bluuebunny/crossref_metadata_2025_split huggingface dataset:
The bacterial lectin LecA from P. aeruginosa alters membrane organization by dispersing ordered domains
Authors: Sych Taras , Omidvar Ramin , Ostmann Rafael , Schubert Thomas , Brandel Annette , Richert Ludovic , Mely Yves , Madl Josef , Römer Winfried 
Published: June 2023

AbstractThe dynamic reorganization of plasma membrane nanodomains (lipid rafts) plays a key role in host cell infection by human pathogens. Bacteria can induce the reorganization of lipid rafts as a result of the interactions between bacterial lectins and lipid raft glycosphingolipids (GSLs). However, it is still unclear how such interactions trigger the initial stage of the infection mechanism. Here, we study the GSL globotriaosylceramide (Gb3), a key receptor involved in the cellular uptake of the Gram-negative bacterium P. aeruginosa. The bacterial surface lectin LecA targets Gb3 and promotes bacterial invasion via a lipid zipper mechanism. We mimic the plasma membrane using supported lipid bilayers (SLBs), containing liquid-ordered and liquid-disordered lipid domains. We observe that the liquid-ordered domains in the SLBs disperse upon interaction with LecA, accompanied by a deformation of SLBs surface. Our results link the membrane reorganization triggered by LecA with the P. aeruginosa infections in host cells.
Resilience and individual competitive productivity: the role of age in the tourism industry
Authors: Toubes Diego R. , Araújo-Vila Noelia , de Araújo Arthur Filipe , Fraiz-Brea José Antonio 
Published: June 2023

AbstractThis study evaluates the conceptual and metrical correspondence between the construct measurements of the individual Competitive Productivity model and the scale that measures individual resilience in tourism. An individual work resilience scale was adapted to the context of the tourism industry. Scale items were operationalised on an online survey (n = 425) with tourism professionals and students. The role of age as an influence variable on individual resilience levels was explored. The results point to correspondences between the scale designed to measure personal resilience and the construct that identifies the ICP components. The findings suggest that companies should prioritise diversity in their recruitment policies, which allows them to capitalise on integrative thinking to become more ambidextrous, and consequently, more resilient.
Inferring links in directed complex networks through feed forward loop motifs
Authors: Roy Satyaki , Al Musawi Ahmad F. , Ghosh Preetam 
Published: June 2023

AbstractComplex networks are mathematical abstractions of real-world systems using sets of nodes and edges representing the entities and their interactions. Prediction of unknown interactions in such networks is a problem of interest in biology, sociology, physics, engineering, etc. Most complex networks exhibit the recurrence of subnetworks, called network motifs. Within the realm of social science, link prediction (LP) models are employed to model opinions, trust, privacy, rumor spreading in social media, academic and corporate collaborations, liaisons among lawbreakers, and human mobility resulting in contagion. We present an LP metric based on a motif in directed complex networks, called feed-forward loop (FFL). Unlike nearest neighbor-based metrics and machine learning-based techniques that gauge the likelihood of a link based on node similarity, the proposed approach leverages a known dichotomy in the motif distribution of directed networks. Complex networks are sparse, causing most nodes and their associated links to have low motif participation. Yet, due to intrinsic network motif-richness, few links participate in many distinct motif substructures. Thus, the FFL-based metric combines the presence and absence of motifs as a signature to outperform baseline metrics on ten directed social and biological network datasets. We conclude with the future of the FFL-based metric in dynamic network inference as well as its use in designing combined metrics using network motifs of varying orders as features.
Local wisdom in conserving Magnolia sulawesiana the endemic and endangered tree species in Sulawesi, Indonesia
Authors: Kinho J , Arini D I D , Kafiar Y 
Published: June 2023

Abstract
One endemic tree species threatened with extinction in Sulawesi is Magnolia sulawesiana (Magnoliaceae). M. sulawesiana is distributed in the central and northern of Sulawesi island, Indonesia. This species is one of the most exploited tree species for various purposes such as; home construction materials, furniture, musical instruments, and sports equipment. The high demand for this type of wood has led to over-exploitation. The natural population of M. sulawesiana in Sulawesi’s forest was rare. According to the IUCN Red List Category and Criteria, this species is categorized as an Endangered (EN) species, which means that this species is at risk of extinction in the wild. In northern Sulawesi, this species is known by the local name cempaka wasian or wasian. One of the conservation strategies to preserve this endemic species is to support the local wisdom of the community in the agroforestry of cempaka wasian (M. sulawesiana) for conservation and sustainable use purposes.
In vitro sterilization and callus induction from Cananga odorata forma genuina steenis explants
Authors: Nugraheni Y M M A , Mansur I , Sulistiani E 
Published: June 2023

