bluuebunny/crossref_metadata_2025 huggingface dataset:
Diversity and specificity of orchid mycorrhizal fungi in a leafless epiphytic orchid, Dendrophylax lindenii and the potential role of fungi in shaping its fine-scale distribution
Authors: Johnson Lynnaun J. A. N. , Kane Michael E. , Zettler Lawrence W. , Mueller Gregory M.
Published: April 2023

Orchids grow in diverse habitats worldwide with most (approximately 69%) growing on trees as epiphytes. Although orchid mycorrhizal fungi have been identified as potential drivers for terrestrial orchid distribution, the influence of these fungi on the fine-scale distribution of epiphytic orchids is poorly understood. In this study, we investigated the mycorrhizal fungal community and fine-scale distribution of Dendrophylax lindenii, a rare and endangered epiphytic orchid that is leafless when mature. We used amplicon sequencing to investigate the composition of orchid mycorrhizal fungi in the roots of 39 D. lindenii individuals in their natural habitat, the swamps of Florida. We compared the orchid mycorrhizal fungi of D. lindenii to those of co-occurring epiphytic orchids, as well as to the orchid mycorrhizal fungal communities of bark from potential host trees, with and without D. lindenii. Our results show that D. lindenii has a high specificity for a single Ceratobasidium species, which is widely distributed on phorophytes and detected in both wet and dry periods in the orchid’s habitat. This Ceratobasidium species was mostly absent or only recorded in low frequency in the roots of co-occurring epiphytic orchids. Phylogenetic analysis documented that this Ceratobasidium was conspecific with the strain that is used to germinate D. lindenii ex-situ. However, our findings suggest that laboratory germinated adult D. lindenii transplanted into the field had lower read abundances of this Ceratobasidium compared to naturally occurring plants. These findings suggest that this orchid mycorrhizal fungus may play a significant role in the fine-scale distribution of naturally occurring D. lindenii.
Monitoring of human activities around the Asian elephant reserve based on NPP-VIIRS night light remote sensing images: A case study in Xishuangbanna, China
Authors: Zhao Fei , Zhang Yiyang , Zhao Zhifang , Wang Xinrui , Zhang Sujin , Luan Guize , Zhang Qiting , Zhu Ling , Liu Hairong
Published: April 2023

The Asian elephant (Elephas maximus) have a wide range of foraging needs and heterogeneous habitat preferences that bring them close to the forest edge. Currently, most of the range of wild elephants is located outside protected areas (PA). Nighttime light data (NTL) has been used as a component of human footprint due to its characteristics of characterizing the intensity of human activities and spatio-temporal continuity. We chose Xishuangbanna National Nature Reserve, the main distribution area of Asian elephants, as the study area and used NTL to monitor human activities, supplemented by land cover (LC) type data, to study the Asian elephant sanctuary and its surrounding areas, and found that: 1) NTL features inside and outside the PA are approaching, and the boundary effect of the sanctuary is weakening; 2) The NTL gathering area in the study area is mainly distributed in the south of the PA, 86.21% of the area’s nighttime lights have a significant increase trend, and the human activity range is evolving toward the southeast in the past decade; 3) the percentage of areas with a significant increasing trend of NTL under different LC types is greater than decreasing, nearly 50% of the forest showed an increasing trend of NTL. LC types with reduced forest have been converted to cropland and building in the last decade.
Does higher demand for medicinal plants lead to more harvest? Evidence from the dual trade of Nardostachy jatamansi and Fritillaria cirrhosa and Tibetan people’s harvesting behavior
Authors: Zhao Jingjing , Hu Sifan , Fan Linyu , Zeng Yan , Yang Yongchuan , Zhao Yao , Lee Tien Ming
Published: April 2023

Introduction

As the demand for herbal medicines is surging worldwide, regions of medicinal plants are vulnerable to large-scale and unsustainable exploitation for commercial trade and use. Yet, we still lack the understanding about the relationship between indigenous people harvesting and trade practices of medicinal plants and their influencing factors for possible intervention measures.

Methods

Here, we combined qualitative and quantitative methods to survey traders (N = 20) and local harvesters (N = 923) from nine Tibetan townships in Hongyuan county, Sichuan Province, on the eastern Qinghai-Tibetan plateau in China. Specifically, we elucidated the local value chain of medicinal plants trade and harvest of Nardostachy jatamansi and Fritillaria cirrhosa, and explored the factors influencing harvester’s willingness to harvest these plants. Furthermore, we empirically tested the constructs of the COM-B model (Capability, Opportunity, Motivation -Behavior) in predicting the sustainable harvesting behavior of medicinal plants.

