bluuebunny/crossref_metadata_2025 huggingface dataset:
Microbiota and Transcriptomic Effects of an Essential Oil Blend and Its Delivery Route Compared to an Antibiotic Growth Promoter in Broiler Chickens
Authors: Oladokun Samson , Clark K. Fraser , Adewole Deborah I.
Published: April 2022

This study evaluated the effect of the delivery of a commercial essential oil blend containing the phytonutrients star anise, cinnamon, rosemary, and thyme oil (via different routes) on broiler chickens’ ileal and ceca microbiota and liver transcriptome compared to an antibiotic growth promoter. Eggs were incubated and allocated into three groups: non-injected, in ovo saline, and in ovo essential oil. On day 18 of incubation, 0.2 mL of essential oil in saline (dilution ratio of 2:1) or saline alone was injected into the amnion. At hatch, chicks were assigned to post-hatch treatment combinations: (A) a negative control (corn-wheat-soybean diet), (B) in-feed antibiotics, (C) in-water essential oil (250 mL/1000 L of drinking water), (D) in ovo saline, (E) in ovo essential oil, and (F) in ovo essential oil plus in-water essential oil in eight replicate cages (six birds/cage) and raised for 28 days. On days 21 and 28, one and two birds per cage were slaughtered, respectively, to collect gut content and liver tissues for further analysis. Alpha and beta diversity differed significantly between ileal and ceca samples but not between treatment groups. In-feed antibiotic treatment significantly increased the proportion of specific bacteria in the family Lachnospiraceae while reducing the proportion of bacteria in the genus Christensenellaceae in the ceca, compared to other treatments. Sex-controlled differential expression of genes related to cell signaling and tight junctions were recorded. This study provides data that could guide the use of these feed additives and a foundation for further research.
Correction: Semenova et al. Physiological and Genomic Characterization of Actinotalea subterranea sp. nov. from Oil-Degrading Methanogenic Enrichment and Reclassification of the Family Actinotaleaceae. Microorganisms 2022, 10, 378
Authors: Semenova Ekaterina M. , Grouzdev Denis S. , Sokolova Diyana S. , Tourova Tatiyana P. , Poltaraus Andrey B. , Potekhina Natalia V. , Shishina Polina N. , Bolshakova Maria A. , Avtukh Alexander N. , Ianutsevich Elena A. , Tereshina Vera M. , Nazina Tamara N.
Published: April 2022

The authors wish to make the following correction to this paper [...]
Identification and Validation of Toxoplasma gondii Mitoribosomal Large Subunit Components
Authors: Shikha Shikha , Silva Mariana Ferreira , Sheiner Lilach
Published: April 2022

Mitochondrial ribosomes are fundamental to mitochondrial function, and thus survival, of nearly all eukaryotes. Despite their common ancestry, mitoribosomes have evolved divergent features in different eukaryotic lineages. In apicomplexans, the mitochondrial rRNA is extremely fragmented raising questions about its evolution, protein composition and structure. Apicomplexan mitochondrial translation and the mitoribosomes are essential in all parasites and life stages studied, highlighting mitoribosomes as a promising target for drugs. Still, the apicomplexan mitoribosome is understudied, with one of the obstacles being that its composition is unknown. Here, to facilitate the study of apicomplexan mitoribosomes, we identified and validated components of the mitoribosomal large subunit in the model apicomplexan Toxoplasma gondii.
Exploitation of Plant Growth Promoting Bacteria for Sustainable Agriculture: Hierarchical Approach to Link Laboratory and Field Experiments
Authors: Massa Federica , Defez Roberto , Bianco Carmen
Published: April 2022

To feed a world population, which will reach 9.7 billion in 2050, agricultural production will have to increase by 35–56%. Therefore, more food is urgently needed. Yield improvements for any given crop would require adequate fertilizer, water, and plant protection from pests and disease, but their further abuse will be economically disadvantageous and will have a negative impact on the environment. Using even more agricultural inputs is simply not possible, and the availability of arable land will be increasingly reduced due to climate changes. To improve agricultural production without further consumption of natural resources, farmers have a powerful ally: the beneficial microorganisms inhabiting the rhizosphere. However, to fully exploit the benefits of these microorganisms and therefore to widely market microbial-based products, there are still gaps that need to be filled, and here we will describe some critical issues that should be better addressed.
Comparative Genomics Applied to Systematically Assess Pathogenicity Potential in Shiga Toxin-Producing Escherichia coli O145:H28
Authors: Carter Michelle Qiu , Laniohan Nicole , Lo Chien-Chi , Chain Patrick S. G.
Published: April 2022

Shiga toxin-producing Escherichia coli (STEC) O145:H28 can cause severe disease in humans and is a predominant serotype in STEC O145 environmental isolates. Here, comparative genomics was applied to a set of clinical and environmental strains to systematically evaluate the pathogenicity potential in environmental strains. While the core genes-based tree separated all O145:H28 strains from the non O145:H28 reference strains, it failed to segregate environmental strains from the clinical. In contrast, the accessory genes-based tree placed all clinical strains in the same clade regardless of their genotypes or serotypes, apart from the environmental strains. Loss-of-function mutations were common in the virulence genes examined, with a high frequency in genes related to adherence, autotransporters, and the type three secretion system. Distinct differences in pathogenicity islands LEE, OI-122, and OI-57, the acid fitness island, and the tellurite resistance island were detected between the O145:H28 and reference strains. A great amount of genetic variation was detected in O145:H28, which was mainly attributed to deletions, insertions, and gene acquisition at several chromosomal “hot spots”. Our study demonstrated a distinct virulence gene repertoire among the STEC O145:H28 strains originating from the same geographical region and revealed unforeseen contributions of loss-of-function mutations to virulence evolution and genetic diversification in STEC.
Synergistic Plant-Microbe Interactions between Endophytic Actinobacteria and Their Role in Plant Growth Promotion and Biological Control of Cotton under Salt Stress
Authors: Mohamad Osama Abdalla Abdelshafy , Liu Yong-Hong , Li Li , Ma Jin-Biao , Huang Yin , Gao Lei , Fang Bao-Zhu , Wang Shuang , El-Baz Ashraf F. , Jiang Hong-Chen , Li Wen-Jun
Published: April 2022

