Fragment Reads Research Articles

The Impact of Digital Technologies on English Literacy Development Among Undergraduate Students

This research explores the extensive have an effect on of virtual generation on the improvement of English literacy in university college students. The effect of digital systems on literacy abilities is becoming an important discipline of studies as they keep to dominate conversation and getting to know environments. It examines how digital technology might enhance literacy via interactive and multimodal getting to know tools, in addition to the problems they pose, such as the growth in casual language use associated diversions. Data become collected from semester four through qualitative method which includes surveys, interviews and observation, to evaluate alterations in reading and writing competencies. The outcomes show that digital tools can decorate reading comprehension with personalized and attractive content material, however they also can promote fragmented reading habits and casual writing patterns. The article explores the consequences of these findings for instructional practices proposing a properly-rounded use of digital generation in literacy practice to maximize their benefits at the same time as minimizing their negative aspects. This has a look at provides to the discussion on generation’s role in education, emphasizing the importance of implementing techniques that effectively combine virtual gear into literacy programs.

Attention switching through text dissimilarity: a cognition research on fragmented reading behavior.

People tend to obtain information through fragmented reading. However, this behavior itself might lead to distraction and affect cognitive ability. To address it, it is necessary to understand how fragmented reading behavior influences readers' attention switching. In this study, the researchers first collected online news that had 6 theme words and 60 sentences to compose the experimental material, then defined the degree of text dissimilarity, used to measure the degree of attention switching based on the differences in text content, and conducted an EEG experiment based on P200. The results showed that even after reading the fragmented text content with the same overall content, people in subsequent cognitive tasks had more working memory capacity, lower working memory load, and less negative impact on cognitive ability with the text content with lower text dissimilarity. Additionally, attention switching caused by differences in concept or working memory representation of text content might be the key factor affecting cognitive ability in fragmented reading behavior. The findings disclosed the relation between cognitive ability and fragmented reading and attention switching, opening a new perspective on the method of text dissimilarity. This study provides some references on how to reduce the negative impact of fragmented reading on cognitive ability on new media platforms.

Precision genome profiling for pediatric leukemia with a software-controlled enrichment method using nanopore sequencer.

10027 Background: The real-time nature of nanopore sequencing allows for simultaneous basecalling of DNA sequences during sequencing. This unique capability enables adaptive sampling (AS), a software-controlled targeted sequencing method. AS is notable for its ability to rapidly and flexibly enrich multiple genes with long fragment reads and detect various modalities of genetic aberrations in a single run. However, the feasibility and significance of AS for cancer have not been previously reported. Methods: We performed AS on a GridION sequencer using samples from 28 pediatric leukemia patients (10 acute myeloid leukemia, 13 B-cell acute lymphoblastic leukemia, and 5 T-cell acute lymphoblastic leukemia). Target regions were comprised of 466 genes associated with hematologic malignancies and included 30-kilo base pairs of flanking regions. After 3 days of sequencing, single-nucleotide variants (SNVs), structural variations (SVs), and copy number variations (CNVs) were determined. In 21 samples, variant calling accuracy was evaluated using short-read-based whole genome sequencing (WGS). Results: In the on-target regions, mean depth was 21.0× and N50 was 11,191 bps at the median. Of the 13 samples with genetic alterations previously detected through clinical testing for diagnostic classifications, all were reconfirmed by AS. Detecting DUX4 rearrangement needed an additional analysis pipeline because of its structural complexity. Among the 15 remaining samples whose genetic alterations had not been determined by clinical diagnostic testing, AS identified putative driver aberrations in 14 samples. All of these genomic abnormalities were structural variations (SVs) or copy number variations (CNVs), most of which were not encompassed within the genes or regions targeted in clinical diagnostic testing. Detected SVs were described with accurate genomic breakpoints, enabling the efficient detection of gene rearrangements and deletions of the entire region of an exon or a gene. Regarding CNVs, both chromosomal-level CNVs, such as high-hyperdiploid, and focal CNVs, such as CDKN2A deletion, were detectable using genome-wide low-coverage reads in the off-target regions. In the other case with acute myeloid leukemia in which genetic abnormalities were not detected either by clinical testing or AS, WGS identified an NPM1 frameshift deletion located outside of known hotspots. Among variants identified by WGS, AS detected 60.9% of the SNVs, 17.6% of the small indels, and 89.2% of the SVs, with a tendency of poor detection efficiency for variants with low variant allele frequency. Conclusions: AS provides a rapid and precise description of the genomic profile of pediatric leukemia, particularly advantageous for identifying SVs and CNVs, which are difficult to detect by capture-based short-read sequencing.

