bluuebunny/crossref_metadata_2025 huggingface dataset:
Correlation between Microbial Population and Oxidative Stability of the Yogurt-Based Tzatziki Salad
Authors: Bozinou Eleni , Athanasiadis Vassilis , Chatzimitakos Theodoros , Salakidou Chrysanthi , Dourtoglou Vassilis G. , Lalas Stavros I.
Published: July 2022

Tzatziki is a deli salad widely consumed in the Eastern Mediterranean and Balkan countries, and it is acknowledged for its health benefits. So far, it is proved to exhibit extreme resistance to microbial spoilage by (pathogenic) microorganisms and microbial self-stabilization, but no research was carried out regarding its oxidative stability despite the fact that it contains a large amount of lipids. In this study, the factor that affects the oxidative stability of tzatziki was exploited. Different samples of tzatziki salad were prepared and stored for 16 or 27 days, depending on the conducted experiment. They varied in the type of yogurt (set yogurt or traditional Greek-style yogurt), the type of oil (olive oil or soybean oil), and the addition or not of preservatives, garlic, and cucumber. Samples were analyzed in terms of oxidative stability (by the Rancimat method), colony-forming units, and tocopherol content throughout the storage period. Among the examined parameters, no correlation between the tocopherol content and oxidative stability was recorded. However, a strong correlation between the microbial population and the oxidative stability was recorded. Therefore, this correlation can be used to prepare tzatziki salads with increased shelf life and decreased flavor deterioration (due to oxidation). Moreover, such correlations should be further exploited for other foods so as to promote their stability.
Characterization of Vaginal Microbiota in Third Trimester Premature Rupture of Membranes Patients through 16S rDNA Sequencing
Authors: Liu Lou , Chen Jiale , Chen Yu , Jiang Shiwen , Xu Hanjie , Zhan Huiying , Ren Yongwei , Xu Dexiang , Xu Zhengfeng , Chen Daozhen
Published: July 2022

In China, premature rupture of membranes (PROM) counts as a major pregnancy complication in China and usually results into adverse pregnancy outcomes. We analysed the vagina microbiome composition using 16S rDNA V3–V4 amplicon sequencing technology, in this prospective study of 441 women in their third trimester of pregnancy. We first divided all subjects into PROM and HC (healthy control) groups, in order to investigate the correlation of vagina microbiome composition and the development of PROM. We found that seven pathogens were higher in the PROM group as compared to the HC group with statistical significance. We also split all subjects into three groups based on Lactobacillus abundance-dominant (Lactobacillus > 90%), intermediate (Lactobacillus 30–90%) and depleted (Lactobacillus < 30%) groups, and explored nine pathogenic genera that were higher in the depleted group than the intermediate and dominant groups having statistical significance. Finally, using integrated analysis and logistics regression modelling, we discovered that Lactobacillus (coeff = −0.09, p = 0.04) was linked to the decreased risk of PROM, while Gardnerella (coeff = 0.04, p = 0.02), Prevotella (coeff = 0.11, p = 0.02), Megasphaera (coeff = 0.04, p = 0.01), Ureaplasma (coeff = 0.004, p = 0.01) and Dialister (coeff = 0.001, p = 0.04) were associated with the increased risk of PROM. Further study on how these pathogens interact with vaginal microbiota and the host would result in a better understanding of PROM development.
Vibrio Phage Artemius, a Novel Phage Infecting Vibrio alginolyticus
Authors: Droubogiannis Stavros , Pavlidi Lydia , Tsertou Maria Ioanna , Kokkari Constantina , Skliros Dimitrios , Flemetakis Emmanouil , Katharios Pantelis
Published: July 2022

Vibrio alginolyticus is an important pathogen of marine animals and has been the target of phage therapy applications in marine aquaculture for many years. Here, we report the isolation and partial characterization of a novel species of the Siphoviridae family, the Vibrio phage Artemius. The novel phage was species-specific and could only infect strains of V. alginolyticus. It could efficiently reduce the growth of the host bacterium at various multiplicities of infection as assessed by an in vitro lysis assay. It had a genome length of 43,349 base pairs. The complete genome has double-stranded DNA with a G + C content of 43.61%. In total, 57 ORFs were identified, of which 19 were assigned a predicted function. A genomic analysis indicated that Vibrio phage Artemius is lytic and does not harbor genes encoding toxins and antibiotic resistance determinants.
Prevalence and Molecular Characterization of Extended-Spectrum β-Lactamases and AmpC β-lactamase-Producing Enterobacteriaceae among Human, Cattle, and Poultry
Authors: Nossair Mohamed A. , Abd El Baqy Fatma A. , Rizk Mohammad S. Y. , Elaadli Haitham , Mansour Alaa M. , Abd El-Aziz Ayman H. , Alkhedaide Adil , Soliman Mohamed Mohamed , Ramadan Hazem , Shukry Mustafa , Shaaban Sabah I.
Published: July 2022