Results and Discussion

Our results revealed that the trade characteristics of N. jatamansi and F. cirrhosa were contrasting, and the sustainability of the former species was largely dependent on the latter one. Importantly, the traders’ practices were affected by the supply, while the harvesters’ willingness to harvest were mainly influenced by harvest incomes, past harvesting experience, and grassland tenure. Finally, though motivation was not directly affecting harvesting behavior, the harvesters’ ecological worldview indirectly affected their harvesting behavior, particularly through the mediation of the level of compliance of village rules and customs. Overall, our results provided crucial insights for the conservation and sustainable management of the valuable wild medicinal plants.
Transcriptomic-based selection of reference genes for quantitative real-time PCR in an insect endosymbiotic model
Authors: Vallier Agnès , Dell’Aglio Elisa , Ferrarini Mariana Galvão , Hurtado Ophélie , Vincent-Monégat Carole , Heddi Abdelaziz , Rebollo Rita , Zaidman-Rémy Anna
Published: April 2023

Reference genes are a fundamental tool for analyses of gene expression by real-time quantitative PCR (qRT-PCR), in that they ensure the correct comparison between conditions, stages, or treatments. Because of this, selection of appropriate genes to use as references is crucial for proper application of the technique. Nevertheless, efforts to find appropriate, stably expressed transcripts are still lacking, in particular in the field of insect science. Here, we took advantage of a massive transcriptomic high-throughput analysis of various developmental stages of the gut and associated-bacteriomes of the cereal weevil Sitophilus oryzae and identified a subset of stably expressed genes with the potential to be used as housekeeping genes from the larva to the adult stage. We employed several normalization techniques to select the most suitable genes among our subset. Our final selection includes two genes–TAO, and YTH3–which can also be used to compare transcript abundance at various developmental stages in symbiotic insects, and in insects devoid of endosymbionts (aposymbiotic). Since they are well conserved, these genes have the potential to be useful for many other insect species. This work confirms the interest in using large-scale, unbiased methods for reference gene selection.
Contamination of imported kernels by unapproved genome-edited varieties poses a major challenge for monitoring and traceability during transport and handling on a global scale: inferences from a study on feral oilseed rape in Austria
Authors: Pascher Kathrin , Hainz-Renetzeder Christa , Jagersberger Michaela , Kneissl Katharina , Gollmann Günter , Schneeweiss Gerald M.
Published: April 2023

Novel techniques such as CRISPR/Cas are increasingly being applied for the development of modern crops. However, the regulatory framework for production, labelling and handling of genome-edited organisms varies worldwide. Currently, the European Commission is raising the question whether genome-edited organisms should still be regulated as genetically modified organisms in the future or whether a deregulation should be implemented. In our paper, based on the outcome of a 2-year case study on oilseed rape in Austria, we show that seed spillage during import and subsequent transport and handling activities is a key factor for the unintended dispersal of seeds into the environment, the subsequent emergence of feral oilseed rape populations and their establishment and long-term persistence in natural habitats. These facts must likewise be considered in case of genome-edited oilseed rape contaminants that might be accidentally introduced with conventional kernels. We provide evidence that in Austria a high diversity of oilseed rape genotypes, including some with alleles not known from cultivated oilseed rape in Austria, exists at sites with high seed spillage and low weed management, rendering these sites of primary concern with respect to possible escape of genome-edited oilseed rape varieties into the environment. Since appropriate detection methods for single genome-edited oilseed rape events have only recently started to be successfully developed and the adverse effects of these artificial punctate DNA exchanges remain largely unknown, tracing the transmission and spread of these genetic modifications places high requirements on their monitoring, identification, and traceability.
Identification of discriminant features from stationary pattern of nucleotide bases and their application to essential gene classification
Authors: Rout Ranjeet Kumar , Umer Saiyed , Khandelwal Monika , Pati Smitarani , Mallik Saurav , Balabantaray Bunil Kumar , Qin Hong
Published: April 2023

Introduction: Essential genes are essential for the survival of various species. These genes are a family linked to critical cellular activities for species survival. These genes are coded for proteins that regulate central metabolism, gene translation, deoxyribonucleic acid replication, and fundamental cellular structure and facilitate intracellular and extracellular transport. Essential genes preserve crucial genomics information that may hold the key to a detailed knowledge of life and evolution. Essential gene studies have long been regarded as a vital topic in computational biology due to their relevance. An essential gene is composed of adenine, guanine, cytosine, and thymine and its various combinations.

Methods: This paper presents a novel method of extracting information on the stationary patterns of nucleotides such as adenine, guanine, cytosine, and thymine in each gene. For this purpose, some co-occurrence matrices are derived that provide the statistical distribution of stationary patterns of nucleotides in the genes, which is helpful in establishing the relationship between the nucleotides. For extracting discriminant features from each co-occurrence matrix, energy, entropy, homogeneity, contrast, and dissimilarity features are computed, which are extracted from all co-occurrence matrices and then concatenated to form a feature vector representing each essential gene. Finally, supervised machine learning algorithms are applied for essential gene classification based on the extracted fixed-dimensional feature vectors.

Results: For comparison, some existing state-of-the-art feature representation techniques such as Shannon entropy (SE), Hurst exponent (HE), fractal dimension (FD), and their combinations have been utilized.

Discussion: An extensive experiment has been performed for classifying the essential genes of five species that show the robustness and effectiveness of the proposed methodology.
LDL receptor related protein 1 is an adverse prognostic biomarker that correlates with stromal remodeling and macrophages infiltration in bladder cancer
Authors: Du YiHeng , Liu YiZheng , Cao Jin , Jiang Xiang , Wang Yi , Yu Jiang , Wang Bo , Wang XiZhi , Xue BoXin
Published: April 2023

Introduction

Bladder cancer (BLCA) is a highly heterogeneous disease influenced by the tumor microenvironment, which may affect patients' response to immune checkpoint blockade therapy. Therefore, identifying molecular markers and therapeutic targets to improve treatment is essential. In this study, we aimed to investigate the prognostic significance of LRP1 in BLCA.

