bluuebunny/crossref_metadata_2025_split huggingface dataset:
A prefrontal network model operating near steady and oscillatory states links spike desynchronization and synaptic deficits in schizophrenia
Authors: Crowe David A. , Willow Andrew , Blackman Rachael K. , DeNicola Adele L. , Chafee Matthew V. , Amirikian Bagrat 
Published: June 2022

AbstractSchizophrenia results in part from a failure of prefrontal networks but we lack full understanding of how disruptions at a synaptic level cause failures at the network level. This is a crucial gap in our understanding because it prevents us from discovering how genetic mutations and environmental risks that alter synaptic function cause prefrontal network to fail in schizophrenia. To address that question, we developed a recurrent spiking network model of prefrontal local circuits that can explain the link between NMDAR synaptic and spike timing deficits we recently observed in a pharmacological monkey model of prefrontal network failure in schizophrenia. We analyze how the balance between AMPA and NMDA components of recurrent excitation and GABA inhibition in the network influence spike timing to inform the biological data. We show that reducing recurrent NMDAR synaptic currents prevents the network from shifting from a steady to oscillatory state in response to extrinsic inputs such as might occur during behavior. This explains how NMDAR synaptic deficits, implicated by genetic evidence as causal in schizophrenia, could prevent the emergence of 0-lag synchronous spiking in prefrontal local circuits during behavior, potentially disconnecting those circuits via spike-timing dependent mechanisms in the human disease.
Genome-wide association and genomic prediction of growth traits in the European flat oyster (Ostrea edulis)
Authors: Peñaloza Carolina , Barria Agustin , Papadopoulou Athina , Hooper Chantelle , Preston Joanne , Green Matthew , Helmer Luke , Hammerson Jacob Kean , Nascimento-Schulze Jennifer , Minardi Diana , Gundappa Manu Kumar , Macqueen Daniel J , Hamilton John , Houston Ross D , Bean Tim P 
Published: June 2022

ABSTRACTThe European flat oyster (Ostrea edulis) is a bivalve mollusc that was once widely distributed in Europe and represented an important food resource for humans for centuries. Populations ofO. edulisexperienced a severe decline across their biogeographic range mainly due to anthropogenic activities and disease outbreaks. To restore the economic and ecological benefits of European flat oyster populations, extensive protection and restoration efforts are in place within Europe. In line with the increasing interest in supporting restoration and oyster farming through the breeding of stocks with enhanced performance, the present study aimed to evaluate the potential of genomic selection for improving growth traits in a European flat oyster population obtained from successive mass-spawning events. Four growth-related traits were evaluated: total weight (TW), shell height (SH), shell width (SW) and shell length (SL). The heritability of the growth traits was moderate-low, with estimates of 0.45, 0.37, 0.22, and 0.32 for TW, SH, SW and SL, respectively. A genome-wide association analysis revealed a largely polygenic genetic architecture for the four growth traits, with two distinct QTLs detected on chromosome 4. To investigate whether genomic selection can be implemented in flat oyster breeding at a reduced cost, the utility of low-density SNP panels (down to 100 SNPs) was assessed. Genomic prediction accuracies using the full density panel were high (>0.83 for all traits). The evaluation of the effect of reducing the number of markers used to predict genomic breeding values revealed that similar selection accuracies could be achieved for all traits with 2K SNPs as for a full panel containing 4,577 SNPs. Only slight reductions in accuracies were observed at the lowest SNP density tested (i.e. 100 SNPs), likely due to a high relatedness between individuals being included in the training and validation sets during cross-validation. Overall, our results suggest that the genetic improvement of growth traits in oysters is feasible. Nevertheless, and although low-density SNP panels appear as a promising strategy for applying GS at a reduced cost, additional populations with different degrees of genetic relationship should be assessed to derive estimates of prediction accuracies to be expected in practical breeding programmes.
Regulation of a single Inositol 1-Phosphate Synthase homeolog by HSFA6B contributes to fiber yield maintenance under drought conditions in upland cotton
Authors: Yu Li’ang , Nelson Dittrich Anna C. , Zhang Xiaodan , Thirumalaikumar Venkatesh P. , Melandri Giovanni , Skirycz Aleksandra , Thorp Kelly R. , Hinze Lori , Pauli Duke , Nelson Andrew D.L. 
Published: June 2022

