bluuebunny/crossref_metadata_2025_split huggingface dataset:
Less sedentary time is associated with a more favourable glucose-insulin axis in obese pregnant women—a secondary analysis of the DALI study
Authors: Dieberger Anna M. , Desoye Gernot , Stolz Erwin , Hill David J. , Corcoy Rosa , Simmons David , Harreiter Jürgen , Kautzky-Willer Alexandra , Dunne Fidelma , Devlieger Roland , Wender-Ozegowska Ewa , Zawiejska Agnieszka , Lapolla Annunziata , Dalfra Maria Grazia , Bertolotto Alessandra , Galjaard Sander , Adelantado Juan M. , Jensen Dorte Møller , Andersen Lise-Lotte , Tanvig Mette , Damm Peter , Mathiesen Elisabeth Reinhardt , Snoek Frank J. , Jelsma Judith G. M. , van Poppel Mireille N. M. 
Published: July 2020

Abstract
Background/objectives
Obese pregnant women are at high risk of developing gestational diabetes mellitus (GDM), which might be reduced by sufficient physical activity (PA) and reduced sedentary time (ST). We assessed whether PA and ST are longitudinally associated with the glucose-insulin axis in obese pregnant women.

Subjects/methods
In this secondary analysis of the DALI (vitamin D And Lifestyle Intervention for gestational diabetes mellitus prevention) study, pregnant women, <20 weeks gestation, with a pre-pregnancy body mass index (BMI) ≥ 29 kg/m2, without GDM on entry were included. Time spent in moderate-to-vigorous PA (MVPA) and ST were measured objectively with accelerometers at <20 weeks, 24–28 weeks and 35–37 weeks of gestation. Fasting glucose (mmol/l) and insulin (mU/l), insulin resistance (HOMA-IR) and first-phase and second-phase insulin release (Stumvoll first and second phase) were assessed at the same time. Linear mixed regression models were used to calculate between-participant differences and within-participant changes over time. Analyses were adjusted for gestational age, randomisation, pre-pregnancy BMI, education and age. MVPA, Insulin, HOMA-IR and Stumvoll first and second phase were log-transformed for analyses due to skewness.

Results
232 women were included in the analysis. Concerning differences between participants, more ST was associated with higher fasting glucose (Estimate: 0.008; 95% CI: 0.002, 0.014), fasting insulin (0.011; 0.002, 0.019), HOMA-IR (0.012; 0.004, 0.021) and Stumvoll first and second phase (0.008; 0.001, 0.014 and 0.007; 0.001, 0.014). Participants with more MVPA had lower Stumvoll first and second phase (−0.137; −0.210, −0.064 and −0.133; −0.202, −0.063). Concerning changes over time, an increase in ST during gestation was associated with elevated Stumvoll first and second phase (0.006; 0.000, 0.011).

Conclusions
As the glucose-insulin axis is more strongly associated with ST than MVPA in our obese population, pregnant women could be advised to reduce ST in addition to increasing MVPA. Moreover, our findings suggest that behaviour change interventions aiming at GDM risk reduction should start in early or pre-pregnancy.
Association of urinary sodium and potassium excretion with systolic blood pressure in the Dietary Approaches to Stop Hypertension Sodium Trial
Authors: Chaudhary Parul , Wainford Richard D. 
Published: July 2020