Bacterial endophytes are well-acknowledged inoculants to promote plant growth and enhance their resistance toward various pathogens and environmental stresses. In the present study, 71 endophytic strains associated with the medicinal plant Thymus roseus were screened for their plant growth promotion (PGP), and the applicability of potent strains as bioinoculant has been evaluated. Regarding PGP traits, the percentage of strains were positive for the siderophore production (84%), auxin synthesis (69%), diazotrophs (76%), phosphate solubilization (79%), and production of lytic enzymes (i.e., cellulase (64%), lipase (62%), protease (61%), chitinase (34%), and displayed antagonistic activity against Verticillium dahliae (74%) in vitro. The inoculation of strain XIEG05 and XIEG12 enhanced plant tolerance to salt stress significantly (p < 0.05) through the promotion of shoot, root development, and reduced the activities of antioxidant enzymes (SOD, POD, and CAT), compared with uninoculated controls in vivo. Furthermore, inoculation of strain XIEG57 was capable of reducing cotton disease incidence (DI) symptoms caused by V. dahliae at all tested salt concentrations. The GC-MS analysis showed that many compounds are known to have antimicrobial and antifungal activity. Our findings provide valuable information for applying strains XIEG05 and XIEG12 as bioinoculant fertilizers and biological control agent of cotton under saline soil conditions.
Genomic Features of the Bundle-Forming Heliobacterium Heliophilum fasciatum
Authors: Bender Kelly S. , Madigan Michael T. , Williamson Kyleigh L. , Mayer Marisa H. , Parenteau Mary N. , Jahnke Linda L. , Welander Paula V. , Sanguedolce Sophia A. , Brown Abigail C. , Sattley W. Matthew
Published: April 2022

Eight species of heliobacteria have had their genomes sequenced. However, only two of these genomes have been analyzed in detail, those from the thermophilic Heliomicrobium (Hmi.) modesticaldum and the alkaliphilic Heliorestis (Hrs.) convoluta. Here we present analyses of the draft genome sequence of a species of heliobacterium that grows optimally at a moderate temperature and neutral pH. The organism, Heliophilum (Hph.) fasciatum, is phylogenetically unique among cultured heliobacteria and was isolated from rice soil, a common habitat for heliobacteria. The Hph. fasciatum genome contains 3.14 Mbp—similar to that of other reported heliobacteria—but has a G+C base ratio that lies between that of Hmi. modesticaldum and Hrs. convoluta. Many of the genomic features of Hmi. modesticaldum and Hrs. convoluta, such as the absence of genes encoding autotrophic pathways, the presence of a superoperonal cluster of photosynthesis-related genes, and genes encoding endospore-specific proteins, are also characteristic of the Hph. fasciatum genome. However, despite the fact that Hph. fasciatum is diazotrophic, classical nif genes encoding the alpha and beta subunits of dinitrogenase (nifDK) present in other heliobacteria could not be identified. Instead, genes encoding several highly divergent NifDK homologs were present, at least one of which likely encodes a functional dinitrogenase and another a methylthio-alkane reductase (MarDK) for sulfur assimilation. A classical NifH (dinitrogenase reductase) homolog was also absent in Hph. fasciatum, but a related protein was identified that likely carries out this function as well as electron delivery to MarDK. The N2-fixing system of Hph. fasciatum is therefore distinct from that of other heliobacteria and may have unusual properties.
An Unprecedented Number of Cytochrome P450s Are Involved in Secondary Metabolism in Salinispora Species
Authors: Malinga Nsikelelo Allison , Nzuza Nomfundo , Padayachee Tiara , Syed Puleng Rosinah , Karpoormath Rajshekhar , Gront Dominik , Nelson David R. , Syed Khajamohiddin
Published: April 2022

Cytochrome P450 monooxygenases (CYPs/P450s) are heme thiolate proteins present in species across the biological kingdoms. By virtue of their broad substrate promiscuity and regio- and stereo-selectivity, these enzymes enhance or attribute diversity to secondary metabolites. Actinomycetes species are well-known producers of secondary metabolites, especially Salinispora species. Despite the importance of P450s, a comprehensive comparative analysis of P450s and their role in secondary metabolism in Salinispora species is not reported. We therefore analyzed P450s in 126 strains from three different species Salinispora arenicola, S. pacifica, and S. tropica. The study revealed the presence of 2643 P450s that can be grouped into 45 families and 103 subfamilies. CYP107 and CYP125 families are conserved, and CYP105 and CYP107 families are bloomed (a P450 family with many members) across Salinispora species. Analysis of P450s that are part of secondary metabolite biosynthetic gene clusters (smBGCs) revealed Salinispora species have an unprecedented number of P450s (1236 P450s-47%) part of smBGCs compared to other bacterial species belonging to the genera Streptomyces (23%) and Mycobacterium (11%), phyla Cyanobacteria (8%) and Firmicutes (18%) and the classes Alphaproteobacteria (2%) and Gammaproteobacteria (18%). A peculiar characteristic of up to six P450s in smBGCs was observed in Salinispora species. Future characterization Salinispora species P450s and their smBGCs have the potential for discovering novel secondary metabolites.
Placental Alterations in a Chikungunya-Virus-Infected Pregnant Woman: A Case Report
Authors: Salomão Natália , Araújo Luciana , Rabelo Kíssila , Avvad-Portari Elyzabeth , de Souza Luiz , Fernandes Regina , Valle Nathália , Ferreira Luiz , Basílio-de-Oliveira Carlos , Basílio-de-Oliveira Rodrigo , de Souza Thiara , Nunes Priscila , Carvalho Jorge , dos Santos Flavia , Paes Marciano
Published: April 2022

