Additionally, GA carriers of the same SNP displayed worse OS after receiving 5-FU based chemotherapy. The variant allele of rs3819720 polymorphism statistically significantly affected the expression of 36 downstream genes. Screening for eQTL polymorphisms in relevant genes such as ABC transporters that can regulate the expression of several other genes may help to identify the genetic background involved in the individual response to the treatment of CRC patients.
New perspectives in cancer biology from a study of canonical and non-canonical functions of base excision repair proteins with a focus on early steps
Authors: Malfatti Matilde Clarissa , Antoniali Giulia , Codrich Marta , Burra Silvia , Mangiapane Giovanna , Dalla Emiliano , Tell Gianluca 
Published: December 2019

AbstractAlterations of DNA repair enzymes and consequential triggering of aberrant DNA damage response (DDR) pathways are thought to play a pivotal role in genomic instabilities associated with cancer development, and are further thought to be important predictive biomarkers for therapy using the synthetic lethality paradigm. However, novel unpredicted perspectives are emerging from the identification of several non-canonical roles of DNA repair enzymes, particularly in gene expression regulation, by different molecular mechanisms, such as (i) non-coding RNA regulation of tumour suppressors, (ii) epigenetic and transcriptional regulation of genes involved in genotoxic responses and (iii) paracrine effects of secreted DNA repair enzymes triggering the cell senescence phenotype. The base excision repair (BER) pathway, canonically involved in the repair of non-distorting DNA lesions generated by oxidative stress, ionising radiation, alkylation damage and spontaneous or enzymatic deamination of nucleotide bases, represents a paradigm for the multifaceted roles of complex DDR in human cells. This review will focus on what is known about the canonical and non-canonical functions of BER enzymes related to cancer development, highlighting novel opportunities to understand the biology of cancer and representing future perspectives for designing new anticancer strategies. We will specifically focus on APE1 as an example of a pleiotropic and multifunctional BER protein.
A nucleobase-binding pocket in a viral RNA-dependent RNA polymerase contributes to elongation complex stability
Authors: Shi Wei , Ye Han-Qing , Deng Cheng-Lin , Li Rui , Zhang Bo , Gong Peng 
Published: December 2019

Abstract
The enterovirus 71 (EV71) 3Dpol is an RNA-dependent RNA polymerase (RdRP) that plays the central role in the viral genome replication, and is an important target in antiviral studies. Here, we report a crystal structure of EV71 3Dpol elongation complex (EC) at 1.8 Å resolution. The structure reveals that the 5′-end guanosine of the downstream RNA template interacts with a fingers domain pocket, with the base sandwiched by H44 and R277 side chains through hydrophobic stacking interactions, and these interactions are still maintained after one in-crystal translocation event induced by nucleotide incorporation, implying that the pocket could regulate the functional properties of the polymerase by interacting with RNA. When mutated, residue R277 showed an impact on virus proliferation in virological studies with residue H44 having a synergistic effect. In vitro biochemical data further suggest that mutations at these two sites affect RNA binding, EC stability, but not polymerase catalytic rate (kcat) and apparent NTP affinity (KM,NTP). We propose that, although rarely captured by crystallography, similar surface pocket interaction with nucleobase may commonly exist in nucleic acid motor enzymes to facilitate their processivity. Potential applications in antiviral drug and vaccine development are also discussed.
Identification of α-Tomatine 23-Hydroxylase Involved in the Detoxification of a Bitter Glycoalkaloid
Authors: Nakayasu Masaru , Akiyama Ryota , Kobayashi Midori , Lee Hyoung Jae , Kawasaki Takashi , Watanabe Bunta , Urakawa Shingo , Kato Junpei , Sugimoto Yukihiro , Iijima Yoko , Saito Kazuki , Muranaka Toshiya , Umemoto Naoyuki , Mizutani Masaharu 
Published: December 2019