AbstractThe 2019 National Academy of Science, Engineering and Medicine Dietary Reference Intakes (DRI) for Sodium (Na+) and Potassium (K+) Report concluded there remains insufficient evidence to establish a K+ DRI. This study tested the hypothesis that reduced Na+ and increased K+ excretion will positively associate with lower blood pressure in salt sensitive (SS) and salt resistant (SR) participants in the Dietary Approaches to Stop Hypertension Sodium Trial (DASH–Sodium). Via the NHLBI BioLINCC we accessed the DASH-Sodium dataset for data on systolic blood pressure (SBP), 24-h urinary Na+ and K+ excretion at screening (regular patient diet; N = 186, SS N = 222 SR) and post DASH diet (N = 71 SS, N = 119 SR). The relationships between SBP, urinary Na+ and K+ excretion, and Na+/K+ ratio were assessed via linear regression. At screening elevated urinary Na+ excretion positively associated with SBP in SS (1 g increase in urinary Na+ excretion = +1 0 ± 0.4 mmHg) but not SR participants, and urinary K+ excretion of <1 g K+/day was associated with higher SBP in SS and SR participants. Urinary K+ excretion ≥1 g/day, or a decreases in urinary Na+/K+ ratio, was not associated with lower SBP. Post the DASH–sodium diet intervention, SBP was reduced in SS and SR participants. However, no correlation was observed between reduced SBP and urinary K+ excretion or the urinary Na+/K+ ratio irrespective of the salt sensitivity of blood pressure. Our data support the DRI recommendation not to establish a K+ DRI and suggest further evidence is required to support a reduced Na+/K+ ratio to lower SBP.
A transcriptomic continuum of differentiation arrest identifies myeloid interface acute leukemias with poor prognosis
Authors: Bond Jonathan , Krzywon Aleksandra , Lhermitte Ludovic , Roumier Christophe , Roggy Anne , Belhocine Mohamed , Kheirallah Alexander Abdulkader , Villarese Patrick , Hypolite Guillaume , Garnache-Ottou Francine , Castaigne Sylvie , Boissel Nicolas , Asnafi Vahid , Preudhomme Claude , Dombret Hervé , Laurenti Elisa , Macintyre Elizabeth 
Published: July 2020

AbstractClassification of acute lymphoblastic and myeloid leukemias (ALL and AML) remains heavily based on phenotypic resemblance to normal hematopoietic precursors. This framework can provide diagnostic challenges for immunophenotypically heterogeneous immature leukemias, and ignores recent advances in understanding of developmental multipotency of diverse normal hematopoietic progenitor populations that are identified by transcriptional signatures. We performed transcriptional analyses of a large series of acute myeloid and lymphoid leukemias and detected significant overlap in gene expression between cases in different diagnostic categories. Bioinformatic classification of leukemias along a continuum of hematopoietic differentiation identified leukemias at the myeloid/T-lymphoid interface, which shared gene expression programs with a series of multi or oligopotent hematopoietic progenitor populations, including the most immature CD34+CD1a−CD7− subset of early thymic precursors. Within these interface acute leukemias (IALs), transcriptional resemblance to early lymphoid progenitor populations and biphenotypic leukemias was more evident in cases originally diagnosed as AML, rather than T-ALL. Further prognostic analyses revealed that expression of IAL transcriptional programs significantly correlated with poor outcome in independent AML patient cohorts. Our results suggest that traditional binary approaches to acute leukemia categorization are reductive, and that identification of IALs could allow better treatment allocation and evaluation of therapeutic options.
How single-cell immunology is benefiting from microfluidic technologies
Authors: Jammes Fabien C. , Maerkl Sebastian J. 
Published: July 2020

AbstractThe immune system is a complex network of specialized cells that work in concert to protect against invading pathogens and tissue damage. Imbalances in this network often result in excessive or absent immune responses leading to allergies, autoimmune diseases, and cancer. Many of the mechanisms and their regulation remain poorly understood. Immune cells are highly diverse, and an immune response is the result of a large number of molecular and cellular interactions both in time and space. Conventional bulk methods are often prone to miss important details by returning population-averaged results. There is a need in immunology to measure single cells and to study the dynamic interplay of immune cells with their environment. Advances in the fields of microsystems and microengineering gave rise to the field of microfluidics and its application to biology. Microfluidic systems enable the precise control of small volumes in the femto- to nanoliter range. By controlling device geometries, surface chemistry, and flow behavior, microfluidics can create a precisely defined microenvironment for single-cell studies with spatio-temporal control. These features are highly desirable for single-cell analysis and have made microfluidic devices useful tools for studying complex immune systems. In addition, microfluidic devices can achieve high-throughput measurements, enabling in-depth studies of complex systems. Microfluidics has been used in a large panel of biological applications, ranging from single-cell genomics, cell signaling and dynamics to cell–cell interaction and cell migration studies. In this review, we give an overview of state-of-the-art microfluidic techniques, their application to single-cell immunology, their advantages and drawbacks, and provide an outlook for the future of single-cell technologies in research and medicine.
Short-term improvements in diet quality in people newly diagnosed with type 2 diabetes are associated with smoking status, physical activity and body mass index: the 3D case series study
Authors: Burch Emily , Williams Lauren T. , Thalib Lukman , Ball Lauren 
Published: July 2020

Abstract
Background
Dietary intake impacts glycaemic control through its effect on weight and glucose-insulin homeostasis. Early glycaemic control is associated with improved outcomes and reduced mortality for people with type 2 diabetes (T2D). To date, the diet quality of people with T2D has only been studied cross-sectionally. The objective of this paper is to quantify short-term improvements in diet quality and to identify factors associated with improvements after T2D diagnosis among participants in the 3D study.

