bluuebunny/crossref_metadata_2025_split huggingface dataset:
Image-seq: spatially-resolved single cell sequencing guided by in situ and in vivo imaging
Authors: Haase Christa , Gustafsson Karin , Mei Shenglin , Yeh Shu-Chi , Richter Dmitry , Milosevic Jelena , Turcotte Raphaël , Kharchenko Peter V. , Sykes David B. , Scadden David T. , Lin Charles P. 
Published: September 2022

Abstract
Tissue function depends on proper cellular organization. While the properties of individual cells are increasingly being deciphered using powerful single-cell sequencing technologies, understanding their spatial organization and temporal evolution remains a major challenge. Here, we present Image-seq, a technology that provides single-cell transcriptional data on cells that are isolated from specific spatial locations under image guidance, thus preserving the spatial information of the target cells. It is compatible with in situ and in vivo imaging and can document the temporal and dynamic history of the cells being analyzed. Cell samples are isolated from intact tissue and processed with state-of-the-art library preparation protocols. The technique therefore combines spatial information with highly sensitive RNA sequencing readouts from individual, intact cells. We have used both high-throughput, droplet-based sequencing, as well as SMARTseq-v4 library preparation to demonstrate its application to bone marrow and leukemia biology. We discovered that DPP4 is a highly upregulated gene during early AML progression and that it marks a more proliferative subpopulation which is confined to specific bone marrow microenvironments. Furthermore, Image-seq’s ability to isolate viable, intact cells should make it compatible with a range of downstream single-cell analysis tools including multi-omics protocols.
Fungi in hair roots of Vaccinium spp. (Ericaceae) growing on decomposing wood: colonization patterns, identity and in vitro symbiotic potential
Authors: Vohník Martin , Réblová Martina 
Published: September 2022

Abstract
Most of our knowledge on the ericoid mycorrhizal (ErM) symbiosis comes from temperate heathlands characterized by acidic peaty soils and many experiments with a few ascomycetous fungi. However, ericaceous plants thrive in many other habitats and in temperate coniferous forests, their seedlings often prosper on decomposing wood. While wood is typically exploited by basidiomycetous ectomycorrhizal (EcM) and saprobic fungi, the role of ErM fungi (ErMF) is much less clear. We explored the cultivable mycobiota of surface sterilized hair roots of Vaccinium spp. growing on decomposing wood in two coniferous forests in Northern Bohemia and Mid-Norway. Obtained isolates were identified using molecular tools and their symbiotic potential was tested in vitro. While the detected community lacked the archetypal ErMF Hyaloscypha hepaticicola and the incidence of dark septate endophytes and EcM fungi was negligible, it comprised other frequent asexual ascomycetous ErMF, namely H. variabilis and Oidiodendron maius, together with several isolates displaying affinities to sexual saprobic H. daedaleae and H. fuckelii. Ascomycete-suppressing media revealed representatives of the saprobic basidiomycetous genera Coprinellus, Gymnopilus, Mycena (Agaricales) and Hypochnicium (Polyporales). In the resyntheses, the tested basidiomycetes occasionally penetrated rhizodermal cells of their hosts but never formed ericoid mycorrhizae and in many cases overgrew and killed the inoculated seedlings. In contrast, a representative of the H. daedaleae/H. fuckelii-related isolates repeatedly formed what morphologically appears as the ErM symbiosis and supported host´s growth. In conclusion, while basidiomycetous saprobic fungi have a potential to colonize healthy-looking ericaceous hair roots, the mode(-s) of their functioning remain obscure. For the first time, a lineage in Hyaloscypha s. str. (formerly the Hymenoscyphus ericae aggregate) where sexual saprobes are intermingled with root symbionts has been revealed, shedding new light on the ecology and evolution of these prominent ascomycetous ErMF.
Anthropogenic forcing changes coastal tropical cyclone frequency
Authors: Wang Shuai , Murakami Hiroyuki , Cooke William 
Published: September 2022

