bluuebunny/crossref_metadata_2025_split huggingface dataset:
Analytical solution for a hybrid Logistic-Monod cell growth model in batch and CSTR culture
Authors: Xu Peng 
Published: November 2019

AbstractMonod and Logistic growth models have been widely used as basic equations to describe cell growth in bioprocess engineering. In the case for Monod equation, specific growth rate is governed by a limiting nutrient, with the mathematical form similar to the Michaelis-Menten equation. In the case for Logistic equation, specific growth rate is determined by the carrying capacity of the system, which could be growth-inhibiting factors (i.e. toxic chemical accumulation) other than the nutrient level. Both equations have been found valuable to guide us build structure-based kinetic models to analyze fermentation process and understand cell physiology. In this work, we present a hybrid Logistic-Monod growth model, which accounts for multiple growth-dependence factors including both the limiting nutrient and the carrying capacity of the system. Coupled with substrate consumption and yield coefficient, we present the analytical solutions for this hybrid Logistic-Monod model in both batch and CSTR culture. Under high biomass yield (Yx/s) conditions, the analytical solution for this hybrid model is approaching to the Logistic equation; under low biomass yield condition, the analytical solution for this hybrid model converges to the Monod equation. This hybrid Logistic-Monod equation represents the cell growth transition from substrate-limiting condition to growth-inhibiting condition, which could be adopted to accurately describe the multi-phases of cell growth and may facilitate kinetic model construction, bioprocess optimization and scale-up in industrial biotechnology.
Coessential Genetic Networks Reveal the Organization and Constituents of a Dynamic Cellular Stress Response
Authors: Amici David R. , Jackson Jasen M. , Metz Kyle A. , Ansel Daniel J. , Smith Roger S. , Brockway Sonia , Takagishi Seesha R , Srivastava Shashank , O’Hara Brendan P. , Cho Byoung-Kyu , Goo Young Ah , Kelleher Neil L. , Ben-Sahra Issam , Foltz Daniel R. , Mendillo Marc L. 
Published: November 2019

SummaryThe interrelated programs essential for cellular fitness in the face of stress are critical to understanding tumorigenesis, neurodegeneration, and aging. However, modelling the combinatorial landscape of stresses experienced by diseased cells is challenging, leaving functional relationships within the global stress response network incompletely understood. Here, we leverage genome-scale fitness screening data from 625 cancer cell lines, each representing a unique biological context, to build a network of “coessential” gene relationships centered around master regulators of the response to proteotoxic, oxidative, hypoxic, and genotoxic stress. This approach organizes the stress response into functional modules, identifies genes connecting distinct modules, and reveals mechanisms underlying cellular dependence on individual modules. As an example of the power of this approach, we discover that the previously unannotated HAPSTR (C16orf72) promotes resilience to diverse stressors as a stress-inducible regulator of the E3 ligase HUWE1. Altogether, we present a broadly applicable framework and interactive tool (http://fireworks.mendillolab.org/) to interrogate biological networks using unbiased genetic screens.
Load-dependent modulation of alpha oscillations during working memory encoding and retention in young and older adults
Authors: Sghirripa Sabrina , Graetz Lynton , Merkin Ashley , Rogasch Nigel C , Semmler John G , Goldsworthy Mitchell R 
Published: November 2019

AbstractWorking memory (WM) is vulnerable to age-related decline, particularly under high loads. Visual alpha oscillations contribute to WM performance in younger adults, and although alpha decreases in power and frequency with age, it is unclear if alpha activity supports WM in older adults. We recorded electroencephalography (EEG) while 24 younger (aged 18-35 years) and 30 older (aged 50-86) adults performed a modified Sternberg task with varying load conditions. Older adults demonstrated slower reaction times at all loads, but there were no significant age differences in accuracy. Regardless of age, alpha power decreased, and alpha frequency increased with load during encoding, and the magnitude of alpha suppression during retention was larger at higher loads. While alpha power during retention was lower than fixation in older, but not younger adults, the relative change from fixation was not significantly different between age groups. Individual differences in alpha power did not predict performance for either age groups or at any WM loads. Future research should elaborate the functional significance of alpha power and frequency changes that accompany WM performance in cognitive ageing.
Using single visits into integrated occupancy models to make the most of existing monitoring programs
Authors: Lauret Valentin , Labach Hélène , Authier Matthieu , Gimenez Olivier 
Published: November 2019

