bluuebunny/crossref_metadata_2025_split huggingface dataset:
The complete plastid genomes of two Fabaceae orphan crops from Africa
Authors: Liao Xuezhu , Liu Yang , Liu Huan 
Published: November 2018

AbstractDolichos bean (Lablab purpureus) and Bambara groundnut (Vigna subterranea) are two traditional crops from Africa with important economic values. The study of such neglected or underused crops (orphan crops) should contribute to the resolution of food shortage in Africa. Here we assembled and described the complete plastid genome of the two Fabaceae orphan crop species. The length of the complete plastomes of L. purpureus and V. subterranea are 151,753 bp and 152,015 bp, respectively. Maximum-likelihood (ML) phylogenetic analyses indicated that L. purpureus and Phaseolus vulgaris are closely related, and V. subterranea and other Vigna species are clustered in one clade, which is congruent with former studies.
Building a sequence map of the pig pan-genome from multiple de novo assemblies and Hi-C data
Authors: Tian Xiaomeng , Li Ran , Fu Weiwei , Li Yan , Wang Xihong , Li Ming , Du Duo , Tang Qianzi , Cai Yudong , Long Yiming , Zhao Yue , Li Mingzhou , Jiang Yu 
Published: November 2018

AbstractPigs (Sus scrofa) exhibit diverse phenotypes in different breeds shaped by the combined effects of various local adaptation and artificial selection. To comprehensively characterize the genetic diversity of pigs, we construct a pig pan-genome by comparing genome assemblies of 11 representative pig breeds with the reference genome (Sscrofa11.1). Approximately 72.5 Mb non-redundant sequences were identified as pan-sequences which were absent from the Sscrofa11.1. On average, 41.7 kb of spurious heterozygous SNPs per individual are removed and 12.9 kb novel SNPs per individual are recovered using pan-genome as the reference for SNP calling, thereby providing enhanced resolution for genetic diversity in pigs. Homolog annotation and analysis using RNA-seq and Hi-C data indicate that these pan-sequences contain protein-coding regions and regulatory elements. These pan-sequences can further improve the interpretation of local 3D structure. The pan-genome as well as the accompanied web-based database will serve as a primary resource for exploration of genetic diversity and promote pig breeding and biomedical research.
Optoacoustic brains stimulation at submillimeter spatial precision
Authors: Jiang Ying , Lee Hyeon Jeong , Lan Lu , Tseng Hua-an , Yang Chen , Man Heng-Ye , Han Xue , Cheng Ji-Xin 
Published: November 2018

AbstractLow-intensity ultrasound is an emerging modality for neuromodulation. Yet, piezo-based transducers offer poor spatial confinement of excitation volume, often bigger than a few millimeters in diameter. In addition, the bulky size limits their implementation in a wearable setting and prevents integration with other experimental modalities. Here, we report spatially confined optoacoustic neural stimulation through a novel miniaturized Fiber-Optoacoustic Converter (FOC). The FOC has a diameter of 600 μm and generates omnidirectional ultrasound wave locally at the fiber tip through the optoacoustic effect. We show that the optoacoustic wave can directly activate individual cultured neurons and generate intracellular Ca2+ transients. The FOC activates neurons within a radius of 500 μm around the fiber tip, delivering superior spatial resolution over conventional piezo-based low-frequency transducers. Combining FOC with electrophysiology, direct and spatially confined neural stimulation of mouse brain is achieved in vivo.
An interaction-based model for neuropsychiatric features of copy-number variants
Authors: Jensen Matthew , Girirajan Santhosh 
Published: November 2018

ABSTRACTVariably expressive copy-number variants (CNVs) are characterized by extensive phenotypic heterogeneity of neuropsychiatric phenotypes. Approaches to identify single causative genes for these phenotypes within each CNV have not been successful. Here, we posit using multiple lines of evidence, including pathogenicity metrics, functional assays of model organisms, and gene expression data, that multiple genes within each CNV region are likely responsible for the observed phenotypes. We propose that candidate genes within each region likely interact with each other through shared pathways to modulate the individual gene phenotypes, emphasizing the genetic complexity of CNV-associated neuropsychiatric features.
Comprehensive integration of single cell data
Authors: Stuart Tim , Butler Andrew , Hoffman Paul , Hafemeister Christoph , Papalexi Efthymia , Mauck William M. , Stoeckius Marlon , Smibert Peter , Satija Rahul 
Published: November 2018

