bluuebunny/crossref_metadata_2025 huggingface dataset:
Phage phiKZ—The First of Giants
Authors: Krylov Victor , Bourkaltseva Maria , Pleteneva Elena , Shaburova Olga , Krylov Sergey , Karaulov Alexander , Zhavoronok Sergey , Svitich Oxana , Zverev Vitaly
Published: January 2021

The paper covers the history of the discovery and description of phiKZ, the first known giant bacteriophage active on Pseudomonas aeruginosa. It also describes its unique features, especially the characteristic manner of DNA packing in the head around a cylinder-shaped structure (“inner body”), which probably governs an ordered and tight packaging of the phage genome. Important properties of phiKZ-like phages include a wide range of lytic activity and the blue opalescence of their negative colonies, and provide a background for the search and discovery of new P. aeruginosa giant phages. The importance of the phiKZ species and of other giant phage species in practical phage therapy is noted given their broad use in commercial phage preparations.
ViralRecall—A Flexible Command-Line Tool for the Detection of Giant Virus Signatures in ‘Omic Data
Authors: Aylward Frank O. , Moniruzzaman Mohammad
Published: January 2021

Giant viruses are widespread in the biosphere and play important roles in biogeochemical cycling and host genome evolution. Also known as nucleo-cytoplasmic large DNA viruses (NCLDVs), these eukaryotic viruses harbor the largest and most complex viral genomes known. Studies have shown that NCLDVs are frequently abundant in metagenomic datasets, and that sequences derived from these viruses can also be found endogenized in diverse eukaryotic genomes. The accurate detection of sequences derived from NCLDVs is therefore of great importance, but this task is challenging owing to both the high level of sequence divergence between NCLDV families and the extraordinarily high diversity of genes encoded in their genomes, including some encoding for metabolic or translation-related functions that are typically found only in cellular lineages. Here, we present ViralRecall, a bioinformatic tool for the identification of NCLDV signatures in ‘omic data. This tool leverages a library of giant virus orthologous groups (GVOGs) to identify sequences that bear signatures of NCLDVs. We demonstrate that this tool can effectively identify NCLDV sequences with high sensitivity and specificity. Moreover, we show that it can be useful both for removing contaminating sequences in metagenome-assembled viral genomes as well as the identification of eukaryotic genomic loci that derived from NCLDV. ViralRecall is written in Python 3.5 and is freely available on GitHub: https://github.com/faylward/viralrecall.
Targeted Profiling of Immunological Genes during Norovirus Replication in Human Intestinal Enteroids
Authors: Chan Jenny C.M. , Mohammad Kirran N. , Zhang Lin-Yao , Wong Sunny H. , Chan Martin Chi-Wai
Published: January 2021

Norovirus is the leading cause of acute gastroenteritis worldwide. The pathogenesis of norovirus and the induced immune response remain poorly understood due to the lack of a robust virus culture system. The monolayers of two secretor-positive Chinese human intestinal enteroid (HIE) lines were challenged with two norovirus pandemic GII.4 Sydney strains. Norovirus RNA replication in supernatants and cell lysates were quantified by RT-qPCR. RNA expression levels of immune-related genes were profiled using PCR arrays. The secreted protein levels of shortlisted upregulated genes were measured in supernatants using analyte-specific enzyme-linked immunosorbent assay (ELISA). Productive norovirus replications were achieved in three (75%) out of four inoculations. The two most upregulated immune-related genes were CXCL10 (93-folds) and IFI44L (580-folds). Gene expressions of CXCL10 and IFI44L were positively correlated with the level of norovirus RNA replication (CXCL10: Spearman’s r = 0.779, p < 0.05; IFI44L: r = 0.881, p < 0.01). The higher level of secreted CXCL10 and IFI44L proteins confirmed their elevated gene expression. The two genes have been reported to be upregulated in norovirus volunteer challenges and natural human infections by other viruses. Our data suggested that HIE could mimic the innate immune response elicited in natural norovirus infection and, therefore, could serve as an experimental model for future virus-host interaction and antiviral studies.
Nucleocapsid and Spike Proteins of the Coronavirus SARS-CoV-2 Induce IL6 in Monocytes and Macrophages—Potential Implications for Cytokine Storm Syndrome
Authors: Karwaciak Iwona , Sałkowska Anna , Karaś Kaja , Dastych Jarosław , Ratajewski Marcin
Published: January 2021

The pandemic of the new coronavirus SARS-CoV-2 (severe acute respiratory syndrome coronavirus 2) has led to the deaths of more than 1.5 million people worldwide. SARS-CoV-2 causes COVID-19, which exhibits wide variation in the course of disease in different people, ranging from asymptomatic and mild courses to very severe courses that can result in respiratory failure and death. Despite the rapid progression of knowledge, we still do not know how individual cells of the immune system interact with the virus or its components, or how immune homeostasis becomes disrupted, leading to the rapid deterioration of a patient’s condition. In the present work, we show that SARS-CoV-2 proteins induce the expression and secretion of IL-6 by human monocytes and macrophages, the first line cells of antiviral immune responses. IL-6 may play a negative role in the course of COVID-19 by inhibiting Th1-dependent immunity and stimulating Th17 lymphocytes, thus leading to an increased probability of a cytokine storm.
Liposomal Nanovaccine Containing α-Galactosylceramide and Ganglioside GM3 Stimulates Robust CD8+ T Cell Responses via CD169+ Macrophages and cDC1
Authors: Grabowska Joanna , Stolk Dorian A. , Nijen Twilhaar Maarten K. , Ambrosini Martino , Storm Gert , van der Vliet Hans J. , de Gruijl Tanja D. , van Kooyk Yvette , den Haan Joke M.M.
Published: January 2021

