bluuebunny/crossref_metadata_2025_split huggingface dataset:
Motif Geometris Tenun Nusa Tenggara Timur Pada Sarung Bantal Sofa Dengan Teknik Crochet
Authors: Margaretta Febriyanti Debora , Candrasari M.C. Wara 
Published: June 2023

NTT dikenal memiliki kain tenun, khususnya Amanatun, Amanuban, dan Mollo yang memiliki corak motif unik, indah, dan khas. Motif geometris tenun NTT dari daerah tersebut disederhanakan, namun tidak diubah bentuknya. Lalu diaplikasikan ke sarung bantal sofa teknik crochet, karya kriya ini belum pernah ada di pasar. Guna mengenalkan dan mengkomunikasikan makna tenun tersebut kepada masyarakat. Warna motif di eksplorasi sesuai dengan trend Forecasting 2020, warna Svarga agar modern dan kekinian. Metode penelitian ini menggunakan metode kualitatif dengan melakukan uji coba eksplorasi sebelumnya terhadap motif, teknik, warna, dan material. Jenis riset penelitian dan penciptaan ini menggunakan research-led practice, yaitu penelitian menjadi dasar dalam praktik. Sumber data dalam penelitian ini diperoleh dari berbagai narasumber, sumber tertulis dan foto guna memperoleh data yang diperlukan. Perupa menggunakan teknik pengumpulan data melalui observasi, wawancara, kuesioner, studi pustaka, dan pendokumentasian. Dari hasil eksplorasi sebelumnya, benang katun bali kecil cocok sebagai bahan pembuat sarung bantal sofa teknik crochet. Benang tersebut halus, ringan, kuat, dan tidak terlalu mahal. Karya ini merupakan Kriya crochet sehingga tidak mudah dalam proses pembuatannya, seperti lama, butuh kesabaran, memerlukan banyak sekali benang, terutama bila menggunakan warna yang berbeda. Namun hasil yang didapat unik, tekstur menarik, serta mengajarkan kesabaran. Bagian belakang menggunakan teknik crochet (C2C) corner two corner untuk hasil lebih cepat. Bagian motif menggunakan teknik tapestri crochet karena mampu membuat detail-detail.
Clinical Effectiveness of Phosphate Binders for Treating Hyperphosphatemia in End-Stage Renal Disease Patients: A Multicenter Real-World Study
Authors: Chaiyakittisopon Kamolpat , Pattanaprateep Oraluck , Ponthongmak Wanchana , Chuasuwan Anan , Ingsathit Atiporn , Mckay Gareth J , Attia John , Thakkinstian Ammarin 
Published: June 2023

Abstract
Uncontrolled hyperphosphatemia in end-stage renal disease (ESRD) increases the risk of cardiovascular disease (CVD), bone disorders, and premature mortality. Randomized controlled trials show reduced CVD risk of non-calcium-based phosphate-binders (NCBPBs) compared to CBPBs although evidence from real-world data is less consistent. This study aimed to evaluate the effectiveness of phosphate-binders (PB) in Thai hyperphosphatemic ESRDs. A retrospective-cohort was conducted by using data from 2 university hospitals between January 2010 and July 2020. Primary outcomes were overall survival (OS) and CVD-free time. Secondary outcomes included bone disorders following ESRD. An inverse-probability weighting with regression adjustment was used to assess treatment effects. A total of 8,005 patients were included. Initial CBPBs were associated with both longer OS and CVD-free time compared to no-PBs, while initial treatment with aluminum hydroxide was the highest risk of bone disorders. Patients who received CBPBs-NCBPBs had longest OS, followed by aluminum hydroxide, and CBPBs, with average OS of 13.5, 11.0, and 10.9 years, respectively. In conclusions, initial hyperphosphatemic ESRD treatment with CBPBs provided longer OS and CVD-free time compared to no-PBs, while aluminum hydroxide was the highest risk of bone disorders. CBPBs followed by NCBPBs achieved the longest OS and CVD-free time, although these were statistical non-significance.
Evaluation of morphological and biochemical variations in pea under two widespread abiotic stresses
Authors: Farooq Muhammad , Ahmad Rafiq , Shahzad Muhammad , Ahmad Khalid , Sajjad Yasar , Hassan Amjad , Nazeer Abdul , Shah Mohammad Maroof , Kalsoom Bibi , Khan Sabaz Ali 
Published: June 2023

