bluuebunny/crossref_metadata_2025_split huggingface dataset:
Recombination suppression in heterozygotes for a pericentric inversion induces the interchromosomal effect on crossovers in Arabidopsis
Authors: Termolino Pasquale , Falque Matthieu , Aiese Cigliano Riccardo , Cremona Gaetana , Paparo Rosa , Ederveen Antoine , Martin Olivier C. , Consiglio Federica M. , Conicella Clara 
Published: August 2019

SummaryDuring meiosis, recombination ensures allelic exchanges through crossovers (COs) between the homologous chromosomes. Advances in our understanding of the rules of COs have come from studies of mutations including structural chromosomal rearrangements that, when heterozygous, are known to impair COs in various organisms. In this work, we investigate the effect of a large heterozygous pericentric inversion on male and female recombination in Arabidopsis. The inversion was discovered in the Atmcc1 mutant background and was characterized through genetic and next‐generation sequencing analysis. Reciprocal backcross populations, each consisting of over 400 individuals, obtained from the mutant and the wild type, both crossed with Landsberg erecta, were analyzed genome‐wide by 143 single‐nucleotide polymorphisms. The negative impact of inversion became evident in terms of CO loss in the rearranged chromosome in both male and female meiosis. No single‐CO event was detected within the inversion, consistent with a post‐meiotic selection operating against unbalanced gametes. Cytological analysis of chiasmata in F1 plants confirmed that COs were reduced in male meiosis in the chromosome with inversion. Crossover suppression on the rearranged chromosome is associated with a significant increase of COs in the other chromosomes, thereby maintaining unchanged the number of COs per cell. The CO pattern observed in our study is consistent with the interchromosomal (IC) effect as first described in Drosophila. In contrast to male meiosis, in female meiosis no IC effect is visible. This may be related to the greater strength of interference that constrains the CO number in excess of the minimum value imposed by CO assurance in Arabidopsis female meiosis.
Cinnamate‐CoA ligase is involved in biosynthesis of benzoate‐derived biphenyl phytoalexin in Malus × domestica ‘Golden Delicious’ cell cultures
Authors: Teotia Deepa , Gaid Mariam , Saini Shashank S. , Verma Aparna , Yennamalli Ragothaman M. , Khare Satyajeet P. , Ambatipudi Kiran , Mir Javid Iqbal , Beuerle Till , Hänsch Robert , Roy Partha , Agrawal Pawan Kumar , Beerhues Ludger , Sircar Debabrata 
Published: August 2019

SummaryApple (Malus sp.) and other genera belonging to the sub‐tribe Malinae of the Rosaceae family produce unique benzoic acid‐derived biphenyl phytoalexins. Cell cultures of Malus domestica cv. ‘Golden Delicious’ accumulate two biphenyl phytoalexins, aucuparin and noraucuparin, in response to the addition of a Venturia inaequalis elicitor (VIE). In this study, we isolated and expressed a cinnamate‐CoA ligase (CNL)‐encoding sequence from VIE‐treated cell cultures of cv. ‘Golden Delicious’ (M. domestica CNL; MdCNL). MdCNL catalyses the conversion of cinnamic acid into cinnamoyl‐CoA, which is subsequently converted to biphenyls. MdCNL failed to accept benzoic acid as a substrate. When scab‐resistant (cv. ‘Shireen’) and moderately scab‐susceptible (cv. ‘Golden Delicious’) apple cultivars were challenged with the V. inaequalis scab fungus, an increase in MdCNL transcript levels was observed in internodal regions. The increase in MdCNL transcript levels could conceivably correlate with the pattern of accumulation of biphenyls. The C‐terminal signal in the MdCNL protein directed its N‐terminal reporter fusion to peroxisomes in Nicotiana benthamiana leaves. Thus, this report records the cloning and characterisation of a cinnamoyl‐CoA‐forming enzyme from apple via a series of in vivo and in vitro studies. Defining the key step of phytoalexin formation in apple provides a biotechnological tool for engineering elite cultivars with improved resistance.
Chlorella vulgaris genome assembly and annotation reveals the molecular basis for metabolic acclimation to high light conditions
Authors: Cecchin Michela , Marcolungo Luca , Rossato Marzia , Girolomoni Laura , Cosentino Emanuela , Cuine Stephan , Li‐Beisson Yonghua , Delledonne Massimo , Ballottari Matteo 
Published: August 2019

