bluuebunny/crossref_metadata_2025 huggingface dataset:
Preliminary Study on the Imbalance Between Th17 and Regulatory T Cells in Antiphospholipid Syndrome
Authors: Yan Huanhuan , Li Baochen , Su Rui , Gao Chong , Li Xiaofeng , Wang Caihong
Published: May 2022

Objective

Patients with antiphospholipid syndrome (APS) have immune cell abnormalities that remain poorly understood. This study compared primary APS (PAPS) and secondary APS (SAPS) patients with healthy controls with respect to peripheral blood lymphocytes, CD4+T cell subsets, and cytokine levels. The correlation between antiphospholipid antibody titres and T helper 17 (Th17) and T regulatory (Treg) cell subsets was also analyzed, together with the correlations between cytokine profiles and the clinical characteristics of APS patients.

Methods

The retrospective study population consisted of 67 APS patients (12 with PAPS, 55 with SAPS) and 40 healthy controls. Absolute numbers of peripheral blood lymphocyte subsets and CD4+ T cell subsets were detected by flow cytometry, and serum cytokine levels by flow cytometry bead array.

Results

Patients with SAPS had lower absolute values of T, B and CD4+T cells than the healthy control group, while only natural killer (NK) cell levels were decreased in patients with PAPS. Absolute numbers of T, B, NK, and CD4+T cells were significantly higher in the PAPS than SAPS group. The trends in CD4+T cell subsets were the same in PAPS and SAPS patients as in healthy controls, with increased Th1, decreased Th2, and decreased Treg levels, and thus an increased Th17/Treg ratio. Th2, Th17, and Treg cell counts were higher in the PAPS than SAPS group. Cytokine analysis showed that only IL-10 levels differed between the two APS groups. However, the levels of all of the studied cytokines were higher in APS patients than healthy controls, and correlated with the clinical characteristics of the patients. In the PAPS group, the titres of two autoantibodies correlated positively with the Th17/Treg ratio and negatively with the levels of D-dimer and Treg subsets.

Conclusions

Our study clearly showed that APS patients have immune disturbances, the most prominent of which is an increase in the Th17/Treg ratio, due to a decrease in the number of Treg cells. These abnormalities may be involved in the occurrence and progression of APS. An additional finding was a higher level of peripheral blood lymphocytes in PAPS than SAPS patients, which may be related to the immunosuppressive treatment of SAPS patients.
UVB-Induced Microvesicle Particle Release and Its Effects on the Cutaneous Microenvironment
Authors: Frommeyer Timothy C. , Gilbert Michael M. , Brittain Garrett V. , Wu Tongfan , Nguyen Trang Q. , Rohan Craig A. , Travers Jeffrey B.
Published: May 2022

Ultraviolet B radiation (UVB) has profound effects on human skin that results in a broad spectrum of immunological local and systemic responses and is the major cause of skin carcinogenesis. One important area of study in photobiology is how UVB is translated into effector signals. As the skin is exposed to UVB light, subcellular microvesicle particles (MVP), a subtype of bioactive extracellular vesicles, are released causing a variety of local and systemic immunological effects. In this review, we highlight keratinocyte MVP release in keratinocytes in response to UVB. Specifically, Platelet-activating factor receptor agonists generated by UVB result in MVP released from keratinocytes. The downstream effects of MVP release include the ability of these subcellular particles to transport agents including the glycerophosphocholine-derived lipid mediator Platelet-activating factor (PAF). Moreover, even though UVB is only absorbed in the epidermis, it appears that PAF release from MVPs also mediates systemic immunosuppression and enhances tumor growth and metastasis. Tumor cells expressing PAF receptors can use this mechanism to evade chemotherapy responses, leading to treatment resistance for advanced cancers such as melanoma. Furthermore, novel pharmacological agents provide greater insight into the UVB-induced immune response pathway and a potential target for pharmacological intervention. This review outlines the need to more clearly elucidate the mechanism linking UVB-irradiation with the cutaneous immune response and its pathological manifestations. An improved understanding of this process can result in new insights and treatment strategies for UVB-related disorders from carcinogenesis to photosensitivity.
Mast Cells Drive Systemic Inflammation and Compromised Bone Repair After Trauma
Authors: Ragipoglu Deniz , Bülow Jasmin , Hauff Kristin , Voss Martin , Haffner-Luntzer Melanie , Dudeck Anne , Ignatius Anita , Fischer Verena
Published: May 2022

There is evidence that mast cells contribute to inflammation induced by hemorrhagic shock, severe tissue injury or sepsis. Mast cells are highly responsive to alarm signals generated after trauma, and release many inflammatory mediators including interleukin-6, a key mediator of posttraumatic inflammation. An overwhelming posttraumatic inflammation causes compromised bone healing; however, the underlying cellular and molecular mechanisms are poorly understood. Recently, we found that mast cells trigger local and systemic inflammation after isolated fracture leading to uneventful bone repair. Here, we investigated whether mast cells critically contribute to trauma-induced compromised bone healing. Male Mcpt5-Cre+R-DTA mice, which lack connective tissue type mast cells, and their mast cell-competent Cre−littermates underwent a femur fracture with/without thoracic trauma. Posttraumatic systemic and local inflammation and bone repair were assessed 3 h and 21 d post injury. Both, the systemic and pulmonary inflammation was significantly increased in mast cell-competent mice upon combined trauma compared to isolated fracture. In mast cell-deficient mice, the increase of inflammatory mediators in the circulation induced by the severe trauma was abolished. In the bronchoalveolar lavage fluid, the trauma-induced increase of inflammatory cytokines was not reduced, but the neutrophil invasion into the lungs was significantly diminished in the absence of mast cells. Locally in the fracture hematoma, mast cell-competent mice displayed reduced inflammatory mediator concentrations after combined trauma compared to isolated fracture, which was abolished in mast cell-deficient mice. Notably, while combined trauma resulted in compromised bone repair in mast cell-competent mice, indicated by significantly reduced bone and increased cartilage fracture callus contents, this was abolished in Mcpt5-Cre+R-DTA mice. Therefore, mast cells contribute to trauma-induced compromised bone repair and could be a potential target for new treatment options to improve fracture healing in multiply injured patients.
Microbiota and the Response to Vaccines Against Respiratory Virus
Authors: Gonçalves João I. B. , Borges Thiago J. , de Souza Ana Paula Duarte
Published: May 2022

