bluuebunny/crossref_metadata_2025_split huggingface dataset:
The 3D genome organization ofDrosophila melanogasterthrough data integration
Authors: Li Qingjiao , Tjong Harianto , Li Xiao , Gong Ke , Zhou Xianghong Jasmine , Chiolo Irene , Alber Frank 
Published: January 2017

AbstractGenome structures are dynamic and non-randomly organized in the nucleus of higher eukaryotes. To maximize the accuracy and coverage of 3D genome structural models, it is important to integrate all available sources of experimental information about a genome’s organization. It remains a major challenge to integrate such data from various complementary experimental methods. Here, we present an approach for data integration to determine a population of complete 3D genome structures that are statistically consistent with data from both genome-wide chromosome conformation capture (Hi-C) and lamina-DamID experiments. Our structures resolve the genome at the resolution of topological domains, and reproduce simultaneously both sets of experimental data. Importantly, this framework allows for structural heterogeneity between cells, and hence accounts for the expected plasticity of genome structures. As a case study we chooseDrosophila melanogasterembryonic cells, for which both data types are available. Our 3D geome structures have strong predictive power for structural features not directly visible in the initial data sets, and reproduce experimental hallmarks of theD. melanogastergenome organization from independent and our own imaging experiments. Also they reveal a number of new insights about the genome organization and its functional relevance, including the preferred locations of heterochromatic satellites of differnet chromosomes, and observations about homologous pairing that cannot be directly observed in the original Hi-C or lamina-DamID data. To our knowledge our approach is the first that allows systematic integration of Hi-C and lamina DamID data for complete 3D genome structure calculation, while also explicitly considering genome structural variability.
Senescence associated protein degradation
Authors: Ferbeyre Gerardo 
Published: January 2017

AbstractSenescent cells accumulate with age and contribute to pathologies associated to old age. The senescent program can be induced by pro-cancer stimuli or is developmentally controlled. In cells forced to senesce by expression of oncogenes or short telomeres, aberrant activation of the ERK/MAP kinase signaling pathway leads to selective protein degradation by the ubiquitin proteasome system. The proteins affected by this process control key cellular processes known to be defective in senescent cells. We discuss the evidence supporting a general role for senescence associated protein degradation for organismal aging.
A lineage-related reciprocal inhibition circuitry for sensory-motor action selection
Authors: Kottler Benjamin , Fiore Vincenzo G. , Ludlow Zoe N. , Buhl Edgar , Vinatier Gerald , Faville Richard , Diaper Danielle C. , Stepto Alan , Dearlove Jonah , Adachi Yoshitsugu , Brown Sheena , Chen Chenghao , Solomon Daniel A. , White Katherine E. , Humphrey Dickon M. , Buchanan Sean M. , Sigrist Stephan J. , Endo Keita , Ito Kei , de Bivort Benjamin , Stanewsky Ralf , Dolan Raymond J. , Martin Jean-Rene , Hodge James J. L. , Strausfeld Nicholas J. , Hirth Frank 
Published: January 2017

ABSTRACTThe insect central complex and vertebrate basal ganglia are forebrain centres involved in selection and maintenance of behavioural actions. However, little is known about the formation of the underlying circuits, or how they integrate sensory information for motor actions. Here, we show that paired embryonic neuroblasts generate central complex ring neurons that mediate sensory-motor transformation and action selection in Drosophila. Lineage analysis resolves four ring neuron subtypes, R1-R4, that form GABAergic inhibition circuitry among inhibitory sister cells. Genetic manipulations, together with functional imaging, demonstrate subtype-specific R neurons mediate the selection and maintenance of behavioural activity. A computational model substantiates genetic and behavioural observations suggesting that R neuron circuitry functions as salience detector using competitive inhibition to amplify, maintain or switch between activity states. The resultant gating mechanism translates facilitation, inhibition and disinhibition of behavioural activity as R neuron functions into selection of motor actions and their organisation into action sequences.
Altered topology of neural circuits in congenital prosopagnosia
Authors: Rosenthal Gideon , Tanzer Michal , Simony Erez , Hasson Uri , Behrmann Marlene , Avidan Galia 
Published: January 2017