Successful anti-cancer vaccines aim to prime and reinvigorate cytotoxic T cells and should therefore comprise a potent antigen and adjuvant. Antigen targeting to splenic CD169+ macrophages was shown to induce robust CD8+ T cell responses via antigen transfer to cDC1. Interestingly, CD169+ macrophages can also activate type I natural killer T-cells (NKT). NKT activation via ligands such as α-galactosylceramide (αGC) serve as natural adjuvants through dendritic cell activation. Here, we incorporated ganglioside GM3 and αGC in ovalbumin (OVA) protein-containing liposomes to achieve both CD169+ targeting and superior DC activation. The systemic delivery of GM3-αGC-OVA liposomes resulted in specific uptake by splenic CD169+ macrophages, stimulated strong IFNγ production by NKT and NK cells and coincided with the maturation of cDC1 and significant IL-12 production. Strikingly, superior induction of OVA-specific CD8+ T cells was detected after immunization with GM3-αGC-OVA liposomes. CD8+ T cell activation, but not B cell activation, was dependent on CD169+ macrophages and cDC1, while activation of NKT and NK cells were partially mediated by cDC1. In summary, GM3-αGC antigen-containing liposomes are a potent vaccination platform that promotes the interaction between different immune cell populations, resulting in strong adaptive immunity and therefore emerge as a promising anti-cancer vaccination strategy.
Refinement of a Live Attenuated Salmonella enterica Serovar Newport Vaccine with Improved Safety
Authors: Nasrin Shamima , Fuche Fabien J. , Sears Khandra T. , Jones Jennifer A. , Levine Myron M. , Simon Raphael , Tennant Sharon M.
Published: January 2021

Non-typhoidal Salmonella (NTS) is a major cause of gastroenteritis and is responsible for approximately 93 million cases annually. In healthy individuals, gastroenteritis caused by NTS is usually self-limiting, however, NTS can cause severe invasive disease in immunocompromised patients. Very little research has been directed towards development of vaccines against Salmonella serogroups O:6,7 or O:8. We have constructed a live attenuated serogroup O:8 vaccine, CVD 1979, by deleting guaBA, htrA, and aroA from the genome of S. Newport. We have shown that the candidate vaccine is well tolerated in mice and elicits serum immunoglobulin G (IgG) antibodies against core O-polysaccharide (COPS) when administered orally. Immunized mice were challenged intraperitoneally with wild-type S. Newport and bacterial burden in the liver and spleen was found to be significantly reduced in the livers of immunized mice compared to control mice. We also observed moderate vaccine efficacy (45%) against lethal challenge with the serogroup O:8 serovar, S. Muenchen, but low vaccine efficacy (28%) following lethal challenge with a serogroup O:6,7 serovar, S. Virchow. In vitro, we have shown that antibodies generated by CVD 1979 only recognize lipopolysaccharide (LPS) from serogroup O:8 but not serogroup O:6,7 serovars, and that they mediate opsonophagocytic antibody (OPA) activity against serogroup O:8 but not serogroup O:6,7 serovars. We also showed that OPA activity can be blocked by pre-incubating the antisera with serogroup O:8 lipopolysaccharide. Taken together, our data demonstrate that we have constructed a well-tolerated, effective live attenuated S. Newport vaccine which elicits functional antibodies against serogroup O:8 but not O:6,7 serovars.
Change of Willingness to Accept COVID-19 Vaccine and Reasons of Vaccine Hesitancy of Working People at Different Waves of Local Epidemic in Hong Kong, China: Repeated Cross-Sectional Surveys
Authors: Wang Kailu , Wong Eliza Lai-Yi , Ho Kin-Fai , Cheung Annie Wai-Ling , Yau Peter Sen-Yung , Dong Dong , Wong Samuel Yeung-Shan , Yeoh Eng-Kiong
Published: January 2021

Vaccine hesitancy is among the major threats to the effectiveness of vaccination programmes. This study aimed to report the trend in response to willingness to accept the COVID-19 vaccine between two waves of the local epidemic and examine differences among occupations. Two cross-sectional surveys were conducted online during the first wave (February) and third wave (August to September) of the local epidemic in 2020. Acceptance of the COVID-19 vaccine was measured along with personal protection behaviours and occupations. A total of 2047 participants provided valid responses. The willingness to accept the COVID-19 vaccine among the participants was lower in the third wave (34.8%) than the first wave (44.2%). There were more concerns over vaccine safety in the third wave. Clerical/service/sales workers were less likely to accept the vaccine (adjusted odds ratio: 0.62, 95% confidence interval: 0.43–0.91). A high-level compliance of facemask wearing was found, and more people maintained social distancing and used alcohol hand rub in the third wave. Decreasing willingness to accept the COVID-19 vaccine may be associated with increasing concerns about vaccine safety and growing compliance of personal protection behaviours. The rush of vaccine development with higher risks of safety issues may jeopardize the public’s trust and lower uptake rates. Education and favourable policy should be provided to the general working population for the vaccination, especially for those who are not professional and are frequently exposed to crowds.
HPV Vaccination Attitudes and Behaviors among General Practitioners in Italy
Authors: Napolitano Francesco , Pelullo Concetta Paola , Della Polla Giorgia , Angelillo Italo Francesco
Published: January 2021