This mini review describes the role of gut and lung microbiota during respiratory viral infection and discusses the implication of the microbiota composition on the immune responses generated by the vaccines designed to protect against these pathogens. This is a growing field and recent evidence supports that the composition and function of the microbiota can modulate the immune response of vaccination against respiratory viruses such as influenza and SARS-CoV-2. Recent studies have highlighted that molecules derived from the microbiome can have systemic effects, acting in distant organs. These molecules are recognized by the immune cells from the host and can trigger or modulate different responses, interfering with vaccination protection. Modulating the microbiota composition has been suggested as an approach to achieving more efficient protective immune responses. Studies in humans have reported associations between a better vaccine response and specific bacterial taxa. These associations vary among different vaccine strategies and are likely to be context-dependent. The use of prebiotics and probiotics in conjunction with vaccination demonstrated that bacterial components could act as adjuvants. Future microbiota-based interventions may potentially improve and optimize the responses of respiratory virus vaccines.
Can Stomach Content and Microbiomes of Tuna Provide Near Real-Time Detection of Ecosystem Composition in the Pacific Ocean?
Authors: Trujillo-González Alejandro , Li Teng , Potts Joanne , Nicol Simon , Allain Valerie , Godwin Sam C. , Vourey Elodie , Portal Annie , Kumasi Brian , Usu Thomas , Rodrigo Allen , Gleeson Dianne
Published: May 2022

This preliminary study used DNA metabarcoding to test whether the stomach content and gut microbiome of tuna could be a viable near real-time monitoring tool for detecting composition and change in oceanic ecosystems. The gut content of skipjack (Katsuwonus pelamis, n=55) and yellowfin tuna (Thunnus albacares, n=46) captured in the Pacific Ocean during El Niño Southern Oscillation events (ENSO) between 2015-2017 were examined by high throughput sequencing and complemented by morphological assessments to identify fishes, crustaceans and cephalopods in the stomach content. Gut microbiome was examined solely by high throughput sequencing. Stomach content and gut microbiome were compared between tuna species, ENSO events and capture location using generalised linear models. The full model (tuna species, capture location and interaction with ENSO) best explained fish prey composition, while capture location and ENSO weakly explained the composition of crustaceans and cephalopods. Skipjack and yellowfin tuna captured near coastal areas (Longitude<170°W) showed a greater diversity of prey compared to fish captured in oceanic regions of the Pacific, while Thunnus albacares showed a much more diverse stomach content than K. pelamis (21 fish, eight cephalopods and six crustaceans). Fish captured during La Niña events showed higher prey diversity compared to fish captured during El Niño. Tuna species best explained differences in gut microbiome to the Phylum level, while no model explained gut microbiome differences to the Order or Family level. This preliminary study shows that capture location and ENSO events explained differences in stomach content of K. pelamis and T. albacares, while tuna species best explained gut microbiome assemblages to the Phylum level.
Academic Engagement with Wadden Sea Stakeholders: A Review of Past Foci and Possible Futures
Authors: Gadsden Gabriel I. , Peters Kimberley , Dajka Jan-Claas
Published: May 2022

The Wadden Sea became a UNESCO World Heritage Site in 2009 owing to its geographical and ecological importance. Given its status and its global recognition, academic understanding of, and engagement with, a diverse set of stakeholders is crucial to the sustainability of the Wadden Sea and the wildlife that inhabit its transnational boundaries. As such, this paper reviews with whom, how, and to what extent the academy has engaged with Wadden Sea stakeholders. This study finds that stakeholder groups (whom, with vested interests in the sea, might be expected to be present) are missing from academic publications focused on stakeholders in the Wadden Sea. Moreover, existing studies tend to focus on singular, categorized stakeholder ‘groups’, and lack transboundary integration, as well as reference to UN Sustainability Goal 14 – a key target for environmental protection. In sum, the review provides (1) an analysis of academic work that engages Wadden Sea stakeholders to assist future researchers undertaking work in this global ecologically significant area, and (2) a discussion of where future academic work might be developed.
The Foraminiferal Response to Climate Stressors Project: Tracking the Community Response of Planktonic Foraminifera to Historical Climate Change
Authors: de Garidel-Thoron Thibault , Chaabane Sonia , Giraud Xavier , Meilland Julie , Jonkers Lukas , Kucera Michal , Brummer Geert-Jan A. , Grigoratou Maria , Monteiro Fanny M. , Greco Mattia , Mortyn P. Graham , Kuroyanagi Azumi , Howa Hélène , Beaugrand Gregory , Schiebel Ralf
Published: May 2022