AbstractUsing a novel fMRI-based inter-subject functional correlation (ISFC) approach, which isolates stimulus-locked inter-regional correlation patterns, we compared the cortical topology of the neural circuit for face processing in participants with congenital prosopagnosia (CP) and matched controls. Whereas the anterior temporal lobe served as the major network hub for face processing in controls, this was not the case for the CPs. Instead, this group evinced hyper-connectivity in posterior regions of the visual cortex, mostly associated with the lateral occipital and the inferior temporal cortices. Moreover, the extent to which the network organization was atypical differed as a function of the severity of the face recognition deficit. These results offer new insights into the perturbed cortical topology in CP, which may serve as the underlying neural basis of the behavioral deficits typical of this disorder. The approach adopted here has the potential to uncover altered topologies in other neurodevelopmental disorders, as well.Significance StatementCongenital prosopagnosia (CP; ‘face blindness’), a developmental deficit in face recognition, is thought to affect up to 3% of the population. Understanding its neural basis is challenging as there is no obvious deficit on conventional structural or functional MRI scans. Using an innovative, fMRI-based inter-subject correlation approach geared towards tracking inter-regional stimulus-locked brain activation, the present study uncovers marked topological differences in a distributed brain network of higher-order visual regions in CP relative to controls. Alteration in topology also differs as a function of the severity of the deficit. These findings shed new light on the neural perturbations underlying CP, and the analytic approach we have adopted may have utility in elucidating the neural basis of other neurodevelopmental disorders such as dyslexia or amusia.
Experimental evolution reveals a novel avenue to release catabolite repression via mutations in XylR
Authors: Sievert Christian , Nieves Lizbeth M. , Panyon Larry A. , Loeffler Taylor , Morris Chandler , Cartwright Reed A. , Wang Xuan 
Published: January 2017

AbstractMicrobial production of fuels and chemicals from lignocellulosic biomass provides promising bio-renewable alternatives to the conventional petroleum-based products. However, heterogeneous sugar composition of lignocellulosic biomass hinders efficient microbial conversion due to carbon catabolite repression. The most abundant sugar monomers in lignocel-lulosic biomass materials are glucose and xylose. While industrialEscherichia colistrains efficiently utilize glucose, their ability to utilize xylose is often repressed in the presence of glucose. Here we independently evolved threeE. colistrains from the same ancestor to achieve high efficiency for xylose fermentation. Each evolved strain has a point mutation in a transcriptional activator for xylose catabolic operons, either CRP or XylR, and these mutations are demonstrated to enhance xylose fermentation by allelic replacements. Identified XylR variants (R121C and P363S) have a higher affinity to their DNA binding sites, leading to a xylose catabolic activation independent of catabolite repression control. Upon introducing these amino acid substitutions into theE. coliD-lactate producer TG114, 94 % of a glucose-xylose mixture (50 g L-1each) was utilized in mineral salt media that led to a 50 % increase in product titer after 96 h of fermentation. The two amino acid substitutions in XylR enhance xylose utilization and release glucose-induced repression in differentE. colihosts, including wild-type, suggesting its potential wide application in industrialE. colibiocatalysts.
Increasingly inbred and fragmented populations ofPlasmodium vivaxwith declining transmission
Authors: Waltmann Andreea , Koepfli Cristian , Tessier Natacha , Karl Stephan , Fola Abebe , W Darcy Andrew , Wini Lyndes , Abby Harrison G. L. , Barnadas Céline , Jennison Charlie , Karunajeewa Harin , Boyd Sarah , Whittaker Maxine , Kazura James , Bahlo Melanie , Mueller Ivo , Barry Alyssa E. 
Published: January 2017

AbstractThe human malaria parasitePlasmodium vivaxis resistant to malaria control strategies maintaining high genetic diversity even when transmission is low. To investigate whether decliningP. vivaxtransmission leads to increasingP. vivaxpopulation structure that would facilitate elimination, we genotyped samples from a wide range of transmission intensities and spatial scales in the Southwest Pacific, including two time points at one site (Tetere, Solomon Islands) during intensified control. Analysis of 887P. vivaxmicrosatellite haplotypes from hyperendemic Papua New Guinea (PNG, n = 443), meso-hyperendemic Solomon Islands (n= 420), and hypoendemic Vanuatu (n=24) revealed increasing population structure and multilocus linkage disequilibrium and a modest decline in diversity as transmission decreases over space and time. In Solomon Islands, which has had sustained control efforts for 20 years, and Vanuatu, which has experienced sustained low transmission for many years, significant population structure was observed at different spatial scales. We conclude that control efforts will eventually impactP. vivaxpopulation structure and with sustained pressure, populations may eventually fragment into a limited number of clustered foci that could be targeted for elimination.
Computer-Assisted Engineering of Hyperstable Fibroblast Growth Factor 2
Authors: Dvorak Pavel , Bednar David , Vanacek Pavel , Balek Lukas , Eiselleova Livia , Stepankova Veronika , Sebestova Eva , Kunova Bosakova Michaela , Konecna Zaneta , Mazurenko Stanislav , Kunka Antonin , Horak Daniel , Chaloupkova Radka , Brezovsky Jan , Krejci Pavel , Prokop Zbynek , Dvorak Petr , Damborsky Jiri 
Published: January 2017