Abstract

Pea is the third most widely grown leguminous vegetable crop in the world. The crop is fairly easy to grow but is salt and drought sensitive limiting its yield. The current study was, therefore, designed to explore the morphological and biochemical responses of pea under salt stress and water-deficit stress. For this purpose, three pea varieties namely Climax, Green grass and Meteor were subjected to different levels (5.4 mM (Control), 50 mM, 75 mM and 100 mM of NaCl) of salt stress. The water-deficit stress was administered by watering 100%, 75% and 50% of field capacity. Morphological parameters showed significant reduction under salt stress and water-deficit stress in all the three varieties. On the other hand, the highest relative water content in response to various levels of both the stresses was 38.3% which was significantly lower than the control treatment. Chlorophyll content index (CCI), though, declined significantly in all the three varieties but Climax showed 43.7 CCI at 100 mM salt treatment which was significantly higher than Green grass (25.9 CCI) and Meteor (35.9 CCI) at same treatment. Significant accumulation of proline content was observed under both the stresses where 100 g of fresh weight of Climax showed proline content as 0.043 mg against 100 mM salt and 0.040 mg against 50% water-deficit treatments. Similar results were record for water-deficit stress study indicating common response of both kinds of stresses. The current findings may help understand better the contrasting impacts of salt and water scarcity stress on pea crops, specifically focusing on the role of proline.
Decoding the Complexity of On-Target Integration: Characterizing DNA Insertions at the CRISPR-Cas9 Targeted Locus Using Nanopore Sequencing
Authors: Zhao Juan-Juan , Sun Xin-Yu , Zhao Zong-Ze , Yin Meng-Di , Zhao Mei , Zhang Feng , Li Si-Ang , Tian Sai-Ning , Yang Zhi-Xue , Wen Wei , Cheng Tao , Gong An , Zhang Jian-Ping , Zhang Xiao-Bing 
Published: June 2023

Abstract
Background
CRISPR-Cas9-facilitated integration of sizable transgenes into target cells has revolutionized in vivo gene therapy for various disorders, including hemophilia A. The effective targeted incorporation of F8 at the Alb locus in hepatocytes has cured this hemostasis disorder in mice. However, assessing the safety and specificity of this therapy is crucial. We developed a strategy to characterize intricate inserted sequences at the on-target edited locus using barcoded long-range PCR, CRISPR RNP-mediated deletion of unedited alleles, long amplicon enrichment with magnetic beads, and nanopore sequencing.
Results
Our findings unveiled not only the expected F8 insertion but also diverse fragment combinations stemming from in vivo linearization of the double-cut plasmid donor. Impressively, our study is the first to report insertions exceeding 10 kbp. Furthermore, we discovered that a minor fraction of these insertions originated from sources other than donor plasmids, such as Cas9-sgRNA plasmids, genomic DNA fragments, or LINE-1 elements.
Conclusions
We established a robust method for assessing on-target editing complexity, especially in vivo long insertions where donor template integration is often inefficient. Our report presents a novel tool for quality control in gene editing outcomes, highlighting the need for comprehensive characterization of edited genomic sequences. This research can help improve the safety and efficacy of CRISPR-Cas9-facilitated gene therapy for treating various disorders, including hemophilia A.
Phytochemical analysis and in vivo toxicity study of Dianthus orientalis Adams crude extract
Authors: Ahmed Vian Abubaker , Rahman Heshu Sulaiman , Mohammed Mohammed Omer 
Published: June 2023