An efficient molecular genetic testing strategy for incontinentia pigmenti based on single-tube long fragment read sequencing

Incontinentia pigmenti (IP) is a rare X-linked dominant neuroectodermal dysplasia that primarily affects females. The only known causative gene is IKBKG, and the most common genetic cause is the recurrent IKBKG△4–10 deletion resulting from recombination between two MER67B repeats. Detection of variants in IKBKG is challenging due to the presence of a highly homologous non-pathogenic pseudogene IKBKGP1. In this study, we successfully identified four pathogenic variants in four IP patients using a strategy based on single-tube long fragment read (stLFR) sequencing with a specialized analysis pipeline. Three frameshift variants (c.519-3_519dupCAGG, c.1167dupC, and c.700dupT) were identified and subsequently validated by Sanger sequencing. Notably, c.519-3_519dupCAGG was found in both IKBKG and IKBKGP1, whereas the other two variants were only detected in the functional gene. The IKBKG△4–10 deletion was identified and confirmed in one patient. These results demonstrate that the proposed strategy can identify potential pathogenic variants and distinguish whether they are derived from IKBKG or its pseudogene. Thus, this strategy can be an efficient genetic testing method for IKBKG. By providing a comprehensive understanding of the whole genome, it may also enable the exploration of other genes potentially associated with IP. Furthermore, the strategy may also provide insights into other diseases with detection challenges due to pseudogenes.

A high-quality chromosome-level genome assembly of the Chinese medaka Oryzias sinensis

Oryzias sinensis, also known as Chinese medaka or Chinese ricefish, is a commonly used animal model for aquatic environmental assessment in the wild as well as gene function validation or toxicology research in the lab. Here, a high-quality chromosome-level genome assembly of O. sinensis was generated using single-tube long fragment read (stLFR) reads, Nanopore long-reads, and Hi-C sequencing data. The genome is 796.58 Mb, and a total of 712.17 Mb of the assembled sequences were anchored to 23 pseudo-chromosomes. A final set of 22,461 genes were annotated, with 98.67% being functionally annotated. The Benchmarking Universal Single-Copy Orthologs (BUSCO) benchmark of genome assembly and gene annotation reached 95.1% (93.3% single-copy) and 94.6% (91.7% single-copy), respectively. Furthermore, we also use ATAC-seq to uncover chromosome transposase-accessibility as well as related genome area function enrichment for Oryzias sinensis. This study offers a new improved foundation for future genomics research in Chinese medaka.

Queer and Ethnicity in Minsk, 1952: Belarusian Reading of Kaspars Irbe’s Diary

This article proposes an intersectional approach to studying non-Russian queer experiences in the Soviet empire. While earlier applications of intersectionality focused on race, gender, and class, other regional perspectives may highlight ethnicity, citizenship, and language. The text approaches non-Russian queer subjects in the USSR as a heterogeneous multiplicity via a contextualised reading of a diary fragment written by the Latvian Kaspars Irbe in Minsk in 1952. It highlights the prominence of communication between queers and people from the “centre” but also notes the hindrance of immediate contact between ethnicised subalterns due to Soviet social engineering. Tracing contingencies of Belarusian history, the article reveals how national identity and queer emancipation projects can evolve together.

A de novo chromosome-scale assembly of the Lablab purpureus genome.