AbstractA major challenge in statistical ecology consists of integrating knowledge from different datasets to produce robust ecological indicators. To estimate species distribution, occupancy models are a flexible framework that can accommodate several datasets obtained from different sampling methods. However, repeating visits at sampling sites is a prerequisite for using standard occupancy models. Occupancy models were recently developed to analyze detection/non-detection data collected during a single visit. To date, single-visit occupancy models have never been used to integrate several different datasets. Here, we showcase an approach that combines two datasets into an integrated single-visit occupancy model. As a case study, we estimated the distribution of Bottlenose dolphins (Tursiops truncatus) over the North-western Mediterranean Sea by combining 24,624 km of aerial surveys and 21,464 km of at-sea monitoring. We compared the outputs of single- vs. repeated-visit occupancy models into integrated occupancy models. Integrated models allowed a better sampling coverage of species home-range, which provided a better precision for occupancy estimates than occupancy models using datasets in isolation. Overall, single- and repeated-visit integrated occupancy models produced similar inference about the distribution of bottlenose dolphins. We suggest that single-visit occupancy models open promising perspectives for the use of existing ecological datasets.
Impacts of genomic networks governed by human-specific regulatory sequences and genetic loci harboring fixed human-specific neuro-regulatory single nucleotide mutations on phenotypic traits of Modern Humans
Authors: Glinsky Gennadi V. 
Published: November 2019

AbstractRecent advances in identification and characterization of human-specific regulatory DNA sequences set the stage for the assessment of their global impact on physiology and pathology of Modern Humans. Gene set enrichment analyses (GSEA) of 8,405 genes linked with 35,074 human-specific neuro-regulatory single-nucleotide changes (hsSNCs) revealed a staggering breadth of significant associations with morphological structures, physiological processes, and pathological conditions of Modern Humans. Significantly enriched traits include more than 1,000 anatomically-distinct regions of the adult human brain, many different types of cells and tissues, more than 200 common human disorders and more than 1,000 records of rare diseases. Thousands of genes connected with neuro-regulatory hsSNCs have been identified, which represent essential genetic elements of the autosomal inheritance and offspring survival phenotypes. A total of 1,494 hsSNC- linked genes are associated with either autosomal dominant or recessive inheritance and 2,273 hsSNC-linked genes have been associated with premature death, embryonic lethality, as well as pre-, peri-, neo-, and post-natal lethality phenotypes of both complete and incomplete penetrance. Differential GSEA implemented on hsSNC-linked loci and associated genes identify 7,990 genes linked to evolutionary distinct classes of human-specific regulatory sequences (HSRS), expression of a majority of which (5,389 genes; 67%) is regulated by stem cell-associated retroviral sequences (SCARS). Interrogations of the MGI database revealed readily available mouse models tailored for precise experimental definitions of functional effects of hsSNCs and SCARS on genes causally affecting thousands of mammalian phenotypes and implicated in hundreds of common and rare human disorders. These observations suggest that a preponderance of human-specific traits evolved under a combinatorial regulatory control of HSRS and neuro-regulatory loci harboring hsSNCs that are fixed in humans, distinct from other primates, and located in differentially-accessible chromatin regions during brain development.
Transcriptional profiling of potato (Solanum tuberosum L.) during a compatible interaction with the root-knot nematode, Meloidogyne javanica
Authors: Macharia Teresia Nyambura , Bellieny-Rabelo Daniel , Moleleki Lucy Novungayo 
Published: November 2019