Abstract
It remains a mystery if and how anthropogenic climate change has altered the global tropical cyclone (TC) activities, mainly due to short reliable TC observations and substantial climate internal variabilities. Here we show with large-ensemble TC-permitting simulations that the observed changes in global coastal TC frequency since 1980 were caused by anthropogenic greenhouse gases (GHG) and/or aerosols. The observed increases in TC frequency near the US Atlantic coast and Hawaii are likely related to the aerosol and GHG effects, respectively. The observed decrease in the South China Sea could be associated with GHG emissions alone, whereas the observed increase near Japan and Korea would be related to the aerosol and GHG combined effects. These changes are explained by the responses of large-scale environmental conditions to anthropogenic forcing. Our findings suggest the substantial influence of anthropogenic forcing on TC frequency over the heavily populated coastal regions worldwide.
Selective change in the bacterial flora in respiratory sputum from elderly patients during the SARS-CoV-2 pandemic
Authors: Nagasawa Masayuki , Kato Tomoyuki 
Published: September 2022

Abstract
The pandemic of SARS-CoV-2 has affected the social lifestyle and consequently the prevalence of infections, such as seasonal influenza. It has been reported that invasive pneumococcal infection is markedly decreased worldwide. <Method> We retrospectively investigated the bacterial flora of 23,052 respiratory sputum samples obtained at our hospital from April 2015 to March 2022. The average patient age was 71.8 years old with a standard deviation of 16.0 years old. There was no significant difference in the age of the patients or the female-to-male ratio between each year. The detection ratio of bacteria was analyzed in accordance with sputum quality based on the Geckler classification. <Results> The detection ratio of community-acquired pneumonia pathogens such as Haemophilus influenzae, Moraxella catarrhalis, and Streptococcus pneumoniae increased in parallel with the quality of the sputum, while that of hospital-acquired pneumonia pathogens such as Klebsiella pneumoniae, Pseudomonas aeruginosa, and Staphylococcus aureus was not significantly affected by the quality of the sputum. The former detection ratio decreased significantly since April 2020 by 60–80% for two years in a row, while that of the latter did not change between each year. <Conclusions> The pandemic of SARS-CoV-2 reduced the detection ratio of community-acquired pathogens such as Haemophilus influenzae, Moraxella catarrhalis, and Streptococcus pneumoniae but not hospital-acquired pneumonia pathogens such as Klebsiella pneumoniae, Pseudomonas aeruginosa, and Staphylococcus aureus in the respiratory sputum from elderly patients.
N2-neutrophils promote invasion and metastasis of ovarian cancer by upregulating MAPK signaling
Authors: Li Caixia , Zhou Yang , Men Chuandi , Yang Weihong , Liu Qi , Cheng Zhongping 
Published: September 2022

Abstract
Background
Neutrophils is an important immune cell in microenvironment of various cancers. Previous studies reported that neutrophils were associated with the development and prognosis of various malignant tumors, but how different phenotypic and functional heterogeneity of neutrophils exert in regulating invasion and metastasis of ovarian cancer were rare reported.
Objective
This study aimed to verify functions and mechanisms of different phenotypes of neutrophils in ovarian cancer invasion and metastasis.
Methods
The expression of CD11b, one of the most important biomarkers of N2-neutrophils, was assessed by immunohistochemistry and western blot (WB) in 24 benign and malignant clinical ovarian cancer tissues respectively. 48 samples from 16 ovarian serous carcinoma patients were averagely divide into adjacent tissues, primary lesions and metastatic lesions groups, detecting the mRNA and protein expression levels of neutrophil biomarkers CD11b, CXCL8 and CXCR1 by reverse-transcription quantitative PCR (qRT–PCR) and WB. Tumor associated N1 and N2 neutrophils phenotypes research models were constructed. Invasion and metastasis changes of ovarian cancer cells were assessed by transwell assay and wound-healing test with or without N1/N2 neutrophils co-culturing. The roles and mechanisms of N2-neutrophils in promoting ovarian cancer progression were probed by high-throughput RNA sequencing and gain- and loss-of-function analysis.
Results
The expression of CD11b was significantly increased in malignant tissue groups compared with benign groups. The expression levels of CD11b, CXCL8 and CXCR1 were the highest in groups of metastatic lesions, followed by the primary lesions, and the lowest in the adjacent tissues. N2-neutrophils co-cultured with ovarian cancer cell lines (SKOV3 and OVCAR3) could promote the invasion and metastasis of ovarian cancer cell lines, but N1-neutrophils played the opposite role. MAPK signaling pathway was significantly enhanced in ovarian cancer cells by phosphorylating of P38 after co-culturing with N2-neutrophils and the p-P38 mono-inhibitor was able to reverse this function.
Conclusions
N2-neutrophils promoted the invasion and metastasis of ovarian cancer by upregulating MAPK signaling through phosphorylating the P38.
The Effect of Ginger (Zingiber officinale) on Improving Blood Lipids and Body
Weight; A Systematic Review and Multivariate Meta-analysis of Clinical Trials
Authors: Asghari-Jafarabadi Mohammad , Khalili Leila 
Published: September 2022

Background:
Beneficial effects of ginger consumption on metabolic biomarkers has been reported
previously. The current research aimed to investigate the effects of ginger supplementation on lipid profile and
body weight using a meta-analysis of randomized, controlled trials

Methods:
Online databases PubMed, Embase, Web of Science, and Science Direct were searched until December 2021 to identify eligible articles. Twenty-six trials were included.