Abstract

Cananga odorata (ylang-ylang) is a plant with numerous uses, including ornamental use, traditional medicinal ingredient, as fragrance, and cosmetics. The high market demand for ylang-ylang essential oil needs to be supported by information on the in vitro process of callus formation to supports the secondary metabolites production without having to cut or harvest the trees so that biodiversity is maintained. The aims of this study were to analyze the explants sterilization method using sodium hypochlorite (NaOCl) solution that was most suitable for the ylang-ylang initiation, and to analyze the effect of BAP and NAA treatment on the formation of ylang-ylang callus. The design used is a completely randomized design. The methods used included the preparation, sterilization, and callus induction using a combination of BAP and NAA hormones with twenty four treatment combinations. The results are: the sterilization of explants with sodium hypochlorite (NaOCl) solution at a concentration of 20% (v/v) 10 minutes followed by a concentration of 15% (v/v) 20 minutes was able to produce sterile explants in as much as 67.5% of cases. At the callus induction stage, the highest score of callus formation in leaf explants was in media-23 (BAP 4 ppm plus NAA 5 ppm).
Endogenous like sequence Rice Tungro Bacilliform Virus (RTBV) fragments in the local rice genome and its role in controlling tungro disease
Authors: Ruimassa R M R , Holle Y , Manzila I 
Published: June 2023

Abstract
Tungro disease is one of the important diseases in rice plants because it can cause a large decrease in production. Therefore, tungro disease needs to be controlled in wise ways that ensure environmental sustainability. This can be done by using resistant varieties, while also preventing rice from resistance to the green leafhopper vector Nepothettix virescens, the death of natural enemies, resurgence and emergence of secondary pests which become the main pests. The territory of Indonesia has many very diverse rice germ plasm which its resistance properties can be used to control tungro disease. Resistance genes are an effective control machine especially when combined with other control strategies. One of the triggers for the resistance of rice varieties is eRTBV, which is a group of RTBV nucleotides in rice DNA. The purpose of this study was to detect the presence of the eRTBV piece in the rice genome and its role in controlling tungro disease. The method used wasthe insilico method by comparing the eRTBV found in local rice varieties with that found in Genbank. The results indicated that endogenous RTBV was joined into the rice genome at 1200 bp using the primer eRTBV-7. Nucleotide blast results showed that the similarity of endogenous Indonesian local rice RTBV to endogenous RTBV in the genbank ranged between 95% and 99%, then protein blast results showed that the eRTBV fragment of local rice varieties contained ORF 3 RTBV protein with a range of similarity to the genbank of 66.9% and 93.35%. The role of eRTBV is to produce the Isoleucine protein motif which produces a physical, chemical and biochemical resistance system capable of inhibiting the green leafhopper virus vector (Nepothettix virescens) and the growth and development of tungro disease, RTBV.
Screening of acid-tolerant hybrid Corn lines and parents using modified acid mineral soil
Authors: Paesal  , Azrai M , Jayadi M , Musa Y 
Published: June 2023

Abstract
Screening of hybrid corn parent lines quickly and cheaply compared to hydroponic methods in the laboratory is needed to support the assembly of new high yielding varieties of acid tolerant corn. Addition of CaCO3 as equivalent to 2 t/ha (normal soil), while 0.5 t/ha AlCl3 (acidic). A total of 12 elite maize lines were tested based on relative root growth (RRG). Four sets of experiments were made, namely 2 sets normal soil media (pH 6.5) and 2 sets acid soil media (pH 4.3). Experimental design used in each experimental set was a randomized block with three replications. Results showed that rapid screening of hybrid maize parental lines could be carried out using modified soil acidity method by adding CaCO3 and AlCl3 to acid soil by measuring relative root growth (RRG) as the main variable. Corn obtained by genotypes No.80, MAL03x192, and Bisi-18 were classified as tolerant, MAL03x28, MAL03x182, MAL03x42, MAL03x44, MAL03x107, MAL03x115 were classified as moderately tolerant, while MAL03x100, MAL03x56, classified as sensitive. Screening of hybrid parent lines on acid soil modified to pH 4.3 (acidic) and normal pH 6.5 at seedling age 7 days after planting (dap) was more accurate than at seedling age of maize 14 dap.
Natural dyes used by the byak tribe and its prospects as raw materials for the natural dyes industry
Authors: Fatubun A , Susanti C M E , Sinaga N I , Wanma J F , Lea M M 
Published: June 2023