AbstractDrought stress substantially impacts crop physiology resulting in alteration of growth and productivity. Understanding the genetic and molecular crosstalk between stress responses and agronomically important traits such as fiber yield is particularly complicated in the allopolyploid species, upland cotton (Gossypium hirsutum), due to reduced sequence variability between A and D subgenomes. To better understand how drought stress impacts yield, the transcriptomes of 22 genetically and phenotypically diverse upland cotton accessions grown under well-watered and water-limited conditions in the Arizona low desert were sequenced. Gene co-expression analyses were performed, uncovering a group of stress response genes, in particular transcription factors GhDREB2A-A and GhHSFA6B-D, associated with improved yield under water-limited conditions in an ABA-independent manner. DNA affinity purification sequencing (DAP-seq), as well as public cistrome data from Arabidopsis, were used to identify targets of these two TFs. Among these targets were two lint-yield associated genes previously identified through genome-wide association studies (GWAS) -based approaches,GhABP-DandGhIPS1-A. Biochemical and phylogenetic approaches were used to determine thatGhIPS1-Ais positively regulated by GhHSFA6B-D, and that this regulatory mechanism is specific to Gossypium spp. containing the A (old-world) genome. Finally, a SNP was identified within the GhHSFA6B-D binding site inGhIPS1-Athat is positively associated with yield under water limiting conditions. These data lay out a regulatory connection between abiotic stress and fiber yield in cotton that appears conserved in other systems such as Arabidopsis. This regulatory mechanism highlights how sub-genome dynamics contribute to phenotypic stress-response plasticity in cotton.
Zinc Finger MYND-Type Containing 8 (ZMYND8) is epigenetically regulated in mutant Isocitrate Dehydrogenase 1 (IDH1) glioma to promote radioresistance
Authors: Carney Stephen V. , Banerjee Kaushik , Mujeeb Anzar , Zhu Brandon , Haase Santiago , Varela Maria L. , Kadiyala Padma , Tronrud Claire , Zhu Ziwen , Mukherji Devarshi , Gorla Preethi , Tagett Rebecca , Núñez Felipe J. , Luo Maowu , Lou Weibo , Ljungman Mats , Liu Yayuan , Xia Ziyun , Schwendeman Anna , Qin Tingting , Sartor Maureen A. , Costello Joseph , Cahill Daniel P. , Lowenstein Pedro R. , Castro Maria G. 
Published: June 2022

AbstractMutant isocitrate dehydrogenase 1 (mIDH1) alters the epigenetic regulation of chromatin, leading to a hypermethylation phenotype in adult glioma. Establishment of glioma-specific methylation patterns by mIDH1 reprogramming drives oncogenic features of cancer metabolism, stemness and therapeutic resistance. This work focuses on identifying gene targets epigenetically dysregulated by mIDH1. Treatment of glioma cells with mIDH1 specific inhibitor AGI-5198, upregulated gene networks involved in replication stress. Specifically, we found that the expression of ZMYND8, a regulator of DNA damage response was decreased in three patient-derived glioma cell cultures (GCC) after treatment with AGI-5198. ZMYND8 functions as a chromatin reader to modulate enhancer activity and recruit DNA repair machinery. Knockdown of ZMYND8 expression sensitized mIDH1 GCCs to radiotherapy marked by decreased cellular viability. Following IR, mIDH1 glioma cells with ZMYND8 knockout (KO) exhibit significant phosphorylation of ATM and sustained γH2AX activation. ZMYND8 KO mIDH1 GCCs were further responsive to IR when treated with either BRD4 or HDAC inhibitors. The accumulation of DNA damage in ZMYND8 KO mIDH1 GCCs promoted the phosphorylation of cell cycle checkpoint proteins Chk1 and Chk2. In addition, the recruitment of ZMYND8 to sites of DNA damage has been shown to be PARP- dependent. PARP inhibition further enhanced the efficacy of radiotherapy in ZMYND8 KO mIDH1 glioma cells. These findings indicate the impact of ZMYND8 in the maintenance of genomic integrity and repair of IR-induced DNA damage in mIDH1 glioma.Translational Relevance:Our understanding of radioresistance mechanisms in patient-derived glioma cell cultures (GCC) that endogenously express mIDH1-R132H are limited. We have uncovered a novel gene target Zinc Finger MYND-Type Containing 8 (ZMYND8) that is downregulated following treatment of human mIDH1 GCCs with mIDH1 specific inhibitors. We demonstrate that suppression of ZMYND8 expression by shRNA knockdown or genetic knockout reduces the cellular viability of mIDH1 GCCs to ionizing radiation (IR). Our findings reveal an epigenetic vulnerability of mIDH1 GCCs to ZMYND8 knockout (KO) which results in impaired resolution of IR-induced DNA damage and induction of cell cycle arrest. Additionally, ZMYND8 KO mIDH1 GCCs display increased radiosensitivity to inhibition of epigenetic regulators BRD4, HDAC, and PARP which could be mediated by enhanced replicative stress.
Quantifying dispersal between two colonies of northern elephant seals across 17 birth cohorts
Authors: Condit Richard , Hatfield Brian , Morris Patricia A. , Costa Daniel P. 
Published: June 2022