AbstractFibroblast growth factors (FGFs) play numerous regulatory functions in complex organisms, and their corresponding therapeutic potential is of growing interest to academics and industrial researchers alike. However, applications of these proteins are limited due to their low stabilityin vivoandin vitro. Here we tackle this problem using a generalizable computer-assisted protein engineering strategy to create a unique modified FGF2 with nine mutations displaying unprecedented stability and uncompromised biological function.
Accountants and the professional project
Authors: Matthews Derek Robert 
Published: January 2017

Purpose
The purpose of this paper is to offer a critique of the sociological model of professionalisation known as the “professional project” put forward by Magali Larson, which has become the prevailing paradigm for accounting historians.

Design/methodology/approach
The paper challenges the use of the concepts of monopoly, social closure, collective social mobility and the quest for status as applied to the history of accountancy. The arguments are made on both empirical and theoretical grounds.

Findings
The use of the concept of monopoly is not justified in the case of accounting societies or firms. The only monopoly the accountants required was the exclusive right to the titles, for example, CA in Britain and CPA in the USA. They were right to argue that the credentials were merely to distinguish themselves in the market place from untrained accountants. The validity of the concept of social closure via artificial barriers to entry is questioned and new evidence is provided that the elite accountants have always recruited heavily from classes lower in the social hierarchy than themselves. The concept of the collective social mobility project is found wanting on a priori and empirical grounds; accountants behaved no differently to other business classes and have probably not enhanced their social status since the formation of their societies.

Originality/value
The paper offers, in the case of accountancy, one of the few critiques of the accepted model of professionalisation. It demonstrates the weak explanatory power of the sociological paradigms used by accounting historians.
Habitual accountability routines in the boardroom: how boards balance control and collaboration
Authors: Nicholson Gavin , Pugliese Amedeo , Bezemer Pieter-Jan 
Published: January 2017

PurposeCorporate accountability is a complex chain of reporting that reaches from external stakeholders into the organization’s management structure. The transition from external to internal accountability mechanisms primarily occurs at the board of directors. Yet outside of incentive mechanisms, we know surprisingly little about how internal actors (management) are held to account by the representatives of external shareholders (the board). The purpose of this paper is to explore the process of accountability at this transition point by documenting the routines used by boards to hold the firm’s management to account. In doing so, we develop the understanding of the important transition between internal and external firm accountability.Design/methodology/approachAn inductive, case-based approach identifies recurrent behaviour patterns in two matched boards over three video-taped meetings. Sequential analysis of coded group and individual behaviours provides insight into boards’ accountability routines.FindingsThe boards engaged in clear, recurrent accountability routines. Individuals on the boards play different roles in these routines depending on the issue before the board, allowing both directors and managers to hold each other to account. The outsiders (directors) both challenge and support the insiders (managers) during board discussions, switching their behaviours with different agenda items but maintaining a consistent group level of support and scepticism across the meeting. This allows for the simultaneous development of trust and verification at the group level, a necessary condition for effective accountability.Research limitations/implicationsAs board relationships and organisational context are highly variable, future research should concentrate on testing the generalizability of the results across different board and shareholder structures.Practical implicationsThe results call into question the current governance focus on the independence of the individual director, as the authors identify that all directors appear to act as agents at one time or another in a meeting. Accountability at the boardroom level requires an effective group process not usually addressed in governance recommendations or regulation.Originality/valueThis study provides unique insights into board dynamics, documenting the accountability implications of group behaviours. By focussing on the group process, the authors highlight the potential mismatch of monotonic, individual-level approaches to governance and accountability prevalent in current agency approaches.
The ethics of professional accountants: an Aristotelian perspective
Authors: West Andrew 
Published: January 2017

PurposeThe purpose of this paper is to examine how Aristotle’s ethics can be applied to the ethics of professional accountants (PAs), in relation to the approach adopted by the International Federation of Accountants (IFAC), and to consider the reasons that justify the Aristotelian approach.Design/methodology/approachThe paper outlines IFAC’s approach and identifies several weaknesses. Three themes of Aristotle’sNicomachean Ethicsare applied to the work of PAs. Reasons why this perspective is more suitable for PAs are then articulated.FindingsSeveral aspects of Aristotle’s ethics can be fruitfully applied to the ethics of PAs. These include the relationship between function, goals and the good, an awareness of the human goal to achieveeudaimonia, the development of both excellences of character and of intelligence, and the significance of non-rational aspects of morality, including emotions, will, responsibility and choice.Research limitations/implicationsThis perspective provides an alternative conceptualisation of the ethics of PAs. Although it does not provide concrete guidance regarding what the ethical approach to specific situations may be, it presents a useful counterpoint to existing approaches that are largely deontological and utilitarian.Practical implicationsThis paper provides accountants in practice with a more comprehensive and adequate perspective on what it means for a PA to be ethical, and raises several issues related to how ethics is included in the education and training of accountants.Originality/valueInvestigating the philosophical basis for professional ethics approaches professional codes of ethics in a way that it is not typically considered. The paper also provides a more comprehensive application of Aristotelian ethics than previous work.
Effect of corporate governance characteristics on strategic management accounting in Thailand
Authors: Arunruangsirilert Teerachai , Chonglerttham Supasith 
Published: January 2017