This cross-sectional electronic online or telephone survey assessed the attitudes and behaviors regarding human papillomavirus (HPV) vaccination and the effect of different factors among a nationally representative random sample of 349 general practitioners (GPs) in Italy. A semi-structured interview was performed between September 2018 and October 2020. Almost all respondents considered the HPV vaccine safe with an overall mean value of 8.8, on a scale ranging from 1 to 10, and 59.9% and 32.6% believed that the vaccination was very effective in preventing the related diseases among 12–26 years’ girls and boys. Multivariate logistic regression analysis showed that GPs who had received information about HPV vaccination from scientific journals were more likely to have positive attitude towards the effectiveness of the vaccine in preventing HPV-related diseases in girls between 12–26 years. A large majority (81.5%) of GPs who provided assistance to girls’ patients aged 11–12 years often or always recommend the HPV vaccine to them, and this behavior was more likely to occur in those who believed that the vaccine was very effective in preventing HPV-related diseases in girls between 12–26 years. GPs were more likely to often or always recommend the HPV vaccine to boys aged 11–12 years if they often or always recommended the vaccine to girls aged 11–12 years, if they believed that the vaccine was very effective in preventing HPV-related diseases in boys between 12–26 years, and if they considered the HPV vaccine very safe. GPs should receive information about the HPV immunization to ensure that they routinely communicate with their patient population in order to achieve better coverage rates.
Tumor-Infiltrating Lymphoid Cells in Colorectal Cancer Patients with Varying Disease Stages and Microsatellite Instability-High/Stable Tumors
Authors: Toor Salman M. , Sasidharan Nair Varun , Murshed Khaled , Abu Nada Mohamed , Elkord Eyad
Published: January 2021

Immune checkpoint inhibition is an effective anti-cancer therapeutic approach but has shown limited efficacy in treating colorectal cancer (CRC) patients. Importantly, immune constituents of the tumor microenvironment (TME) can influence therapy response and cancer progression. We investigated the expression of immune checkpoints (ICs) on lymphoid populations within the CRC TME and compared with cells from normal colon tissues using samples from 50 patients with varying disease stages. We found that the levels of B cells, T cells, and NK cells were similar, IC-expressing CD4+ and CD4+CD8+ double positive T cells were higher, while CD8+ T cells and CD4−CD8− double negative T cells were significantly lower in CRC tumors. Notably, patients with mismatch-repair deficiency/microsatellite instability-high tumors had higher levels of IC-expressing CD4+ and CD8+ T cells than patients with proficient MMR and microsatellite stable tumors. Lastly, The Cancer Genome Atlas Colon Adenocarcinoma datasets showed associations between low expression of selective genes and poorer progression-free interval. Our findings highlight differential expression of ICs on lymphoid cells in CRC tumors in the era of cancer immunotherapy, which at present is solely approved for anti-PD-1 therapy in patients with dMMR/MSI-H tumors. Further investigations into their functionality have potentials for deciphering resistance mechanisms to IC inhibition.
Nanomaterial Delivery Systems for mRNA Vaccines
Authors: Buschmann Michael D. , Carrasco Manuel J. , Alishetty Suman , Paige Mikell , Alameh Mohamad Gabriel , Weissman Drew
Published: January 2021

The recent success of mRNA vaccines in SARS-CoV-2 clinical trials is in part due to the development of lipid nanoparticle delivery systems that not only efficiently express the mRNA-encoded immunogen after intramuscular injection, but also play roles as adjuvants and in vaccine reactogenicity. We present an overview of mRNA delivery systems and then focus on the lipid nanoparticles used in the current SARS-CoV-2 vaccine clinical trials. The review concludes with an analysis of the determinants of the performance of lipid nanoparticles in mRNA vaccines.
Human Transcriptomic Response to the VSV-Vectored Ebola Vaccine
Authors: Santoro Francesco , Donato Alessia , Lucchesi Simone , Sorgi Sara , Gerlini Alice , Haks Marielle , Ottenhoff Tom , Gonzalez-Dias Patricia , Consortium VSV-EBOVAC , Consortium VSV-EBOPLUS , Nakaya Helder , Huttner Angela , Siegrist Claire-Anne , Medaglini Donata , Pozzi Gianni
Published: January 2021

Ebolavirus Disease (EVD) is a severe haemorrhagic fever that occurs in epidemic outbreaks, with a high fatality rate and no specific therapies available. rVSVΔG-ZEBOV-GP (Ervebo®), a live-attenuated recombinant vesicular stomatitis virus vector expressing the glycoprotein G of Zaire Ebolavirus, is the first vaccine approved for prevention of EVD. Both innate and adaptive responses are deemed to be involved in vaccine-induced protection, yet the mechanisms are not fully elucidated. A global transcriptomic approach was used to profile the blood host-response in 51 healthy volunteers enrolled in a phase 1/2 clinical trial. Signatures of the host responses were investigated assessing the enrichment in differentially expressed genes (DEGs) of specific “blood transcription modules” (BTM). Comparison of gene-expression levels showed that vaccination produces a peak of 5469 DEGs at day one, representing 38.6% of the expressed genes. Out of 346 BTMs, 144 were significantly affected by vaccination. Innate immunity pathways were induced from day 1 to day 14. At days 2 and 3, neutrophil modules were downregulated and complement-related modules upregulated. T-cell and cell-cycle associated modules were upregulated at days 7 and 14, while at day 28, no modules remained activated. At day 14, a direct correlation was observed between ZEBOV glycoprotein-specific antibody titres and activation of seven BTMs, including two related to B-cell activation and B cell receptor signalling. Transcriptomic analysis identified an rVSVΔG-ZEBOV-GP-induced signature and demonstrated a direct correlation of blood transcriptomic changes with ZEBOV glycoprotein-specific antibody titres.
Month of Influenza Virus Vaccination Influences Antibody Responses in Children and Adults
Authors: Penkert Rhiannon R. , Patel Nehali , Webby Richard J. , Ross Ted M. , Hurwitz Julia L.
Published: January 2021