Methods
This paper presents data from the 3D study of 225 Australian adults, newly diagnosed with T2D. Telephone interviews collected demographic, diet, physical and health data at baseline and 3 months. Diet quality was assessed using the Dietary Approaches to Stop Hypertension (DASH) tool to examine short-term changes in diet quality after diagnosis. Participants were categorised into two groups: those who improved their diet quality by 3 months (increase in DASH score of 3 or more) and those who did not. Factors associated with change in DASH scores were clinically and statistically evaluated.

Results
The 3D cohort was comparable to Australian cohorts with diabetes by gender and body mass index (BMI) but differed by age, remoteness and socioeconomic status. Mean (SD) baseline DASH score was 24.4 (4.7), in the midrange of possible scores between 8 and 40. One third of participants improved their DASH score by 3-months. This group had lower diet quality (p < 0.001), lower BMI (p = 0.045), higher physical activity levels (p = 0.028) and were less likely to smoke (p = 0.018) at baseline.

Conclusions
Diet quality changes after diagnosis do not appear to be associated with demographic characteristics but were associated with lifestyle behaviours. Strategies targeted at better supporting smokers, those with low physical activity and higher BMI are required. Future research should investigate how the diet quality changes people make around time of diagnosis are related to long-term health outcomes.
Genetics of structural and functional brain changes in autism spectrum disorder
Authors: Hashem Sheema , Nisar Sabah , Bhat Ajaz A. , Yadav Santosh Kumar , Azeem Muhammad Waqar , Bagga Puneet , Fakhro Khalid , Reddy Ravinder , Frenneaux Michael P. , Haris Mohammad 
Published: July 2020

AbstractAutism spectrum disorder (ASD) is a neurological and developmental disorder characterized by social impairment and restricted interactive and communicative behaviors. It may occur as an isolated disorder or in the context of other neurological, psychiatric, developmental, and genetic disorders. Due to rapid developments in genomics and imaging technologies, imaging genetics studies of ASD have evolved in the last few years. Increased risk for ASD diagnosis is found to be related to many specific single-nucleotide polymorphisms, and the study of genetic mechanisms and noninvasive imaging has opened various approaches that can help diagnose ASD at the nascent level. Identifying risk genes related to structural and functional changes in the brain of ASD patients provide a better understanding of the disease’s neuropsychiatry and can help identify targets for therapeutic intervention that could be useful for the clinical management of ASD patients.
Low GAS5 expression may predict poor survival and cisplatin resistance in cervical cancer
Authors: Fang Xingyu , Zhong Guanglei , Wang Yuhan , Lin Zhongqiu , Lin Rongchun , Yao Tingting 
Published: July 2020

AbstractCisplatin resistance is a major challenge in cervical cancer (CC) chemotherapy. Growth arrest‐specific 5 (GAS5) has been reported to be a tumour suppressor gene in CC. However, the mechanism of GAS5 in chemoresistance remains undetermined. Our research evaluated GAS5 expression in normal and CC tissues by qPCR and in situ hybridization (ISH). Statistical analysis was conducted to analyse the association of GAS5 expression with survival. Biochemical methods were used to screen upstream and downstream regulators of GAS5. Then, interactions were confirmed by ChIP, RNA pull-down, RNA immunoprecipitation (RIP), dual-luciferase reporter and real-time PCR assays. The cisplatin sensitivity of GAS5-overexpressing CC cells was demonstrated in vitro and in vivo. The results showed that low GAS5 expression was correlated with poor overall survival. Mechanistically, GAS5 was transcriptionally modulated by P-STAT3 and served as a competing endogenous RNA (ceRNA) of miR-21 to indirectly affect cisplatin sensitivity through PDCD4 regulation in CC cells. Animal studies confirmed that GAS5 enhanced cisplatin sensitivity and promoted PDCD4 expression in vivo. GAS5 was regulated by P-STAT3 and affected the sensitivity of CC to cisplatin-based chemotherapy through the miR-21/PDCD4 axis. This result may provide new insight into cisplatin-based therapy.
Identification of distinct transcriptome signatures of human adipose tissue from fifteen depots
Authors: Schleinitz Dorit , Krause Kerstin , Wohland Tobias , Gebhardt Claudia , Linder Nicolas , Stumvoll Michael , Blüher Matthias , Bechmann Ingo , Kovacs Peter , Gericke Martin , Tönjes Anke 
Published: July 2020