Chikungunya virus (CHIKV) is an arthropod-borne virus first isolated in Tanzania, Africa. The virus has spread to Asia as well as South and Central America through infected Aedes mosquitoes. Vertical transmission may also occur, and was first documented during a chikungunya outbreak in La Réunion Island in 2005. Since then, some authors have been discussing the role of the placenta in maternal–fetal CHIKV transmission. CHIKV infection is characterized by fever, headache, rash, and arthralgia. However, atypical manifestations and clinical complications, including neurological, cardiac, renal, ocular, and dermal, may occur in some cases. In this report, we describe the case of a pregnant woman infected by CHIKV during the third trimester of gestation, who presented with severe dermatological manifestations during the epidemic in Rio de Janeiro, Brazil in 2019. CHIKV RNA and antigens were detected in the placental tissue, which presented with histopathological (deciduitis, fibrin deposition, edema, fetal vessel thickening, and chorioamnionitis) and ultrastructural alterations (cytotrophoblast with mitochondrial swelling and dilated cisterns in endoplasmic reticulum, vesicles in syncytiotrophoblasts, and thickening of the basement membrane of the endothelium).
Pathogenic Leptospira Species Are Widely Disseminated among Wild Rodents in Urban Areas of Guangzhou, Southern China
Authors: Shao Jian-Wei , Wei Yue-Hong , Yao Xin-Yan , Chen Hai-Yan , Liu Hong , Sun Jing , Chen Shou-Yi
Published: April 2022

Leptospirosis is a neglected zoonotic disease with global importance caused by pathogenic Leptospira. Rodents are considered the most significant reservoirs for both human and animal infection. Historically, Guangzhou has been an endemic region of human leptospirosis. Although the incidence in humans has significantly decreased in the past decades in China, the epidemiology of pathogenic Leptospira in wild rodents is of great significance for the prevention and control of human leptospirosis. In this study, a total of 296 wild rodents were trapped in urban areas of Guangzhou, in southern China, in 2020. Three pathogenic Leptospira species, i.e., Leptospira interrogans, L. borgpetersenii, and L. kirschneri, were detected by nested PCR in this wild rodent population with an overall prevalence of 9.5%. Additionally, L. interrogans was detected in three of the four captured rodent species, and the relative high prevalence suggests that L. interrogans probably represents the preponderant species of the pathogenic Leptospira circulating in Guangzhou. Taken together, this study reveals a high genetic diversity of pathogenic Leptospira disseminated among wild rodents in the urban areas of Guangzhou and emphasizes that the risk for the occurrence of human leptospirosis in Guangzhou remains high.
Bladder Microbiota Are Associated with Clinical Conditions That Extend beyond the Urinary Tract
Authors: Hrbacek Jan , Tlaskal Vojtech , Cermak Pavel , Hanacek Vitezslav , Zachoval Roman
Published: April 2022

Background. Since the discovery of the human urinary microbiota (UM), alterations in microbial community composition have been associated with various genitourinary conditions. The aim of this exploratory study was to examine possible associations of UM with clinical conditions beyond the urinary tract and to test some of the conclusions from previous studies on UM. Methods. Catheterised urine samples from 87 men were collected prior to endoscopic urological interventions under anaesthesia. The composition of the bacterial community in urine was characterized using the hypervariable V4 region of the 16S rRNA gene. Samples from 58 patients yielded a sufficient amount of bacterial DNA for analysis. Alpha diversity measures (number of operational taxonomic units, ACE, iChao2, Shannon and Simpson indices) were compared with the Kruskal–Wallis test. Beta diversity (differences in microbial community composition) was assessed using non-metric dimensional scaling in combination with the Prevalence in Microbiome Analysis algorithm. Results. Differences in bacterial richness and diversity were observed for the following variables: age, diabetes mellitus, dyslipidemia, smoking status and single-dose preoperative antibiotics. Differences in microbial community composition were observed in the presence of chronic kidney disease, lower urinary tract symptoms and antibiotic prophylaxis. Conclusions. UM appears to be associated with certain clinical conditions, including those unrelated to the urinary tract. Further investigation is needed before conclusions can be drawn for diagnostics and treatment.
Microbiology and Epidemiology of Escherichia albertii—An Emerging Elusive Foodborne Pathogen
Authors: Muchaamba Francis , Barmettler Karen , Treier Andrea , Houf Kurt , Stephan Roger
Published: April 2022