AbstractDispersal drives extinction-recolonization dynamics of metapopulations and is necessary for endangered species to recolonize former ranges. Yet few studies quantify dispersal and even fewer examine consistency of dispersal over many years. The northern elephant seal (Mirounga angustirostris) provides an example of the importance of dispersal. It quickly recolonized its full range after near extirpation by 19thcentury hunting, and though dispersal was observed it was not quantified. Here we enumerate lifetime dispersal events among females marked as pups at two colonies during 1994-2010, then correct for detection biases to estimate bidirectional dispersal rates. An average of 16% of females born at the Piedras Blancas colony dispersed northward 200 km to breed at Año Nuevo, while 8.0% of those born at Año Nuevo dispersed southward to Piedras Blancas. The northward rate fluctuated considerably but was higher than southward in 15 of 17 cohorts. The population at Piedras Blancas expanded 15-fold during the study, while Año Nuevo’s declined slightly, but the expectation that seals would emigrate away from high density colonies was not supported. During the 1990s, dispersal was higher away from the small colony toward the large. Moreover, cohorts born later at Piedras Blancas, when the colony had grown, dispersed no more than early cohorts. Consistently high natal dispersal in northern elephant seals means the population must be considered a single large unit in terms of response to environmental change. High dispersal was fortuitous to the past recovery of the species, and continued dispersal means elephant seals will likely expand their range further.
Water-Quality analysis and Fish diversity of Southern West Part of the West-Bengal
Authors: Chini Deep Sankar , Mondal Niladri , Kar Avijit , Bunholi Ingrid , Singh Sourav , Ghosh Pratik , Patra Prasanta , Patra Shampa , Patra Bidhan Chandra 
Published: June 2022

AbstractMarine fishes are one of the important factors to stabilize the local aquatic ecosystem and regulating socio-economy of local fishermen. In this study we emphasized upon finding out the interrelationship in the water quality, anthropogenic activity, and fish habitat through the 31km stretch of East Medinipur coast in West Bengal, India which is known for its tourist destinations. The study was conducted monthly on different trawler fish landing sites from Dec 2018 to Dec 2021. During this period, we took fish samples and identified them. We took water quality data such as SST, Concentration of Chl-a, Turbidity, and DO for further correlation between the water quality and species diversity. Total 154 numbers of commercially important marine fish species were documented. Among them, 12 species are from Elasmobranch and the rest is Actinopterygii. As per the IUCN database, 13% of the total fish species are under the red list category and 16% of the species showing decreasing population trend. After analyzing the water quality data, we found out that DO, SST, Turbidity, and Chlorophyll-A correlate with the species richness and it also differs during the seasons.
Divergent Directed Evolution of a TetR-type Repressor Towards Aromatic Molecules
Authors: Nasr Mohamed A. , Martin Vincent J.J. , Kwan David H. 
Published: June 2022