Lablab (Lablab purpureus (L.) Sweet), an underutilized tropical legume crop, plays a crucial role in global food and nutritional security. To enhance our understanding of its genetic makeup towards developing elite cultivars, we sequenced and assembled a draft genome of L. purpureus accession PK2022T020 using a single tube long fragment read (stLFR) technique. The preliminary assembly encompassed 367 Mb with a scaffold N50 of 4.3 Mb. To improve the contiguity of our draft genome, we employed a chromatin contact mapping (Hi-C) approach to obtain a pseudochromosome-level assembly containing 366 Mb with an N50 length of 31.1 Mb. A total of 327.4 Mb had successfully been anchored into 11 pseudomolecules, corresponding to the haploid chromosome number in lablab. Our gene prediction recovered 98.4% of the highly conserved orthologs based on the Benchmarking Universal Single-Copy Orthologs (BUSCO) analysis. Comparative analyses utilizing sequence information from single-copy orthologous genes demonstrated that L. purpureus diverged from the last common ancestor of the Phaseolus/Vigna species approximately 27.7 million years ago. A gene family expansion analysis revealed a significant expansion of genes involved in responses to biotic and abiotic stresses. Our high-quality chromosome-scale reference assembly provides an invaluable genomic resource for lablab genetic improvement and future comparative genomics studies among legume species.

ОРФИКА IΙ: ТЕОГОНИЯИЕРОНИМА

The Orphic “theogony of Hieronymus and Hellanicus” is known thanks to Athenagoras (2nd century) and Damascius (6th century) and our informants approach the text of the theogony in very different ways. Athenagoras reads it literally, thus seeking to show all the immorality of Orphicism, whereas Damascus, in typical Neoplatonic fashion, understands it allegorically and uses it to illustrate his own theological position. We do not know who Hieronymus and Hellanicus are, but the theogony told in their name is remarkable, unique in many respects, and appears as a kind of transitional type between the early Orphic theogony and the later Rhapsodic theogony. This is achieved, above all, by expanding the number of entities involved in the story. Whereas the early theogonies usually began with the figures of Night and Oceanus with Tethys, they are now preceded by Chronos. In addition, in Hieronymus and Hellanicus (if Athenagoras uses only one source) and then in the Rhapsodies, Dionysus appears in the theogony, completing the genealogy of the gods: having copulated in the form of a serpent with Demeter, Zeus gives birth to Persephone, who, also in union with Zeus, becomes the mother of Dionysus. In this article we offer the reader an analytical reading of the extant fragments of this version of Orphic theogony, providing them with a detailed commentary.

A study of macroinvertebrate communities in Bolshiye Koty Bay of Lake Baikal using DNA metabarcoding.

The diversity of macroinvertebrates, the structure of their communities in Bolshiye Koty Bay (Lake Baikal) was studied by a DNA metabarcoding approach using an Illumina MiSeq system. Internal primer mlCOIintF in combination with jgHCO2198 of the Folmer fragment of the COI gene were used for macroinvertebrate metabarcoding. A total of 118009 reads of the COI gene fragment (at least 313 bp in length) were obtained. The correlation of the Spearman coefficient (S = 0.6, p<0.05) with the abundance of macroinvertebrates in the samples before DNA extraction showed that the number of reads can serve as an indirect characteristic of the abundance of a species (operational taxonomic unit, OTU). 115 OTUs belonging to the higher taxa of macroinvertebrates were identified: Porifera, 1; Platyhelminthes, 3; Annelida, 38; Arthropoda, 55; Mollusca, 18. At a high level of resolution (with homology with GenBank reference sequences ≥ 95 %, coverage ≥ 90 %), 46 taxa of macroinvertebrates comprising three communities were registered: one dominated by molluscs (Choanomphalus conf. maacki) and two dominated by chironomids (Orthocladius gregarius Linev., Sergentia baicalensis Tshern.). Communities are characterized by low species diversity according to Shannon (from 0.7 to 1.2 bits), high concentration of dominance according to Simpson (from 0.5 to 0.7) and low evenness according to Pielou (from 0.3 to 0.4). Dominants and subdominants in the communities account for 91 to 96 % of COI gene fragment reads. The spatial distribution of the dominant species identified in the communities is influenced by the geomorphological features of the bottom and the composition of sediments in the area studied. The approach proposed for studying the structure of macroinvertebrate communities based on DNA metabarcoding and next generation sequencing can be recommended for express assessment of the state of aquatic ecosystems in the monitoring.