Planktonic Foraminifera are ubiquitous marine protozoa inhabiting the upper ocean. During life, they secrete calcareous shells, which accumulate in marine sediments, providing a geological record of past spatial and temporal changes in their community structure. As a result, they provide the opportunity to analyze both current and historical patterns of species distribution and community turnover in this plankton group on a global scale. The FORCIS project aims to unlock this potential by synthesizing a comprehensive global database of abundance and diversity observations of living planktonic Foraminifera in the upper ocean over more than 100 years starting from 1910. The database will allow for unravelling the impact of multiple global-change stressors acting on planktonic Foraminifera in historical times, using an approach that combines statistical analysis of temporal diversity changes in response to environmental changes with numerical modeling of species response based on their ecological traits.
Blue and Red Light Color Combinations Can Enhance Certain Aspects of Digestive and Anabolic Performance in Juvenile Steelhead Trout Oncorhynchus mykiss
Authors: Chen Xueweijie , Zhou Yangen , Huang Jinze , An Dong , Li Li , Dong Yunwei , Gao Qinfeng , Dong Shuanglin
Published: May 2022

The light spectrum varies with the altitude of the sun and shows different light colors in clear water. In this study, we aimed to investigate the response of juvenile steelhead trout Oncorhynchus mykiss (34.67 ± 2.69 g initial weight) under different light color conditions. The effects of different blue and red light combinations on plasma biochemical parameters, digestive enzyme activity, and RNA/DNA ratio were assessed in trout over 16 weeks. Six treatments were randomly assigned to 24 tanks with four replicates per treatment: a constant light intensity of 150 lx: 12 h white light then 12 h dark (12W); 12 h blue light then 12 h dark (12B); 12 h red light then 12 h dark (12R); 1.5 h blue light, 9 h red light, 1.5 h blue light, then 12 h dark (3B9R); 3 h blue light, 6 h red light, 3 h blue light, then 12 h dark (6B6R); and 12 h of both blue and red light then 12 h dark (T12BR). Fish exposed to the 3B9R light environment showed significantly increased plasma levels of total protein (TP), enhanced activities of midgut lipase, trypsin, and gastric lipase; and increased RNA content in the liver and muscle tissue to promote protein synthesis efficiency, thereby improving digestive and anabolic performance compared to fish in the other treatments. This indicates that steelhead trout have adapted well to such variable light conditions during long-term evolution. In contrast, trout exposed to the 6B6R light environment showed significant reductions in plasma glucose, TP, and triglyceride levels, decreased activity of gastrointestinal digestive enzymes, and reduced protein synthesis capacity in the muscle and liver, resulting in weakened digestive and anabolic performance. Furthermore, despite the high RNA content and RNA/DNA ratio in fish exposed to a 12R light environment, relatively high plasma cholesterol and triglycerides levels were observed, which might indicate oxidative stress. Therefore, this light is not considered suitable for long-term cultivation. In conclusion, the 3B9R treatment was the optimal light condition tested and can be used to improve the digestive and anabolic performance of steelhead trout.
Application of Airborne LiDAR Measurements to the Topographic Survey of the Tidal Flats of the Northern Jiangsu Radial Sand Ridges in the Southern Yellow Sea
Authors: Zhang Haifeng , Wang Lian , Zhao Yifei , Cao Jicheng , Xu Min
Published: May 2022

The northern Jiangsu radial sand ridges are typical geomorphic deposit units distributed off the Jiangsu coast. A coastal tidal flat typically develops and provides a good habitat for many migratory birds and benthic organisms. However, topographic surveys of tidal flats have always been difficult in marine surveys because of the dense tidal creek, poor accessibility, and difficulty in setting up control points. In this study, we quickly obtained the point cloud data of the tidal flat near Yangkou Port in the southern part of the radial sand ridges based on an airborne LiDAR system, an integrated 3D laser scanner and a positioning and attitude determination system. We analyzed the adaptabilities of multiple filtering algorithms to tidal flats. In addition, a digital elevation model (DEM) of the tidal flat was constructed and the accuracy was verified with synchronized beach GPS-RTK topographic elevation measurements. The results show that the following: (1) Airborne LiDAR can quickly obtain high precision, high resolution, and a large area of ground point cloud information for tidal flats, overcoming the shortcomings of traditional measurement methods. (2) The triangulated irregular network (TIN) filtering effect is better than that of mathematical morphology and the filtering effect of point cloud normal vector clustering is mediocre. (3) The DEM of the LiDAR point cloud is in good agreement with RTK and the average error of the measurement results is 0.108 m. The error accuracy of the DEM satisfies the surveying specification of a 1:500 topographic map in a flat area, which proves that the airborne LiDAR system can be suitable for tidal flat elevation measurement. Nevertheless, it is possible to provide high precision terrain detection and DEM construction of a tidal flat with the development of airborne infrared and blue-green laser detection radar.
Groundwater Salinity and Particulate Organic Carbon Flux Control Benthic Habitats in Anchialine Environments on Millennial Timescales
Authors: Cresswell Jacque N. , van Hengstum Peter J.
Published: May 2022