Single cell transcriptomics (scRNA-seq) has transformed our ability to discover and annotate cell types and states, but deep biological understanding requires more than a taxonomic listing of clusters. As new methods arise to measure distinct cellular modalities, including high-dimensional immunophenotypes, chromatin accessibility, and spatial positioning, a key analytical challenge is to integrate these datasets into a harmonized atlas that can be used to better understand cellular identity and function. Here, we develop a computational strategy to “anchor” diverse datasets together, enabling us to integrate and compare single cell measurements not only across scRNA-seq technologies, but different modalities as well. After demonstrating substantial improvement over existing methods for data integration, we anchor scRNA-seq experiments with scATAC-seq datasets to explore chromatin differences in closely related interneuron subsets, and project single cell protein measurements onto a human bone marrow atlas to annotate and characterize lymphocyte populations. Lastly, we demonstrate how anchoring can harmonizein-situgene expression and scRNA-seq datasets, allowing for the transcriptome-wide imputation of spatial gene expression patterns, and the identification of spatial relationships between mapped cell types in the visual cortex. Our work presents a strategy for comprehensive integration of single cell data, including the assembly of harmonized references, and the transfer of information across datasets.Availability:Installation instructions, documentation, and tutorials are available at:https://www.satijalab.org/seurat
The Coordination and Jumps along C4Photosynthesis Evolution in the GenusFlaveria
Authors: Amy Lyu Ming-Ju , Gowik Udo , Westhoff Peter , Tao Yimin , Kelly Steve , Covshoff Sarah , Clayton Harmony , Hibberd Julian M. , Sage Rowan F. , Ludwig Martha , Wong Gane Ka-Shu , Zhu Xin-Guang 
Published: November 2018

AbstractBackgroundC4photosynthesis is a remarkable complex trait, elucidations of the evolutionary trajectory of C4photosynthesis from its ancestral C3pathway can help us to better understand the generic principles of complex trait evolution and guide engineering of C3crops for higher yields. We used the genusFlaveriathat contains C3, C3-C4, C4-like and C4species as a system to study the evolution of C4photosynthesis.ResultsWe mapped transcript abundance, protein sequence, and morphological features to the phylogenetic tree of the genusFlaveria, and calculated the evolutionary correlation of different features. Besides, we predicted the relative changes of ancestral nodes of those features to illustrate the key stages during the evolution of C4photosynthesis. Gene expression and protein sequence showed consistent modification pattern along the phylogenetic tree. High correlation coefficients ranging from 0.46 to 0.9 among gene expression, protein sequence and morphology were observed, and the greatest modification of those different features consistently occurred at the transition between C3-C4species and C4-like species.ConclusionsOur data shows highly coordinated changes in gene expression, protein sequence and morphological features. Besides, our results support an obviously evolutionary jump during the evolution of C4metabolism.
Intracellular calcium stores mediate a synapse-specific form of metaplasticity at hippocampal dendritic spines
Authors: Mahajan Gaurang , Nadkarni Suhita 
Published: November 2018