AbstractTomato plants (Solanum lycopersicum) contain steroidal glycoalkaloid α-tomatine, which functions as a chemical barrier to pathogens and predators. α-Tomatine accumulates in all tissues and at particularly high levels in leaves and immature green fruits. The compound is toxic and causes a bitter taste, but its presence decreases through metabolic conversion to nontoxic esculeoside A during fruit ripening. This study identifies the gene encoding a 23-hydroxylase of α-tomatine, which is a key to this process. Some 2-oxoglutarate-dependent dioxygenases were selected as candidates for the metabolic enzyme, and Solyc02g062460, designated Sl23DOX, was found to encode α-tomatine 23-hydroxylase. Biochemical analysis of the recombinant Sl23DOX protein demonstrated that it catalyzes the 23-hydroxylation of α-tomatine and the product spontaneously isomerizes to neorickiioside B, which is an intermediate in α-tomatine metabolism that appears during ripening. Leaves of transgenic tomato plants overexpressing Sl23DOX accumulated not only neorickiioside B but also another intermediate, lycoperoside C (23-O-acetylated neorickiioside B). Furthermore, the ripe fruits of Sl23DOX-silenced transgenic tomato plants contained lower levels of esculeoside A but substantially accumulated α-tomatine. Thus, Sl23DOX functions as α-tomatine 23-hydroxylase during the metabolic processing of toxic α-tomatine in tomato fruit ripening and is a key enzyme in the domestication of cultivated tomatoes.
Interplay between Fluid Extraction Mechanisms and Antigorite Dehydration Reactions (Val Malenco, Italian Alps)
Authors: Clément Maxime , Padrόn-Navarta José Alberto , Tommasi Andréa 
Published: December 2019

AbstractWe investigate the feedback between antigorite dehydration reactions and fluid extraction mechanisms through the analysis of field-scale structures and microtextures formed by antigorite dehydration reactions producing olivine and talc in the Bergell intrusion contact aureole at Alpe Zocca (Malenco Unit, Northern Italy). The reactions, which resulted in the replacement of serpentinites by metaperidotites, occurred under quasi-static conditions. The main reaction front, which defines the equilibrium isograd, is an ∼150 m wide zone composed of variably reacted rocks with an irregular distribution at scales ranging from a few centimeters to a few meters. Veins composed of the prograde mineral assemblage occur downstream (&lt;100 m) of this front. They are often surrounded by centimeter- to decimeter-scale dehydration reaction zones that propagate into the serpentinite wall-rock. Olivine in the metaperidotites and partially reacted serpentinites has a crystallographic preferred orientation (CPO) correlated with the antigorite CPO, with [010]Ol axes parallel to [001]Atg. This CPO is accompanied by a shape-preferred orientation (SPO) that marks the foliation in both rock types. Olivine crystals in Ol–Tlc dehydration veins also have SPO and CPO that define a jackstraw texture within the plane of the vein. They are elongated parallel to [001] within the vein plane and have their [010]Ol axes normal to the vein. We interpret the olivine–talc assemblage in the veins as resulting from dehydration reactions at lower temperature than the equilibrium conditions owing to fluid extraction from the wall-rock into the veins. The jackstraw texture indicates fast kinetics, with the crystal orientation controlled by anisotropic growth under a fluid pressure gradient. We interpret the foliated metaperidotites as formed at near equilibrium conditions, with pervasive fluid extraction from the metaperidotite by viscous metamorphic compaction. Olivine CPO in these rocks may result from topotaxy, oriented growth in the presence of an anisotropic (foliation-controlled) fluid flow, and/or solid reorientation of the anisometric olivine crystals accommodated by the deformation of the weaker talc (± chlorite) matrix during compaction.
Pelagic occurrences of the ice amphipod Apherusa glacialis throughout the Arctic
Authors: Kunisch Erin H , Bluhm Bodil A , Daase Malin , Gradinger Rolf , Hop Haakon , Melnikov Igor A , Varpe Øystein , Berge Jørgen 
Published: December 2019

AbstractApherusa glacialis is a common, sea ice-associated amphipod found throughout the Arctic Ocean and has long been considered permanently associated with the sea ice habitat. However, pelagic occurrences of A. glacialis have also been reported. It was recently suggested that A. glacialis overwinters at depth within the Atlantic-water inflow near Svalbard, to avoid being exported out of the Arctic Ocean through the Fram Strait. This study collated pelagic occurrence records over a 71-year period and found that A. glacialis was consistently found away from its presumed sea ice habitat on a pan-Arctic scale, in different depths and water masses. In the Svalbard region, A. glacialis was found in Atlantic Water both in winter and summer. Additionally, we analyzed A. glacialis size distributions throughout the year, collected mostly from sea ice, in order to elucidate potential life cycle strategies. The majority of young-of-the-year A. glacialis was found in the sea ice habitat during spring, supporting previous findings. Data on size distributions and sex ratios suggest a semelparous lifestyle. A synchronous seasonal vertical migration was not evident, but our data imply a more complex life history than previously assumed. We provide evidence that A. glacialis can no longer be regarded as an autochthonous sympagic species.
Long-Term Functional Outcomes Among Childhood Survivors of Cancer Who Have a History of Osteonecrosis
Authors: DeFeo Brian M , Kaste Sue C , Li Zhenghong , Brinkman Tara M , Neel Michael D , Srivastava Deo Kumar , Hudson Melissa M , Robison Leslie L , Karol Seth E , Ness Kirsten K 
Published: December 2019