Results:
The results showed that ginger consumption can significantly improve lipid profile including total triglyceride (-12.54 (-20.01 to -5.08)), cholesterol (-6.53 (-10.76 to -2.31)), LDL (-5.14 (-8.79 to -1.50)), and HDL
(1.13 (0.35 to 1.91)). Moreover, ginger supplementation could significantly decrease body mass index (BMI)
(-0.49 (-0.79 to -0.18)). However, the small number of sample studies that investigated reductions in body
weight (-0.52 (-1.48 to 0.43)) were not statistically significant. Sub-group analysis of treatment dose and duration showed that in most of the analyzed lipid profiles, both ≤1500 and >1500 mg/d for both of ≤8 and >8
weeks could be effective; however, in the case of weight control dose of >1500 mg/d for more than 8 weeks
was more effective. Besides, the results of multivariate meta-analysis revealed the effect of the intervention on
all lipid profiles simultaneously.

Conclusion:
The present meta-analysis and review reveal that ginger supplementation can improve lipid profile
and body weight if used at the appropriate dose and duration. More studies are needed to fully evaluate the effect of ginger supplements' different doses and duration on lipid profile and BMI.
In vitro Evaluation of Antioxidant and Antibacterial Activities of
Eco-friendly Synthesized Silver Nanoparticles using Quercus robur Bark
Extract
Authors: Macovei Irina , Corciovă Andreia , Fifere Adrian , Moleavin Ioana Turin , Tuchiluș Cristina , Mircea Cornelia , Burlec Ana Flavia 
Published: September 2022

Aims:
This study reports a simple, cost-effective, and environmentally friendly method to obtain silver nanoparticles (AgNPs) using an aqueous extract of Quercus robur bark.

Methods:
AgNPs synthesis conditions such as silver nitrate concentration, extract: AgNO3 volume ratio, pH, temperature, and reaction time have been examined. After optimizing the synthesis, the obtained AgNPs were characterized by different methods such as UV-Vis, TEM, EDX, and FTIR. The antioxidant activity was evaluated using lipoxygenase inhibition capacity and inhibition of erythrocyte hemolysis mediated by peroxyl free radicals tests. The antimicrobial potential of the samples was tested against Staphylococcus aureus, Pseudomonas aeruginosa, and Candida albicans.

Results:
The AgNPs synthesis process is influenced by reaction conditions, the optimum established values being in this case: concentration of 3 mM AgNO3, 1:9 extract: AgNO3 volume ratio, pH value of 6, 60 ℃ temperature, and 90 minutes stirring time. The shape of the synthesized AgNPs was predominantly spherical, with an average size of 50 nm. The SPR band at 432 nm, the strong EDX signal at ~ 3keV and zeta potential of -13.88 mV revealed the formation of AgNPs and electrostatic stabilization of the colloidal solution. FTIR analysis confirmed the participation of molecules from the extract in the synthesis and stabilization of AgNPs. The obtained nanoparticles showed improved antioxidant, antifungal and antibacterial activities compared to the extract.

Conclusion:
The results open the possibility of exploring new applications of nanoparticles obtained via green synthesis.
Synthesis, Characterization, and Evaluation of Sulfonium Lipids as Potential
Nonviral Gene Vectors
Authors: Li Jing , Zhang Ying , Lu Yanjie , Zhang Lei , Shen Guinan , Jin Chenghao 
Published: September 2022

Introduction:
Non-viral gene vectors have attracted much attention in the last few decades
because of their potential activity and fewer side effects. Headgroup chemistry is a key aspect of lipid
design.