Methods

We analyzed TCGA and IMvigor210 cohorts to investigate the relationship of LRP1 with BLCA prognosis. We utilized gene mutation analysis and enrichment to identify LRP1-associated mutated genes and biological processes. Deconvolution algorithms and single-cell analysis were used to understand the tumor-infiltrated cells and biological pathways associated with LRP1 expression. Immunohistochemistry was conducted to validate the bioinformatics analysis.

Results

Our study revealed that LRP1 was an independent risk factor for overall survival in BLCA patients and was associated with clinicopathological features and FGFR3 mutation frequency. Enrichment analysis demonstrated that LRP1 was involved in extracellular matrix remodeling and tumor metabolic processes. Furthermore, the ssGSEA algorithm revealed that LRP1 was positively correlated with the activities of tumor-associated pathways. Our study also found that high LRP1 expression impaired patients' responsiveness to ICB therapy in BLCA, which was predicted by TIDE prediction and validated by IMvigor210 cohort. Immunohistochemistry confirmed the expression of LRP1 in Cancer-Associated Fibroblasts (CAFs) and macrophages in the tumor microenvironment of BLCA.

Discussion

Our study suggests that LRP1 may be a potential prognostic biomarker and therapeutic target in BLCA. Further research on LRP1 may improve BLCA precision medicine and enhance the efficacy of immune checkpoint blockade therapy.
The first successful bone marrow transplantation in Vietnam for a young Vietnamese boy with chronic granulomatous disease: a case report
Authors: Nguyen-Thanh Binh , Nguyen-Ngoc-Quynh Le , Dang-Thi Ha , Le-Quynh Chi , Nguyen-Thi-Van Anh , Thuc-Thanh Huyen , Dang-Anh Duong , Lee Pamela P. , Cao-Viet Tung , Tran-Minh Dien
Published: April 2023

Background

Chronic granulomatous disease (CGD) is an inborn error of immunity (IEI) disorder that results from defects in the respiratory burst activity in phagocytes, leading to the inability to kill bacterial and fungal microorganisms. CGD patients usually have a high incidence of morbidity such as infections and autoinflammatory diseases and a high mortality rate. Allogeneic bone marrow transplantation (BMT) is the only definitive cure for patients who suffer from CGD.

Case presentation

We report the first transplant case of chronic granulomatous disease in Vietnam. A 25-month-old boy with X-linked CGD underwent bone marrow transplantation from his 5-year-old, full-matched human leukocyte antigen (HLA)-carrier sibling after myeloablative conditioning regimen with busulfan 5.1 mg/kg/day for 4 days, fludarabine 30 mg/m2/day for 5 days, and rATG (Grafalon-Fresenius) 10 mg/kg/day for 4 days. Neutrophil was engrafted on day 13 posttransplant, donor chimerism was 100% on day 30 with the dihydrorhodamine-1,2,3 (DHR 123) flow cytometric assay test that reached 38% of the normal 45 days posttransplant. Five months after transplant, the patient was free of infection with stable DHR 123 assay at 37%, and donor chimerism remained 100%. No sign of a graft-versus-host disease had been observed posttransplant.

Conclusion

We suggest that bone marrow transplantation is a safe and effectual cure for CGD patients, especially for patients with HLA-identical siblings.
The role of interleukin-15 in the development and treatment of hematological malignancies
Authors: Sindaco Paola , Pandey Hritisha , Isabelle Colleen , Chakravarti Nitin , Brammer Jonathan Edward , Porcu Pierluigi , Mishra Anjali
Published: April 2023

Cytokines are a vital component of the immune system that controls the activation and growth of blood cells. However, chronic overexpression of cytokines can trigger cellular events leading to malignant transformation. The cytokine interleukin-15 (IL-15) is of particular interest, which has been shown to contribute to the development and progression of various hematological malignancies. This review will provide an overview of the impact of the immunopathogenic function of IL-15 by studying its role in cell survival, proliferation, inflammation, and treatment resistance. We will also review therapeutic approaches for inhibiting IL-15 in blood cancers.
Immunomodulatory effects of bacteriocinogenic and non-bacteriocinogenic Lactococcus cremoris of aquatic origin on rainbow trout (Oncorhynchus mykiss, Walbaum)
Authors: Contente Diogo , Díaz-Rosales Patricia , Feito Javier , Díaz-Formoso Lara , Docando Félix , Simón Rocío , Borrero Juan , Hernández Pablo E. , Poeta Patrícia , Muñoz-Atienza Estefanía , Cintas Luis M. , Tafalla Carolina
Published: April 2023