Escherichia albertii, a close relative of E. coli, is an emerging zoonotic foodborne pathogen associated with watery diarrhea mainly in children and immunocompromised individuals. E. albertii was initially classified as eae-positive Hafnia alvei, however, as more genetic and biochemical information became available it was reassigned to its current novel taxonomy. Its infections are common under conditions of poor hygiene with confirmed transmission via contaminated water and food, mainly poultry-based products. This pathogen has been isolated from various domestic and wild animals, with most isolates being derived from birds, implying that birds among other wild animals might act as its reservoir. Due to the absence of standardized isolation and identification protocols, E. albertii can be misidentified as other Enterobacteriaceae. Exploiting phenotypes such as its inability to ferment rhamnose and xylose and PCR assays targeting E. albertii-specific genes such as the cytolethal distending toxin and the DNA-binding transcriptional activator of cysteine biosynthesis encoding genes can be used to accurately identify this pathogen. Several gaps exist in our knowledge of E. albertii and need to be bridged. A deeper understanding of E. albertii epidemiology and physiology is required to allow the development of effective measures to control its transmission and infections. Overall, current data suggest that E. albertii might play a more significant role in global infectious diarrhea cases than previously assumed and is often overlooked or misidentified. Therefore, simple, and efficient diagnostic tools that cover E. albertii biodiversity are required for effective isolation and identification of this elusive agent of diarrhea.
Combinatorial Metabolic Engineering and Enzymatic Catalysis Enable Efficient Production of Colanic Acid
Authors: Li Suwei , Xu Xianhao , Lv Xueqin , Liu Yanfeng , Li Jianghua , Du Guocheng , Liu Long
Published: April 2022

Colanic acid can promote the lifespan of humans by regulating mitochondrial homeostasis, and it has widespread applications in the field of health. However, colanic acid is produced at a low temperature (20 °C) with low titer. Using Escherichia coli K-12 MG1655, we constructed the SRP-4 strain with high colanic acid production at 30 °C by enhancing the precursor supply and relieving the regulation of transcription for colanic acid synthesis genes by the RCS system. After media optimization, the colanic acid titer increased by 579.9-fold and reached 12.2 g/L. Subsequently, we successfully purified the colanic acid hydrolase and reduced the molecular weight of colanic acid (106.854 kDa), thereby eliminating the inhibition of high-molecular-weight colanic acid on strain growth. Finally, after adding the colanic acid hydrolase (4000 U/L), the colanic acid with low molecular weight reached 24.99 g/L in 3-L bioreactor, the highest titer reported so far. This high-producing strain of colanic acid will promote the application of low-molecular-weight colanic acid in the field of health.
Litter Management Strategies and Their Impact on the Environmental and Respiratory Microbiome Might Influence Health in Poultry
Authors: Ivulic Dinka , Rossello-Mora Ramon , Viver Tomeu , Montero David A. , Vidal Sonia , Aspee Francisco , Hidalgo Héctor , Vidal Roberto
Published: April 2022

Aerial and respiratory tract-associated bacterial diversity has been scarcely studied in broiler production systems. This study examined the relationship between the environmental air and birds’ respiratory microbiome, considering a longitudinal sampling. Total viable bacteria and coliforms in the air were quantified, and the 16S rRNA gene was sequenced from tracheal and air samples obtained through a novelty protocol. Air results showed a decrease in coliforms over time. However, at week 3, we reported an increase in coliforms (from 143 to 474 CFUc/m3) associated with litter management. Additionally, 16S rRNA gene results indicated a distinctive air microbial community, associated primarily with Bacillota phylum particularly of the Bacilli class (>58%), under all conditions. Tracheal results indicated a predominance of Escherichia coli/Shigella at the beginning of the productive cycle, shifting toward the middle and end of the cycle to Gallibacterium. However, at week 3, the dominance of Escherichia coli/Shigella (>99.5%) associated with litter aeration by tumbling stood out. Tracheal and air samples displayed a statistically different community structure, but shared differentially abundant features through time: Enterococcus, Gallibacterium, and Romboutsia ilealis. These results indicate the impact of production management protocols on the birds’ respiratory system that should be considered a breakpoint in poultry farm health.
RpoE Facilitates Stress-Resistance, Invasion, and Pathogenicity of Escherichia coli K1
Authors: Fan Yu , Bai Jing , Xi Daoyi , Yang Bin
Published: April 2022

Escherichia coli K1 is the most common Gram-negative bacterium that causes neonatal meningitis; thus, a better understanding of its pathogenic molecular mechanisms is critical. However, the mechanisms by which E. coli K1 senses the signals of the host and expresses toxins for survival are poorly understood. As an extracytoplasmic function sigma factor, RpoE controls a wide range of pathogenesis-associated pathways in response to environmental stress. We found that the ΔrpoE mutant strain reduced the binding and invasion rate in human brain microvascular endothelial cells (HBMECs) in vitro, level of bacteremia, and percentage of meningitis in vivo. To confirm the direct targets of RpoE in vivo, we performed qRT-PCR and ChIP-qPCR on known toxic genes. RpoE was found to regulate pathogenic target genes, namely, ompA, cnf1, fimB, ibeA, kpsM, and kpsF directly and fimA, aslA, and traJ indirectly. The expression of these genes was upregulated when E. coli K1 was cultured with antibacterial peptides, whereas remained unchanged in the presence of the ΔrpoE mutant strain. Moreover, RpoE reduced IL-6 and IL-8 levels in E. coli K1-infected HBMECs. Altogether, these findings demonstrate that RpoE mediates the host adaptation capacity of E. coli K1 via a regulatory mechanism on virulence factors.
Municipal Landfill Leachate Treatment and Sustainable Ethanol Production: A Biogreen Technology Approach
Authors: Abobaker Mahmod Sidati Ali , Tajarudin Husnul Azan , Ahmad Abdul Latif , Wan Omar Wan Maznah , Chun Charles Ng Wai
Published: April 2022