The improvement of influenza virus vaccines and the development of a universal product have been long-standing goals in pre-clinical and clinical research. To meet these goals and to understand the strengths and weaknesses of current vaccine strategies, scientists routinely study human responses toward seasonal influenza vaccines. This research is frequently performed with clinical samples taken throughout an influenza season, often without strict attention to the month of inoculation for each study participant. Here, we ask how the timing of vaccination affects outcomes. Results demonstrate significant influences of inoculation month on the immune response. During the progression from fall to winter months, there are changes in host lifestyles and in the frequencies of clinical/sub-clinical viral infections that can significantly alter vaccine immunogenicity. We now recommend routine assessment of inoculation month during clinical studies to inform data interpretation and expedite the development of successful vaccines. This recommendation is pertinent to numerous vaccine development efforts within and outside the influenza virus field.
Evaluation of the Hepatitis B Vaccination Programme in Medical Students in a Dutch University Hospital
Authors: van Leeuwen Leanne P. M. , Doornekamp Laura , Goeijenbier Simone , de Jong Wesley , de Jager Herbert J. , van Gorp Eric C. M. , Goeijenbier Marco
Published: January 2021

Healthcare workers (HCW) are at increased risk of contracting hepatitis B virus (HBV) and are, therefore, vaccinated pre-exposure. In this study, the HBV vaccination programme for medical students in a university hospital in the Netherlands was evaluated. In the first part, the effectiveness of the programme, which consisted of a vaccination with Engerix-B® at 0, 1, and 6 months, was retrospectively evaluated over 7 years (2012–2019). In the second part of this study, we followed students (the 2019 cohort) who had previously been vaccinated against HBV vaccination (4–262 months prior to primary presentation) in order to investigate the most efficient strategy to obtain an adequate anti hepatitis B surface antigen titre. In the latter, titre determination was performed directly during primary presentation instead of giving previously vaccinated students a booster vaccination first. The vaccination programme, as evaluated in the retrospective first part of the study, was effective (surpassed the protection limit of 10 IU/L) in 98.8 percent of the students (95% CI (98.4–99.2)). In the second part of our study, we found that 80 percent (95% CI (70–87)) of the students who had previously been vaccinated against HBV were still sufficiently protected and did not require a booster vaccination. With this strategy, the previously vaccinated students needed an average of 1.4 appointments instead of the 2 appointments needed with the former strategy. This knowledge is important and can save time and resources in the process of occupational HBV vaccination of HCW.
Adjuvant Selection for Influenza and RSV Prefusion Subunit Vaccines
Authors: Isaacs Ariel , Li Zheyi , Cheung Stacey T. M. , Wijesundara Danushka K. , McMillan Christopher L. D. , Modhiran Naphak , Young Paul R. , Ranasinghe Charani , Watterson Daniel , Chappell Keith J.
Published: January 2021

Subunit vaccines exhibit favorable safety and immunogenicity profiles and can be designed to mimic native antigen structures. However, pairing with an appropriate adjuvant is imperative in order to elicit effective humoral and cellular immune responses. In this study, we aimed to determine an optimal adjuvant pairing with the prefusion form of influenza haemagglutinin (HA) or respiratory syncytial virus (RSV) fusion (F) subunit vaccines in BALB/c mice in order to inform future subunit vaccine adjuvant selection. We tested a panel of adjuvants, including aluminum hydroxide (alhydrogel), QS21, Addavax, Addavax with QS21 (AdQS21), and Army Liposome Formulation 55 with monophosphoryl lipid A and QS21 (ALF55). We found that all adjuvants elicited robust humoral responses in comparison to placebo, with the induction of potent neutralizing antibodies observed in all adjuvanted groups against influenza and in AdQS21, alhydrogel, and ALF55 against RSV. Upon HA vaccination, we observed that none of the adjuvants were able to significantly increase the frequency of CD4+ and CD8+ IFN-γ+ cells when compared to unadjuvanted antigen. The varying responses to antigens with each adjuvant highlights that those adjuvants most suited for pairing purposes can vary depending on the antigen used and/or the desired immune response. We therefore suggest that an adjuvant trial for different subunit vaccines in development would likely be necessary in preclinical studies.
Newcastle Disease Virus-Like Particles Displaying Prefusion-Stabilized SARS-CoV-2 Spikes Elicit Potent Neutralizing Responses
Authors: Yang Yongping , Shi Wei , Abiona Olubukola M. , Nazzari Alexandra , Olia Adam S. , Ou Li , Phung Emily , Stephens Tyler , Tsybovsky Yaroslav , Verardi Raffaello , Wang Shuishu , Werner Anne , Yap Christina , Ambrozak David , Bylund Tatsiana , Liu Tracy , Nguyen Richard , Wang Lingshu , Zhang Baoshan , Zhou Tongqing , Chuang Gwo-Yu , Graham Barney S. , Mascola John R. , Corbett Kizzmekia S. , Kwong Peter D.
Published: January 2021