The environmental conditions and habitats in Bermudian underwater caves have responded to vertical aquifer migration and groundwater salinity changes associated with sea-level rise since the last glacial maximum. Recently, a large database of modern benthic foraminifera in Bermudian caves were found to be highly sensitive to both the amount and source of particle organic carbon (POC) transported to the sediment-water interface, consistent with similar timewise analysis of foraminifera in a Mexican flooded cave. Here we provide evidence that while benthic meiofaunal communities in Bermuda’s underwater caves are primarily controlled by groundwater salinity changes on millennial timescales from sea-level change, they are secondarily controlled by the POC source and supply deposited in the cave through time. Benthic foraminiferal assemblages were evaluated in the best-preserved stratigraphic succession currently known from an underwater cave. In the case of Palm Cave, POC flux changes were driven by changes in seawater-groundwater circulation dynamics caused by flooding on the carbonate banktop, and the inherited geometry of the cave system itself. These results demonstrate that benthic meiofaunal communities in anchialine environments are highly sensitive to changes in the source and quantity of POC through time. This work also enables a better understanding of the environmental conditions associated with preserved meiofaunal remains in global cave sediment. These results indicate that if the POC flux to the subsurface increases from coastal urbanization on karst landscapes, subsurface anchialine communities are likely to respond.
The SeaRAS AquaSense™ System: Real-Time Monitoring of H2S at Sub µg/L Levels in Recirculating Aquaculture Systems (RAS)
Authors: Lien Eldar , Valsvik Geir , Nordstrand Jan Vidar , Martinez Vincent , Rogne Vegard , Hafsås Ola , Queralt Sara , Fathi Behnood Sjåstad , Aga Morten
Published: May 2022

Hydrogen sulfide (H2S) is toxic to all species used in aquaculture. The extensive fish mortalities inflicted by H2S-poisoning can cause significant direct economic losses. Called the silent killer among scholars and fish farmers, H2S is highly soluble in aquatic environments and has significant damage potential; once detected, the time for mitigation actions is limited as fish stocks are rapidly impacted by the gas. The detection of H2S at low concentrations is challenging with the state-of-the-art sensors used today. Despite its significant damage potential, the industry has not been able to provide a reliable yet user-friendly system to address this. The aim of this paper is to provide a step forward in this direction by introducing a system for real-time monitoring of H2S at sub µg/L levels in RAS. The SeaRAS AquaSense System (AQS) utilizes real-time monitoring of H2S in parallel with other water quality parameters, such as CO2, O2, pH, and temperature, through a set of autonomous wireless-based sensor units installed in multiple locations in RAS. The system is calibrated and verified further by an autonomous calibration system where substrates of known values are brought to the sensor at a defined interval, offering the user data confidence that is exceptional and of high value. The H2S levels are measured in real-time at high-temporal resolution (down to 0.05 µg/L). By having units located in distinct locations in the water treatment loop, a true real-time monitoring of water treatment processes in RAS is given. Preliminary results provide new insights to the mechanisms behind H2S formation in operational RAS, and, more important, provide a basis for the development of risk-reducing actions and means for risk mitigation through degassing processes. By measuring real time simultaneously in multiple locations and in the exhaust of the degasser, a true mass balance of the system can be formulated by the given amount of feed, measured parameters by sensors and the known flow rate. By using the SeaRAS AquaSense System it is also possible to track the amount of H2S that leaks to the recirculating water per m2 of biofilm in RAS. This is a critical parameter and of high priority to be considered in the context of coping with the H2S-induced risks in RAS. The finding of this work highlights that the formation of toxic H2S is inevitable in RAS-process, ergo, the focus of the industry should instead go toward how to cope with it. In this regard, the SeaRAS AquaSense System provides a step forward towards a practical solution for managing H2S-poisoning risk in aquaculture. This work suggests a need for future research on determining acceptable limits for H2S in water quality context in RAS and investigating a new insight on interaction between H2S and other water quality parameters such as CO2.
The Role and Function of Mucins and Its Relationship to Inflammatory Bowel Disease
Authors: Kang Youra , Park Hyeonjeong , Choe Byung-Ho , Kang Ben
Published: May 2022

Mucus is present throughout the gastrointestinal tract and is essential for regulating gut microbiota homeostasis and preventing disease by protecting the gastrointestinal barrier from microorganisms, pathogens and toxins or other irritants. Mucin (MUC)-2 is a secreted protein produced by epithelial goblet cells as the main component of mucus. Defects in the gastrointestinal tract, such as inflammation and ulcers, cause damage to the mucus barrier, which can worsen mucus quality and reduce mucus production. Therefore, we would like to review the characteristics of MUC2 and its role in intestinal disorders and highlight the importance of further studies. We also investigated whether the role of MUC2 differs between children and adults, ulcerative colitis (UC) and Crohn's disease (CD).
Identification of a Novel MLPH Missense Mutation in a Chinese Griscelli Syndrome 3 Patient
Authors: Huang Qiaorong , Yuan Yefeng , Gong Juanjuan , Zhang Tianjiao , Qi Zhan , Yang Xiumin , Li Wei , Wei Aihua
Published: May 2022