Lactic Acid Bacteria (LAB) are a group of bacteria frequently proposed as probiotics in aquaculture, as their administration has shown to confer positive effects on the growth, survival rate to pathogens and immunological status of the fish. In this respect, the production of antimicrobial peptides (referred to as bacteriocins) by LAB is a common trait thoroughly documented, being regarded as a key probiotic antimicrobial strategy. Although some studies have pointed to the direct immunomodulatory effects of these bacteriocins in mammals, this has been largely unexplored in fish. To this aim, in the current study, we have investigated the immunomodulatory effects of bacteriocins, by comparing the effects of a wild type nisin Z-expressing Lactococcus cremoris strain of aquatic origin to those exerted by a non-bacteriocinogenic isogenic mutant and a recombinant nisin Z, garvicin A and Q-producer multi-bacteriocinogenic strain. The transcriptional response elicited by the different strains in the rainbow trout intestinal epithelial cell line (RTgutGC) and in splenic leukocytes showed significant differences. Yet the adherence capacity to RTgutGC was similar for all strains. In splenocyte cultures, we also determined the effects of the different strains on the proliferation and survival of IgM+ B cells. Finally, while the different LAB elicited respiratory burst activity similarly, the bacteriocinogenic strains showed an increased ability to induce the production of nitric oxide (NO). The results obtained reveal a superior capacity of the bacteriocinogenic strains to modulate different immune functions, pointing to a direct immunomodulatory role of the bacteriocins, mainly nisin Z.
Effect of mucosal adjuvant IL-1β on heterotypic immunity in a pig influenza model
Authors: Schmidt Anna , Paudyal Basudev , Villanueva-Hernández Sonia , Mcnee Adam , Vatzia Eleni , Carr Brigid Veronica , Schmidt Selma , Mccarron Amy , Martini Veronica , Schroedel Silke , Thirion Christian , Waters Ryan , Salguero Francisco J. , Gerner Wilhelm , Tenbusch Matthias , Tchilian Elma
Published: April 2023

T cell responses directed against highly conserved viral proteins contribute to the clearance of the influenza virus and confer broadly cross-reactive and protective immune responses against a range of influenza viruses in mice and ferrets. We examined the protective efficacy of mucosal delivery of adenoviral vectors expressing hemagglutinin (HA) and nucleoprotein (NP) from the H1N1 virus against heterologous H3N2 challenge in pigs. We also evaluated the effect of mucosal co-delivery of IL-1β, which significantly increased antibody and T cell responses in inbred Babraham pigs. Another group of outbred pigs was first exposed to pH1N1 as an alternative means of inducing heterosubtypic immunity and were subsequently challenged with H3N2. Although both prior infection and adenoviral vector immunization induced strong T-cell responses against the conserved NP protein, none of the treatment groups demonstrated increased protection against the heterologous H3N2 challenge. Ad-HA/NP+Ad-IL-1β immunization increased lung pathology, although viral load was unchanged. These data indicate that heterotypic immunity may be difficult to achieve in pigs and the immunological mechanisms may differ from those in small animal models. Caution should be applied in extrapolating from a single model to humans.
Improved accuracy and spatial resolution for bio-logging-derived chlorophyll a fluorescence measurements in the Southern Ocean
Authors: Le Ster Loïc , Claustre Hervé , d’Ovidio Francesco , Nerini David , Picard Baptiste , Guinet Christophe
Published: April 2023

The ocean’s meso- and submeso-scales (1-100 km, days to weeks) host features like filaments and eddies that have a key structuring effect on phytoplankton distribution, but that due to their ephemeral nature, are challenging to observe. This problem is exacerbated in regions with heavy cloud coverage and/or difficult access like the Southern Ocean, where observations of phytoplankton distribution by satellite are sparse, manned campaigns costly, and automated devices limited by power consumption. Here, we address this issue by considering high-resolution in-situ data from 18 bio-logging devices deployed on southern elephant seals (Mirounga leonina) in the Kerguelen Islands between 2018 and 2020. These devices have submesoscale-resolving capabilities of light profiles due to the high spatio-temporal frequency of the animals’ dives (on average 1.1 +-0.6 km between consecutive dives, up to 60 dives per day), but observations of fluorescence are much coarser due to power constraints. Furthermore, the chlorophyll a concentrations derived from the (uncalibrated) bio-logging devices’ fluorescence sensors lack a common benchmark to properly qualify the data and allow comparisons of observations. By proposing a method based on functional data analysis, we show that a reliable predictor of chlorophyll a concentration can be constructed from light profiles (14 686 in our study). The combined use of light profiles and matchups with satellite ocean-color data enable effective (1) homogenization then calibration of the bio-logging devices’ fluorescence data and (2) filling of the spatial gaps in coarse-grained fluorescence sampling. The developed method improves the spatial resolution of the chlorophyll a field description from ~30 km to ~12 km. These results open the way to empirical study of the coupling between physical forcing and biological response at submesoscale in the Southern Ocean, especially useful in the context of upcoming high-resolution ocean-circulation satellite missions.
Uncovering the temporal carbon isotope (δ13C) heterogeneity in seep carbonates: a case study from Green Canyon, northern Gulf of Mexico
Authors: Feng Xia , Jia Zice , Wang Xudong
Published: April 2023

Authigenic carbonates that form at hydrocarbon seeps, known as seep carbonates, are direct records of past fluid flow close to the seafloor. Stable carbon isotopes of seep carbonates (δ13Ccarb) have been widely used as a proxy for determining fluid sources and seepage mode. Although the spatial heterogeneity of δ13C in seep carbonates is increasingly understood, the temporal heterogeneity of δ13C in seep carbonates is not well studied. In this study, we report δ13C values of different components (clasts, matrix, and pore-filling cements) for 124 subsamples drilled across an authigenic carbonate block from Green Canyon block 140 (GC140) of the northern Gulf of Mexico continental slope. High-Mg calcite is the dominant mineral regardless the types of components. The δ13Ccarb values range from −39.6‰ to 3.6‰, indicating multiple dissolved inorganic carbon (DIC) sources that include methane carbon (13C-depleted), seawater DIC, and residual CO2 from methanogenesis (13C-enriched). Specifically, the clasts show large variability in δ13C values (−39.6‰ to 2.3‰; mean: −27.6‰, n = 71), demonstrating the dominance of methane-derived fluids during formation at the initial seepage stage. The δ13C values of the matrix vary between −29.4‰ and 3.4‰ (mean: −11.6‰, n = 21). The carbon isotopes of pore-filling cements that formed most recently vary narrowly, with δ13C values of −3.2‰ to 3.6‰ (mean: 1.7‰, n = 28). Isotopic variations within individual samples were observed in seep carbonate. However, common trends occur across components of carbonates that formed during different seepage stages. This suggests that the temporal evolution of local fluid sources may play an important role in determining carbonate isotope geochemistry. Studies regarding seeps must take into account the highly variable fluids that leave their geochemical imprints on the seep carbonate.
Splitting failure and deformation evolution of the red argillaceous siltstone disc in the high humidity environment
Authors: Zhao Zenghui , Dong Zhongtai , Gao Xiaojie , Liu Hao
Published: April 2023