Abstract
Dyes have been widely used by communities for various purposes, such as a compositional ingredient in food, customs, or traditional activities and crafts. The types and methods of usage are highly dependent on the presence of plants and animals found around residential areas and there are also several exotic species that are assimilated and come from other ethnic groups. The aim of this study is to determine the types of plants that produce natural dyes used by the Byak community in Biak Numfor Regency as handicraft dyes and the prospects for cultivating these plants as a source of raw materials for the natural dye industry. The research showed that the Byak ethnic community used eight species of plants as dye materials for handycraft products such as Asytasia gangetica (L)., Melastoma maladatthricum (L), Arcangelisia flava (L) Merr, Morinda citrifolia (L), Philantus sp., Macaranga tessellate var glabrescens, Mallotus floribundus (Blume) Mull.Arg., and Bruguiera gymnorrhiza (L) Lank. From all the species Asystasia sp. is easier to cultivate using stem cuttings and is relatively fast-growing.
Biocontrol of Bacillus cereus for Anopheles sp larvae
Authors: Mogea R A , Fitriani Y , Rumalolas N , Salosa Y S 
Published: June 2023

Abstract
Biological control is one of the best ways to eradicate mosquitoes. The eradication can be done by using natural antagonists such as microbes. The research objectives are to determine the concentration value of local isolate Bacillus cereus which cause 50% mortality and 95% mortality toward Anopheles larvae (instars 3) and to know how long Bacillus cereus AOT9 can survive in the LC95 until mortality of larvae Anopheles decreases to 70% in laboratory condition. Research was experimentally done with six different concentrations (10, 20, 30, 40, 50, and 60 ppm) using three replications. The result showed that there is no mortality of Anopheles larvae in the control sample, 43 % mortality for each repetition in 10 ppm, and the highest mortality was 98 % in 68 ppm. Also, the mortality of Anopheles larvae was 50 % in the concentration of 20 ppm to 30 ppm. Probit analysis for Bacillus cereus at LC50 was 27.93 ppm and at LC95 was 57.43 ppm. The residual test for mortality of Anopheles larvae in the first 48 hours was 96.7 % of the total in three replications and then decrease to 70 % in 336 hours or day 14.
An adaptive social forestry model in West Papua based on cultural forests and the main potential of NTFPS: Theory and practice
Authors: Ungirwalu A , Awang S A , Maryudi A , Suryanto P , Marwa J , Heatubun C D 
Published: June 2023

Abstract
The presence of the Job Creation Law Number 11 of 2020 opened a new discourse on social forestry policy in Indonesia. The discourse on the concept of forest resource management is used as the basis for the theory and practice of local community-based development. The purpose of this paper is to develop a model of adaptive natural resource management for the development of site-scale social forestry. As potential superior Non-Timber Forest Products (NTFPs), the types of Papuan nutmeg and black fruit have been utilized by local communities for generations. A mixed method using descriptive system analysis was used in developing the concept of cultural forest. The results of the study found that a cultural-forest-based adaptive natural resource management scenario in West Papua from case studies on the use of nutmeg in Fakfak and black fruit districts in Teluk Wondama district can be designed as a model for social forestry at the site level. The three landscape typologies of natural forest habitat, secondary forest and home gardens are a systemic-holistic unit that demonstrates certainty of access and ownership for determining site-scale social forestry schemes in West Papua.
Effect of trace Al and Ca co-addition and solution treatment on the microstructure and mechanical properties of Mg-10Gd alloys
Authors: Liu Jian , Wang Wuxiao , Li Wuzhao , Zhao Yu , He Na , Qin Shaoyong 
Published: June 2023