Melanophilin (MLPH) functions as a linker between RAB27A and myosin Va (MYO5A) in regulating skin pigmentation during the melanosome transport process. The MYO5A-MLPH-RAB27A ternary protein complex is required for anchoring mature melanosomes in the peripheral actin filaments of melanocytes for subsequent transfer to adjacent keratinocytes. Griscelli syndrome type 3 (GS3) is caused by mutations in the MLPH gene. So far, only five variants of MLPH associated with GS3 have been reported. Here, we reported the first patient with GS3 in a Chinese population. The proband carried a novel homozygous missense mutation (c.73G>C; p.D25H), residing in the conserved Slp homology domain of MLPH, and presented with hypopigmentation of the hair, eyebrows, and eyelashes. Light microscopy revealed the presence of abnormal pigment clumping in his hair shaft. In silico tools predicted this MLPH variant to be likely pathogenic. Using immunoblotting and immunofluorescence analysis, we demonstrated that the MLPH (D25H) variant had an inhibitory effect on melanosome transport by exhibiting perinuclear melanosome aggregation in melanocytes, and greatly reduced its binding to RAB27A, although the protein level of MLPH in the patient was not changed. Our findings suggest that MLPH (D25H) is a pathogenic variant that expands the genetic spectrum of the MLPH gene.
A Perspective on Developing a Plant ‘Holobiont’ for Future Saline Agriculture
Authors: Ren Cheng-Gang , Kong Cun-Cui , Liu Zheng-Yi , Zhong Zhi-Hai , Yang Jian-Chao , Wang Xiao-Li , Qin Song
Published: May 2022

Soil salinity adversely affects plant growth and has become a major limiting factor for agricultural development worldwide. There is a continuing demand for sustainable technology innovation in saline agriculture. Among various bio-techniques being used to reduce the salinity hazard, symbiotic microorganisms such as rhizobia and arbuscular mycorrhizal (AM) fungi have proved to be efficient. These symbiotic associations each deploy an array of well-tuned mechanisms to provide salinity tolerance for the plant. In this review, we first comprehensively cover major research advances in symbiont-induced salinity tolerance in plants. Second, we describe the common signaling process used by legumes to control symbiosis establishment with rhizobia and AM fungi. Multi-omics technologies have enabled us to identify and characterize more genes involved in symbiosis, and eventually, map out the key signaling pathways. These developments have laid the foundation for technological innovations that use symbiotic microorganisms to improve crop salt tolerance on a larger scale. Thus, with the aim of better utilizing symbiotic microorganisms in saline agriculture, we propose the possibility of developing non-legume ‘holobionts’ by taking advantage of newly developed genome editing technology. This will open a new avenue for capitalizing on symbiotic microorganisms to enhance plant saline tolerance for increased sustainability and yields in saline agriculture.
Antiobesity, Antihyperglycemic, and Antidepressive Potentiality of Rice Fermented Food Through Modulation of Intestinal Microbiota
Authors: Hor Papan Kumar , Pal Shilpee , Mondal Joy , Halder Suman Kumar , Ghosh Kuntal , Santra Sourav , Ray Mousumi , Goswami Debabrata , Chakrabarti Sudipta , Singh Somnath , Dwivedi Sanjai K. , Takó Miklós , Bera Debabrata , Mondal Keshab Chandra
Published: May 2022

The present study has been aimed at evaluating the antiobesity, antihyperglycemic, and antidepressive potentials of Asparagus racemosus starter-based rice fermented foods. High-throughput NGS technology has revealed a number of bacterial genera in the prepared fermented rice, such as Lactobacillus (29.44%), Brevundimonas (16.21%), Stenotrophomonas (6.18%), Pseudomonas (3.11%), Bacillus (2.88%), and others (<2%). Eight-week administration of rice fermented food has increased food intake, whole-body weight, organ weight, different fat masses, serum lipid profiles, and histology of liver and adipose tissues in HFD-induced obese mice. In addition, upregulation of fatty acid oxidation and downregulation of adipocytogenesis- and lypogenesis-related genes along with the expression of their regulatory nuclear factors such as PPARα, PPARγ, PPARδ, and SREBP-1c have also been noted. Moreover, fermented food decreases fasting blood glucose level and improves glucose and insulin tolerance as well as the expression of GLUT4 receptor. Antiobesity and antihyperglycemic effects are also supported by the changes in insulin, leptin, and adiponectin hormone levels. The real-time polymerase chain reaction (RT-PCR) and denaturing gradient gel electrophoresis (DGGE) analyses have clearly demonstrated the intense colonization of Bacteroides, Lactobacillus, and Bifidobacterium, as well as the suppressed growth rate of γ- and δ-Proteobacteria and Firmicutes in the gut after fermented food intake. In the intestine, the latter group of microorganisms possibly modulate short-chain fatty acid (SCFA) levels such as acetate, butyrate, and propionate more than twofold. The impairment of memory-learning and anxiety-like obesity-associated cognitive phenotypes is mitigated significantly (p < 0.01) by fermented food as well. Thus, the formulated fermented food could be used as a natural therapeutic to alleviate obesity and its associated psychological and pathophysiological ailments.
Heavy Metal–Resistant Plant Growth–Promoting Citrobacter werkmanii Strain WWN1 and Enterobacter cloacae Strain JWM6 Enhance Wheat (Triticum aestivum L.) Growth by Modulating Physiological Attributes and Some Key Antioxidants Under Multi-Metal Stress
Authors: Ajmal Abdul Wahab , Yasmin Humaira , Hassan Muhammad Nadeem , Khan Naeem , Jan Basit Latief , Mumtaz Saqib
Published: May 2022