Sustainable material sources are an important agenda to protect the environment and to meet human needs. In this study, Scenedesmus sp. was used to treat municipal landfill leachate via batch and continuous cultivation modes to protect the environment and explore sufficient biomass production for bioethanol production using Saccharomyces cerevisiae. Physicochemical characteristics of leachate were determined for the phases before, during, and after the process. Batch and continuous cultivation were used to treat raw leachate to determine optimum conditions for treatment. Then, the biomass of Scenedesmus sp. with and without sonication was used as a substrate for ethanol production. Sonication was carried out for biomass cell disruption for 20 min at a frequency of 40 kHz. Through batch cultivation mode, it was found that pH 7 was the optimum condition for leachate treatment. Continuous cultivation mode had the highest removal values for COD, phosphorus, and carbohydrate, namely 82.81%, 79.70%, and 84.35%, respectively, among other modes. As for ethanol production, biomass without sonication with 9.026 mg·L−1 ethanol, a biomass concentration of 3.300 µg·L−1, and pH 5 were higher than biomass with sonication with 5.562 mg·L−1 ethanol, a biomass concentration of 0.110 µg·L−1, and pH 5. Therefore, it is evident that the leachate has the potential to be treated by Scenedesmus sp. and converted to bioethanol in line with the concept of sustainable materials.
In Vitro Pharmacodynamics and Bactericidal Mechanism of Fungal Defensin-Derived Peptides NZX and P2 against Streptococcus agalactiae
Authors: Wu Yankang , Yang Na , Mao Ruoyu , Hao Ya , Teng Da , Wang Jianhua
Published: April 2022

(1) Background: Based on the hazard of Streptococcus agalactiae to human and animal health and the increasing drug resistance, it is urgent to develop new antimicrobial agents with high bactericidal activity and low drug resistance against S. agalactiae. This study aims to investigate in vitro pharmacodynamics and bactericidal mechanism of fungal defensin-derived peptides NZX and P2 against S. agalactiae. (2) Methods: Minimum inhibitory concentration (MIC) and mutant prevention concentration (MPC) were determined by broth dilution method and AGAR plate dilution method. Cell membrane integrity was determined by flow cytometer. Cell morphological changes were observed by scanning electron microscope (SEM) and transmission electron microscope (TEM). (3) Results: MIC values (NZX: 0.11 μM, P2: 0.91 μM) and MPC (NZX: 1.82 μM) showed their higher antibacterial activity and stronger inhibition ability of drug resistance mutation. The bactericidal mechanism was elucidated that P2 caused S. agalactiae ACCC 61733 cells to deform, bound to the cell wall, and perturbed cell membrane, resulting in K+ leakage, membrane hyperpolarization, ATP release, and reduced cell contents. Compared with P2, NZX focuses on the cell wall, and it bound to the cell wall causing cells boundary disappearance. (4) Conclusion: NZX and P2 are promising antimicrobial agents for streptococcicosis treatment.
Epidemiology and Characteristics of Elizabethkingia spp. Infections in Southeast Asia
Authors: Zajmi Asdren , Teo Jeanette , Yeo Chew Chieng
Published: April 2022

Elizabethkingia spp. is a ubiquitous pathogenic bacterium that has been identified as the causal agent for a variety of conditions such as meningitis, pneumonia, necrotizing fasciitis, endophthalmitis, and sepsis and is emerging as a global threat including in Southeast Asia. Elizabethkingia infections tend to be associated with high mortality rates (18.2–41%) and are mostly observed in neonates and immunocompromised patients. Difficulties in precisely identifying Elizabethkingia at the species level by traditional methods have hampered our understanding of this genus in human infections. In Southeast Asian countries, hospital outbreaks have usually been ascribed to E. meningoseptica, whereas in Singapore, E. anophelis was reported as the main Elizabethkingia spp. associated with hospital settings. Misidentification of Elizabethkingia spp. could, however, underestimate the number of cases attributed to the bacterium, as precise identification requires tools such as MALDI-TOF MS, and particularly whole-genome sequencing, which are not available in most hospital laboratories. Elizabethkingia spp. has an unusual antibiotic resistance pattern for a Gram-negative bacterium with a limited number of horizontal gene transfers, which suggests an intrinsic origin for its multidrug resistance. Efforts to prevent and further understand Elizabethkingia spp. infections and limit its spread must rise to this new challenge.
Mechanisms of Inhibition of Quorum Sensing as an Alternative for the Control of E. coli and Salmonella
Authors: Escobar-Muciño Esmeralda , Arenas-Hernández Margarita M. P. , Luna-Guevara M. Lorena
Published: April 2022

Quorum sensing (QS) is a process of cell–cell communication for bacteria such as E. coli and Salmonella that cause foodborne diseases, with the production, release, and detection of autoinducer (AI) molecules that participate in the regulation of virulence genes. All of these proteins are useful in coordinating collective behavior, the expression of virulence factors, and the pathogenicity of Gram-negative bacteria. In this work, we review the natural or synthetic inhibitor molecules of QS that inactivate the autoinducer and block QS regulatory proteins in E. coli and Salmonella. Furthermore, we describe mechanisms of QS inhibitors (QSIs) that act as competitive inhibitors, being a useful tool for preventing virulence gene expression through the downregulation of AI-2 production pathways and the disruption of signal uptake. In addition, we showed that QSIs have negative regulatory activity of genes related to bacterial biofilm formation on clinical artifacts, which confirms the therapeutic potential of QSIs in the control of infectious pathogens. Finally, we discuss resistance to QSIs, the design of next-generation QSIs, and how these molecules can be leveraged to provide a new antivirulence therapy to combat diseases caused by E. coli or Salmonella.
Preclinical Evidence for the Role of Botulinum Neurotoxin A (BoNT/A) in the Treatment of Peripheral Nerve Injury
Authors: Adler Michael , Pellett Sabine , Sharma Shashi K. , Lebeda Frank J. , Dembek Zygmunt F. , Mahan Mark A.
Published: April 2022