The COVID-19 pandemic highlights an urgent need for vaccines that confer protection from SARS-CoV-2 infection. One approach to an effective COVID-19 vaccine may be through the display of SARS-CoV-2 spikes on the surface of virus-like particles, in a manner structurally mimicking spikes on a native virus. Here we report the development of Newcastle disease virus-like particles (NDVLPs) displaying the prefusion-stabilized SARS-CoV-2 spike ectodomain (S2P). Immunoassays with SARS-CoV-2-neutralizing antibodies revealed the antigenicity of S2P-NDVLP to be generally similar to that of soluble S2P, and negative-stain electron microscopy showed S2P on the NDVLP surface to be displayed with a morphology corresponding to its prefusion conformation. Mice immunized with S2P-NDVLP showed substantial neutralization titers (geometric mean ID50 = 386) two weeks after prime immunization, significantly higher than those elicited by a molar equivalent amount of soluble S2P (geometric mean ID50 = 17). Neutralizing titers at Week 5, two weeks after a boost immunization with S2P-NDVLP doses ranging from 2.0 to 250 μg, extended from 2125 to 4552, and these generally showed a higher ratio of neutralization versus ELISA than observed with soluble S2P. Overall, S2P-NDVLP appears to be a promising COVID-19 vaccine candidate capable of eliciting substantial neutralizing activity.
Adjuvantation of Influenza Vaccines to Induce Cross-Protective Immunity
Authors: Li Zhuofan , Zhao Yiwen , Li Yibo , Chen Xinyuan
Published: January 2021

Influenza poses a huge threat to global public health. Influenza vaccines are the most effective and cost-effective means to control influenza. Current influenza vaccines mainly induce neutralizing antibodies against highly variable globular head of hemagglutinin and lack cross-protection. Vaccine adjuvants have been approved to enhance seasonal influenza vaccine efficacy in the elderly and spare influenza vaccine doses. Clinical studies found that MF59 and AS03-adjuvanted influenza vaccines could induce cross-protective immunity against non-vaccine viral strains. In addition to MF59 and AS03 adjuvants, experimental adjuvants, such as Toll-like receptor agonists, saponin-based adjuvants, cholera toxin and heat-labile enterotoxin-based mucosal adjuvants, and physical adjuvants, are also able to broaden influenza vaccine-induced immune responses against non-vaccine strains. This review focuses on introducing the various types of adjuvants capable of assisting current influenza vaccines to induce cross-protective immunity in preclinical and clinical studies. Mechanisms of licensed MF59 and AS03 adjuvants to induce cross-protective immunity are also introduced. Vaccine adjuvants hold a great promise to adjuvant influenza vaccines to induce cross-protective immunity.
Screening of Cyanide-Utilizing Bacteria from Rumen and In Vitro Evaluation of Fresh Cassava Root Utilization with Pellet Containing High Sulfur Diet
Authors: Prachumchai Rittikeard , Cherdthong Anusorn , Wanapat Metha
Published: January 2021

Two experiments were undertaken to screen for ruminal cyanide-utilizing bacteria (Experiment 1), and to evaluate the influence of fresh cassava root (FCR) and pellets containing high sulfur (PELFUR) on cyanide content, gas production parameters, in vitro degradability, and ruminal fermentation (Experiment 2). Experiment 1 was conducted in a completely randomized design (CRD) for the screening of cyanide-utilizing bacteria and the dietary treatments consisted of cyanide at 0, 150, 300, and 450 ppm. In Experiment 2, a 5 × 3 factorial arrangement in a completely randomized design was used for the in vitro study. Factor A was the level of FCR at 0, 260, 350, 440, and 530 g/kg of dry matter (DM) substrate, and factor B was the level of PELFUR at 0, 15, and 30 g/kg DM substrate. In Experiment 1, adding different doses of cyanide significantly affected cyanide-utilizing rumen bacterial growth (p < 0.05). Increasing the concentration of cyanide from 0 to 150 and 150 to 300 ppm resulted in increases in cyanide-utilizing rumen bacteria of 38.2% and 15.0%, respectively. In Experiment 2, no interaction effects were found between FCR and PELFUR doses on gas production parameters (p > 0.05). Increasing the FCR level to more than 260 g/kg of DM substrate could increase cumulative gas production (p < 0.05). Increasing doses of PELFUR from 15 to 30 g/kg increased the cumulative gas production when compared with that of 0 g PELFUR/kg of DM substrate (p < 0.05). The cyanide concentration in rumen fluid decreased with PELFUR (p < 0.05) supplementation. Degradability of in vitro DM and organic matter following incubation increased at 12 and 24 h due to PELFUR supplementation with FCR and increased additionally with 15 g PELFUR/kg of DM substrate (p < 0.05) in 440 g FCR/kg of DM substrate. Proportions of the total volatile fatty acids, acetic acid (C2), propionic acid (C3), and butyric acid among supplementations with FCR (p < 0.05) were significantly different. In conclusion, the present results represent the first finding of bacteria in the rumen that are capable of utilizing cyanide, and suggests that cyanide might function as a nitrogen source for bacterial cell synthesis. The inclusion of FCR of 530 g/kg with 30 g PELFUR/kg of DM substrate could increase the cumulative gas production, the bacterial population, the in vitro degradability, the proportion of C3, and the rate of the disappearance of cyanide.
Diagnosis and Treatment of Snake Envenomation in Dogs in Queensland, Australia
Authors: Valenza Ludovica , Allavena Rachel , Haworth Mark , Cochrane Jonathon , Henning Joerg
Published: January 2021