PurposeThe purpose of this paper is to explore relationships between corporate governance characteristics and strategic management accounting (SMA). The relationships provide insight into a debatable issue of whether corporate governance characteristics affect applications of SMA in Thailand. SMA is supporting tools for an organization to effectively execute its management strategies aiming for business success.Design/methodology/approachThis study analyzes primary data from survey and corporate governance data from year 2011 to 2013 of companies listed on the Stock Exchange of Thailand.FindingsResults show that corporate governance characteristics significantly affect SMA in two aspects, namely, participation and usage. This study finds some results that, on the one hand, separation of CEO’s role and chairmanship, size of independent board, and frequency of audit committee meetings positively affect both participation and usage. On the other hand, an independent chairman and board size negatively affect both participation and usage.Originality/valueFindings confirm framework of enterprise governance issued by the International Federation of Accountants that not only does corporate governance provides assurance control, but it also provides strategic governance through behavioral applications of SMA tools and supports.
The influence of consumers’ self-perceived health status and need for cognition on food-product evaluation
Authors: Lin Hung-Chou , Shih Li-Chin , Lin Hung-Ming 
Published: January 2017

Purpose
The purpose of this paper is to examine the underlying mechanisms of how consumers respond to health-claim framing via experimental design.

Design/methodology/approach
Across the two experiments conducted for this research, the authors examine the moderating effects of self-perceived health status and individuals’ need for cognition on health-claim framing.

Findings
The results indicate that personal differences moderate the effects of health-claim framing on consumers’ food-product evaluation. Consumers with poor health status evaluate food product more favorably when the reduced-disease-risk claims are offered. However, consumers with good health status evaluate food product similarly between the two health claims. Moreover, consumers with a high need for cognition evaluate food product more favorably when the reduced-disease-risk claims are used, whereas consumers with a low need for cognition evaluate food product more favorably when the enhance function claims are used.

Practical implications
This research provides that reduced-disease-risk claims may be the better communication message used to persuade consumers no matter they rate themselves as poor health status or good health status. Moreover, the results of the present research also indicate the importance of market segmentation. Marketers could design proper advertisements and select the appropriate media vehicles for low need for cognition readers and high need for cognition readers separately.

Originality/value
There has been few studies addressed consumers’ product choice with respect to different health-claim framing. Further, this research presents a new concept of the effects between individual differences and health-claim framing on consumers’ food-product evaluation.
Consumers’ awareness and perceptions regarding functional dairy products in Iran
Authors: Bazhan Marjan , Keshavarz-Mohammadi Nastaran , Hosseini Hedayat , Kalantari Naser 
Published: January 2017

Purpose
Functional dairy products market has been growing steadily in Iran. Awareness and perception related to these products has an important role in consumers’ acceptance and subsequently long-term marketplace success of these products. The purpose of this paper is to fill the knowledge gap in this regard, study conducted in Iran.

Design/methodology/approach
The theory of social marketing served as the framework of the study. Qualitative data were collected via eight semi-structured focus group discussions (FGDs), between May and September 2014. Participants were 65 women (44 housewives and 21 employed women), aged 23-68 years, selected by purposive sampling, with a maximum diversity. All FGDs were audio recorded and transcribed verbatim. Qualitative content analysis of the data was conducted by MAXQDA®.

Findings
Almost all participants were unfamiliar with the term “functional dairy products,” although, some of them had consumed these products. Apart from perceiving the functional dairy products as unnecessary by some participants, some women did not trust in health claims of these products for various reasons such as distrust in food manufacturers, exposure to contradictory information, and fear of unforeseen and dangerous side effects due to taking them. The participants agreed on the need for more information from a trusted and credible source such as health professionals or authorities through different communication channels like television, training classes, shopping center, and so on.

Originality/value
This study provides a unique insight into consumers’ awareness and perceptions concerning functional dairy products in Iran. To the best of the knowledge, this study is the first study in this regard in Iran. Given the novelty of these products in the market, the findings could provide information for the dairy industry to expand its market and improve its profitability and reliability, as well as public health sector to design and implement intervention programs to promote functional dairy products consumption in the population.