Traumatic peripheral nerve injuries tend to be more common in younger, working age populations and can lead to long-lasting disability. Peripheral nerves have an impressive capacity to regenerate; however, successful recovery after injury depends on a number of factors including the mechanism and severity of the trauma, the distance from injury to the reinnervation target, connective tissue sheath integrity, and delay between injury and treatment. Even though modern surgical procedures have greatly improved the success rate, many peripheral nerve injuries still culminate in persistent neuropathic pain and incomplete functional recovery. Recent studies in animals suggest that botulinum neurotoxin A (BoNT/A) can accelerate nerve regeneration and improve functional recovery after injury to peripheral nerves. Possible mechanisms of BoNT/A action include activation or proliferation of support cells (Schwann cells, mast cells, and macrophages), increased angiogenesis, and improvement of blood flow to regenerating nerves.
Rapid Exploration Using pXRF Combined with Geological Connotation Method (GCM): A Case Study of the Nuocang Cu Polymetallic District, Tibet
Authors: Pang Bei , Wu Song , Yu Zezhang , Liu Yu , Li Jianbing , Zheng Lei , Chen Hao , Li Xiaoxia , Shi Gongwen
Published: April 2022

The Nuocang Cu polymetallic district is located in western Gangdese, close to the south of the Luobadui–Milashan fault zone. A large number of metal deposits with the potential to be prospected, such as Chagele, Zhalong, Longgen, and Sangmola, have been found near this district. To further isolate the target prospecting area, we used a portable X-ray fluorescence spectrometer (pXRF) to conduct an in situ 1:10,000 soil pedogeochemical survey. The results show that the use of a pXRF combined with the geological connotation method (GCM) can accurately delineate the anomalies related to mineralization and highlight “weak” and “small” anomalies. It was also shown to effectively shorten the working cycle and ensure the continuity and timeliness of field work. Through sizing tests, the analysis of −10~+60 mesh soil samples achieved the best anomaly delineation effect. By studying the supra-ore, near-ore, sub-ore halo, and Th/U, the degree of denudation and the oxidation-reduction environment of the deposit were judged to be moderate. Ultimately, depending on the target area delineated by the pXRF, six Cu-Pb-Zn orebodies were uncapped by five exploratory trenches, which proved the potentiality of the Cu-Pb-Zn polymetallic epithermal deposit controlled by minor faults in Central Nuocang.
Ore Genesis of the Baishitouwa Quartz–Wolframite Vein-Type Deposit in the Southern Great Xing’an Range W Belt, NE China: Constraints from Wolframite In-Situ Geochronology and Geochemistry Analyses
Authors: Xie Wei , Zeng Qingdong , Zhou Lingli , Lan Tingguang , Wang Ruiliang , Wu Jinjian
Published: April 2022

The Baishitouwa deposit is a medium-scale quartz–wolframite vein-type deposit in the southern Great Xing’an Range tungsten (W) belt. The W mineralization occurs mainly as veins and dissemination within the mica schist of the Mesoproterozoic Baiyunebo Group. The formation of the deposit can be divided into four stages. The wolframite yielded a lower intercept 206Pb/238U age of 221.0 ± 3.4 Ma (1σ, MSWD = 2.0), which records a late Triassic W mineralization event in the Baishitouwa deposit. In combination with previous geochronological data, we suggest that NE China may have an enormous potential for Triassic W mineralization and more attention should be given to the Triassic ore prospecting in the region. This work highlights that the chemical composition of wolframite is controlled by both the crystallochemical parameters and the composition of the primary ore-forming fluid. Trace-element compositions suggest that wolframite (I) was controlled by the substitution mechanism of 4A(Fe, Mn)2+ + 8BW6+ + B□ ↔ 3AM3+ + AN4+ + 7B(Nb, Ta)5+ + 2BN4+, whereas wolframite (II) was controlled by the substitution mechanism of A(Fe, Mn)2+ + A□ + 2BW6+ ↔ 2AM3+ + 2BN4+. Wolframite (I) contains higher concentrations of Nb, Ta, Sc, and heavy rare earth elements (HREEs), and lower Mn/(Mn + Fe) ratios than wolframite (II). Both wolframite (I) and (II) have similar trace elements and left-dipped REEN patterns, and analogical Nb/Ta ratios. They have similar Y/Ho ratios to Mesozoic highly fractionated W-mineralized granitoids in NE China. These data indicate that the W mineralization at Baishitouwa is genetically related to an underlying highly fractionated granite, and the compositional variation of fluids is likely driven by crystallization of wolframite during the processes of fluid evolution. A change of the ore-forming fluids from an oxidized to a relatively reduced state during the evolution occurred from stage 1 to 2.
Mineralogical, Textural and Chemical Characteristics of Ophiolitic Chromitite and Platinum Group Minerals from Kabaena Island (Indonesia): Their Petrogenetic Nature and Geodynamic Setting
Authors: Idrus Arifudin , Septiana Sara , Zaccarini Federica , Garuti Giorgio , Hasria Hasria
Published: April 2022