Australia has some of the most venous snakes in the world, and envenomations of domestic dogs are common, but clinical signs as well as the diagnostic procedures and treatments of snake envenomations are poorly described. Therefore, we invited veterinary clinics in the state of Queensland, Australia, to provide detailed data on snake envenomation cases in dogs. A total of 230 cases were reported from 19 veterinary hospitals, with an average of 12.1 dogs per clinic, per year. Detailed case data were provided from 20 dogs—of these, 65.0% (13/20) were envenomated during the daytime, with collapse and paresis being the most common signs reported by owners. The median time between the onset of clinical signs and admission to the veterinary hospital was 60 min. Clinical signs were the sole diagnostic modality utilised by veterinarians in 30.0% (6/20) of cases. Activated clotting time was the most common diagnostic procedure conducted, while snake venom detection kits (SVDK) were only used in 15.0% (3/20) of cases. Of the dogs that received antivenom (85.0%, 17/20), the tiger/multibrown combination (3000 units tiger/4000 units brown) was predominately (13/17) provided. Three of the 17 dogs that received antivenom (17.6%) died or were euthanised. About 82.4% (14/17) of the dogs treated with antivenom, but only 33.3% (1/3) of the dogs not treated with antivenom, recovered (p = 0.140). Overall, veterinarians relied frequently on medical history, clinical signs, and diagnostic tests other than the SVDK and, thus, most likely, administered snake envenomation treatment based on their clinical experience.
Trichuris spp. in Animals, with Specific Reference to Neo-Tropical Rodents
Authors: Jones Kegan Romelle
Published: January 2021

Trichuriasis is the clinical disease of animals infected with the parasite of the genus Trichuris. This review attempts to present information on Trichuris spp. infestation in neo-tropical rodents that are utilized for meat consumption by humans. Neo-tropical rodents utilized for meat production can be divided into two categories: those that have been domesticated, which include the guinea pig (Cavia porcellus), and those that are on the verge of domestication, such as the capybara (Hydrochoerus hydrochaeris), lappe (Cuniculus paca/Agouti paca), and agouti (Dasyprocta leporina). This document reviews the literature on the species of Trichuris that affects the rodents mentioned above, as well as the clinical signs observed. The literature obtained spans over sixty years, from 1951 to 2020. Trichuris spp. was found in these neo-tropical rodents mentioned. However, there is a dearth of information on the species of Trichuris that parasitize these animals. The capybara was the only rodent where some molecular techniques were used to identify a new species named T. cutillasae. In most cases, Trichuris spp. was found in combination with other endoparasites, and was found at a low prevalence in the lappe and guinea pig. The presence of Trichuris spp. ranged from 4.62–53.85% in the agouti, 4.21–10.00% in the lappe, 50% in the capybaras, and 1–31% in guinea pigs. Further work must be done towards molecular identification of various Trichuris spp. present in these rodents, as well as the clinical effect of infection on the performance of agouti, lappe, capybara, and guinea pigs.
Prevalence of Feline Immunodeficiency Virus and Toxoplasma gondii in Feral Cats on St. Kitts, West Indies
Authors: Chi Xinyu , Fang Kexin , Koster Liza , Christie Jevan , Yao Chaoqun
Published: January 2021

Toxoplasma gondii (T. gondii) is a cosmopolitan protozoan parasite that infects all warm-blooded species including humans. The definitive hosts of T. gondii are felid vertebrates including the domestic cat. Domestic cats shed oocysts for approximately two weeks in their feces after the primary infection. It has been shown that feline immunodeficiency virus (FIV) positive cats have a higher prevalence of and a higher titer of antibodies to T. gondii than those of FIV-negative cats. The main purposes of this study were to determine FIV prevalence and to investigate the oocysts shedding in FIV-positive and FIV-negative feral cats on St. Kitts. Fecal samples were collected from feral cats while their FIV statues were determined using a commercial SNAP kit. Total fecal DNA of each cat was tested for the presence of T. gondii DNA using a polymerase chain reaction (PCR) consistently detecting one genome equivalent. A FIV-positive status was detected in 18 of 105 (17.1%, 95% confidence interval (CI): 9.9%−24.3%) feral cats sampled. Furthermore, males were three times more likely to be FIV positive than females (p = 0.017) with an odds ratio of 3.93 (95% CI: 1.20–12.89). Adults were found to have at least twice the prevalence of FIV compared to cats younger than one year of age (p = 0.056) with an odds ratio of 3.07 (95% CI: 0.94–10.00). Toxoplasma gondii DNA was not detected in the feces of any of the 18 FIV-positive (95% CI: 0%−0.18%) and 87 FIV-negative cats (95% CI: 0%−0.04%). A follow-up study with a much bigger sample size is needed to prove or disprove the hypothesis that FIV-positive cats have a higher prevalence of shedding T. gondii oocysts than FIV-negative cats.
Using Critical Environmental Agency to Engage Teachers in Local Watersheds through Water Quality Citizen Science
Authors: Huffling Lacey D. , Scott Heather C.
Published: January 2021