Abstract

Background
Glucocorticoids used to treat childhood leukemia and lymphoma can result in osteonecrosis, leading to physical dysfunction and pain. Improving survival rates warrants research into long-term outcomes among this population.

Objective
The objective of this study was to compare the physical function and quality of life (QOL) of survivors of childhood cancer who had an osteonecrosis history with that of survivors who had no osteonecrosis history and with that of people who were healthy (controls).

Design
This was a cross-sectional study.

Methods
This study included St Jude Lifetime Cohort Study participants who were ≥ 10 years from the diagnosis of childhood leukemia or lymphoma and ≥ 18 years old; 135 had osteonecrosis (52.5% men; mean age = 27.7 [SD = 6.08] years) and 1560 had no osteonecrosis history (52.4% men; mean age = 33.3 [SD = 8.54] years). This study also included 272 people who were from the community and who were healthy (community controls) (47.7% men; mean age = 35.1 [SD = 10.46] years). The participants completed functional assessments and questionnaires about QOL.

Results
Survivors with osteonecrosis scored lower than other survivors and controls for dorsiflexion strength (mean score = 16.50 [SD = 7.91] vs 24.17 [SD = 8.61] N·m/kg) and scored lower than controls for flexibility with the sit-and-reach test (20.61 [SD = 9.70] vs 23.96 [SD = 10.73] cm), function on the Physical Performance Test (mean score = 22.73 [SD = 2.05] vs 23.58 [SD = 0.88]), and mobility on the Timed “Up & Go” Test (5.66 [SD = 2.25] vs 5.12 [SD = 1.28] seconds). Survivors with hip osteonecrosis requiring surgery scored lower than survivors without osteonecrosis for dorsiflexion strength (13.75 [SD = 8.82] vs 18.48 [SD = 9.04] N·m/kg), flexibility (15.79 [SD = 8.93] vs 20.37 [SD = 10.14] cm), and endurance on the 6-minute walk test (523.50 [SD = 103.00] vs 572.10 [SD = 102.40] m).

Limitations
Because some eligible survivors declined to participate, possible selection bias was a limitation of this study.

Conclusions
Survivors of childhood leukemia and lymphoma with and without osteonecrosis demonstrated impaired physical performance and reported reduced QOL compared with controls, with those requiring surgery for osteonecrosis most at risk for impairments. It may be beneficial to provide strengthening, flexibility, and endurance interventions for patients who have pediatric cancer and osteonecrosis for long-term function.
Birth characteristics of children who used early intervention and special education services in New York City
Authors: Romo Matthew L , McVeigh Katharine H , Jordan Phoebe , Stingone Jeanette A , Chan Pui Ying , Askew George L 
Published: December 2019

Abstract

Background
Early intervention (EI) and special education (SE) are beneficial for children with developmental disabilities and/or delays and their families, yet there are disparities in service use. We sought to identify the birth characteristics that predict EI/SE service use patterns.

Methods
We conducted a retrospective cohort study using linked administrative data from five sources for all children born in 1998 to New York City resident mothers. Multinomial regression was used to identify birth characteristics that predicted predominant patterns of service use.

Results
Children with service use patterns characterized by late or limited/no EI use were more likely to be first-born children and have Black or Latina mothers. Children born with a gestational age ≤31 weeks were more likely to enter services early. Early term gestational age was associated with patterns of service use common to children with pervasive developmental delay, and maternal obesity was associated with the initiation of speech therapy at the time of entry into school.

Conclusions
Maternal racial disparities existed for patterns of EI/SE service use. Specific birth characteristics, such as parity and gestational age, may be useful to better identify children who are at risk for suboptimal EI use.
MRI inflammation of facet and costovertebral joints is associated with restricted spinal mobility and worsened functional status
Authors: Chui Eva Tsz Fung , Tsang Helen Hoi Lun , Lee Kam Ho , Lau Chak Sing , Wong Ching Han , Chung Ho Yin 
Published: December 2019

Abstract

Objective
To investigate the association of spinal inflammation on MRI in patients with various clinical, functional and radiological outcomes in patients with axial spondyloarthritis (SpA).