Due to wastewater irrigation, heavy metal (HM) exposure of agricultural soils is a major limiting factor for crop productivity. Plant growth–promoting bacteria (PGPB) may lower the risk of HM toxicity and increase crop yield. In this context, we evaluated two HM-resistant PGPB strains, i.e., Citrobacter werkmanii strain WWN1 and Enterobacter cloacae strain JWM6 isolated from wastewater-irrigated agricultural soils, for their efficacy to mitigate HM (Cd, Ni, and Pb) stress in a pot experiment. Increasing concentrations (0, 50, 100, and 200 ppm) of each HM were used to challenge wheat plants. Heavy metal stress negatively affected wheat growth, biomass, and physiology. The plants under elevated HM concentration accumulated significantly higher amounts of heavy metals (HMs) in shoots and roots, resulting in increased oxidative stress, which was evident from increased malondialdehyde (MDA) content in roots and shoots. Moreover, alterations in antioxidants like superoxide dismutase (SOD), peroxidase (POD), ascorbate peroxidase (APX), and catalase (CAT) were observed in plants under HM stress. The severity of damage was more pronounced with rising HM concentration. However, inoculating wheat with Citrobacter werkmanii strain WWN1 and Enterobacter cloacae strain JWM6 (107 CFU ml–1) improved plant shoot length (11–42%), root length (19–125%), fresh weight (41–143%), dry weight (65–179%), and chlorophyll a (14%-24%) and chlorophyll b content (2–24%) under HM stress. Citrobacter werkmanii strain WWN1 and Enterobacter cloacae strain JWM6 either alone or in co-inoculation enhanced the antioxidant enzyme activity, which may lower oxidative stress in plants. However, seeds treated with the bacterial consortium showed an overall better outcome in altering oxidative stress and decreasing HM accumulation in wheat shoot and root tissues. Fourier transform infrared spectroscopy indicated the changes induced by HMs in functional groups on the biomass surface that display effective removal of HMs from aqueous medium using PGPB. Thus, the studied bacterial strains may have adequate fertilization and remediation potential for wheat cultivated in wastewater-irrigated soils. However, molecular investigation of mechanisms adopted by these bacteria to alleviate HM stress in wheat is required to be conducted.
Identifying the Novel Inhibitors Against the Mycolic Acid Biosynthesis Pathway Target “mtFabH” of Mycobacterium tuberculosis
Authors: Kumar Niranjan , Srivastava Rakesh , Mongre Raj Kumar , Mishra Chandra Bhushan , Kumar Amit , Khatoon Rosy , Banerjee Atanu , Ashraf-Uz-Zaman Md , Singh Harpreet , Lynn Andrew M. , Lee Myeong-Sok , Prakash Amresh
Published: May 2022

Mycolic acids are the key constituents of mycobacterial cell wall, which protect the bacteria from antibiotic susceptibility, helping to subvert and escape from the host immune system. Thus, the enzymes involved in regulating and biosynthesis of mycolic acids can be explored as potential drug targets to kill Mycobacterium tuberculosis (Mtb). Herein, Kyoto Encyclopedia of Genes and Genomes is used to understand the fatty acid metabolism signaling pathway and integrative computational approach to identify the novel lead molecules against the mtFabH (β-ketoacyl-acyl carrier protein synthase III), the key regulatory enzyme of the mycolic acid pathway. The structure-based virtual screening of antimycobacterial compounds from ChEMBL library against mtFabH results in the selection of 10 lead molecules. Molecular binding and drug-likeness properties of lead molecules compared with mtFabH inhibitor suggest that only two compounds, ChEMBL414848 (C1) and ChEMBL363794 (C2), may be explored as potential lead molecules. However, the spatial stability and binding free energy estimation of thiolactomycin (TLM) and compounds C1 and C2 with mtFabH using molecular dynamics simulation, followed by molecular mechanics Poisson–Boltzmann surface area (MM/PBSA) indicate the better activity of C2 (ΔG = −14.18 kcal/mol) as compared with TLM (ΔG = −9.21 kcal/mol) and C1 (ΔG = −13.50 kcal/mol). Thus, compound C1 may be explored as promising drug candidate for the structure-based drug designing of mtFabH inhibitors in the therapy of Mtb.
Distinguishing COVID-19 From Influenza Pneumonia in the Early Stage Through CT Imaging and Clinical Features
Authors: Yang Zhiqi , Lin Daiying , Chen Xiaofeng , Qiu Jinming , Li Shengkai , Huang Ruibin , Yang Zhijian , Sun Hongfu , Liao Yuting , Xiao Jianning , Tang Yanyan , Chen Xiangguang , Zhang Sheng , Dai Zhuozhi
Published: May 2022

Background

Both coronavirus disease 2019 (COVID-19) and influenza pneumonia are highly contagious and present with similar symptoms. We aimed to identify differences in CT imaging and clinical features between COVID-19 and influenza pneumonia in the early stage and to identify the most valuable features in the differential diagnosis.

Methods

Seventy-three patients with COVID-19 confirmed by real-time reverse transcription-polymerase chain reaction (RT-PCR) and 48 patients with influenza pneumonia confirmed by direct/indirect immunofluorescence antibody staining or RT-PCR were retrospectively reviewed. Clinical data including course of disease, age, sex, body temperature, clinical symptoms, total white blood cell (WBC) count, lymphocyte count, lymphocyte ratio, neutrophil count, neutrophil ratio, and C-reactive protein, as well as 22 qualitative and 25 numerical imaging features from non-contrast-enhanced chest CT images were obtained and compared between the COVID-19 and influenza pneumonia groups. Correlation tests between feature metrics and diagnosis outcomes were assessed. The diagnostic performance of each feature in differentiating COVID-19 from influenza pneumonia was also evaluated.