This qualitative study explores teachers’ critical environmental agency (CEA) through deepening content knowledge, engaging in identity development, developing a critical consciousness of place, and moving toward civic action. We explored the meanings secondary science teachers made of an on-going professional development (PD) situated in the Okefenokee Swamp (unique ecosystem that drains to Gulf of Mexico and Atlantic Ocean) and focused on local watershed citizen science monitoring and the global implications of all water being connected. Data analyses focused on how the nineteen teachers’ experiences and meanings were leveraged to develop CEA and the constraints that restricted their CEA development. Our findings broaden the understanding of how teachers, who teach historically underrepresented youth in low socioeconomic rural areas, come to see themselves as people who care about the environment and become empowered to envision a more sustainable future for their students and communities.
Cometabolism of the Superphylum Patescibacteria with Anammox Bacteria in a Long-Term Freshwater Anammox Column Reactor
Authors: Hosokawa Suguru , Kuroda Kyohei , Narihiro Takashi , Aoi Yoshiteru , Ozaki Noriatsu , Ohashi Akiyoshi , Kindaichi Tomonori
Published: January 2021

Although the anaerobic ammonium oxidation (anammox) process has attracted attention regarding its application in ammonia wastewater treatment based on its efficiency, the physiological characteristics of anammox bacteria remain unclear because of the lack of pure-culture representatives. The coexistence of heterotrophic bacteria has often been observed in anammox reactors, even in those fed with synthetic inorganic nutrient medium. In this study, we recovered 37 draft genome bins from a long-term-operated anammox column reactor and predicted the metabolic pathway of coexisting bacteria, especially Patescibacteria (also known as Candidate phyla radiation). Genes related to the nitrogen cycle were not detected in Patescibacterial bins, whereas nitrite, nitrate, and nitrous oxide-related genes were identified in most of the other bacteria. The pathway predicted for Patescibacteria suggests the lack of nitrogen marker genes and its ability to utilize poly-N-acetylglucosamine produced by dominant anammox bacteria. Coexisting Patescibacteria may play an ecological role in providing lactate and formate to other coexisting bacteria, supporting growth in the anammox reactor. Patescibacteria-centric coexisting bacteria, which produce anammox substrates and scavenge organic compounds produced within the anammox reactor, might be essential for the anammox ecosystem.
Current and Emerging Adsorbent Technologies for Wastewater Treatment: Trends, Limitations, and Environmental Implications
Authors: Younas Fazila , Mustafa Adnan , Farooqi Zia Ur Rahman , Wang Xiukang , Younas Sadia , Mohy-Ud-Din Waqas , Ashir Hameed Muhammad , Mohsin Abrar Muhammad , Maitlo Ali Akbar , Noreen Saima , Hussain Muhammad Mahroz
Published: January 2021

Wastewater generation and treatment is an ever-increasing concern in the current century due to increased urbanization and industrialization. To tackle the situation of increasing environmental hazards, numerous wastewater treatment approaches are used—i.e., physical, chemical, and biological (primary to tertiary treatment) methods. Various treatment techniques being used have the risks of producing secondary pollutants. The most promising technique is the use of different materials as adsorbents that have a higher efficacy in treating wastewater, with a minimal production of secondary pollutants. Biosorption is a key process that is highly efficient and cost-effective. This method majorly uses the adsorption process/mechanism for toxicant removal from wastewater. This review elaborates the major agricultural and non-agricultural materials-based sorbents that have been used with their possible mechanisms of pollutant removal. Moreover, this creates a better understanding of how the efficacy of these sorbents can be enhanced by modification or treatments with other substances. This review also explains the re-usability and mechanisms of the used adsorbents and/or their disposal in a safe and environmentally friendly way, along with highlighting the major research gaps and potential future research directions. Additionally, the cost benefit ratio of adsorbents is elucidated.
Planning the Urban Waterfront Transformation, from Infrastructures to Public Space Design in a Sea-Level Rise Scenario: The European Union Prize for Contemporary Architecture Case
Authors: Dal Cin Francesca , Hooimeijer Fransje , Matos Silva Maria
Published: January 2021

Future sea-level rises on the urban waterfront of coastal and riverbanks cities will not be uniform. The impact of floods is exacerbated by population density in nearshore urban areas, and combined with land conversion and urbanization, the vulnerability of coastal towns and public spaces in particular is significantly increased. The empirical analysis of a selected number of waterfront projects, namely the winners of the Mies Van Der Rohe Prize, highlighted the different morphological characteristics of public spaces, in relation to the approximation to the water body: near the shoreline, in and on water. The critical reading of selected architectures related to water is open to multiple insights, allowing to shift the design attention from the building to the public space on the waterfronts. The survey makes it possible to delineate contemporary features and lay the framework for urban development in coastal or riverside areas.
How to Assess the Ecological Status of Highly Humic Lakes? Development of a New Method Based on Benthic Invertebrates
Authors: Ozoliņš Dāvis , Skuja Agnija , Jēkabsone Jolanta , Kokorite Ilga , Avotins Andris , Poikane Sandra
Published: January 2021