AbstractRoot-knot nematode (RKN, Meloidogyne javanica) presents a great challenge to Solanaceae crops, including the potato. In this report, we conducted an investigation to understand the transcriptional regulation of molecular responses in potato roots during a compatible interaction following RKN infection. In this study, analysis of gene expression profiles using RNA-seq of Solanum tuberosum cv Mondial with RKN interaction at 0, 3- and 7-days post-inoculation (dpi). In total, 4,948 and 4,484 genes were respectively detected as differentially expressed genes (DEGs) at 3 and 7 dpi. Functional annotation revealed that genes associated with metabolic process were enriched at the transcriptional level suggesting they have an important role in RKN disease development. Nematode infection caused down-regulation of 282 genes associated with pathogen perception hence interfering with activation plant immune system. Further, late activation of pathogenesis-related genes, down-regulation disease resistance genes and activation of host antioxidant system contributed to a susceptible response. Activation of Jasmonic acid (JA) pathway and protease inhibitors was due to wounding during nematode migration and feeding. Nematode infection suppressed ethylene (ET) and salicylic acid (SA) signalling pathway hindering SA/ET responsive genes involved with defense. Induction of auxin biosynthesis genes, regulation of cytokinin levels and up-regulation of transporter genes facilitated of nematode feeding sites (NFSs) initiation. The regulation of several families of transcription factors (TFs) in the plant, such as WRKY, GRAS, ERF BHLH and MYB, was affected by RKN infection disrupting plant defense signalling pathways. This clearly suggest that TFs played an indispensable role in physiological adaptation for successful RKN disease development. This genome-wide analysis revealed the molecular regulatory networks in potato roots which are successfully manipulated by RKN. Being the first study analysing transcriptome profiling of RKN diseased potato, it will provide unparalleled insight into the mechanism underlying disease development.
Dynamic sound field audiometry: static and dynamic spatial hearing tests in the full horizontal plane
Authors: Fischer T. , Kompis M. , Mantokoudis G. , Caversaccio M. , Wimmer W. 
Published: November 2019

ABSTRACTAlthough spatial hearing is of great importance in everyday life, today’s routine audiological test batteries and static test setups assess sound localization, discrimination and tracking abilities rudimentarily and thus provide only a limited interpretation of treatment outcomes regarding spatial hearing performance. To address this limitation, we designed a dynamic sound field test setup and evaluated the sound localization, discrimination and tracking performance of 12 normal-hearing subjects. During testing, participants provided feedback either through a touchpad or through eye tracking. In addition, the influence of head movement on sound-tracking performance was investigated. Our results show that tracking and discrimination performance was significantly better in the frontal azimuth than in the dorsal azimuth. Particularly good performance was observed in the backward direction across localization, discrimination and tracking tests. As expected, free head movement improved sound-tracking abilities. Furthermore, feedback via gaze detection led to larger tracking errors than feedback via the touchpad. We found statistically significant correlations between the static and dynamic tests, which favor the snapshot theory for auditory motion perception.
Loss of family with sequence similarity 13, member A exacerbates pulmonary hypertension through accelerating endothelial-to-mesenchymal transition
Authors: Rinastiti Pranindya , Ikeda Koji , Rahardini Elda Putri , Miyagawa Kazuya , Tamada Naoki , Kuribayashi Yuko , Hirata Ken-ichi , Emoto Noriaki 
Published: November 2019