Abstract
To reduce the density and cost while improving the ductility of Mg-Gd system alloys, a total of 2 wt% Al and Ca were added to an Mg-10Gd alloy for partial substituting Gd element. The prepared alloys were subjected to solution treatment at 500 °C for several hours, and the variations in microstructure and mechanical properties were investigated. To reveal the effect of the combined addition of Al and Ca on the microstructure and mechanical properties of the Mg-10Gd alloys, Mg-10Gd alloys containing the same amount of Al or Ca were also fabricated and characterized. By comparison, it was found that only the co-addition of Al and Ca simultaneously improved the hardness, ultimate tensile strength, yield strength, and elongation of the Mg-10Gd system alloys in both as-cast and solid solution states.
The Arms Trade and American Revolutions
Authors: DeLay Brian 
Published: June 2023

Abstract
This essay argues that the international arms trade bound the revolutions in British North America, Saint-Domingue, and Spanish America in dependent relationships. Throughout the colonial era, an informal arms control regime made it impossible for Europe’s American subjects to mass-produce war material or buy enough on the open market to equip independence through war. As became clear by late 1776, even the hemisphere’s best-connected colonists could not overcome this obstacle. Only the decisions of France and Spain to secretly arm and then openly support the British North Americans made their revolution a success. But as France and Spain would soon come to realize, US independence fatally undermined the early modern arms control regime that had kept independence a practical impossibility in their own colonies. North American merchants became the indispensable arms dealers to the hemisphere’s later revolutionaries, first in Saint-Domingue and then across mainland Spanish America. Crucially, though, the United States never offered terms remotely as generous as those it had enjoyed during its own independence struggle. Rather than rely on imperial patronage or republican solidarity, Haitians and Spanish Americans had to navigate a cutthroat market to obtain the tools of independence. That comparative disadvantage would haunt their postcolonial histories.
snHiC: a complete and simplified snakemake pipeline for grouped Hi-C data analysis
Authors: Gregoricchio Sebastian , Zwart Wilbert 
Published: June 2023

Abstract

Summary
Genome-wide chromosome conformation capture (Hi-C) is a technique that allows the study of 3D genome organization. Despite being widely used, analysis of Hi-C data is technically challenging and involves several time-consuming steps that often require manual involvement making it error prone, potentially affecting data reproducibility. In order to facilitate and simplify these analyses we implemented snHiC, a snakemake-based pipeline that allows for the generation of contact matrices at multiple resolutions in one single run, aggregation of individual samples into user-specified groups, detection of domains, compartments, loops and stripes and performance of differential compartment and chromatin interaction analyses.

Availability and implementation
Source code is freely available at https://github.com/sebastian-gregoricchio/snHiC. A yaml-formatted file (snHiC/workflow/envs/snHiC_conda_env_stable.yaml) is available to build a compatible conda environment.

Supplementary information
Supplementary data are available at Bioinformatics Advances online.
Combining Angiosperms353 and Sanger data provides support for the reinstatement of the genusMyrianthemum(Melastomataceae)
Authors: Chen Luo , Kadereit Gudrun , Veranso-Libalah Marie Claire 
Published: June 2023

AbstractThe increasing availability of DNA sequence data, in particular target enrichment data based on the universal Angiosperms353 probe set, but also accumulated Sanger data from previous phylogenetic studies, is facilitating the placement of taxa that are difficult to place with certainty based on morphological evidence alone. Here, we investigate phylogenetic relationships of Medinilla mirabilis (Melastomataceae), a species distributed in central Africa and currently classified in the mega-diverse genus Medinilla of tribe Sonerileae. Medinilla mirabilis is a twining liana with verticillate leaves when young, spherical inflorescences, 4-merous flowers, dimorphic stamens, and baccate fruits. Our results revealed that M. mirabilis is sister to tribe Dissochaeteae and only distantly related to Medinilla. We also provide new data on wood anatomical and seed morphological characters of M. mirabilis. The alternate inter-vessel pits in M. mirabilis and Dissochaeteae are consistent with the phylogenetic placement. Seeds of M. mirabilis are similar to those of Dissochaeteae and of Medinilla. Due to its unique morphology and phylogenetic position, we propose to reinstate the monospecific genus Myrianthemum with Myrianthemum mirabile. This necessitates expansion of the Southeast Asian tribe Dissochaeteae to include Myrianthemum as its only African member. Our study of M. mirabile demonstrates that the combined application of Angiosperms353 and Sanger data is a cost-effective approach to phylogenetically place enigmatic taxa.
Emerson and the lyric essay in Maggie Nelson’s Bluets
Authors: Walton Georgia 
Published: June 2023