AbstractReprogramming cellular behaviour is one of the hallmarks of synthetic biology. To this end, prokaryotic allosteric transcription factors (aTF) have been repurposed as versatile tools for processing small molecule signals into cellular responses. Expanding the toolbox of aTFs that recognize new inducer molecules is of considerable interest in many applications. Here, we first establish a resorcinol responsive aTF-based biosensor inEscherichia coliusing the TetR-family repressor RolR fromCorynebacterium glutamicum. We then perform an iterative walk along the fitness landscape of RolR to identify new inducer specificities, namely catechol, methyl catechol, caffeic acid, protocatechuate, L-DOPA, and the tumour biomarker homovanillic acid. Finally, we demonstrate the versatility of these engineered aTFs by transplanting them into the model eukaryoteSaccharomyces cerevisiae. This work provides a framework for efficient aTF engineering to expand ligand specificity towards novel molecules on laboratory timescales, which, more broadly, is invaluable across a wide range of applications such as protein and metabolic engineering, as well as point-of-care diagnostics.
In vivo imaging and regression analysis reveal cell-non-autonomous functions of Shroom3 during neural tube closure
Authors: Baldwin Austin T. , Kim Juliana H. , Wallingford John B. 
Published: June 2022

AbstractDuring neural tube closure, neural ectoderm cells constrict their apical surfaces to bend and fold the tissue into a tube that will become the central nervous system. These cells are physically interconnected via N-cadherin, and mutation of critical genes within relatively small numbers of cells can result in neural tube closure defects due to non-cell autonomous cell behavior defects. Despite this finding, we have a poor understanding of how neuroepithelial cells interact during apical constriction. In our previous paper, we introduced an imaging and analysis paradigm for tracking and quantifying apical constriction during neural tube closure, while also using CRISPR/Cas9 to generate mosaic loss of function of the apical constriction gene shroom3. Here we analyze the behaviors of cells along the mosaic interface of our shroom3 crispant clones, and find that Shroom3 non-cell autonomously regulates apical constriction and N-cadherin localization. Control cells along the interface constrict less, while shroom3 crispant cells along the interface constrict more. Finally, we construct a partial least squares regression (PLSR) model to estimate how both autonomous and non-cell autonomous dynamics of actin and N-cadherin affect apical surface area in both control and shroom3 crispant cells. Overall, our results demonstrate a previously unidentified non-cell autonomous role for Shroom3 in neural tube closure.
The Arabidopsis endosperm is a temperature-sensing tissue that implements seed thermoinhibition through phyB and PIF3
Authors: Piskurewicz Urszula , Sentandreu Maria , Glauser Gaëtan , Lopez-Molina Luis 
Published: June 2022

AbstractSeed thermoinhibition, the repression of germination under high temperatures, prevents seedling establishment under potentially fatal conditions. Thermoinhibition is relevant for ecology, phenology and agriculture, particularly in a warming globe. The temperature sensing mechanisms and signaling pathways sustaining thermoinhibition are unknown. We found that thermoinhibition in Arabidopsis thaliana is not autonomously controlled by the embryo but is rather implemented by the endosperm surrounding the embryo. High temperature is sensed through endospermic phyB by accelerating its reversion from the active signaling Pfr form into the inactive Pr form, as described in seedlings. This leads to stabilization of endospermic PIF3, which represses the expression of the endospermic ABA catabolic gene CYP707A1 and promotes endospermic ABA synthesis and release towards the embryo to block its growth. Furthermore, endospermic ABA represses embryonic PIF3 accumulation that would otherwise promote embryonic growth. Hence, under high temperatures PIF3 exerts opposite growth responses in the endosperm and embryo.
Effect of electric-arc-induced ablation on corrosion behavior of pipeline steel under high-voltage direct current interference
Authors: Wang Xiuyun , Cao Guofei , Wang Bei , Xing Yunying , Lu Minxu , Qiao Lijie , Zhang Lei 
Published: June 2022

Purpose
The purpose of this study is to elucidate the effects of electric-arc-induced ablation on the corrosion behavior of pipeline steel in neutral and high pH environments.

Design/methodology/approach
Electrochemical testing, an atmospheric-pressure immersion experiment and various techniques (e.g. scanning electron microscopy, energy dispersive X-ray spectroscopy and X-ray photoelectron spectroscopy) were used to examine the effects of electric-arc-induced ablation on the corrosion behavior of pipeline steel in neutral and high pH environment.

Findings
Electric-arc-induced ablation occurred preferentially in areas of inclusion. The corrosion resistance of an ablation pit was lower than that of non-ablation areas. In the neutral soil solution, general corrosion was the dominant corrosion that affected pipeline steel; the effect of ablation was small but pitting corrosion could still be induced. In a high pH environment, the samples without ablation were passivated, whereas the samples with ablation pits could not be passivated; the ablation pits were likely to develop pitting corrosion.