This contribution presents the first systematic mineralogical study of chromite composition, silicates and PGM (platinum group minerals) by electron microprobes in the podiform chromitite of Kabaena Island (Indonesia) mined in the past. The main target of this study is to understand the petrogenetic nature of the parental melt from which the chromitites of Kabaena Island precipitated and, indirectly, define the geodynamic tectonic setting of their emplacement. The evolution of PGM, from the magmatic stage to low-temperature processes, is also discussed. The variation of the Cr# = Cr/(Cr + Al), being comprised between 0.65 and 0.75, is similar to the podiform-type chromitite and indicates the absence of Al-rich chromitite. The calculated composition of the parental melt varies from arc to MORB (mid-ocean ridge basalts). Several grains of olivine and clinopyroxene have been found in the silicate matrix or included in fresh chromite. Olivine shows a composition typical of a hosted mantle, and clinopyroxene is similar to those analyzed in the forearc of an SSZ (supra-subduction zone). Small PGM, varying in size from 1 to 10 μm, occur in the chromitites. The most abundant PGM is laurite, which has been found included in fresh chromite or in contact with ferrian chromite along the cracks in the chromite. Laurite forms polygonal crystals, and it occurs as a single phase or in association with clinopyroxene and amphibole. Tiny blebs of Ir-Os alloy (less than 2 μm across) have been found associated with grains of awaruite in the serpentine gangue of the chromitites. The composition of the investigated chromitites suggests that they formed in the mantle of a forearc ophiolite. All the discovered grains of laurite are considered to be magmatic in origin, i.e., entrapped as solid phases during the crystallization of chromite at temperatures above 1000 °C and a sulfur fugacity below sulfur saturation. Iridium–osmium alloys are secondary in origin and represent a low-temperature, around 400 °C, exsolution product.
Flotation Separation of Scheelite from Calcite Using Sulfonated Naphthalene–Formaldehyde Condensate as Depressant
Authors: Wang Yuhua , Pan Gaochan , Chu Haoran , Lu Dongfang , Zheng Xiayu
Published: April 2022

In this paper, the potential of sulfonated naphthalene formaldehyde (SNF) condensate as a depressant in the flotation separation of scheelite from calcite was verified and investigated. The results of microflotation experiments showed that SNF had a stronger depressant performance on calcite than a conventional depressant—water glass and had an excellent performance in fine-grained particles (−0.037 mm) treatment. Adsorption tests were conducted to quantitatively study the selective adsorption of SNF on the surface of scheelite and calcite. At 200 mg/L SNF, the adsorption density of SNF on the calcite surface reached 5.48 mg/g, which was more than four times than that of scheelite. In addition, compared with scheelite, the adsorption of SNF on the calcite surface had a more significant negative effect on the contact angle. Moreover, infrared (IR) measurements combined with X-ray photoelectron spectroscopy (XPS) analysis were performed to investigate the adsorption mechanisms of SNF on scheelite and calcite surfaces. The results showed that the adsorption of SNF on scheelite was more likely to be physical attraction, while the –SO3− group in SNF could chemically react with Ca species on the surface of calcite, resulting in a stronger adsorption than on scheelite.
Prognostic Exploration of U-F-Au-Mo-W Younger Granites for Geochemical Pathfinders, Genetic Affiliations, and Tectonic Setting in El-Erediya-El-Missikat Province, Eastern Desert, Egypt
Authors: Hassaan Mahmoud M. , Omar Sayed A. , Khalil Ahmed E. , Shahin Taher M. , El-Naggar Islam M. , Sayyed M. I. , Hanfi Mohamed Y.
Published: April 2022

Younger granite bodies form two arches, the western and the eastern (WA, EA), which extend from the south northwards from the Meatique, ophiolitic group-island arc rocks, to the large older granite outcrop to the north. This paper concerns the feasibility of exploration in the El-Erediya-Ria El-Garah-El-Gidami-El-Missikat Y Gr regions. Fieldwork and remote sensing, together with geochemical, petrochemical, and mineralogical studies, are used to show the controlling factors, routes, and the origins of the deposits. Remote sensing is used to delineate the different rock units. Normal and strike–slip NW, NNE faults, veins, fractured ENE shear zones, and alteration zones of magmatic-hydrothermal fluids are discussed. Granites are considered using petrochemical diagrams as resources. These rocks are categorized as syeno- and alkali feldspar granites. Geochemical binary relationships recognized the granites are highly fractionated calc-alkaline-altered Monzo-, syeno-, and alkali feldspar granites formed in the active continental margin. The observed positive Ga vs. Cu, Zn, and Ni correlations are used for epithermal-magmatic-hydrothermal polymetallic veins and mineralized greisen zones. Negative Cu vs. Mo correlation patterns show probable Mo-porphyry deposits in the deeper zones at the contact point between porphyritic perthite and perthite granitic El-Erediya mass. The Zr/Sr between 1.65 to 2.93 plus fluorites in El-Missikat and up to 5.48 plus fluorites in El-Erediya show both U-poor at El-Missikat and U-rich deposits at El-Erediya. The recorded U, Th, Cu, and Pb vertical zoning sequence of deposition differentiates U aureole and deposit zones. The estimated lateral zoning sequences of deposition of these elements define the centers of U deposits. Pathfinders for the deposit of the examined area include the positive Fe2O3 vs. Mg O and Fe2O3 vs. Ca O correlations, and also negative Rb/Sr vs. K/Na and Rb vs. Sr ones, can be applied to future prospecting for similar U-F-Au-W-Mo deposits in the Eastern Desert of Egypt.
RETRACTED: Phytoremediation of Heavy-Metals-Contaminated Soils: A Short-Term Trial Involving Two Willow Species from Gloucester WillowBank in the UK
Authors: Lamine Salim , Saunders Ian
Published: April 2022