Abstract
This article examines the previously underacknowledged influence of nineteenth-century writer Ralph Waldo Emerson on the contemporary essayist and memoirist Maggie Nelson, in particular the 2009 book-length essay Bluets. Nelson’s hybrid texts have often been seen as key examples of the quintessentially contemporary genre of the lyric essay. My argument here complicates the claims of originality that have been made for this genre and instead identifies Nelson’s formal concerns as the product of a profound engagement with a nineteenth-century model. Through my analysis of Bluets, I suggest that Emerson’s influence is key to understanding Nelson’s formal hybridity and, in turn, her particular representation of the relationship between the subject and the world. Through her engagement with Emerson, Nelson arrives at an understanding of subjecthood that is based on a radical dependency but that is also individually defined and self-sufficient.
Increasing aleurone layer number and pericarp yield for elevated nutrient content in maize
Authors: Paulsmeyer Michael N , Juvik John A 
Published: June 2023

Abstract
The bran is a nutritive fraction of the maize (Zea mays L.) kernel containing micronutrients, quality protein, and antioxidants beneficial for human health. Bran consists of two major components: aleurone and pericarp. Increasing this nutritive fraction would therefore have implications on biofortification of maize. Since quantification of these two layers is difficult, the goals of this study were to develop efficient techniques for analyzing these layers and to develop molecular markers for pericarp and aleurone yield. Two populations with various characteristics were genotyped using genotyping-by-sequencing. The first was a yellow corn population with contrasting pericarp thicknesses. The second was a blue corn population segregating for Intensifier1 alleles. Both populations segregated for the multiple aleurone layer (MAL) trait that is known to increase aleurone yield. In this study, it was found that MALs are mostly determined by a locus on chromosome 8, but several minor loci are also involved. The inheritance of MALs was complex and seemingly more additive than dominant. In the blue corn population, anthocyanin content increased 20 to 30% with the addition of MALs demonstrating its effectiveness at increasing aleurone yield. Elemental analysis was performed on MAL lines and indicated a role of MALs in increasing iron content in the grain. Iron content was increased 17.5% in the MAL lines over the single aleurone layer lines and 35.5% over the recurrent parent, Mo17. Zinc content was increased 15.5% in the MAL lines compared to the recurrent parent. QTL analyses are presented in this study on many pericarp, aleurone, and grain quality traits. Molecular markers were also tested for the MAL locus on chromosome 8, and candidate genes are discussed. Results of this study may assist plant breeders enhancing anthocyanin content and other beneficial phytonutrients in maize.
A transcriptional cofactor regulatory network for the C. elegans intestine
Authors: Horowitz Brent B , Nanda Shivani , Walhout Albertha J M 
Published: June 2023

Abstract
Chromatin modifiers and transcriptional cofactors (collectively referred to as CFs) work with DNA-binding transcription factors (TFs) to regulate gene expression. In multicellular eukaryotes, distinct tissues each execute their own gene expression program for accurate differentiation and subsequent functionality. While the function of TFs in differential gene expression has been studied in detail in many systems, the contribution of CFs has remained less explored. Here, we uncovered the contributions of CFs to gene regulation in the Caenorhabditis elegans intestine. We first annotated 366 CFs encoded by the C. elegans genome and assembled a library of 335 RNAi clones. Using this library, we analyzed the effects of individually depleting these CFs on the expression of 19 fluorescent transcriptional reporters in the intestine and identified 216 regulatory interactions. We found that different CFs regulate different promoters, and that both essential and intestinally expressed CFs have the greatest effects on promoter activity. We did not find all members of CF complexes acting on the same set of reporters but instead found diversity in the promoter targets of each complex component. Finally, we found that previously identified activation mechanisms for the acdh-1 promoter use different CFs and TFs. Overall, we demonstrate that CFs function specifically rather than ubiquitously at intestinal promoters and provide an RNAi resource for reverse genetic screens.