The failure mechanism of weakly cemented soft rock under water-rock coupling effect is extremely complex. To reveal the tensile failure of red argillaceous siltstone in high humidity environment, five kinds of disc samples with different water contents were obtained through maintenance in constant temperature and humidity oven. The Brazilian test was carried out to reveal the variation characteristics of splitting behavior of rock samples in high humidity environment. Detailed analysis was conducted on the evolution law of stress-strain relationship and mechanical parameters under five different water contents. Combined with the DIC (Digital Image Correlation) investigation, the displacement evolution patterns of samples with different water content and loading stages were analyzed. Results show that he macroscopic mechanical parameters such as tensile strength and elastic modulus of weakly cemented red sandstone samples under water environment are negatively parabolic correlated with the increase of water content. The moisture content has an important influence on the disc splitting failure mode, forming the main fracture along the radial direction of loading, and showing a local crushing area in the loading area, and the crushing area increases with the increase of water content. Microstructural variation of red sandstone under a high humidity environment is the main reason for its deterioration of macroscopic mechanical properties.
Postpartum anemia and its determinant factors among postnatal women in two selected health institutes in Gondar, Northwest Ethiopia: A facility-based, cross-sectional study
Authors: Bambo Getachew Mesfin , Kebede Samuel Sahile , Sitotaw Chomaw , Shiferaw Elias , Melku Mulugeta
Published: April 2023

Background

Anemia is highly prevalent globally and disproportionately affects postnatal women. It is a significant cause of maternal mortality and morbidity globally.

Objective

The main aim of this study was to determine the extent of postpartum anemia and associated factors among postnatal women in two selected health facilities in Gondar, Northwest Ethiopia.

Methods

A facility-based, cross-sectional study was conducted among 282 postnatal women from March to May 2021. A systematic sampling technique was used to recruit study participants from each institute. Sociodemographic, obstetric, and clinical data were collected through a semi-structured questionnaire. A venous blood sample was collected to determine the red blood cell parameters. A thin blood smear preparation was performed to examine blood morphology. In addition, direct wet mount and formalin-ether sedimentation techniques were used for stool examination to identify intestinal parasites. Data were entered into EpiData and exported to Stata 14 for statistical analysis. Descriptive statistics were presented in text, tables, and figures. A binary logistic regression model was used to identify factors associated with postpartum anemia. A p-value <0.05 was considered statistically significant.

Results

The proportion of postpartum anemia was 47.16%; 95% CI; 41.30–53.03 with moderate, mild, and severe anemia accounting for 45.11, 42.86, and 12.03%, respectively. The majority of the anemia (94%) was of the normocytic normochromic type. It was associated with postpartum hemorrhage (AOR = 2.23; 95% CI: 1.24–4.01), cesarean section (AOR = 4.10; 95% CI: 2.11–7.78), lack of iron and folate supplementation during pregnancy (AOR = 2.12; 95% CI: 1.17–4.02), and low diet diversity level (AOR = 1.83; 95% CI: 1.05–3.18).

Conclusion

The prevalence of anemia was found to be a major public health concern. Iron and folate supplementation during pregnancy, improved management of PPH, an effective cesarean section with post-operative care, and taking a diversified diet will reduce the burden. Therefore, identified factors should be considered to prevent and control postpartum anemia.
The mechanism of palmatine-mediated intestinal flora and host metabolism intervention in OA-OP comorbidity rats
Authors: Jie Lishi , Ma Zhenyuan , Gao Yifan , Shi Xiaoqing , Yu Likai , Mao Jun , Wang Peimin
Published: April 2023

Background

ErXian decoction is a Chinese herbal compound that can prevent and control the course of osteoarthritis (OA) and osteoporosis (OP). OP and OA are two age-related diseases that often coexist in elderly individuals, and both are associated with dysregulation of the gut microbiome. In the initial study, Palmatine (PAL) was obtained by liquid chromatography-tandem mass spectrometry (LC-MS/MS) and network pharmacological screening techniques, followed by 16S rRNA sequencing and serum metabolomics of intestinal contents, to explore the mechanism of PAL in the treatment of OA and OP.

Methods

The rats selected for this study were randomly divided into three groups: a sham group, an OA-OP group and a PAL group. The sham group was intragastrically administered normal saline solution, and the PLA group was treated with PAL for 56 days. Through microcomputed tomography (micro-CT), ELISA, 16S rRNA gene sequencing and non-targeted metabonomics research, we explored the potential mechanism of intestinal microbiota and serum metabolites in PAL treatment of OA-OP rats.