SummaryChlorella vulgaris is a fast‐growing fresh‐water microalga cultivated on the industrial scale for applications ranging from food to biofuel production. To advance our understanding of its biology and to establish genetics tools for biotechnological manipulation, we sequenced the nuclear and organelle genomes of Chlorella vulgaris 211/11P by combining next generation sequencing and optical mapping of isolated DNA molecules. This hybrid approach allowed us to assemble the nuclear genome in 14 pseudo‐molecules with an N50 of 2.8 Mb and 98.9% of scaffolded genome. The integration of RNA‐seq data obtained at two different irradiances of growth (high light, HL versus low light, LL) enabled us to identify 10 724 nuclear genes, coding for 11 082 transcripts. Moreover, 121 and 48 genes, respectively, were found in the chloroplast and mitochondrial genome. Functional annotation and expression analysis of nuclear, chloroplast and mitochondrial genome sequences revealed particular features of Chlorella vulgaris. Evidence of horizontal gene transfers from chloroplast to mitochondrial genome was observed. Furthermore, comparative transcriptomic analyses of LL versus HL provided insights into the molecular basis for metabolic rearrangement under HL versus LL conditions leading to enhanced de novo fatty acid biosynthesis and triacylglycerol accumulation. The occurrence of a cytosolic fatty acid biosynthetic pathway could be predicted and its upregulation upon HL exposure was observed, consistent with the increased lipid amount under HL conditions. These data provide a rich genetic resource for future genome editing studies, and potential targets for biotechnological manipulation of Chlorella vulgaris or other microalgae species to improve biomass and lipid productivity.
Rapid nitrogen and phosphorus homeostasis transformation in Eupatorium adenophorum during invasion
Authors: Wu A‐P , Liu L , Qi L‐Y , Zhong W , Liang Y‐S , Chen F‐L , He F‐F , Wang Y‐H 
Published: August 2019

SummaryExotic plants can compete well with native species because many invasive species are considered better nutrient users in both low‐ and high‐resource environments. However, whether invasive plants can outperform native plants at all stages of invasion is not very clear. We investigated the nitrogen (N), phosphorus (P) and N:P homeostasis of an invasive Eupatorium adenophorum and a co‐occurring native plant Artemisia argyi in an area across the five invasion stages of E. adenophorum. The N homeostasis (HN) of E. adenophorum was higher than that of A. argyi, whereas the P and N:P homeostasis (HP and HN/P) were higher for A. argyi. For E. adenophorum, HN decreased, but HP and HN/P increased with the invasion time. For A. argyi, HN/P increased, HP and HN remained stable with the invasion time. The results demonstrated that E. adenophorum could maintain higher HN during invasion stages when N was limited and could maintain higher HN and HP at invasion stages when P was more limited. This rapid nitrogen and phosphorus homeostasis transformation of invasive E. adenophorum during its invasion stages guarantees its stronger competitive ability over native species and promotes its invasion success.
What's an Ark?
Authors: Payne Mark 
Published: August 2019

An organism threatened with extinction is entrusted to safe storage in the hope that the conditions it needs to survive might one day be available to it again. The ark of Genesis has been widely used to imagine conservation projects of this kind. My paper circumscribes ark building as a conservation activity with other instances of ark building in contemporary culture, from Lars von Trier’s Melancholia to Lee Scratch Perry’s Black Ark. What is at stake when we decide that some form of life is, or is not, worthy of being set on its way to a life to come?
Equitable coverage? The roles of the private and public sectors in providing maternal, newborn and child health interventions in South Asia
Authors: Guo Sufang , Carvajal-Aguirre Liliana , Victora Cesar G , Barros Aluisio J D , Wehrmeister Fernando C , Vidaletti Luis Paulo , Gupta Gagan , Matin Md Ziaul , Rutter Paul 
Published: August 2019