ABSTRACTLong-term plasticity mediated by NMDA receptors supports input-specific, Hebbian forms of learning at excitatory CA3-CA1 connections in the hippocampus. An additional layer of stabilizing mechanisms that act globally as well as locally over multiple time scales may be in place to ensure that plasticity occurs in a constrained manner. Here, we investigate the potential role of calcium (Ca2+) stores associated with the endoplasmic reticulum (ER) in the local regulation of plasticity dynamics at individual CA1 synapses. Our study is spurred by (1) the curious observation that ER is sparsely distributed in dendritic spines, but over-represented in large spines that are likely to have undergone activity-dependent strengthening, and (2) evidence suggesting that ER motility within synapses can be rapid, and accompany activity-regulated spine remodeling. Based on a physiologically realistic computational model for ER-bearing CA1 spines, we characterize the contribution of IP3-sensitive Ca2+stores to spine Ca2+dynamics during activity patterns mimicking the induction of long-term potentiation (LTP) and depression (LTD). Our results suggest graded modulation of the NMDA receptor-dependent plasticity profile by ER, which selectively enhances LTD induction. We propose that spine ER can locally tune Ca2+-based plasticity on an as-needed basis, providing a braking mechanism to mitigate runaway strengthening at potentiated synapses. Our model suggests that the presence of ER in the CA1 spine may promote re-use of synapses with saturated strengths.
Novel development of dynamic behavior of carbon fiber reinforced polymer sandwich panels with stepwise graded adhesive layer
Authors: Mokhtari Majed , Shahravy M. , Zabihpoor M. 
Published: November 2018

Purpose
The purpose of this study is to focus on the developments of carbon fiber reinforced polymer (CFRP) panels with stepwise graded properties on adhesive layer. The various arranges of the graded properties of the adhesive layer have been checked according to experimental results of the literatures and based on applicability.

Design/methodology/approach
The finite element (FE) models and experimental modal tests of the manufactured CFRP sandwich panel specimens have been investigated. The core thickness, core density and orientation of the fiber direction of the sandwich panel face – sheets have been parametrically checked based on modal behavior. Two fully free and fully clamped boundary conditions (BC) have been checked in stepwise graded adhesive zone (SGAZ) cases and first five non-zero natural frequencies (NF) have been compared. Dynamic response of the SGAZ includes modal analysis and transient dynamic loading have been performed numerically with ABAQUS 6.12 well-known FE code.

Findings
The first non-zero NF of SGAZ Case 4 was 11.69 per cent higher than homogenous Case 2 and 7.06 per cent lower than Case 1 in fully free boundary conditions. A total of 26.38 per cent is the greatest discrepancy between fist five non-zero NFs of all cases with two BCs (Case 1 vs Case 2 in fully clamped BC). Maximum structural damping behavior and minimum stress picks have been studied during transient dynamic loading analysis of CFRP panel with SGAZ. SGAZ Case 3 (middle adhesive with lower modulus) has increased the maximum structural damping while reducing the minimum out of plain tip displacements during transient dynamic loading by 111.26 per cent in comparison with homogenous Case 2. Also, Case 3 has reduced the Mises stress picks on the adhesive region by 605.68 per cent.

Practical implications
Making a stepwise graded adhesive region (without any added mass) has been shown that it is a novel and useful way to achieve a wide range of stiffness on CFRP panels.

Originality/value
Development of the sandwich panels with various stiffness and damping properties.
International financial reporting standards and conservatism in the Association of Southeast Asian Nations countries
Authors: Madah Marzuki Marziana , Abdul Wahab Effiezal Aswadi 
Published: November 2018