Extended-spectrum beta-lactamase (ESBL)-producing Enterobacteriaceae are a universal public health alarm frequently identified among humans, animals, and poultry. Livestock and poultry production are a possible source of multidrug-resistant microorganisms, including ESBL-producing Enterobacteriaceae, which confer antimicrobial resistance to different β-lactam antimicrobial agents. From January to May 2020, a cross-sectional study was carried out in three dairy cattle farms and four poultry farms in different districts of northern Egypt to assess the prevalence of ESBLs, AmpC beta-lactamase-producing E. coli and Klebsiella in livestock, poultry, and human contacts, and to investigate the genetic relatedness of the recovered isolates. In total, 140 samples were collected, including human fecal samples (n = 20) of workers with intimate livestock contact, cattle rectal swabs (n = 34), milk (n = 14), milking machine swabs (n = 8), rations (n = 2), and water (n = 2) from different cattle farms, as well as cloacal swabs (n = 45), rations (n = 5), water (n = 5) and litter (n = 5) from poultry farms. The specimens were investigated for ESBL-producing E. coli and Klebsiella using HiCrome ESBL media agar. The agar disk diffusion method characterized the isolated strains for their phenotypic antimicrobial susceptibility. The prevalence of ESBL-producing Enterobacteriaceae was 30.0%, 20.0%, and 25.0% in humans, cattle, and poultry, respectively. Further genotypic characterization was performed using conventional and multiplex PCR assays for the molecular identification of ESBL and AmpC genes. The majority of the ESBL-producing Enterobacteriaceae showed a multi-drug resistant phenotype. Additionally, blaSHV was the predominant ESBL genotype (n = 31; 93.94%), and was mainly identified in humans (n = 6), cattle (n = 11), and poultry (14); its existence in various reservoirs is a concern, and highlights the necessity of the development of definite control strategies to limit the abuse of antimicrobial agents.
Autoimmune Autonomic Dysfunction Syndromes: Potential Involvement and Pathophysiology Related to Complex Regional Pain Syndrome, Fibromyalgia, Chronic Fatigue Syndrome, Silicone Breast Implant–Related Symptoms and Post-COVID Syndrome
Authors: Mahroum Naim , Shoenfeld Yehuda
Published: July 2022

The pathophysiological mechanisms involved in chronic disorders such as complex regional pain syndrome, fibromyalgia, chronic fatigue syndrome, silicone breast implant–related symptoms, and post-COVID syndrome have not been clearly defined. The course of the pain in some of the syndromes, the absence of evident tissue damage, and the predominance of alterations in the autonomic nervous system are shared similarities between them. The production of autoantibodies following a trigger in the syndromes was previously described, for instance, trauma in complex regional pain syndrome, infectious agents in fibromyalgia, chronic fatigue syndrome, and post-COVID syndrome, and the immune stimulation by silicone in women with breast implants. In fact, the autoantibodies produced were shown to be directed against the autonomic nervous system receptors, leading to the amplification of the perception of pain alongside various clinical symptoms seen during the clinical course of the syndromes. Therefore, we viewed autoantibodies targeting the autonomic nervous system resulting in autonomic dysfunction as likely the most comprehensive explanation of the pathophysiology of the disorders mentioned. Based on this, we aimed to introduce a new concept uniting complex regional pain syndrome, fibromyalgia, chronic fatigue syndrome, silicone breast implant–related symptoms, and post-COVID syndrome, namely “autoimmune autonomic dysfunction syndromes”. Due to its etiological, pathophysiological, and clinical implications, the suggested term would be more precise in classifying the syndromes under one title. The new title would doubtlessly facilitate both laboratory and clinical studies aimed to improve diagnosis and make treatment options more directed and precise.
Benzothiazole Derivatives Endowed with Antiproliferative Activity in Paraganglioma and Pancreatic Cancer Cells: Structure–Activity Relationship Studies and Target Prediction Analysis
Authors: Amoroso Rosa , De Lellis Laura , Florio Rosalba , Moreno Nazaret , Agamennone Mariangela , De Filippis Barbara , Giampietro Letizia , Maccallini Cristina , Fernández Inmaculada , Recio Rocío , Cama Alessandro , Fantacuzzi Marialuigia , Ammazzalorso Alessandra
Published: July 2022