AbstractPulmonary hypertension is a progressive lung disease with poor prognosis due to the consequent right heart ventricular failure. Pulmonary artery remodeling and dysfunction are culprits for pathologically increased pulmonary arterial pressure, but their underlying molecular mechanisms remain to be elucidated. Previous genome-wide association studies revealed a significant correlation between the genetic locus of family with sequence similarity 13, member A (FAM13A) and various lung diseases such as chronic obstructive pulmonary disease and pulmonary fibrosis; however whether FAM13A is also involved in the pathogenesis of pulmonary hypertension remained unknown. Here, we identified a significant role of FAM13A in the development of pulmonary hypertension. FAM13A expression was reduced in mouse lungs of hypoxia-induced pulmonary hypertension model. We identified that FAM13A was expressed in lung vasculatures, especially in endothelial cells. Genetic loss of FAM13A exacerbated pulmonary hypertension in mice exposed to chronic hypoxia in association with deteriorated pulmonary artery remodeling. Mechanistically, FAM13A decelerated endothelial-to-mesenchymal transition potentially by inhibiting β-catenin signaling in pulmonary artery endothelial cells. Our data revealed a protective role of FAM13A in the development of pulmonary hypertension, and therefore increasing and/or preserving FAM13A expression in pulmonary artery endothelial cells is an attractive therapeutic strategy for the treatment of pulmonary hypertension.
A Zika Virus Primary Isolate Induces Neuroinflammation, Compromises the Blood-Brain Barrier, and Upregulates CXCL12 in Adult Macaques
Authors: Panganiban Antonito T. , Blair Robert V. , Hattler Julian B. , Bohannon Diana G. , Bonaldo Myrna C. , Schouest Blake , Maness Nicholas J. , Kim Woong-Ki 
Published: November 2019

AbstractZika virus (ZIKV) is a neurotropic virus that can cause neuropathy in adults and fetal neurologic malformation following infection of pregnant women. We used a nonhuman primate model, the Indian-origin Rhesus macaque (IRM), to gain insight into virus-associated hallmarks of ZIKV-induced adult neuropathy. We find that the virus causes prevalent acute and chronic neuroinflammation and chronic disruption of the blood-brain barrier (BBB) in adult animals. Infection results in significant, targeted, and sustained upregulation of the chemokine, CXCL12, in the central nervous system (CNS). CXCL12 plays a key role both in regulating lymphocyte trafficking through the BBB to the CNS, and in mediating repair of damaged neural tissue including remyelination. Understanding how CXCL12 expression is controlled will likely be of central importance in the definition of ZIKV-associated neuropathy in adults.Author summaryZika virus (ZIKV) is a virus that can cause neurological problems in adults and damage to the fetal brain. Nonhuman primates (NHPs) are usually superior animal models for recapitulating human neurological disease because their brain, nervous system structure and immune response to virus infection are very similar to that of humans. We have studied the effect of ZIKV infection on the adult NHP brain and made several significant observations. Infection resulted in a high incidence of mild to moderate brain inflammation that persisted for a surprisingly long period of time. We also found that the virus disrupted the blood brain barrier, which is important for controlling transport of material from blood to the brain. It appears that the central nervous system expresses a specific substance in response to virus infection called a chemokine. This specific chemokine may be involved in virus-induced inflammation and/or in repair of virus-induced brain damage. Our data are significant since they help in understanding the mechanism of brain damage caused by ZIKV in adults.
Cyniclomyces guttulatusis an opportunistic pathogen in rabbits with coccidiosis
Authors: Shi Tuanyuan , Sun Hongchao , Fu Yuan , Lili Hao , Zhou Yongxue , Yan Liu , Bao Guolian , Suo Xun 
Published: November 2019