PurposeThe purpose of this paper is to investigate whether the convergence of IFRS in ASEAN countries resulted in an improvement in financial-reporting quality, and in particular with regards the degree of conditional conservatism of financial reporting. Then, the authors investigate whether the convergence to IFRS and the degree of conditional conservatism is influenced by corruption as a proxy for the strength of ASEAN jurisdiction legal and enforcement systems.Design/methodology/approachThe sample of this study is based on 22,085 firm-year observations from three ASEAN countries, namely, Malaysia, Thailand and Singapore from 2008 to 2014. This study employs a panel least square regression to test the effect of IFRS on two measures of conservatism which are asymmetric timeliness and accrual-based loss recognition. The conservatism data are extracted from ORBIS, while data for corruptions are extracted from Corruption Perception Index (CPI) that was released by Transparency International.FindingsThis study finds Convergence of IFRS enhance conditional conservatism. The findings are robust for two measures of conservatism which are asymmetric timeliness and accrual-based loss recognition. The result on unconditional conservatism finds that IFRS reduce unconditional conservatism, which supports that the code-law structures of the ASEAN countries as characterized by unconditional conservatism is reduced after IFRS convergence. A further test indicates that corruption reduces conditional conservatism in more corrupt countries.Research limitations/implicationsThis study focused on three ASEAN countries only, as they have consistent convergence dates to the IFRS. Therefore the result may not be generalized to other ASEAN countries.Practical implicationsThe study provides implications to the regulators that IFRS enhance financial-reporting quality and reduce the randomness of decisions that are based on financial information as has been introduced by unconditional conservatism. Therefore it is important for the regulators to incorporate IFRS compliance into laws and regulations. Currently, IFRS compliance is not incorporated into laws and regulations for ASEAN countries, except for Malaysia. In Malaysia, Section 7 of the Financial Reporting Act 1997 (FRA) empowers the Malaysian Accounting Standards Board (MASB) to issue approved accounting standards for application in Malaysia. Under section 26D of the FRA, financial statements that are prepared or lodged with the Central Bank, Securities Commission or Registrar of Companies must comply with the standards issued by the MASB.Originality/valueThis paper extends the literature on the effect of IFRS on conservatism as it provides robust effect of IFRS on both conditional and unconditional conservatism. In addition, this study extends the literatures on the effect of corruptions in the relationship between IFRS and conditional conservatism.
Critical success factors of TQM, Six Sigma, Lean and Lean Six Sigma
Authors: Sreedharan V. Raja , Sunder M. Vijaya , R. Raju 
Published: November 2018

PurposeThe purpose of this paper is to review the existing literature on the critical success factors (CSFs) of various continuous improvement (CI) like total quality management (TQM), Lean, Six Sigma and Lean Six Sigma (LSS), and perform a content analysis (CA) leading to an agenda for future research.Design/methodology/approachCA is based on literature review of 41 papers published in peer-reviewed scholarly journals. A four-stage methodology is used by the authors, with Stage 1 featuring relevant material collection; Stage 2 presenting a descriptive analysis; Stage 3 outlining the category selection; and Stage 4 featuring the material evaluation using clustering and Pareto analysis.FindingsThe CA revealed various research implications and directions for the future. The number of studies in the literature regarding CSF assessment is found to be far from substantial while compared to CI implementation. Assessment methodologies developed have been ranging from qualitative to quantitative models. Key gaps were identified and directions for CSF assessment are proposed which requires further validation.Research limitations/implicationsOnly articles that appeared in peer-reviewed journals were analyzed; conference papers, reports, manuals and white papers from practice were excluded. Another limitation of the paper would be the scope of CA limited to four CI constructs – TQM, Lean, Six Sigma and LSS. Research implications indicate that the future studies in this domain would be intensive toward analyzing the vital CSFs for enterprise organizational excellence and not merely process excellence.Practical implicationsThis review study can serve as a resource for both researchers and practitioners to understand the importance of CSFs and positioning CSFs for the successful implementation of CI programs.Originality/valueThe CA on the existing literature on CSFs for CI presents a unique, systematic effort to identify an agenda for future research. This study is the apparently the first of its kind on CSF assessment.
Equality and harmony: diversity management in China
Authors: Thomson Stanley Bruce , Wei William X. , Swallow Phillip 
Published: November 2018

Purpose
Considering the importance of China as a global economic power and the emphasis placed on human resources in a knowledge economy, the findings of no less than 30 articles on diversity management in that country seem inadequate given the growing importance of diversity in the workplace. Analysis of those articles reveals that most of the research focuses on firms located on the eastern coast. Moreover, while cataloging the types of industry and ownership covered provides a broad overview, specific industries and ownership types require further examination.

Methodology
Searches were conducted in both English and Chinese databases using the keyword search phrase of “diversity management and China”. The criteria for including an article were as follows: 1) an emphasis on diversity management within the business environment; 2) a focus on applications of diversity management within the People’s Republic of China, thus excluding Taiwan; and 3) a research-based or conceptual orientation. The search was further limited by using the “abstract” as a limiter under the assumption that if the concepts were important, the author(s) would have used that terminology in the abstract.