Results

Palmatine significantly repair bone microarchitecture of rat femur in OA-OP rats and improved cartilage damage. The analysis of intestinal microflora showed that PAL could also improve the intestinal microflora disorder of OA-OP rats. For example, the abundance of Firmicutes, Bacteroidota, Actinobacteria, Lactobacillus, unclassified_f_Lachnospiraceae, norank_f_Muribaculaceae, Lactobacillaceae, Lachnospiraceae and Muribaculaceae increased after PAL intervention. In addition, the results of metabolomics data analysis showed that PAL also change the metabolic status of OA-OP rats. After PAL intervention, metabolites such as 5-methoxytryptophol, 2-methoxy acetaminophen sulfate, beta-tyrosine, indole-3-carboxylic acid-O-sulfate and cyclodopa glucoside increased. Association analysis of metabolomics and gut microbiota (GM) showed that the communication of multiple flora and different metabolites played an important role in OP and OA.

Conclusion

Palmatine can improve cartilage degeneration and bone loss in OA-OP rats. The evidence we provided supports the idea that PAL improves OA-OP by altering GM and serum metabolites. In addition, the application of GM and serum metabolomics correlation analysis provides a new strategy for uncovering the mechanism of herbal treatment for bone diseases.
Magnitude and relevance of change in health-related quality of life in patients with vascular malformations treated with sirolimus
Authors: Harbers Veroniek E. M. , Bouwman Frédérique C. M. , van Rijnsoever Ingrid M. P. , Verhoeven Bas H. , van der Vleuten Carine J. M. , Schultze Kool Leo J. , de Laat Peter C. J. , van der Horst Chantal M. A. M. , Kievit Wietske , te Loo D. Maroeska W. M.
Published: April 2023

Introduction

Vascular malformations are rare congenital anomalies of the vascular system, which can involve the capillaries, veins, arteries, lymphatics, or a combination of vessel types. Patients with vascular malformations experience an impaired health-related quality of life (HRQoL) because of their symptoms (e.g., pain, swelling, and bleeding) and psychosocial distress. Sirolimus is an effective drug used in the medical treatment of these patients; however, relatively little is known about the effect of sirolimus on specific changes in the HRQoL domains and its magnitude.

Methods

The magnitude of change (effect size) following intervention is more informative to clinical practitioners than statistically significant but clinically unimportant changes; therefore, this study aimed to examine the magnitude and meaningfulness of change in the HRQoL of children and adults with vascular malformations following sirolimus treatment using low target levels.

Results

In total, 50 patients with vascular malformations (19 children, 31 adults) were included in this study. These patients experienced a lower HRQoL than the general population, with the adults reporting a significantly lower score in almost all domains. A 6-month sirolimus treatment improved the HRQoL in 29 patients, including 77.8% of the children (Pediatric Quality of Life Inventory score [PedsQL]) and 57.7% of the adults (Short Form 36 [SF-36]). The effect sizes of sirolimus for each SF-36/PedsQL domain ranged from 0.19 to 1.02. The clinically relevant moderate magnitude of changes was seen in the domains of the children's reports: “Physical functioning” and “Social functioning” and in the domains of the parent reports: “Social functioning,” “School functioning,” and “Psychosocial.” A high-magnitude change was seen in the domains “Emotional functioning” and “Psychosocial” in the children's reports and “Physical functioning” in the parent reports. In addition, the moderate magnitude of changes was also seen in the adults SF-36: in all domains except for “Role limitations—physical problems,” “Role limitations—emotional problems,” and “General health perception.”

Conclusion

We believe this is the first study showing the magnitude of change in HRQoL after sirolimus treatment in patients with vascular malformations. Before treatment, these patients experienced an impaired HRQoL compared with the general Dutch population. A 6-month sirolimus treatment with low target levels led to moderate-to-high clinically relevant changes in multiple domains, which significantly improved the HRQoL.

Clinical trial registration

https://clinicaltrials.gov/ct2/show/NCT03987152?cond=Vascular+Malformations&cntry=NL&city=Nijmegen&draw=2&rank=1, identifier: NCT03987152.
Malnutrition is associated with six-month mortality in older patients admitted to the emergency department with hip fracture
Authors: Franz Kristina , Deutschbein Johannes , Riedlinger Dorothee , Pigorsch Mareen , Schenk Liane , Lindner Tobias , Möckel Martin , Norman Kristina , Müller-Werdan Ursula
Published: April 2023

Background

Hip fractures in older people are a common health problem often associated with malnutrition that might affect outcomes. Screening for malnutrition is not a routine examination in emergency departments (ED). This analysis of the EMAAge study, a prospective, multicenter cohort study, aimed to evaluate the nutritional status of older patients (≥ 50 years) with hip fracture, factors associated with malnutrition risk, and the association between malnutrition and the six-months mortality.

Methods

Risk of malnutrition was evaluated using the Short Nutritional Assessment Questionnaire. Clinical data as well as data on depression and physical activity were determined. Mortality was captured for the first six months after the event. To assess factors associated with malnutrition risk we used a binary logistic regression. A Cox proportional hazards model was used to assess the association of malnutrition risk with six-month survival adjusted for other relevant risk factors.