Results

Seventy-three COVID-19 patients including 41 male and 32 female with mean age of 41.9 ± 14.1 and 48 influenza pneumonia patients including 30 male and 18 female with mean age of 40.4 ± 27.3 were reviewed. Temperature, WBC count, crazy paving pattern, pure GGO in peripheral area, pure GGO, lesion sizes (1–3 cm), emphysema, and pleural traction were significantly independent associated with COVID-19. The AUC of clinical-based model on the combination of temperature and WBC count is 0.880 (95% CI: 0.819–0.940). The AUC of radiological-based model on the combination of crazy paving pattern, pure GGO in peripheral area, pure GGO, lesion sizes (1–3 cm), emphysema, and pleural traction is 0.957 (95% CI: 0.924–0.989). The AUC of combined model based on the combination of clinical and radiological is 0.991 (95% CI: 0.980–0.999).

Conclusion

COVID-19 can be distinguished from influenza pneumonia based on CT imaging and clinical features, with the highest AUC of 0.991, of which crazy-paving pattern and WBC count play most important role in the differential diagnosis.
Comprehensive Analysis Reveals the Genetic and Pathogenic Diversity of Ralstonia solanacearum Species Complex and Benefits Its Taxonomic Classification
Authors: Geng Ruimei , Cheng Lirui , Cao Changdai , Liu Zhengwen , Liu Dan , Xiao Zhiliang , Wu Xiuming , Huang Zhenrui , Feng Quanfu , Luo Chenggang , Chen Zhiqiang , Zhang Zhenchen , Jiang Caihong , Ren Min , Yang Aiguo
Published: May 2022

Ralstonia solanacearum species complex (RSSC) is a diverse group of plant pathogens that attack a wide range of hosts and cause devastating losses worldwide. In this study, we conducted a comprehensive analysis of 131 RSSC strains to detect their genetic diversity, pathogenicity, and evolution dynamics. Average nucleotide identity analysis was performed to explore the genomic relatedness among these strains, and finally obtained an open pangenome with 32,961 gene families. To better understand the diverse evolution and pathogenicity, we also conducted a series of analyses of virulence factors (VFs) and horizontal gene transfer (HGT) in the pangenome and at the single genome level. The distribution of VFs and mobile genetic elements (MGEs) showed significant differences among different groups and strains, which were consistent with the new nomenclatures of the RSSC with three distinct species. Further functional analysis showed that most HGT events conferred from Burkholderiales and played a great role in shaping the genomic plasticity and genetic diversity of RSSC genomes. Our work provides insights into the genetic polymorphism, evolution dynamics, and pathogenetic variety of RSSC and provides strong supports for the new taxonomic classification, as well as abundant resources for studying host specificity and pathogen emergence.
Role of ABO Blood Group in SARS-CoV-2 Infection in Households
Authors: Janda Ales , Engel Corinna , Remppis Jonathan , Enkel Sigrid , Peter Andreas , Hörber Sebastian , Ganzenmueller Tina , Schober Sarah , Weinstock Christof , Jacobsen Eva-Maria , Fabricius Dorit , Zernickel Maria , Stamminger Thomas , Dietz Andrea , Groß Hans-Jürgen , Bode Sebastian F. N. , Haddad Anneke D. M. , Elling Roland , Stich Maximilian , Tönshoff Burkhard , Henneke Philipp , Debatin Klaus-Michael , Franz Axel R. , Renk Hanna
Published: May 2022

An association between certain ABO/Rh blood groups and susceptibility to SARS-CoV-2 infection has been proposed for adults, although this remains controversial. In children and adolescents, the relationship is unclear due to a lack of robust data. Here, we investigated the association of ABO/Rh blood groups and SARS-CoV-2 in a multi-center study comprising 163 households with 281 children and 355 adults and at least one SARS-CoV-2 seropositive individual as determined by three independent assays as a proxy for previous infection. In line with previous findings, we found a higher frequency of blood group A (+ 6%) and a lower frequency of blood group O (−6%) among the SARS-CoV-2 seropositive adults compared to the seronegative ones. This trend was not seen in children. In contrast, SARS-CoV-2 seropositive children had a significantly lower frequency of Rh-positive blood groups. ABO compatibility did not seem to play a role in SARS-CoV-2 transmission within the families. A correction for family clusters was performed and estimated fixed effects of the blood group on the risk of SARS-CoV-2 seropositivity and symptomatic infection were determined. Although we found a different distribution of blood groups in seropositive individuals compared to the reference population, the risk of SARS-CoV-2 seropositivity or symptomatic infection was not increased in children or in adults with blood group A or AB versus O or B. Increasing age was the only parameter positively correlating with the risk of SARS-CoV-2 infection. In conclusion, specific ABO/Rh blood groups and ABO compatibility appear not to predispose for SARS-CoV-2 susceptibility in children.
Backslopping Time, Rinsing of the Grains During Backslopping, and Incubation Temperature Influence the Water Kefir Fermentation Process
Authors: Laureys David , Leroy Frédéric , Vandamme Peter , De Vuyst Luc
Published: May 2022