The First High-Quality Chromosome-Level Genome of the Lutjanus erythropterus (Bloch, 1790) Using Single-Tube Long Fragment Reads and Hi-C Technologies.

Lutjanus erythropterus (Bloch, 1790), a Perciformes from the Lutjanidae family, is a commercially important species because of its taste and abundance. Despite the increase in genome resources in recent years, few genome assemblies are available within this fish family for comparative and functional studies. In this study, we determined the chromosomal genome of Crimson snapper using high-throughput Single-Tube Long Fragment Reads sequencing technology and Hi-C data. The final assembly size was 973.04 Mb with contig and scaffold N50 values of 1.51 and 40.65 Mb, respectively. We successfully scaffolded 95.84% of the genome sequence onto 24 chromosomes ranging in length from 19.37 to 49.48 Mb. A total of 22,663 genes and 13,877 gene families were identified in the genome, with 29 gene families being L. erythropterus-specific. A phylogenetic analysis using single-copy gene families showed that L. erythropterus and Larimichthys crocea had the closest genetic relationship with a divergence time of ∼47.7 Ma. This new genomic resource will facilitate comparative genomic studies as well as genetic breeding programs for L. erythropterus.

Single-cell ATAC sequencing illuminates the cis-regulatory differentiation of taxol biosynthesis between leaf mesophyll and leaf epidermal cells in Taxus mairei

Taxol is a widely used anticancer drug; however, its accumulation pattern can vary largely among leaf tissues. Taxol biosynthesis is driven by a series of transcription factors (TFs), but the extent of chromatin changes that functionally regulate gene expression associated with taxol biosynthesis remain poorly understood. To assess the effects of tissue heterogeneity on taxol biosynthesis, we applied single-cell transposase-accessible chromatin sequencing to Taxus mairei leaves and identified differentially accessible regions. We captured 9488 independent cells with 42,192 fragment reads per cell. In total, 66.64% were confidently mapped onto the T. mairei genome. Projection analysis divided all the cells into nine clusters, which suggests a high degree of cell heterogeneity in T. mairei leaves. Based on the cell type markers, Clusters 2 and 7 were annotated as leaf mesophyll cells, and Clusters 5 and 6 were annotated as leaf epidermal cells. A differential accessibility analysis identified 9600 and 8538 leaf mesophyll and epidermal, respectively, cell-specific open chromatin regions. We predicted the genomic features of the genes involved in different stages of taxol biosynthesis, and there was a close correlation between chromatin open peaks and the expression levels of several taxol biosynthesis-related genes. We further identified a number of cell type-specific TF motifs and reference TFs that appeared to be involved in taxol biosynthesis. The study of T. mairei leaves at a single-cell resolution provides a valuable resource for determining the basic principles of the cell type-specific regulation of taxol biosynthesis.

The Language of New Media Journalism on Short Video Sharing Websites

In recent years, with the rapid expansion of the integrated media and the wide-scale popularization of the mobile network, the short video technology and its applications have been hogging the limelight. To keep pace with the development of online news tendencies, the mainstream media has started entering into many short video platforms. To a certain extent, the mainstream media short video news is an important product of the internet and the digital media era. The short video has today become an emerging communication mode shared in real-time on the social platforms, which could integrate text, dubbing, video, and other elements to achieve the purpose of information transmission, while meeting the perception needs of the users through more intuitive and three-dimensional communication. Short videos cater to the fragmented reading habits of the public within a short time to achieve comprehensive transmission of communication content under the premise of excellence. This paper endeavors to analyze the characteristics of short video news in the era of rapid development of the new media by considering the short video news released by the official Tik Tok account of Xinhua News Agency as an example. The language of short video news is different from that of the traditional mainstream media news, whereas, the influence of the combination of official media news and the current hot short video transmission has been discussed. The transmission power of official media news could be optimized and improved through the use of short news videos.