The antiproliferative effects played by benzothiazoles in different cancers have aroused the interest for these molecules as promising antitumor agents. In this work, a library of phenylacetamide derivatives containing the benzothiazole nucleus was synthesized and compounds were tested for their antiproliferative activity in paraganglioma and pancreatic cancer cell lines. The novel synthesized compounds induced a marked viability reduction at low micromolar concentrations both in paraganglioma and pancreatic cancer cells. Derivative 4l showed a greater antiproliferative effect and higher selectivity index against cancer cells, as compared to other compounds. Notably, combinations of derivative 4l with gemcitabine at low concentrations induced enhanced and synergistic effects on pancreatic cancer cell viability, thus supporting the relevance of compound 4l in the perspective of clinical translation. A target prediction analysis was also carried out on 4l by using multiple computational tools, identifying cannabinoid receptors and sentrin-specific proteases as putative targets contributing to the observed antiproliferative activity.
A Density Functional Theory and Information-Theoretic Approach Study of Interaction Energy and Polarizability for Base Pairs and Peptides
Authors: Zhao Dongbo , Liu Shubin , Chen Dahua
Published: July 2022

Using density functional theory (DFT) and the information-theoretic approach (ITA) quantities to appreciate the energetics and properties of biopolymers is still an unaccomplished and ongoing task. To this end, we studied the building blocks of nucleic acid base pairs and small peptides. For base pairs, we have dissected the relative importance of energetic components by using two energy partition schemes in DFT. Our results convincingly show that the exchange-correlation effect predominantly governs the molecular stability of base pairs while the electrostatic potential plays a minor but indispensable role, and the steric effect is trivial. Furthermore, we have revealed that simple density-based ITA functions are in good relationships with molecular polarizabilities for a series of 30 hydrogen-bonded base pairs and all 20 natural α-amino acids, 400 dipeptides, and 8000 tripeptides. Based on these lines, one can easily predict the molecular polarizabilities of larger peptides, even proteins as long as the total molecular wavefunction is available, rather than solving the computationally demanding coupled-perturbed Hartree–Fock (CPHF) equation or its DFT counterpart coupled-perturbed Kohn–Sham (CPKS) equation.
Interaction between Mesenchymal Stem Cells and the Immune System in Rheumatoid Arthritis
Authors: Bačenková Darina , Trebuňová Marianna , Morochovič Radoslav , Dosedla Erik , Findrik Balogová Alena , Gašparová Petra , Živčák Jozef
Published: July 2022

Rheumatoid arthritis (RA) is an autoimmune disease that causes damage to joints. This review focuses on the possibility of influencing the disease through immunomodulation by mesenchymal stem cells (MSCs). There is an occurrence of rheumatoid factor and RA-specific autoantibodies to citrullinated proteins in most patients. Citrulline proteins have been identified in the joints of RA patients, and are considered to be the most suitable candidates for the stimulation of anti-citrulline protein antibodies production. Fibroblast-like proliferating active synoviocytes actively promote inflammation and destruction in the RA joint, in association with pro-inflammatory cells. The inflammatory process may be suppressed by MSCs, which are a population of adherent cells with the following characteristic phenotype: CD105+, CD73+, CD90+, CD45−, CD34− and HLA DR−. Following the stimulation process, MSCs are capable of immunomodulatory action through the release of bioactive molecules, as well as direct contact with the cells of the immune system. Furthermore, MSCs show the ability to suppress natural killer cell activation and dendritic cells maturation, inhibit T cell proliferation and function, and induce T regulatory cell formation. MSCs produce factors that suppress inflammatory processes, such as PGE2, TGF-β, HLA-G5, IDO, and IL-10. These properties suggest that MSCs may affect and suppress the excessive inflammation that occurs in RA. The effect of MSCs on rheumatoid arthritis has been proven to be a suitable alternative treatment thanks to successful experiments and clinical studies.
Preparation of Pickering Emulsions Stabilized by Modified Silica Nanoparticles via the Taguchi Approach
Authors: Heidari Fatemeh , Jafari Seid Mahdi , Ziaiifar Aman Mohammad , Anton Nicolas
Published: July 2022