For eight backslopping steps, eight series of water kefir fermentation processes differing in backslopping time and rinsing of the grains during each backslopping step and eight series of fermentation processes differing in incubation temperature and backslopping time were followed. Short backslopping times resulted in high relative abundances of Liquorilactobacillus nagelii and Saccharomyces cerevisiae, intermediate backslopping times in high relative abundances of Leuconostoc pseudomesenteroides, and long backslopping times in high relative abundances of Oenococcus sicerae and Dekkera bruxellensis. When the grains were rinsed during each backslopping step, the relative abundances of Lentilactobacillus hilgardii and Leuc. pseudomesenteroides increased and those of D. bruxellensis and Liql. nagelii decreased. Furthermore, rinsing of the grains during each backslopping step resulted in a slightly higher water kefir grain growth and lower metabolite concentrations. The relative abundances of Liquorilactobacillus mali were highest at 17°C, those of Leuc. pseudomesenteroides at 21 and 25°C, and those of Liql. nagelii at 29°C. With a kinetic modeling approach, the impact of the temperature and rinsing of the grains during the backslopping step on the volumetric production rates of the metabolites was determined.
Structure Insights Into Photosystem I Octamer From Cyanobacteria
Authors: Chen Ming , He Yujie , Liu Dongyang , Tian Lijin , Xu Pengqi , Liu Xuan , Pan Yihang , Dong Shuqi , He Jun , Zhang Ying
Published: May 2022

The diversity of photosystem oligomers is essential to understanding how photosynthetic organisms adapt to light conditions. Due to its structural and physiological significance, the assembly of the PSI supercomplex has been of great interest recently in terms of both chloroplast and cyanobacteria. In this study, two novel photosystem I supercomplexes were isolated for the first time from the low light incubated culture of filamentous cyanobacterium Anabaena sp. PCC 7120. These complexes were defined as PSI hexamers and octamers through biochemical and biophysical characterization. Their 77K emission spectra indicated that the red forms of chlorophylls seemed not to be affected during oligomerization. By cryo-EM single-particle analysis, a near-atomic (7.0 Å) resolution structure of a PSI octamer was resolved, and the molecular assemblies of a stable PSI octamer were revealed.
Comparative Genomic Analysis Revealed Distinct Molecular Components and Organization of CO2-Concentrating Mechanism in Thermophilic Cyanobacteria
Authors: Tang Jie , Zhou Huizhen , Yao Dan , Riaz Sadaf , You Dawei , Klepacz-Smółka Anna , Daroch Maurycy
Published: May 2022

Cyanobacteria evolved an inorganic carbon-concentrating mechanism (CCM) to perform effective oxygenic photosynthesis and prevent photorespiratory carbon losses. This process facilitates the acclimation of cyanobacteria to various habitats, particularly in CO2-limited environments. To date, there is limited information on the CCM of thermophilic cyanobacteria whose habitats limit the solubility of inorganic carbon. Here, genome-based approaches were used to identify the molecular components of CCM in 17 well-described thermophilic cyanobacteria. These cyanobacteria were from the genus Leptodesmis, Leptolyngbya, Leptothermofonsia, Thermoleptolyngbya, Thermostichus, and Thermosynechococcus. All the strains belong to β-cyanobacteria based on their β-carboxysome shell proteins with 1B form of Rubisco. The diversity in the Ci uptake systems and carboxysome composition of these thermophiles were analyzed based on their genomic information. For Ci uptake systems, two CO2 uptake systems (NDH-13 and NDH-14) and BicA for HCO3– transport were present in all the thermophilic cyanobacteria, while most strains did not have the Na+/HCO3– Sbt symporter and HCO3– transporter BCT1 were absent in four strains. As for carboxysome, the β-carboxysomal shell protein, ccmK2, was absent only in Thermoleptolyngbya strains, whereas ccmK3/K4 were absent in all Thermostichus and Thermosynechococcus strains. Besides, all Thermostichus and Thermosynechococcus strains lacked carboxysomal β-CA, ccaA, the carbonic anhydrase activity of which may be replaced by ccmM proteins as indicated by comparative domain analysis. The genomic distribution of CCM-related genes was different among the thermophiles, suggesting probably distinct expression regulation. Overall, the comparative genomic analysis revealed distinct molecular components and organization of CCM in thermophilic cyanobacteria. These findings provided insights into the CCM components of thermophilic cyanobacteria and fundamental knowledge for further research regarding photosynthetic improvement and biomass yield of thermophilic cyanobacteria with biotechnological potentials.
Global Phylogeny of Mycobacterium avium and Identification of Mutation Hotspots During Niche Adaptation
Authors: Mizzi Rachel , Plain Karren M. , Whittington Richard , Timms Verlaine J.
Published: May 2022

Mycobacterium avium is separated into four subspecies: M. avium subspecies avium (MAA), M. avium subspecies silvaticum (MAS), M. avium subspecies hominissuis (MAH), and M. avium subspecies paratuberculosis (MAP). Understanding the mechanisms of host and tissue adaptation leading to their clinical significance is vital to reduce the economic, welfare, and public health concerns associated with diseases they may cause in humans and animals. Despite substantial phenotypic diversity, the subspecies nomenclature is controversial due to high genetic similarity. Consequently, a set of 1,230 M. avium genomes was used to generate a phylogeny, investigate SNP hotspots, and identify subspecies-specific genes. Phylogeny reiterated the findings from previous work and established that Mycobacterium avium is a species made up of one highly diverse subspecies, known as MAH, and at least two clonal pathogens, named MAA and MAP. Pan-genomes identified coding sequences unique to each subspecies, and in conjunction with a mapping approach, mutation hotspot regions were revealed compared to the reference genomes for MAA, MAH, and MAP. These subspecies-specific genes may serve as valuable biomarkers, providing a deeper understanding of genetic differences between M. avium subspecies and the virulence mechanisms of mycobacteria. Furthermore, SNP analysis demonstrated common regions between subspecies that have undergone extensive mutations during niche adaptation. The findings provide insights into host and tissue specificity of this genetically conserved but phenotypically diverse species, with the potential to provide new diagnostic targets and epidemiological and therapeutic advances.