Results

The sample consisted of N = 318 hip fracture patients aged 50 to 98 (68% women). The prevalence of malnutrition risk was 25.3% (n = 76) at the time of injury. There were no differences in triage categories or routine parameters measured in the ED that could point to malnutrition. 89% of the patients (n = 267) survived for six months. The mean survival time was longer in those without malnutrition risk (171.9 (167.1–176.9) days vs. 153.1 (140.0–166.2) days). The Kaplan Meier curves and the unadjusted Cox regression (Hazard Ratio (HR) 3.08 (1.61–5.91)) showed differences between patients with and patients without malnutrition risk. In the adjusted Cox regression model, risk of death was associated with malnutrition risk (HR 2.61, 1.34–5.06), older age (70–76 years: HR 2.5 (0.52–11.99); 77–82 years: HR 4.25 (1.15–15.62); 83–99 years: HR 3.82 (1.05–13.88)) and a high burden of comorbidities (Charlson Comorbidity Index ≥3: HR 5.4 (1.53–19.12)).

Conclusion

Risk of malnutrition was associated with higher mortality after hip fracture. ED parameters did not differentiate between patients with nutritional deficiencies and those without. Therefore, it is particularly important to pay attention to malnutrition in EDs to detect patients at risk of adverse outcomes and to initiate early interventions.
Cystargamides C and D, New Cyclic Lipopeptides From a Tidal Mudflat-Derived Streptomyces sp. JMS132
Authors: Seo Jeongwon , Shin Yern-Hyerk , Jo Se Jin , Du Young Eun , Um Soohyun , Kim Young Ran , Moon Kyuho
Published: April 2023

Graphical Abstract

Streptomyces sp. J MS1 32.
Proof-of-concept for effective antiviral activity of an in silico designed decoy synthetic mRNA against SARS-CoV-2 in the Vero E6 cell-based infection model
Authors: Atari Nofar , Erster Oran , Shteinberg Yair Heskiau , Asraf Hadar , Giat Eitan , Mandelboim Michal , Goldstein Itamar
Published: April 2023

The positive-sense single-stranded (ss) RNA viruses of the Betacoronavirus (beta-CoV) genus can spillover from mammals to humans and are an ongoing threat to global health and commerce, as demonstrated by the current zoonotic pandemic of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). Current anti-viral strategies focus on vaccination or targeting key viral proteins with antibodies and drugs. However, the ongoing evolution of new variants that evade vaccination or may become drug-resistant is a major challenge. Thus, antiviral compounds that circumvent these obstacles are needed. Here we describe an innovative antiviral modality based on in silico designed fully synthetic mRNA that is replication incompetent in uninfected cells (termed herein PSCT: parasitic anti-SARS-CoV-2 transcript). The PSCT sequence was engineered to include key untranslated cis-acting regulatory RNA elements of the SARS-CoV-2 genome, so as to effectively compete for replication and packaging with the standard viral genome. Using the Vero E6 cell-culture based SARS-CoV-2 infection model, we determined that the intracellular delivery of liposome-encapsulated PSCT at 1 hour post infection significantly reduced intercellular SARS-CoV-2 replication and release into the extracellular milieu as compared to mock treatment. In summary, our findings are a proof-of-concept for the therapeutic feasibility of in silico designed mRNA compounds formulated to hinder the replication and packaging of ssRNA viruses sharing a comparable genomic-structure with beta-CoVs.
Integrative transcriptome and proteome revealed high-yielding mechanisms of epsilon-poly-L-lysine by Streptomyces albulus
Authors: Wang Liang , Yang Hao , Wu Mengping , Zhang Jianhua , Zhang Hongjian , Mao Zhonggui , Chen Xusheng
Published: April 2023

Introduction

ε-poly-L-lysine (ε-PL) is a high value, widely used natural antimicrobial peptide additive for foods and cosmetic products that is mainly produced by Streptomyces albulus. In previous work, we developed the high-yield industrial strain S. albulus WG-608 through successive rounds of engineering.

Methods

Here, we use integrated physiological, transcriptomic, and proteomics association analysis to resolve the complex mechanisms underlying high ε-PL production by comparing WG-608 with the progenitor strain M-Z18.

Results

Our results show that key genes in the glycolysis, pentose phosphate pathway, glyoxylate pathway, oxidative phosphorylation, and L-lysine biosynthesis pathways are differentially upregulated in WG-608, while genes in the biosynthetic pathways for fatty acids, various branched amino acids, and secondary metabolite by-products are downregulated. This regulatory pattern results in the introduction of more carbon atoms into L-lysine biosynthesis and ε-PL production. In addition, significant changes in the regulation of DNA replication, transcription, and translation, two component systems, and quorum sensing may facilitate the adaptability to environmental pressure and the biosynthesis of ε-PL. Overexpression of ppk gene and addition of polyP6 further enhanced the ε-PL production.