Originality/value
Electric-arc-induced ablation can reduce the corrosion resistance of pipeline steel under high-voltage direct current interference.
The latest operational, contractual and organizational trends in IPD literature: review and future directions
Authors: Rankohi Sara , Bourgault Mario , Iordanova Ivanka 
Published: June 2022

PurposeIntegrated project delivery (IPD) has attracted considerable attention in recent years, however only a few review studies captured the dynamic and evolving nature of this topic. The purpose of this study is to review the most recent IPD publications, in order to shed light on future research.Design/methodology/approachUsing a systematic review methodology, the study aims to synthesize the current IPD literature, and frame the latest research and development in this domain. A systematic review is conducted to identify the current state-of-the-art of IPD research and the latest research themes and trends in this domain. A bibliometric analysis is performed to explain characteristics of screened articles, and through a thematic analysis the latest themes and trends are recognized.FindingsIn this study, based on IPD characteristics (contractual-regulative, operational-cognitive and organizational-structural), research themes (legal, commercial, technological, procedural, cultural and structural), sub-themes and their associated trends are identified. The latest emerging trends are mostly related to the contractual characteristics of IPD, and are focused on the combination of IPD with new business models and developing contractual guidelines for promoting IPD applications in off-site and on-site construction projects.Originality/valueThis research contributes to the body of knowledge by synthesizing the state of the art of IPD in construction literature and exposing the latest research trends in this area. A theoretical framework of integration in an IPD context is developed, based on the literature. Finally, future areas of studies are discussed.
Reference section identification of construction specifications by a deep structured semantic model
Authors: Lee Gitaek , Moon Seonghyeon , Chi Seokho 
Published: June 2022

PurposeContractors must check the provisions that may cause disputes in the specifications to manage project risks when bidding for a construction project. However, since the specification is mainly written regarding many national standards, determining which standard each section of the specification is derived from and whether the content is appropriate for the local site is a labor-intensive task. To develop an automatic reference section identification model that helps complete the specification review process in short bidding steps, the authors proposed a framework that integrates rules and machine learning algorithms.Design/methodology/approachThe study begins by collecting 7,795 sections from construction specifications and the national standards from different countries. Then, the collected sections were retrieved for similar section pairs with syntactic rules generated by the construction domain knowledge. Finally, to improve the reliability and expandability of the section paring, the authors built a deep structured semantic model that increases the cosine similarity between documents dealing with the same topic by learning human-labeled similarity information.FindingsThe integrated model developed in this study showed 0.812, 0.898, and 0.923 levels of performance in NDCG@1, NDCG@5, and NDCG@10, respectively, confirming that the model can adequately select document candidates that require comparative analysis of clauses for practitioners.Originality/valueThe results contribute to more efficient and objective identification of potential disputes within the specifications by automatically providing practitioners with the reference section most relevant to the analysis target section.
An integrated framework of behavioral reasoning theory, theory of planned behavior, moral norm and emotions for fostering hospitality/tourism employees’ sustainable behaviors
Authors: Meng Bo , Lee Myong Jae , Chua Bee-Lia , Han Heesup 
Published: June 2022

Purpose
This paper aims to develop an integrated framework for a deeper understanding of employee sustainable behaviors in the workplace by using theories, such as behavioral reasoning theory, planned-behavior theory, goal-directed behavior theory, norm activation theory and belief-value-norm theory.

Design/methodology/approach
A quantitative approach is used in the present research. This study used data from 343 employees who are from the hospitality and tourism industry to investigate the formation of employees’ sustainable behaviors.

Findings
The research framework assumes that the reasons for sustainable behavior and the reasons against sustainable behavior predict global motives, which comprise attitude, subjective norm and behavioral control, and moral norm mediates the relationship between global motives, positive and negative anticipated emotions and behavioral intention. The hypothesized theoretical model had a sufficient degree of total variance with the behavioral intention and generally verified the hypothesized relationships, which served as a basis for modeling employee sustainable behavior in the workplace.

Originality/value
This study integrated a framework that contributes to employee sustainable behavior in the tourism and hospitality industry by identifying the effects of motivational process, moral process and emotional process to perform sustainable behavior.