IntroductionThe private sector accounts for an important share of health services available in South Asia. It is not known to what extent socioeconomic and urban–rural inequalities in maternal, newborn and child health (MNCH) interventions are being affected by the presence of private providers.MethodsNationally representative surveys carried out from 2009 to 2015 were analysed for seven of the eight countries in South Asia, as data for Sri Lanka were not available. The outcomes studied included antenatal care (four or more visits), institutional delivery, early initiation of breast feeding, postnatal care for babies, and careseeking for diarrhoea and pneumonia. Results were stratified according to quintiles of household wealth and urban–rural residence.ResultsAt regional level, the public sector played a larger role than the private sector in providing antenatal (24.8% vs 15.6% coverage), delivery (51.9% vs 26.8%) and postnatal care (15.7% vs 8.2%), as well as in the early initiation of breast feeding (26.1% vs 11.1%). The reverse was observed in careseeking for diarrhoea (15.0% and 46.2%) and pneumonia (18.2% and 50.5%). In 28 out of 37 possible analyses of coverage by country, socioeconomic inequalities were significantly wider in the private than in the public sector, and in only four cases the reverse pattern was observed. In 20 of the 37 analyses, the public sector was also more likely to be used by the wealthiest women and children.ConclusionThe private sector plays a substantial role in delivering MNCH interventions in South Asia but is more inequitable than the public sector.
Long-read sequencing and haplotype linkage analysis enabled preimplantation genetic testing for patients carrying pathogenic inversions
Authors: Zhang Shuo , Liang Fan , Lei Caixia , Wu Junping , Fu Jing , Yang Qi , Luo Xiao , Yu Guoliang , Wang Depeng , Zhang Yueping , Lu Daru , Sun Xiaoxi , Liang Yu , Xu Congjian 
Published: August 2019

BackgroundPreimplantation genetic testing (PGT) has already been applied in patients known to carry chromosomal structural variants to improve the clinical outcome of assisted reproduction. However, conventional molecular techniques are not capable of reliably distinguishing embryos that carry balanced inversion from those with a normal karyotype. We aim to evaluate the use of long-read sequencing in combination with haplotype linkage analysis to address this challenge.MethodsLong-read sequencing on Oxford Nanopore platform was employed to identify the precise positions of inversion break points in four patients. Comprehensive chromosomal screening and genome-wide haplotype linkage analysis were performed based on SNP microarray. The haplotypes, including the break point regions, the whole chromosomes involved in the inversion and the corresponding homologous chromosomes, were established using informative SNPs.ResultsAll the inversion break points were successfully identified by long-read sequencing and validated by Sanger sequencing, and on average only 13 bp differences were observed between break points inferred by long-read sequencing and Sanger sequencing. Eighteen blastocysts were biopsied and tested, in which 10 were aneuploid or unbalanced and eight were diploid with normal or balanced inversion karyotypes. Diploid embryos were transferred back to patients, the predictive results of the current methodology were consistent with fetal karyotypes of amniotic fluid or cord blood.ConclusionsNanopore long-read sequencing is a powerful method to assay chromosomal inversions and identify exact break points. Identification of inversion break points combined with haplotype linkage analysis is an efficient strategy to distinguish embryos with normal or balanced inversion karyotypes, facilitating PGT applications.
Sharps and needle-stick injuries among medical residents and healthcare professional students: pattern and reporting in Italy—a cross-sectional analytical study
Authors: Papadopoli Rosa , Bianco Aida , Pepe Davide , Pileggi Claudia , Pavia Maria 
Published: August 2019