Phytoremediation, as a bioremediation process in which plants are used to remove contaminants from an environment, has proved to be a practical and low-cost strategy for recovering mining-affected areas. This study aims to assess the potential for use in phytoremediation of two willow species, Salix viminalis and Salix dasyclados, by testing their potential for cleaning-up a range of soils with differing heavy metal concentrations: Pb (111, 141, 192 and 249 mg /kg), Zn (778.6, 1482, 2734 and 4411 mg/kg) and Cd (3.00, 5.03, 9.14 and 16.07 mg/kg). The extracted metals were preferentially translocated to the leaves with considerably higher concentrations and relative BAFs in the case of S. viminalis. The highest recorded Zn concentration of over 0.5% was found in the leaves of S. viminalis growing in soil 4. However, under the conditions of the experiments, S. dasyclados showed greater potential for use in phytoremediation, especially if coupled with use of biomass for energy production. An assessment of the suitability of willow species in this role, with regard to wider aspects involved, such as use of resultant biomass and/or waste management, revealed good potential. Willows are fast growing, grow vigorously from coppiced stumps and have extensive root systems. Therefore, their use in bioenergy production through pyrolysis or combustion, coupled with flue gas screening, is strongly advised.
Diatomaceous Silica in Environmental Applications: A Case Study from the Lacustrine Deposit of Limnos Island, Aegean Sea, Greece
Authors: Stefanou Evangelos , Kantiranis Nikolaos , Chatzicharalambous Konstantinos , Mytiglaki Christina , Stamatakis Michael , Georgiadis George
Published: April 2022

Diatomitic and clastic-volcanoclastic marly samples from the Paranisia area of Limnos Island, were studied mineralogically by X-ray diffraction (XRD), chemically by X-ray fluorescence spectroscopy (XRF) and morphologically by scanning electron microscopy (SEM-EDS), together with some physical properties such as the insulation block density, specific surface area and porosity. The diatomaceous samples were classified as porcelaneous or clayey (moler type) diatomite. Opal-CT forms microplates disseminated in the groundmass and are diagenetically formed in expense of opal-A dissolution. The purest diatomaceous beds have been transformed into opaline beds (opal-CT-rich rocks), whereas the clayey beds were not influenced by diagenetic transformations. The studied diatomites from Limnos Island are suitable materials for environmental uses, as an absorbent, for the production of insulation bricks or as lightweight aggregates.
Efficient and Lightweight Framework for Real-Time Ore Image Segmentation Based on Deep Learning
Authors: Sun Guodong , Huang Delong , Cheng Le , Jia Junjie , Xiong Chenyun , Zhang Yang
Published: April 2022

Image segmentation approaches have been utilized to determine the particle size distribution of crushed ores in the past decades. It is not possible to deploy large and high-powered computing equipment due to the complex working environment, so existing algorithms are difficult to apply in practical engineering. This article presents a novel efficient and lightweight framework for ore image segmentation to discern full and independent ores. First, a lightweight backbone is introduced for feature extraction while reducing computational complexity. Then, we propose a compact pyramid network to process the data obtained from the backbone to reduce unnecessary semantic information and computation. Finally, an optimized detection head is proposed to obtain the feature to maintain accuracy. Extensive experimental results demonstrate the effectiveness of our method, which achieves 40 frames per second on our new ore image dataset with a very small model size. Meanwhile, our method maintains a high level of accuracy—67.68% in AP50box and 46.73% in AP50mask—compared with state-of-the-art approaches.
Apatite, Ca10(PO4)6(OH,F,Cl)2: Structural Variations, Natural Solid Solutions, Intergrowths, and Zoning
Authors: Hazrah Kaveer , Antao Sytle
Published: April 2022

Thirty-three samples from natural apatite (Ap) solid solutions, ideal structural formula [9]Ca12[7]Ca23([4]PO4)3[3](F,OH,Cl), (Z = 2) were examined with electron-probe microanalysis, synchrotron high-resolution powder X-ray diffraction (HRPXRD), and Rietveld refinements. Apatite has space group P63/m for the general chemical formula above. In Ap, the two different Ca sites are generally occupied by Ca, Mn, Sr, Na, or REE3+ cations; the P site is occupied by P, Si, or S, and the X is occupied by F, OH, Cl, O2−, or (CO3)2− anions. However, it may be possible for CO32− + F− anions to partially replace PO43− groups. In this study, the unit-cell parameters a, c, and c/a ratio, vary smoothly and non-linearly with the unit-cell volume, V. The data falls on two distinct trend lines. The average [4] distance is nearly constant across the Ap series, whereas the average [6] angle decreases linearly. The coordination numbers for the atoms are given in square brackets in the general chemical formula above. The average [9], [6], [7], and Ca2-X distances change non-linearly with increasing V. Although Cl− anion is larger than OH− and F− anions, the c unit-cell parameter in F-Ap is larger than that in Cl-Ap. In Cl-Ap, the Ca2 polyhedra are larger than in F-Ap, so the O and Cl anions are under-bonded, which cause the Ca1 polyhedra to contract and charge balance the anions. Alternatively, the Ca1 polyhedra are smaller in Cl-Ap than in F-Ap, so the Ca1 polyhedra in Cl-Ap cause the c axis to contract compared to that in F-Ap.