Abstract

Background Dianthus must be well investigated for its phytochemical content and biological and medicinal activities, includingDianthus orientalisAdams. Objectives To assess the phytochemical composition and determine the toxicity of Dianthus orientalis Adams in an animal model. Materials and Methods The whole plant materials were collected from July to August 2021 from Penjween district, Sulaimaniyah, Kurdistan of Iraq and then identified, authenticated, shadow-dried, and extracted using ethyl acetate and pure methanol to collect the crude extract of leaves and flowers separately. The GC-MS was run to determine the chemical composition and phytochemical content. Subsequently, the methanolic extract of the leaves was selected to be tested further for its toxicity in the male Sprague Dawley rat model using various techniques. Results The GC-MS results of the methanolic extract of Dianthus orientalis Adam’s leaves and flowers present the higher phytocomponents (no.=34). Some medicinal compounds have been identified in leaves and flowers with various concentrations. The animal toxicity study revealed body weight gain, no clinical signs of toxicity, and no mortality, with non-significant changes in treated animals' haematological, biochemical and histopathological profiles. Conclusions Various huge compounds have been identified in the studied plant parts corresponding to their safe use in an animal model.
Genomics of fetal haemoglobin: a targeted approach for reticulocyte transcriptome study
Authors: Nkya Siana , Kaywanga Frida , Nzunda Collin , Karim Salmaan , Solomon David , Saukiwa Emmanuel , Christopher Heavenlight , Ngowi Doreen , Johansen Julieth , Urio Florence , Mgaya Josephine , Chamba Clara , Hashim Fadya , Ambroise Emmanuela , Acquah Solomon Ofori , Makani Julie 
Published: June 2023

Abstract
Background: Fetal haemoglobin (HbF) remains a major sickle cell disease modifier. The mechanism of HbF synthesis has been studied for several decades with the intention of increasing interventions for sickle cell disease (SCD), including drugs. However, the complex mechanism of HbF synthesis is influenced by multiple genetic factors interacting with environmental factors. In order to capture useful genetic information, especially with limited resources, one has to carefully design the study. This includes choosing the relevant participants, the correct phenotyping, the choice of samples, and the right genomic assays. This paper describes the approach undertaken as part of preparations for a reticulocyte transcriptome study intended to discover genes associated with HbF decline in newborns in Tanzania.
Results: Of the 152 newborns enrolled in the larger study, 40 babies were selected for the reticulocyte transcriptome study based on their HbF levels at birth and later stage of life. Of these, 30 individuals were included under the category of high HbF levels ranging from 72.6-90% and the remaining 10 under the category of low HbF levels ranging from 5.9 - 10.3%. The reticulocyte enrichment recovery purity ranged from 85% - 97%. The total RNA concentrations obtained were >250 ng total RNA, with the average purity of 1.9 (A 260/280) respectively. The total concentration obtained was sufficient for the transcriptome and other downstream assays.
Conclusion: We have documented important steps and factors to consider in identifying the relevant participants and required laboratory sample processes prior to the final stage, which involves total reticulocyte RNA sequencing.
Ongoing gene transfer from chloroplasts to mitochondria in tobacco
Authors: Odahara Masaki , Mori Maai , Numata Keiji 
Published: June 2023

Abstract
Angiosperm mitochondrial genomes have highly complex and diverse structures that are partly due to frequent insertions of nuclear and chloroplast DNA (cpDNA) into mitochondrial DNA (mtDNA). This suggests the existence of mechanisms for gene transfer from chloroplasts to mitochondria, but these have yet to be discovered. In this study, we aimed to detect chloroplast-to-mitochondrion gene transfer by analyzing the translocation of a marker gene, sul, encoding a bacterial dihydropteroate synthase that confers sulfonamide resistance in tobacco (Nicotiana tabacum), to mtDNA. First, we created tobacco chloroplast transformants in which sul, surrounded on both sides by ~ 1 kb of mitochondrial homologous sequences that enable targeted integration into mtDNA, was introduced into the chloroplast genome. Heat shock enhanced sul expression in the transformants, suggesting that chloroplast degradation stimulates gene transfer from chloroplasts to mitochondria. Shoot regeneration using the heat-shocked chloroplast transformants under sulfadiazine selection resulted in several transformants showing moderately resistant to sulfadiazine. Deep sequencing analysis of the target mitochondrial locus detected sul in the SR plants with an integration efficiency of 0.0007–0.0036%, and we validated the results by ruling out two types of artifactual outcomes, PCR jumping and sul integration into nuclear mitochondrial DNA (NuMT). From these results, we propose that gene transfer from chloroplasts to mitochondria is ongoing in tobacco.
Conservation Genetics and Modeling Potential Geographic Distribution of Corybas taliensis, a Small ‘Sky Island’ Orchid Species in China
Authors: Liu Yuhang , Wang Huichun , Yang Jing , Dao Zhiling , Sun Weibang 
Published: June 2023