ObjectivesHealthcare workers, in the course of their professional activity, are potentially exposed to chemical, physical and above all biological risks. The aims of our study were to investigate the extent and distribution of needle-stick and sharp injuries (NSIs) in healthcare students, the behaviours and circumstances most frequently associated with NSIs, the frequency of NSI reporting and the adherence to the post-exposure protocols.MethodsThis study involved, through an interviewer-administered structured questionnaire, undergraduate and postgraduate students attending postgraduate medical schools and healthcare professional schools who underwent occupational health visits between January 2015 and July 2018.ResultsOf the 642 students that participated in the study, 95 (14.8%) sustained an NSI during the traineeship and, of these, 59 (62.1%) reported the NSI to the occupational health service. NSIs were significantly more frequent in older subjects (χ²=9.853, p=0.020) and, among medical residents, in surgical residents (χ²=31.260, p<0.0001); moreover, occurrence of NSIs increased with increasing duration of traineeship (t=−2.051, p=0.041). Reporting of NSIs significantly increased with increasing age (χ²=12.543, p=0.006), with medical residents significantly under-reporting NSIs compared with undergraduate healthcare professional students (χ²=10.718, p=0.001) and among medical residents, those attending critical care units had the highest under-reporting (χ²=7.323, p=0.026).ConclusionsThe study showed remarkable under-reporting, as well as a lack of preparedness of students for NSI preventive and post-exposure effective measures. Our findings underline that healthcare student education should be reinforced to ensure that safe practices are carried out when needles and sharps are involved, as well as stressing the importance of NSI reporting and adherence to post-exposure prophylaxis protocols.
Chloroprocaine versus prilocaine for spinal anesthesia in ambulatory knee arthroscopy: a double-blind randomized trial
Authors: Wesselink Elsbeth , Hurk Godelief Janssen-van den , Vegt Rien van der , Slagt Cornelis , Aa Jan van der , Franssen Eric , Ven Peter van de , Swart Noortje , Boer Christa , Leeuw Marcel de 
Published: August 2019

BackgroundIn ambulatory lower limb surgery, spinal anesthesia with rapid onset and a short duration of block is preferable. We hypothesized that the use of 2-chloroprocaine would be associated with a faster motor block recovery compared with prilocaine in knee arthroscopy. A difference of 15 min was considered clinically relevant.Methods150 patients were randomly allocated to receive intrathecally either 40 mg of 2-chloroprocaine or 40 mg of prilocaine. The primary outcome was the time to complete recovery from motor blockade. Secondary outcomes included time to full regression of sensory block, peak sensory block level, urine retention needing catheterization, time until hospital discharge, incidence of transient neurologic symptoms and patient satisfaction.ResultsTime to complete recovery from motor blockade was 15 min shorter for 2-chloroprocaine (median: 60 min; IQR: 60–82.5) than for prilocaine (median: 75 min; IQR: 60–90; p=0.004). 2-Chloroprocaine also resulted in faster full regression of sensory block (median: 120 min; IQR: 90–135 compared with median: 165 min; IQR: 135–190, p<0.001) and faster time to hospital discharge (mean difference: 57 min; 95% CI 38 to 77, p<0.001). Peak sensory block was higher in the 2-chloroprocaine group (median: T9; IQR: T6–T12 compared with median: T10; IQR: T8–T12, p<0.008). Patient satisfaction and urine retention needing catheterization were equal in both groups.ConclusionsIn knee arthroscopy, spinal anesthesia with 2-chloroprocaine results in a faster recovery of motor and sensory block, leading to quicker hospital discharge compared with prilocaine.Trial registration numberNTR6796.
Role of LpL (Lipoprotein Lipase) in Macrophage Polarization In Vitro and In Vivo
Authors: Chang Hye Rim , Josefs Tatjana , Scerbo Diego , Gumaste Namrata , Hu Yunying , Huggins Lesley-Ann , Barrett Tessa J. , Chiang Stephanie S. , Grossman Jennifer , Bagdasarov Svetlana , Fisher Edward A. , Goldberg Ira J. 
Published: August 2019

Objective:
Fatty acid uptake and oxidation characterize the metabolism of alternatively activated macrophage polarization in vitro, but the in vivo biology is less clear. We assessed the roles of LpL (lipoprotein lipase)-mediated lipid uptake in macrophage polarization in vitro and in several important tissues in vivo.

Approach and Results:

We created mice with both global and myeloid-cell specific LpL deficiency. LpL deficiency in the presence of VLDL (very low-density lipoproteins) altered gene expression of bone marrow–derived macrophages and led to reduced lipid uptake but an increase in some anti- and some proinflammatory markers. However, LpL deficiency did not alter lipid accumulation or gene expression in circulating monocytes nor did it change the ratio of Ly6C
high
/Ly6C
low
. In adipose tissue, less macrophage lipid accumulation was found with global but not myeloid-specific LpL deficiency. Neither deletion affected the expression of inflammatory genes. Global LpL deficiency also reduced the numbers of elicited peritoneal macrophages. Finally, we assessed gene expression in macrophages from atherosclerotic lesions during regression; LpL deficiency did not affect the polarity of plaque macrophages.