Methods:
In this study, a group of sulfonium lipids were designed and constructed by combining tetrahydrothiophene
or tetrahydrothiopyran with an ethoxy linker and carbon aliphatic chains and were evaluated
in terms of their ability as potential gene vectors. The sulfonium lipids were synthesized and characterized
by 1H NMR, 13C NMR, and Mass. Condensates of sulfonium lipids (SL) and DNA were examined by gel
electrophoresis and particle size and zeta potential were measured. Sulfonium compounds were tested on
HepG2 cells for cytotoxicity. SL/DNA condensates were studied in cellular uptake and distribution using
fluorescent microscopy.

Results:
12 sulfonium lipids were obtained. Gel electrophoresis experiments showed that sulfonium cation
can effectively interact with phosphorous in DNA. Compounds containing longer lipid chains can
effectively retard DNA at an S/P ratio higher than 10/1 and can condense DNA into nano size particles
with particle size in the range of 150 nm ~ 300 nm and zeta potential in the range of +20~+40. Sulfonium
compounds were calculated against HepG2 cells in the range of 0.035 μg/mL to 1.64 μg/mL. The intracellular
uptake experiments revealed that SL/DNA nanoparticle was taken into the cell at low efficiency.

Conclusion:
Sulfonium head group can interact with the phosphates of DNA. The structural environment
of sulfonium ions influences the DNA bonding effect. The designed cyclic sulfonium ion was buried in
the middle of the structure and thus hindered interaction with DNA. This type of molecule is worthy of
further modification to increase DNA capacity and reduce cell cytotoxicity.
Knowledge of Complications of Diabetes Mellitus among Patients with
Type 2 Diabetes in Saudi Arabia: A Descriptive Study
Authors: Hassounah Ghadeer , Al Dossari Huda Joman , Robert Asirvatham Alwin 
Published: September 2022

Background and Aims:
The objective of this study was to assess the knowledge of diabetes-related complications among patients with type 2 diabetes (T2D) in Saudi Arabia.

Methods:
In this study, 237 patients with T2D, who visited the diabetic clinic at Prince Sultan Military Medical City, Saudi Arabia, from December 2021 to March 2022, were recruited by adopting the non-probability sampling technique. A structured questionnaire was used to collect data on the sociodemographic features of the group in this study and their knowledge regarding T2D-related complications.

Results:
From the 237 patients with T2D in this study, a higher percentage had hypertension (64.1%), heart disease (67.1%), retinopathy (79.7%), nephropathy (69.7%), diabetic foot (75.9%), and neuropathy (68.4%). Overall, a high number of these patients (121 or 51.3%) expressed inadequate knowledge of complications related to diabetes. Only 40 (16.9%) revealed adequate knowledge of diabetes-related complications, while 75 (31.8%) mentioned genuine ignorance regarding their complications. Patients educational status (p = 0.045), occupation (p = 0.026), and duration of diabetes (p = 0.037) were significantly associated with knowledge of diabetic complications. From the multinomial regression, substantial differences were evident concerning the duration and occupation of the population under study.

Conclusion:
The knowledge patients with T2D possess concerning diabetes-related complications was generally poor. This study indicates that through improved knowledge of diabetes, the risks of diabetes-related complications among T2D patients can be minimized.
Human Amniotic Fluid Stem Cells Exert Immunosuppressive Effects on T
Lymphocytes in Allergic Rhinitis
Authors: Zong Ling , Wang De , Long Yanbo , Liu Xiaolan , Tao Ailin , Zhang Lanzhen , Zhai Jinming 
Published: September 2022

Aim:
The study aims to investigate the immunomodulatory effect of Amniotic fluid stem
(AFS) cells to Th2-skewed allergic rhinitis (AR) on T-lymphocyte proliferation, viability, activation and
cytokine production.

Background:
AFS cells can suppress peripheral blood mononuclear cells (PBMCs) proliferation and
display immunomodulatory properties, but AFS cells' immunoregulation on AR has not been defined.

Methods:
Human AFS cells were derived from magnetic cell sorting and co-cultured with PBMCs from
AR patients stimulated by phytohemagglutinin (PHA). The AFS cells-associated suppressive proliferation
was analyzed using CellTrace™ Violet assay; the T lymphocytes proliferation, viability, activation and
the Foxp3+ Treg cells were determined by flow cytometry; cytokine levels were measured using an enzyme-
linked immunosorbent assay.