Highly humic lakes are typical for the boreal zone. These unique ecosystems are characterised as relatively undisturbed habitats with brown water, high acidity, low nutrient content and lack of macrophytes. Current lake assessment methods are not appropriate for ecological assessment of highly humic lakes because of their unique properties and differing human pressures acting on these ecosystems. This study proposes a new approach suitable for the ecological status assessment of highly humic lakes impacted by hydrological modifications. Altogether, 52 macroinvertebrate samples from 15 raised bog lakes were used to develop the method. The studied lakes are located in the raised bogs at the central and eastern parts of Latvia. Altered water level was found as the main threat to the humic lake habitats since no other pressures were established. A multimetric index based on macroinvertebrate abundance, littoral and profundal preferences, Coleoptera taxa richness and the Biological Monitoring Working Party (BMWP) Score is suggested as the most suitable tool to assess the ecological quality of the highly humic lakes.
The Status of Arsenic Pollution in the Greek and Cyprus Environment: An Overview
Authors: Golfinopoulos Spyros , Varnavas Soterios , Alexakis Dimitrios
Published: January 2021

This study presents an overview about the arsenic (As) contamination and its sources in two European countries. Arsenic is a highly toxic element in its inorganic form and it is carcinogenic to human seven in low concentrations. The occurrence of As in surface water, stream and marine waters, groundwater, bottled water, sediment, soil, mines, and seafood, its environmental origin, and its impacts on human health are discussed. The classes of Geoaccumulation Index for As in Greece ranges from practically uncontaminated to extremely contaminated, and in Cyprus varies between practically uncontaminated and heavily contaminated. In many cases, the As contamination reaches very high concentrations and the impacts may be crucial for the human health and ecosystems. Physicochemical properties, regional climate and geological setting are controlling the occurrence and transport of As. In Greece and Cyprus, the geology, lithology, and ore-deposits are the most important factors for the variation of As contents in water, soil, and sediment. The dominant As species are also determined by the location and the redox conditions. The findings of this paper may be useful for scientists and stakeholders monitoring the studied areas and applying measures for protection of the human and terrestrial ecological receptors (plants, avian, mammals).
Checking the Plausibility of Modelled Nitrate Concentrations in the Leachate on Federal State Scale in Germany
Authors: Wolters Tim , Cremer Nils , Eisele Michael , Herrmann Frank , Kreins Peter , Kunkel Ralf , Wendland Frank
Published: January 2021

In Germany, modelled nitrate concentrations in the leachate are of great importance for the development of scenarios for the long-term achievement of the groundwater quality target according to the specific requirements of the EU Water Framework Directive as well as within the context of the recently adopted general administrative regulation for the designation of nitrate-polluted areas in Germany. For the German federal states of North Rhine-Westphalia (NRW) and Rhineland-Palatinate (RLP), an area-covering modelling of mean long-term nitrate concentrations in leachate with high spatial resolution was carried out using the model system RAUMIS-mGROWA-DENUZ. Hotspot regions with nitrate concentrations in the leachate of 50 mg NO3/L and more were identified for intensively farmed areas in the Münsterland, Lower Rhine, and Vorderpfalz. The validity of modelled values was checked using measured values from 1119 preselected monitoring stations from shallow springs and aquifers filtered near to the surface with oxidizing properties. For the land use categories of urban areas, arable land, grassland, and forest, an at least good agreement of modelled nitrate concentrations in the leachate and measured nitrate concentrations in groundwater was obtained at numerous sites. An equally good agreement was obtained for 1461 measuring stations from the area of responsibility of the Erftverband, which is a major water supplier in the Lower Rhine region. Here, discrepancies have been analyzed in detail due to profound regional knowledge on observation sites. It turned out that in most cases, accuracy limitations of input data (e.g., N balance surpluses of agriculture at the municipal level, 1:50,000 soil map) have been the reason for larger deviations between observed and modelled values. In a broader sense, the case study has shown on the one hand that the model system RAUMIS-mGROWA-DENUZ is able to reliably represent interrelationships and influencing factors that determine simulated nitrate concentrations in the leachate. On the other hand, it has been proven that observed nitrate concentrations in groundwater may provide a solid data source for checking the plausibility of modelled nitrate concentrations in leachate in cases where certain preselection criteria are applied.
Improving Thermal Distribution in Water-Cooled PV Modules and Its Effect on RO Permeate Recovery
Authors: Suzuki Valenzuela Mario F. , Sánchez Soto Fernando , Armendáriz-Ontiveros María Magdalena , Sosa-Tinoco Ian M. , Fimbres Weihs Gustavo A.
Published: January 2021

Among the most notable emerging hybrid technologies for water treatment are those that combine reverse osmosis (RO) membrane systems with alternative energy sources such as solar photovoltaic (PV). Solar PV modules can enable systems disconnected from the electricity grid, and in some locations can also be used for water heating as photovoltaic-thermal (PVT) units, a process in which water removes heat from the PV module, increasing its electrical generation efficiency. When combined with RO, the higher temperature feed water can increase RO permeate flux, improving recovery but decreasing the rejection of dissolved salts. Although the decrease in efficiency of PV modules at higher temperatures is a well-known issue, this is usually under conditions of uniform temperature. However, the temperature distribution in water-cooled PV modules is usually not uniform and, given the anisotropy of the distribution and electrical connection of the PV cells in the module, this factor has not been the focus of much study. In this context, a PVT unit that focuses on increasing the output water temperature with a high global heat transfer coefficient will not necessarily be the most electrically efficient system. This study experimentally assesses several proposed heat-exchange configurations for PVT systems where the PV modules are cooled by forced convective water flow. A simulation model of PVT performance is then validated and used to predict the productivity of the PVT-RO coupling, both in terms of electrical generation and permeate flux of the hybrid system under different conditions. The results suggest that water-cooled PV modules have several potential applications for off-grid and remote water treatment, as well as water transportation systems.