Discussion

This study enables comprehensive understanding of the biosynthetic mechanisms of ε-PL in S. albulus WG-608, while providing some genetic modification and fermentation strategies to further improve the ε-PL production.
Biological soil crusts decrease infiltration but increase erosion resistance in a human-disturbed tropical dry forest
Authors: Szyja Michelle , Felde Vincent J. M. N. L. , Lückel Sara , Tabarelli Marcelo , Leal Inara R. , Büdel Burkhard , Wirth Rainer
Published: April 2023

Under continuous human disturbance, regeneration is the basis for biodiversity persistence and ecosystem service provision. In tropical dry forests, edaphic ecosystem engineering by biological soil crusts (biocrusts) could impact regeneration by influencing erosion control and soil water and nutrient fluxes, which impact landscape hydrology, geomorphology, and ecosystem functioning. This study investigated the effect of cyanobacteria-dominated biocrusts on water infiltration and aggregate stability in a human-modified landscape of the Caatinga dry forest (NE Brazil), a system characterized by high levels of forest degradation and increasing aridity. By trapping dust and swelling of cyanobacterial filaments, biocrusts can seal soil surfaces and slow down infiltration, which potentially induces erosion. To quantify hydraulic properties and erosion control, we used minidisc-infiltrometry, raindrop-simulation, and wet sieving at two sites with contrasting disturbance levels: an active cashew plantation and an abandoned field experiencing forest regeneration, both characterized by sandy soils. Under disturbance, biocrusts had a stronger negative impact on infiltration (reduction by 42% vs. 37% during regeneration), although biocrusts under regenerating conditions had the lowest absolute sorptivity (0.042 ± 0.02 cm s−1/2) and unsaturated hydraulic conductivity (0.0015 ± 0.0008 cm s−1), with a doubled water repellency. Biocrusts provided high soil aggregate stability although stability increased considerably with progression of biocrust succession (raindrop simulation disturbed: 0.19 ± 0.22 J vs. regenerating: 0.54 ± 0.22 J). The formation of stable aggregates by early successional biocrusts on sandy soils suggests protection of dry forest soils even on the worst land use/soil degradation scenario with a high soil erosion risk. Our results confirm that biocrusts covering bare interspaces between vascular plants in human-modified landscapes play an important role in surface water availability and erosion control. Biocrusts have the potential to reduce land degradation, but their associated ecosystem services like erosion protection, can be impaired by disturbance. Considering an average biocrust coverage of 8.1% of the Caatinga landscapes, further research should aim to quantify the contribution of biocrusts to forest recovery to fully understand the role they play in the functioning of this poorly explored ecosystem.
Cultivation of the polyextremophile Cyanidioschyzon merolae 10D during summer conditions on the coast of the Red Sea and its adaptation to hypersaline sea water
Authors: Villegas-Valencia Melany , González-Portela Ricardo E. , de Freitas Bárbara Bastos , Al Jahdali Abdulaziz , Romero-Villegas Gabriel I. , Malibari Raghdah , Kapoore Rahul Vijay , Fuentes-Grünewald Claudio , Lauersen Kyle J.
Published: April 2023

The west coast of the Arabian Peninsula borders the Red Sea, a water body which maintains high average temperatures and increased salinity compared to other seas or oceans. This geography has many resources which could be used to support algal biotechnology efforts in bio-resource circularity. However, summer conditions in this region may exceed the temperature tolerance of most currently cultivated microalgae. The Cyanidiophyceae are a class of polyextremophilic red algae that natively inhabit acidic hot springs. C. merolae 10D has recently emerged as an interesting model organism capable of high-cell density cultivation on pure CO2 with optimal growth at elevated temperatures and acidic pH. C. merolae biomass has an interesting macromolecular composition, is protein rich, and contains valuable bio-products like heat-stable phycocyanin, carotenoids, β-glucan, and starch. Here, photobioreactors were used to model C. merolae 10D growth performance in simulated environmental conditions of the mid-Red Sea coast across four seasons, it was then grown at various scales outdoors in Thuwal, Saudi Arabia during the Summer of 2022. We show that C. merolae 10D is amenable to cultivation with industrial-grade nutrient and CO2 inputs outdoors in this location and that its biomass is relatively constant in biochemical composition across culture conditions. We also show the adaptation of C. merolae 10D to high salinity levels of those found in Red Sea waters and conducted further modeled cultivations in nutrient enriched local sea water. It was determined that salt-water adapted C. merolae 10D could be cultivated with reduced nutrient inputs in local conditions. The results presented here indicate this may be a promising alternative species for algal bioprocesses in outdoor conditions in extreme coastal desert summer environments.
Mechanical homeostasis imbalance in hepatic stellate cells activation and hepatic fibrosis
Authors: Zhao Yuan-Quan , Deng Xi-Wen , Xu Guo-Qi , Lin Jie , Lu Hua-Ze , Chen Jie
Published: April 2023

Chronic liver disease or repeated damage to hepatocytes can give rise to hepatic fibrosis. Hepatic fibrosis (HF) is a pathological process of excessive sedimentation of extracellular matrix (ECM) proteins such as collagens, glycoproteins, and proteoglycans (PGs) in the hepatic parenchyma. Changes in the composition of the ECM lead to the stiffness of the matrix that destroys its inherent mechanical homeostasis, and a mechanical homeostasis imbalance activates hepatic stellate cells (HSCs) into myofibroblasts, which can overproliferate and secrete large amounts of ECM proteins. Excessive ECM proteins are gradually deposited in the Disse gap, and matrix regeneration fails, which further leads to changes in ECM components and an increase in stiffness, forming a vicious cycle. These processes promote the occurrence and development of hepatic fibrosis. In this review, the dynamic process of ECM remodeling of HF and the activation of HSCs into mechanotransduction signaling pathways for myofibroblasts to participate in HF are discussed. These mechanotransduction signaling pathways may have potential therapeutic targets for repairing or reversing fibrosis.