Methods
Three hundred and ninety-seven participants with axial SpA and back pain were recruited from 10 rheumatology centres. Clinical, biochemical and radiological parameters were collected and participants underwent MRI of the spine. MRI features including inflammatory lesions of facet joints and costovertebral joints, corner inflammatory lesions, and spondylitis were assessed. BASFI, Bath Ankylosing Spondylitis Disease Activity Index, Bath Ankylosing Spondylitis Global Index, BASMI and modified Stoke Ankylosing Spondylitis Spinal Score were measured. Multivariate linear regression models were used to determine the associations between MRI parameters and various clinical, functional and radiological outcomes.

Results
BASMI and BASFI correlated well with inflammatory features in spinal MRI. Multivariate analysis showed that lumbar facet joint inflammation was independently associated with BASMI (regression coefficient (β) = 0.12, P &lt; 0.001), lumbar spinal flexion (β = 0.13, P = 0.00), lateral spinal flexion (β = 0.09, P = 0.04), tragus-to-wall distance (β = 0.16, P &lt; 0.001) and BASFI (β = 0.14, P = 0.01). Costovertebral joint inflammation was also associated with BASMI (β = 0.08, P = 0.05).

Conclusion
Inflammatory lesions of facet and costovertebral joints in MRI are associated with restriction in spinal mobility and functional impairment. These important yet commonly overlooked lesions should be reviewed in clinical practice in patients with SpA.
Toxicokinetics of cis- and trans-Permethrin: Influence of Isomer, Maturation, and Sex
Authors: Pang Jing , Mortuza Tanzir , White Catherine A , Muralidhara Srinavasa , Cummings Brian S , Bruckner James V 
Published: December 2019

Abstract
Permethrin exposure of children and adults is widespread in many populations, but knowledge of its relative toxicokinetics (TK) and health risks in immature age groups is lacking. Studies were conducted in rats to determine the influence of immaturity and sex (on plasma and target organ dosimetry of each of the insecticide’s 2 isomers, cis- and trans-permethrin [CIS and TRANS]). Postnatal day 15, 21, and 90 (adult), Sprague Dawley rats were orally administered a graduated series of doses of CIS and TRANS in corn oil. Serial sacrifices were conducted over 24 h to obtain plasma, brain, liver, skeletal muscle, and fat profiles of CIS and TRANS. Levels of TRANS decreased relatively rapidly, despite administration of relatively high doses. Concentrations of each isomer in plasma, brain, and other tissues monitored were inversely proportional to the animals’ age. The youngest pups exhibited 4-fold higher plasma and brain area under the curves than did adults. Little difference was observed in the TK of CIS or TRANS between adult male and female rats, other than higher initial plasma and liver CIS levels in females. Elevated exposure of the immature brain appears to be instrumental in increased susceptibility to the acute neurotoxicity of high-dose permethrin (Cantalamessa [1993]), but it remains to be established whether age-dependent TK is relevant to long-term, low-level risks.
Sodium-glucose cotransporter 2 inhibitors and type 2 diabetes: clinical pearls for in-hospital initiation, in-hospital management, and postdischarge
Authors: Mazer C. David , Arnaout Amel , Connelly Kim A. , Gilbert Jeremy D. , Glazer Stephen A. , Verma Subodh , Goldenberg Ronald M. 
Published: December 2019

Purpose of review
The aim of this article is to provide practical recommendations on safe initiation of sodium-glucose cotransporter 2 (SGLT2) inhibitors to in-patients as well as management of those who are already on SGLT2 inhibitors.

Recent findings
Robust data from stable outpatient cohorts indicate that the SGLT2 inhibitors are associated with clinically meaningful reductions in major adverse cardiovascular events, lower rates of hospitalization for heart failure, and a reduction in major kidney outcomes There is however a lack of information on how to initiate and manage SGLT2 inhibitors in an acute in-patient setting.

Summary
SGLT2 inhibitors may be cautiously appropriate for in-patients if all the criteria for safe use are met but good clinical judgment must prevail. Temporary withholding of SGLT2 inhibitors is appropriate in hospitalized patients during a period of stress and/or insulinopenia.