Graph Theory in DNA Sequencing: Unveiling Genetic Patterns

Graph theory, a branch of mathematics that studies the properties and relationships of graphs, has emerged as a powerful tool in addressing the complexities of DNA sequencing. This paper highlights the application of graph theory in DNA sequencing and its implications in various aspects of genomics research. One fundamental concept in graph theory applied to DNA sequencing is the construction of the de Bruijn graph. This graph represents overlapping k-mers, subsequences of length k, as nodes, with edges connecting adjacent k-mers. By constructing and analyzing the de Bruijn graph, researchers can infer the underlying DNA sequence, detect errors, resolve repetitive regions, and identify structural variations in the genome. Graph algorithms such as Overlap path, Eulerian path and Hamiltonian path have been adapted to reconstruct complete DNA sequences from fragmented reads obtained through sequencing. These algorithms leverage the connectivity information present in the de Bruijn graph to traverse and assemble the reads, enabling the reconstruction of long DNA sequences accurately. the application of graph theory in DNA sequencing has revolutionized the field of genomics by providing powerful computational tools for DNA assembly, sequence analysis, and functional annotation. By leveraging graph theory concepts and algorithms, researchers can unravel the intricate information embedded within DNA sequences, leading to deeper insights into the genetic basis of life and its applications in various fields, including medicine, agriculture, and evolutionary biology. Future developments in graph-based algorithms and computational techniques hold promise for further enhancing our ability to unlock the secrets encoded within the vast realm of DNA sequences.

Chromosome-Level Genome Assembly of the Rough-Toothed Dolphin (Steno bredanensis)

The rough-toothed dolphin (Steno bredanensis), the single extant species of the genus Steno, inhabits tropical and subtropical oceans. It is an attractive species for studying aquatic adaptation and evolution. The latest advances in high-throughput sequencing are transforming the study of marine mammals and contributing to understanding various phenomena at the species and population level by determining high-quality genomes. Here, to comprehensively understand the genetic features and explore the molecular basis of aquatic adaption, the chromosome-level genome assembly and comparative genomics analyses of S. bredanensis were performed. The 2.30 Gb final genome assembly of S. bredanensis (scaffold N50 length of 105.53 Mb) was obtained using single-tube long fragment read (stLFR) and Hi-C technologies. The genome assembly clearly revealed the preservation of large chromosomal fragments between S. bredanensis and the melon-headed whale (Peponocephala electra). The S. bredanensis genome contained 19,451 predicted protein-coding genes, of which about 92.33% have functional annotations. The genome assembly and gene sets showed high completeness, with a BUSCO score of 90.6% and 97.3%, respectively. We also identified several positively selected genes specific to S. bredanensis, which may be related to fat cell differentiation, tooth morphogenesis, and immunoregulatory activity. Finally, the demographic dynamics of S. bredanensis were estimated by the pairwise sequentially Markovian coalescent (PSMC) model and found that the population was affected by the climate at the time. We demonstrated that improved continuity and accuracy of the assembled sequence warranted the adoption of this chromosome-level genome as the reference genome and advanced the understanding of genetic features of the rough-toothed dolphin, which will be essential for future evolutionary studies and the protection of this species.

The Research on the Marketing Strategies of Bloggers in the Beauty Field of China's Social Media Platform Douyin

With the continuous development of the short video platform, the fragmented reading experience has given the audience a great attraction, and the number of active users has continued to soar. As a consequence, the marketing site of the beauty industry is gradually shifting to the short video platform represented by the Douyin platform and has formed a marketing field with the Douyin beauty make-up KOL as the core. By virtue of the fragmented communication nature of the short video platform, the major beauty bloggers use the unique promotions algorithm of short video platforms such as Douyin to attract a large number of traffic and gain a large number of fans in a short period of time. The professionalism of beauty bloggers and their super high business liquidity bring great economic value to the promotion of beauty products. This study takes the beauty bloggers of the Douyin short video platform as the research object and uses the observation method and content analysis method to explore the marketing modes of the beauty bloggers in Douyin, and to explore the causes, problems and the impact on the beauty industry. This research provides ideas for the marketing strategies of beauty bloggers on the short video platform, hoping to help the beauty industry develop better.