Abstract
Background
Corybas taliensis is an endemic species of sky islands in the Pan-Tibetan Plateau region of China. Its habitat is fragile and volatile, and it is likely that the species is threatened. However, it is difficult to determine the conservation priority or unit without knowing the genetic background and the distribution of this species. In this study, we used double digest restriction-site associated DNA-sequencing (ddRAD-seq) to investigate the conservation genomics of C. taliensis. At the same time, we modeled the present and future (2030 and 2090) suitable habitats for C. taliensis using the maximum-entropy (MaxEnt) model.
Results
The results suggested that the related C. fanjingshanensis belongs to C. taliensis and should not be considered a separate species. All the sampling locations were divided into three genetic groups: Sichuan & Guizhou population (SG population), Hengduan Mountains population (HD population) and Himalaya population (HM population), and there was complex gene flow between the sampling locations of HD population. MT was distinct genetically from other sampling locations due to the special environment in Motuo. The genetic diversity (π, He) of C. taliensis was relatively high, but its contemporary effective population size (Ne) was small. C. taliensis might be currently affected by inbreeding depression, while its large population density may be able to reduce the effect. The areas of suitable habitats in higher mountains are not predicted to change significantly in the future, and these suitable habitats is predicted to spread to other higher mountains under future climate change. However, suitable habitats in relatively low altitude mountains may disappear in the future. Which indicated that C. taliensis will be caught in a ‘summit trap’ in low altitude areas. On the contrary, the high altitude of Himalaya and Hengduan Mountains regions play as ‘biological refuges’ for C. taliensis.
Conclusions
These results not only provide a new understanding of the genetic background and potential resource distribution of C. taliensis, but also lay the foundation for its conservation and management.
SETD5 regulates the OGT-catalyzed O-GlcNAcylation of RNA polymerase II, which is involved in the stemness of colorectal cancer cells
Authors: Cho Hye In , Jo Sora , Kim Min Seong , Kim Han Byeol , Liu Xingzhe , Xuan Yanhua , Cho Jin Won , Jang Yeun Kyu 
Published: June 2023

Abstract

The dosage-dependent recruitment of RNA polymerase II (Pol II) at the promoters of genes related to neurodevelopment and stem cell maintenance is required for transcription by the fine-tuned expression of SET-domain-containing protein 5 (SETD5). Pol IIO-GlcNAcylation byO-GlcNAc transferase (OGT) is critical for preinitiation complex formation and transcription cycling. SETD5 dysregulation has been linked to stem cell-like properties in some cancer types; however, the role of SETD5 in cancer cell stemness has not yet been determined. We here show that aberrant SETD5 overexpression induces stemness in colorectal cancer (CRC) cells. SETD5 overexpression causes the upregulation of PI3K-AKT pathway-related genes and cancer stem cell (CSC) markers such as CD133, Kruppel-like factor 4 (KLF4), and estrogen-related receptor beta (ESRRB), leading to the gain of stem cell-like phenotypes. Our findings also revealed a functional relationship between SETD5, OGT, and Pol II. OGT-catalyzed Pol II glycosylation depends on SETD5, and the SETD5-Pol II interaction weakens inOGT-depleted cells, suggesting a SETD5-OGT-Pol II interdependence.SETD5deficiency reduces Pol II occupancy at PI3K-AKT pathway-related genes and CD133 promoters, suggesting a role for SETD5-mediated Pol II recruitment in gene regulation. Moreover, theSETD5depletion nullified the SETD5-induced stemness of CRC cells and Pol IIO-GlcNAcylation. These findings support the hypothesis that SETD5 mediates OGT-catalyzedO-GlcNAcylation of RNA Pol II, which is involved in cancer cell stemness gain via CSC marker gene upregulation.
Unilateral and bilateral radioactive stent insertion in patients diagnosed with inoperable hilar cholangiocarcinoma: a comparative analysis
Authors: Jin Jin-Long , Zhang Yun-Qin , Wu Zhi-Xian , Feng An-Qiang , Li Hao 
Published: June 2023