Conclusions:

The phenotypic changes observed in macrophages upon deletion of
Lpl
in vitro is not mimicked in tissue macrophages.
The Snow Leopard and Cultural Landscape in Contemporary Kazakhstan
Authors: White Kristopher D. 
Published: August 2019

Abstract
The snow leopard (Panthera uncia) is commonly seen in the cultural landscape within the Republic of Kazakhstan. This contrasts rather starkly with the endangered species’ presence on the natural landscape there. Three contemporary cultural landscape sightings of the snow leopard in Kazakhstan—the Almaty zoological park, the Kazakhstan 2030 strategy initiative, and the 2011 Asian Winter Games—are explored here. The positive imagery and symbolism linking the snow leopard to the Republic of Kazakhstan cements the non-human animal’s status as an unofficial state symbol. The borderlands of snow leopard landscapes, those spaces of cultural and natural environmental overlap, are vital for conservation efforts. Reincorporating non-human animals into social science research offers the opportunity for cultural landscape investigations. For the snow leopard, cultural landscape research may prove as important as traditional natural landscape research in Kazakhstan and throughout this majestic non-human animal’s territorial range.
Mapping French Laypeople’s Views on Nonhuman Animal Experimentation
Authors: Muñoz Sastre Maria Teresa , Sorum Paul Clay , Mullet Etienne 
Published: August 2019

Abstract
French positions regarding nonhuman animal experimentation were examined. A total of 163 participants were presented with 72 vignettes depicting an experimental protocol. They were composed according to a five-factor design: (a) the fate of the animal (e.g., was sacrificed for the purpose of further analyses), (b) environment in which the animal was raised, (c) main objective of the experiment (purely theoretical vs. therapeutic), (d) degree of pain inflicted, and (e) species involved (rabbit, coyote, or chimpanzee). Through cluster analysis of participants’ acceptability judgments, six qualitatively different positions were found. Four had already been described by observation of the functioning of animal ethics committees: Animals have Rights, Ethics in the name of Animals, Ethics in the name of Patients, and Ethics in the name of Science. Female participants held the Animals-have-Rights position three times more often than males. Male participants held an Ethics-in-the-name-of-Science position four times more often than females.
How Ethical Ideologies Relate to Public Attitudes Toward Nonhuman Animals: The Japanese Case
Authors: Su Bingtao , Koda Naoko , Martens Pim 
Published: August 2019

Abstract
How ethical ideologies relate to public attitudes toward nonhuman animals is an increasingly prominent topic, yet it has been largely unstudied, particularly in Asian countries such as Japan. Using the Ethics Position Questionnaire (EPQ), Animal Attitude Scale (AAS), and Animal Issue Scale (AIS) in the present study, we examined how ethical ideologies and human demographics relate to public attitudes toward animals from a Japanese cultural perspective. The results of a questionnaire (N = 900) distributed throughout Japan indicate that public attitudes toward animals were positively associated with idealism and negatively associated with relativism. These findings are similar to those from China, but partly in contrast with those from the United States, where relativism was unrelated to attitudes toward animals. Our findings add to a growing recognition of how individual philosophy relates to public attitudes toward animals in Asian countries.
Introduction: Assimilation and Representation in Medieval Theories of Cognition
Authors: Silva José Filipe , Thörnqvist Christina Thomsen 
Published: August 2019

AbstractThe articles in this issue are a selection of the papers presented at the conference Knowledge as Assimilation, held at the University of Helsinki on 9-11 June 2017. The conference was the result of a collaboration between two research groups that have been established in Finland and Sweden from 2013 onwards: the research project Rationality in Perception: Transformations of Mind and Cognition 1250-1550, funded by the European Research Council (2015-2020) and hosted by the University of Helsinki, and the research programme Representation and Reality: Historical and Contemporary Perspectives on the Aristotelian Tradition, funded by the Riksbankens jubileumsfond (2013-2019) and located at the University of Gothenburg.