Amatrice avant Amatrice : Une méthode de travail pour l'étude, la documentation et la conservation d'un village perdu

A shocking event such as the one experienced by the population of central Italy in 2016 highlights two problems that afflict the national heritage: the fragility of historic villages and the conservation of the historical-artistic heritage of these cultural centres. This paper intends to propose an applicative method to address the problem of the documentation and conservation of the material and intangible characteristics of the historic centre of Amatrice following an earthquake that de facto cancelled almost all the material components and therefore prevents a campaign of traditional data acquisition. The applied methodology is based on the complementarity between the analysis of unpublished historical photographic material and the digital reconstruction of each building in the city through the aid of Google Street, creating an integration between digital restitution tools, social media as iconographic sources and the contextual architectural reading of the few building fragments still in situ.

Fragments of Water in a Himalayan Town

Narrativizing water conditions in hill settlements only through the optic of water scarcity hides more than it reveals. This piece has employed fragment as a trope to understand and read the different modes through which water intertwines with the quotidian, policy, and governance framework in Kalimpong, India. Here fragment has acted as a critique of a whole; whole as sameness, ubiquity, and undifferentiated spatiality. The first one looks into the question of water governance as unconventional, nonrepresentative, and partisan. The second one looks at citizens’ absence of effective claim making as one of the markers of the water question. The third fragment intrigues the distributive aspect of water that can never be essentialized into a coherent and immediately comprehensible form. The last fragment reads the different shades of water in a community at the city fringe that entangles historical relocation, parastatal powers, and intracommunity differences. Based on ethnographic and archival engagement, we explore studying a differentiated waterscape in place of looking at the town through the singular optic of water paucity. The study recommends coproduction as the sustainable recourse to the water problem in Kalimpong, albeit with caution.

Frank-talking: a reading of Biko’s statement “On Death” with Foucault’s concept of parrhesia

ABSTRACT This article is about a practice of “frank-talking” associated with Steve Biko and the BC movement of the 1970s. It sets out a reading of a short fragment titled “On Death” (found at the end of I Write What I Like) through the lens of the (coincidental) connection between Biko’s Frank-talk and Foucault’s lectures on parrhesia. Through an intentional mispronunciation of the concept of parrhesia, I re-member Biko’s statement “On Death,” and the scene of the interrogation that it describes, as an exemplary instance of Biko’s frank-talk and one which I show can usefully be read as a modern modality of parrhesia. With Biko, the “parrhesiatic” statement disrupts the white supremacist (bio)political order for the ways it comes to be articulated as a practical expression of Biko’s sense of his own equality as a Black subject.

Troubling the water

“Troubling the Water: Hydro-imaginaries in Nordic Television Drama” discusses a selection of Nordic television series to consider how they employ Anthropocenic imagery to challenge the Nordic governments’ long-established attitude as sustainable and environment-friendly. Despite their different genres and aesthetic qualities these series share their concerns about the availability of clean water usually perceived as everlasting given the Nordic countries’ physical geographical features. The close reading of relevant fragments from various series allows to interrogate such uncritical understanding of water as a “passive” commodity to serve modern societies anthropogenic wants, rather than eco-social needs. The article particularly focuses on the last season of the Danish family drama The Legacy which explicitly engages with water as being central to issues of social justice as much as issues of environmental concern.

Accurate Sequencing and Haplotyping from 10 Cells Using Long Fragment Read (LFR) Technology.

In this chapter, we describe how Long Fragment Read (LFR) technology can be applied to samples consisting of very few cells (5-20) to enable complete genome sequencing and haplotyping with a very low false positive error rate. LFR is a method for processing DNA or cells prior to sequencing on any second-generation DNA sequencing platform (e.g., MGI's DNBSEQ, Illumina sequencers, etc.). First, the LFR process incorporates a low-bias whole genome amplification step allowing accurate sequencing from very low DNA inputs (as low as 32 picograms, the mass contained within 5 diploid human cells). In addition, LFR enables the haplotyping of nearly all genomic variations with N50 contig lengths up to ~1Mb. Furthermore, if data from this method are analyzed with parental genotype data, it is possible to generate phased variants in uninterrupted contigs spanning entire chromosomes. Importantly, the barcoding process utilized in this method allows for the detection and correction of most amplification, sequencing, and mapping errors, yielding false positive error rates as low as 10-9. Finally, the cost of this method is modest and enables extremely high-quality whole genome sequence and haplotype data from as few as 5 cells. We know of few other methods that can achieve this.