AbstractThe functional and metabolic characteristics of specific adipose tissue (AT) depots seem to be determined by intrinsic mechanisms. We performed a comprehensive transcriptome profiling of human AT from distinct fat depots to unravel their unique features potentially explaining molecular mechanisms underlying AT distribution and their contribution to health and disease. Post-mortem AT samples of five body donors from 15 anatomical locations were collected. Global mRNA expression was measured by Illumina® Human HT-12 v4 Expression BeadChips. Data were validated using qPCR and Western Blot in a subset of ATs from seven additional body donors. Buccal and heel AT clearly separated from the “classical” subcutaneous AT depots, and perirenal and epicardial AT were distinct from visceral depots. Gene-set enrichment analyses pointed to an inflammatory environment and insulin resistance particularly in the carotid sheath AT depot. Moreover, the epicardial fat transcriptome was enriched for genes involved in extracellular matrix remodeling, inflammation, immune signaling, coagulation, thrombosis, beigeing, and apoptosis. Interestingly, a striking downregulation of the expression of leptin receptor was found in AT from heel compared with all other AT depots. The distinct gene expression patterns are likely to define fat depot specific AT functions in metabolism, energy storage, immunity, body insulation or as cushions. Improved knowledge of the gene expression profiles of various fat depots may strongly benefit studies aimed at better understanding of the genetics and the pathophysiology of obesity and adverse body fat composition.
A dataset describing data discovery and reuse practices in research
Authors: Gregory Kathleen 
Published: July 2020

AbstractThis paper presents a dataset produced from the largest known survey examining how researchers and support professionals discover, make sense of and reuse secondary research data. 1677 respondents in 105 countries representing a variety of disciplinary domains, professional roles and stages in their academic careers completed the survey. The results represent the data needs, sources and strategies used to locate data, and the criteria employed in data evaluation of these respondents. The data detailed in this paper have the potential to be reused to inform the development of data discovery systems, data repositories, training activities and policies for a variety of general and specific user communities.
A three-dimensional, population-based average of the C57BL/6 mouse brain from DAPI-stained coronal slices
Authors: Stæger Frederik Filip , Mortensen Kristian Nygaard , Nielsen Malthe Skytte Nordentoft , Sigurdsson Björn , Kaufmann Louis Krog , Hirase Hajime , Nedergaard Maiken 
Published: July 2020

AbstractFluorescence imaging of immunolabeled brain slices is a key tool in neuroscience that enable mapping of proteins or DNA/RNA at resolutions not possible with non-invasive techniques, including magnetic resonance or nuclear imaging. The signal in specific regions is usually quantified after manually drawing regions of interest, risking operator-bias. Automated segmentation methods avoid this risk but require multi-sample average atlases with similar image contrast as the images to be analyzed. We here present the first population-based average atlas of the C57BL/6 mouse brain constructed from brain sections labeled with the fluorescence nuclear stain DAPI. The data set constitutes a rich three-dimensional representation of the average mouse brain in the DAPI staining modality reconstructed from coronal slices and includes an automatic segmentation/spatial normalization pipeline for novel coronal slices. It constitutes the final population-based average template, individual reconstructed brain volumes, and native coronal slices. The comprehensive data set and accompanying spatial normalization/segmentation software are provided. We encourage the community to utilize it to improve and validate methods for automated brain slice analysis.
Long term survey of the fish community and associated benthic fauna of the Seine estuary nursery grounds
Authors: Cariou Thibault , Dubroca Laurent , Vogel Camille 
Published: July 2020