Findings
Gender emerged as a major concern along with residential status; racial and ethnic differences, on the other hand, cultural and/or other influences on diversity management received limited attention. Both qualitative and quantitative research methods were used by the various authors, but exploratory methods such as grounded theory saw minimal use. With the little research done on diversity management in China, it is difficult to assess whether or Chinese firms are fully using its available workforce. China must embrace diversity management practices with a view to achieving competitive advantages as well as equality and harmony in the workplace.

Originality/value
This is one of the first published reviews of articles from both Chinese and English databases that delves into the issue of diversity management in China.
Elementary subdomain technique for magnetic field calculation in rotating electrical machines with local saturation effect
Authors: Roubache Lazhar , Boughrara Kamel , Dubas Frédéric , Ibtiouen Rachid 
Published: November 2018

Purpose
The most significant point to be introduced in the subdomain technique (i.e. based on the formal resolution of Maxwell’s equations applied in subdomain) is the local saturation effect. This paper aims to present a novel contribution on the improvement in the two-dimensional (2-D) technique in polar coordinates by focusing on the local saturation.

Design/methodology/approach
The rotor and stator regions are divided into elementary subdomains (E-SDs) which are characterized by general solutions to the first harmonic of magnetostatic Maxwell equations. These E-SDs are connected in the two directions (i.e. r- and θ-edges). Newton–Raphson (NR) iterative algorithm is used for nonlinear magnetic field analysis.

Findings
The proposed model is relevant for different types of rotating electrical machines; as an example, the semi-analytical model has been implemented for spoke-type permanent-magnet (PM) machines (STPMMs). The magnetic field calculations have been performed for nonlinear B(H) curve and compared to nonlinear finite element method (FEM) predictions. The semi-analytic results are in good agreement with those obtained numerically, considering both amplitude and waveform.

Originality/value
A new model for full prediction of magnetic field in the rotating electrical machines with the local saturation effect is presented.
Is sustainability a motive to buy? An exploratory study in the context of mobile applications channel among young Indian consumers
Authors: Nair Asha K.S. , Bhattacharyya Som Sekhar 
Published: November 2018

PurposeConsumers shopping motives may differ across products/services categories, retail formats and channels. In the context of m-Apps-based commerce, this study aims to explore different shopping motives of consumers in three different categories of app, namely, food delivery, ride sourcing and digital payments. Using motivation literature, the study extends the theory of consumer motives by including sustainability as a key motive to buy in the context of m-App channel. Further, the authors undertake a comparative analysis of the identified motives across the three mobile applications (m-Apps).Design methodology/approachThe research methodology involved two stages (qualitative research followed by quantitative research). In qualitative research, personal interview was conducted to extract items for survey questionnaire development. Subsequently, quantitative analysis was carried out. The data were subjected to exploratory factor analysis and confirmatory factor analysis (CFA). The study sample comprised 201 young Indian managers.FindingsUsing principal component analysis and CFA, the study validates the existence of different motivations in the three categories of m-Apps considered. Transaction-oriented and sustainability-oriented motivation is found to be a major motive to use m-Apps for food delivery, ride sourcing and mobile payments. Additionally, in digital wallet applications for mobile payments, consumers exhibit innovation-oriented motivation. Value-oriented motivation was identified as a motive in food delivery apps.Research limitations/implicationsThe scale developed and the comparative study done extended the theoretical conversation on young consumer motives in the context of m-Apps channel and extended it by including sustainability motive, which needs further in-depth study.Originality/valueThis is one of the first studies to explore sustainability motives in the context of m-Apps channel.
Summarizing the decadal literature in open government data (OGD) research: a systematic review
Authors: Saxena Stuti 
Published: November 2018

PurposeThis paper aims to summarize the open government data (OGD) research which has been become an increasingly engaging domain for the academic community.Design/methodology/approachScanning the literature on OGD, the paper underlines the different strands observable in the OGD-based research. The paper concludes with research pointers, limitations and implications for practitioners.FindingsOGD has been investigated from different angles, and there is a need for more empirical investigation across contexts.Originality/valueThe paper serves as a reference point for OGD research.