AbstractCyniclomyces guttulatusis a common inhabitant of the gastrointestinal tract in rabbits, and large numbers are often present in feces of diarrheic rabbits. However, its relation with rabbit diarrhea has not been clearly identified. We isolated aC. guttulatusZhejiang strain from a rabbit with severe diarrhea and optimized the culture conditions in YPG medium. The sequenced 18S and 26S ribosomal DNA fragments were 1559bp and 632bp, respectively, and showed 99.8% homology with the 18S ribosomal sequence of the NRRL Y-17561 isolate from the dog and 100% homology with the 26S ribosomal sequence of the DPA-CGR1 and CGDPA-GP1 isolates from the rabbit and guinea pig. Our isolate was not pathogenic to healthy SPF rabbits. Instead, rabbits inoculated with the yeast had a slightly better body weight gain and higher food intake. Rabbits co-inoculated withC. guttulatusand the coccidian,E. intestinalisdeveloped more severe coccidiosis as shown by clinical signs, and decreased body weight gain, diarrhea and death, associated with significantly higher fecal output ofC. guttulatusvegetative cells but lower coccidian oocysts output than the rabbits inoculated withC. guttulatusorE. intestinalisalone. We also surveyed the prevalence ofC. guttulatusin rabbits and found a positive rate of 83% in Zhejiang province. Our results indicate thatC. guttulatusalone is not pathogenic to healthy rabbits, but could become an opportunistic pathogen when the digestive tract is damaged by other pathogens such as coccidia.Author summaryCyniclomyces guttulatus, a commensal yeast in rabbit gastrointestinal tract, is very commonly seen in diarrhea cases. However, it is unclear whether it causes or is a co-cause of diarrhea with other pathogens. Here, aC. guttulatusZhejiang strain was firstly isolated from a rabbit with severe diarrhea and the culture conditions in YPG medium were optimized. Then, it was identified in morphology and molecular. It was agreed with the previous description in morphology and showed a closer phylogenetic relationship with other strains originated from herbivores than those from the carnivore. Finally, theC. guttulatusZhejiang strain was inoculated to SPF rabbits singly or co-inoculated withEimeria intestinalis. All of the results in animal assays showC. guttulatusalone is not pathogenic but seems a probiotic microorganism in rabbits. However, it could become an opportunistic pathogen when the digestive tract is damaged by other pathogens such as coccidia.
How religiosity influences the consumption of luxury goods: exploration of the moral halo effect
Authors: Geiger-Oneto Stephanie , Minton Elizabeth A. 
Published: November 2019

Purpose
The purpose of this paper is to explore the role of religion, morality and mindset in influencing perceptions of luxury products.

Design/methodology/approach
The study uses three experimental studies to investigate this relationship.

Findings
Study 1 shows that religiosity influences negative moral emotions (but not positive moral emotions), which then negatively influence luxury consumption and morality evaluations. Study 2 replicates the effects of Study 1 and shows that priming a moral (marketplace) mindset decreases negative moral emotions and increases luxury consumption evaluations for highly (less) religious consumers. Study 3 explains the effects found in Studies 1 and 2 as driven by moral licensing, such that priming a moral (marketplace) mindset decreases (increases) the negative moral emotions experienced by those primed (not primed) with religiosity. Study 3 also improves the external validity of findings by including a social media sample of regular luxury purchases. Implications for theory and marketing practice are discussed.

Research limitations/implications
The present research is limited by samples conducted in Western culture with a predominantly Western, Christian religious audience. Future research should examine how moral vs marketplace mindsets differentially influence the consumption of luxury products for Eastern religious consumers (e.g. Hindus, Buddhists and Confucianists). Additionally, this research was conducted using Allport and Ross’ (1967) religiosity measure. Some could argue that the measure is not the most representative for atheists or agnostics or is outdated, so further research would benefit from replicating and extending the findings in this paper with other, newer religiosity measures better adapted to measure all belief systems.

Practical implications
Marketers of luxury products should realize the potential of a new target audience – religious consumers. While religiosity is positively correlated with negative moral emotions toward luxury products in Study 1, Studies 2 and 3 reveal that priming a moral mindset can reduce negative affect and increase evaluations of luxury products. Thus, marketers could seek out ways to emphasize morality in messaging. For example, a marketer may incorporate words such as virtues, ethics and/or noble, when describing attributes of their brand in advertising, thereby resulting in a moral licensing effect. Research suggests advertising content has the potential to influence consumers’ perceived moral obligation, inclusive of the moral or immoral nature of the consumption of luxury brands.

Originality/value
While the link between religion and luxury goods is evident in popular culture, previous research has yet to empirically explore this relationship. This study fills this gap by investigating the role of religiosity on the perceived morality and ultimately the purchase of luxury branded goods.