Abstract

Background:While hilar cholangiocarcinoma (HCCA) patients commonly undergo radioactive stent (RS) insertion treatment, the relative benefits of unilateral versus bilateral RS insertion procedures remain to be established. Accordingly, this study was designed to evaluate the relative safety and efficacy of percutaneous bilateral and unilateral RS insertion for patients with HCCA.Materials and Methods:In total, 126 HCCA patients that underwent unilateral (n=64) or bilateral (n=62) RS insertion from January 2017 - December 2021 were included in this analysis. Treatment efficacy and long-term outcomes were compared between groups.Results:The respective technical success rates in the unilateral and bilateral groups were 90.6% (58/64) and 93.5% (58/62) (P = 0.782). Both groups exhibited comparable medial postoperative bilirubin levels (100 vs. 99 μmol/L; P = 0.501), and restenosis occurred in 12 (20.7%) and 15 (25.9%) patients over the follow-up interval (P = 0.510). The median stent patency in the unilateral and bilateral groups was 189 and 210 days, respectively (P = 0.796), while the median overall survival interval was 222 and 229 days, respectively (P = 0.969). Comparable cholangitis (17.2% vs. 22.4%, P = 0.485) and cholecystitis (3.4% vs. 3.4%, P = 1.000) rates were also detected in these two groups.Conclusions:In summary, HCCA patients exhibit comparable efficacy when undergoing unilateral and bilateral radioactive stenting, suggesting that unilateral RS can be routinely performed owing to the simpler nature of this procedure.
Alkaloids of Aconiti Lateralis Radix Praeparata treated non-small cell lung cancer by regulating glycolysis via the PI3K/AKT-mTOR signaling pathway
Authors: ZHANG Wen , Cai Shuhui , Qin Lihong , Ding Menglei , Luo Zichen , Shan Jinjun , Di Liuqing 
Published: June 2023

Abstract

Background: Aconiti Lateralis Radix Praeparata (Fuzi) is widely used in the clinical treatment of tumors. Numerous researches demonstrated that Fuzi had significant anti-tumor effects, while the active components of Fuzi and corresponding mechanisms are still unclear.
Purpose: This study aimed to explore the active fractions and underlying mechanisms of Fuzi in the treatment of non-small cell lung cancer (NSCLC).
Methods: Firstly, alkaloids (FZA) and polysaccharides (FZP) from Fuzi were extracted and purified. Then the anti-tumor active fraction of Fuzi was identified by the NSCLC subcutaneous xenograft mice model. The chemical composition of the active fraction was analyzed by ultraperformance liquid chromatography quadrupole time-of-flight mass spectrometry (UPLC-Q-TOF-MS). After that, differentially expressed proteins of tumor tissues from the xenograft mice were determined by tandem mass tag (TMT)-based proteomics techniques. The levels of metabolites in serum were assessed by non-targeted metabolomics technology. The target and mechanism of FZA against NSCLC were predicted by network pharmacology. Lastly, the mechanism was verified by assay kits, gas chromatography-mass spectrometry (GC-MS) analysis and western blotting.
Result: The volume, weight, and inhibitory rate of tumor tissues showed that FZA inhibited tumor growth of NSCLC xenograft mice significantly, while FZP manifested a weak effect. MTT assays showed that FZA significantly inhibited cancer cell viability. A total of 53 alkaloids were identified in FZA, including diester-, monoester and alkylamine-diterpenoid alkaloids. Proteomics experiment found that 238 differentially expressed proteins regulated by FZA were involved in amino acid anabolism, pyrimidine metabolism and PI3K/AKT signaling pathway. Metabolomics analyses identified a total of 32 significant differential metabolites in serum between the model and FZA-treated mice. Among these, the metabolites were mainly involved in amino acid metabolism, tricarboxylic acid (TCA) cycle and other pathways. By using multi-omics research combined with network pharmacological prediction, it was found that FZA might regulate tumor energy metabolism through PI3K/AKT signaling pathway to treat NSCLC. Furthermore, assay kits and GC-MS analyses showed that FZA effectively decreased the glucose consumption and lactate production, meanwhile increasing the content of intermediates related to the TCA cycle in NSCLC cells. Western blotting assay verified that FZA reduced the protein expression of p-PI3K, p-AKT and p-mTOR.
Conclusion: The current study showed that FZA treated NSCLC by regulating glycolysis via the PI3K/AKT-mTOR signaling pathway, which would lay a foundation for the anti-tumor investigation of Fuzi and provide a scientific basis for its clinical application.