Results:
We determined that AFS cells significantly inhibited PHA-induced CD3+ T lymphocyte proliferation
at the ratio higher than 1:50 (AFS cells: PBMCs) (P<0.05); AFS cells obviously increased the T
lymphocytes viability (P<0.01), inhibited the apoptosis of T lymphocytes (P<0.001), compared to
PBMCs alone; AFS cells suppressed CD3+CD25+ T lymphocytes activated by PHA (P<0.05); AFS cells
significantly promote Treg cells expansion in house dust mite (HDM)-stimulated PBMCs from AR patients
(P<0.05). Compared with HDM-stimulated PBMCs, AFS cell co-culture predominantly decreased
IL-4 level (P<0.05), but increased IFN-γ and IL-10 levels (P<0.01).

Conclusion:
AFS cells modulate the T-cells' immune imbalance towards Th2 suppression in AR, which
can be used as a new cell banking for allergic airway diseases.
Evaluating the Management of Critical Success Factors of Residential Complex’s Projects and their impact on Cost, Time, and Quality in Erbil Governorate
Authors: Mohammed Aksana Jihad 
Published: September 2022

Background:
The characteristics of any project require a specific type of management. Companies and project management associations all over the world started to develop and follow these standards. Best practices in project management, if followed, may increase the chances of success in achieving goals when dealing with projects. Many studies and researchers worked earlier on critical success factors (CSF). Each type of project has its own CSF that should be considered during construction.

Objective:
This study focuses on covering the notion of residential complex projects (RCP) success according to two fundamental components (success criteria and critical success factors by identifying the critical success factors (CSF) on the basis of their large impact on the golden triangle (cost, time, and quality), and calculating the degree of actual practicing of each factor.

Methods:
A questionnaire survey has been adopted and distributed to a sample of 142 stakeholders involved in the construction of residential complex projects to calculate their impact on time, cost, and quality. Moreover, a case study for 20 constructed projects has been adopted to evaluate the average fulfilments of 8 identified management success criteria and 8 identified project success criteria using a questionnaire survey. Finally, the degree of management success and project success for each project has been calculated.

Results:
The results reveal 17 CSF ranging between large and very large impact on managing residential complex projects. The highest rank is realistic cost estimate and projects completed within the budget, adequate risk identification and management procedures, adequate project management tools, techniques, and standards. The study revealed that project success criteria differ from one project to another and the relative priorities among critical success factors may change for different projects even if they are of same type not only among different types of projects. The results show that management success doesn’t guarantee project success because success means different things to different people. User’s satisfaction is essential for project success.

Conclusion:
A scientific base should be used to identify CSF with a significant impact on the golden triangle and combine it with project success criteria. That is the classic answer for the measurement success, because it could be easily applied and normally gathers consensus within stakeholders. This study will contribute an improvement to the existing management system.
Effect of Different Tannery Sludge Composts on the Production of Ryegrass: A Pot Experiment
Authors: Perdigão Adelaide , Marques Francisco , Pereira José L. S. 
Published: September 2022

Background:
Tannery industry produces high amounts of nutrient rich sludges that can be used as organic fertilizers.

Objective:
The aim of this study was to evaluate the fertilizing potential of composted tannery sludge.

Methods:
A pot experiment was carried out with ryegrass (Lolium perenne L.) to test two different composts: 2.0 kg dry matter (DM) tannery fatty sludge + 1.5 kg DM sheep manure + 1.5 kg DM wheat straw (Compost 1) and 2.0 kg DM tannery sludge + 1.5 kg DM sheep manure + 1.5 kg DM wheat straw (Compost 2). Five treatments, with three replicates each, were assigned: Control (C); Compost 1 at 6 t (C1-6) and 12 t (C1-12) DM ha-1; Compost 2 at 6 t (C2-6) and 12 t (C2-12) DM ha-1. Each treatment was applied in a pot and mixed with 5 kg of sieved soil (<2 mm).

Results:
Results showed that production of DM ranged between 1.2 t DM ha-1 for C1-6 and 2.4 t DM ha-1 for C2-12. The highest B, Na and N levels in ryegrass was observed in C2-12, with 175 mg kg-1 DM, 9 g kg-1 DM and 30 g kg-1 DM, respectively. At the end of the experiment no differences were observed between treatments for C, N, P2O5, and K2O levels. Differences were observed at Zn level ranged between 101 mg kg-1 DM for C1-6 and 71 mg kg-1 DM for C2-12.

Conclusion:
The C2-12 treatment was the best because induces higher DM production and nutrients in ryegrass and without dangerous concentration of heavy metals in soil. Composted waste from the tannery industry is a good source of nutrients for agriculture.