AbstractEstuaries are crucial ecosystems where human activities deeply affect numerous ecological functions. Here we present a survey dataset based on the monitoring of fish nursery grounds of the Seine estuary and eastern bay of Seine collected once a year using a beam trawl during three distinct periods (1995-2002, 2008–2010 and 2017–2019). The surveys happen at the start of autumn in order to maximize the catchability of juvenile fish. The beam trawl mainly targets benthic and demersal species on a study area that extends over 600 square kilometers. The dataset includes abundance and densities of 161 species for 634 hauls performed around 40 stations each year. These data can be used by fishery scientists and ecologists motivated by early life stages of commercial species or by the impact of human disturbances, such as harbor developments, on estuarine communities.
Catalytic inhibition of H3K9me2 writers disturbs epigenetic marks during bovine nuclear reprogramming
Authors: Sampaio Rafael Vilar , Sangalli Juliano Rodrigues , De Bem Tiago Henrique Camara , Ambrizi Dewison Ricardo , del Collado Maite , Bridi Alessandra , de Ávila Ana Clara Faquineli Cavalcante Mend , Macabelli Carolina Habermann , de Jesus Oliveira Lilian , da Silveira Juliano Coelho , Chiaratti Marcos Roberto , Perecin Felipe , Bressan Fabiana Fernandes , Smith Lawrence Charles , Ross Pablo J , Meirelles Flávio Vieira 
Published: July 2020

AbstractOrchestrated events, including extensive changes in epigenetic marks, allow a somatic nucleus to become totipotent after transfer into an oocyte, a process termed nuclear reprogramming. Recently, several strategies have been applied in order to improve reprogramming efficiency, mainly focused on removing repressive epigenetic marks such as histone methylation from the somatic nucleus. Herein we used the specific and non-toxic chemical probe UNC0638 to inhibit the catalytic activity of the histone methyltransferases EHMT1 and EHMT2. Either the donor cell (before reconstruction) or the early embryo was exposed to the probe to assess its effect on developmental rates and epigenetic marks. First, we showed that the treatment of bovine fibroblasts with UNC0638 did mitigate the levels of H3K9me2. Moreover, H3K9me2 levels were decreased in cloned embryos regardless of treating either donor cells or early embryos with UNC0638. Additional epigenetic marks such as H3K9me3, 5mC, and 5hmC were also affected by the UNC0638 treatment. Therefore, the use of UNC0638 did diminish the levels of H3K9me2 and H3K9me3 in SCNT-derived blastocysts, but this was unable to improve their preimplantation development. These results indicate that the specific reduction of H3K9me2 by inhibiting EHMT1/2 during nuclear reprogramming impacts the levels of H3K9me3, 5mC, and 5hmC in preimplantation bovine embryos.
Gender-related responses of dioecious plant Populus cathayana to AMF, drought and planting pattern
Authors: Li Zhen , Wu Na , Liu Ting , Tang Ming , Chen Hui 
Published: July 2020

AbstractIn our previous studies, we detected drought, gender and arbuscular mycorrhizal (AM) inoculation effects on dioecious plant. Based on this, we investigated the intra- and inter-sexual competition between male and female plants. Dioecious plant Populus cathayana was used and we set 3 factors in this experiment: (1) AM inoculation/non-inoculation; (2) well-watered/water-stressed; (3) single-gender pattern (only 4 males or 4 females)/mixed-gender pattern (2 males and 2 females). Growth (stem length, ground diameter, SPAD, mean leaf area, biomass accumulation) and nutrition (C, N, P, K, Ca and Mg) distribution of male and female seedlings were determined. Results Drought significantly limited plant growth and nutrition accumulation, especially in female plants; AM formation alleviated this negative effect, especially in male plants. However, the gender effect was complicated. A mixed-gender planting pattern relieved intra- competition in terms of the growth and nutrient accumulation of both genders and even alleviated the negative effects caused by drought. In the mixed-gender pattern, the differences of C, N, P, K and Ca contents between male and female plants with AM inoculation was smaller than those without AM inoculation, which indicated a potential role for AM fungi in nutrient transport. Males had a stronger physiological response to limited water availability, and more advantages from AM formation than females. Mixed-gender planting relieved the existence of intra- sexual competition of dioecious plants, and AM symbiosis alleviated the differences between genders.