In this study, oil-in-water Pickering emulsions (PEs) were prepared by modified silica nanoparticles (MSNs) with cetyltrimethylammonium bromide (CTAB) using the Taguchi approach. The surface modification of SiO2 nanoparticles (NPs) was performed in different conditions, temperatures, pH levels, and amounts of CTAB as a coating agent, followed by an evaluation of their physicochemical properties. After treatment of the SiO2 NPs, the relationship of the MSNs’ surface properties and their efficiency in stabilizing Pickering emulsions was investigated by considering the zeta potential (ZP) and emulsion physical stability as main responses, respectively. Results disclosed were then supported by additional characterization, such as thermogravimetric analysis (TGA), Fourier transform infrared (FTIR) spectroscopy, contact angle (CA), and scanning electron microscopy. Results demonstrated that temperature has the most important role in the treatment of SiO2 nanoparticles, and allows for the identification of the best experimental conditions, i.e., range of zeta potential of MSNs to produce more efficient NPs, as well as the best stabilization of PEs.
Structural and Functional Analysis of CEX Fractions Collected from a Novel Avastin® Biosimilar Candidate and Its Innovator: A Comparative Study
Authors: Gurel Busra , Berksoz Melike , Capkin Eda , Parlar Ayhan , Pala Meltem Corbacioglu , Ozkan Aylin , Capan Yılmaz , Daglikoca Duygu Emine , Yuce Meral
Published: July 2022

Avastin® is a humanized recombinant monoclonal antibody used to treat cancer by targeting VEGF-A to inhibit angiogenesis. SIMAB054, an Avastin® biosimilar candidate developed in this study, showed a different charge variant profile than its innovator. Thus, it is fractionated into acidic, main, and basic isoforms and collected physically by Cation Exchange Chromatography (CEX) for a comprehensive structural and functional analysis. The innovator product, fractionated into the same species and collected by the same method, is used as a reference for comparative analysis. Ultra-Performance Liquid Chromatography (UPLC) ESI-QToF was used to analyze the modifications leading to charge heterogeneities at intact protein and peptide levels. The C-terminal lysine clipping and glycosylation profiles of the samples were monitored by intact mAb analysis. The post-translational modifications, including oxidation, deamidation, and N-terminal pyroglutamic acid formation, were determined by peptide mapping analysis in the selected signal peptides. The relative binding affinities of the fractionated charge isoforms against the antigen, VEGF-A, and the neonatal receptor, FcRn, were revealed by Surface Plasmon Resonance (SPR) studies. The results show that all CEX fractions from the innovator product and the SIMAB054 shared the same structural variants, albeit in different ratios. Common glycoforms and post-translational modifications were the same, but at different percentages for some samples. The dissimilarities were mostly originating from the presence of extra C-term Lysin residues, which are prone to enzymatic degradation in the body, and thus they were previously assessed as clinically irrelevant. Another critical finding was the presence of different glyco proteoforms in different charge species, such as increased galactosylation in the acidic and afucosylation in the basic species. SPR characterization of the isolated charge variants further confirmed that basic species found in the CEX analyses of the biosimilar candidate were also present in the innovator product, although at lower amounts. The charge variants’ in vitro antigen- and neonatal receptor-binding activities varied amongst the samples, which could be further investigated in vivo with a larger sample set to reveal the impact on the pharmacokinetics of drug candidates. Minor structural differences may explain antigen-binding differences in the isolated charge variants, which is a key parameter in a comparability exercise. Consequently, such a biosimilar candidate may not comply with high regulatory standards unless the binding differences observed are justified and demonstrated not to have any clinical impact.
Bioinformatics Strategies to Identify Shared Molecular Biomarkers That Link Ischemic Stroke and Moyamoya Disease with Glioblastoma
Authors: Islam Md Khairul , Islam Md Rakibul , Rahman Md Habibur , Islam Md Zahidul , Amin Md Al , Ahmed Kazi Rejvee , Rahman Md Ataur , Moni Mohammad Ali , Kim Bonglee
Published: July 2022

Expanding data suggest that glioblastoma is accountable for the growing prevalence of various forms of stroke formation, such as ischemic stroke and moyamoya disease. However, the underlying deterministic details are still unspecified. Bioinformatics approaches are designed to investigate the relationships between two pathogens as well as fill this study void. Glioblastoma is a form of cancer that typically occurs in the brain or spinal cord and is highly destructive. A stroke occurs when a brain region starts to lose blood circulation and prevents functioning. Moyamoya disorder is a recurrent and recurring arterial disorder of the brain. To begin, adequate gene expression datasets on glioblastoma, ischemic stroke, and moyamoya disease were gathered from various repositories. Then, the association between glioblastoma, ischemic stroke, and moyamoya was established using the existing pipelines. The framework was developed as a generalized workflow to allow for the aggregation of transcriptomic gene expression across specific tissue; Gene Ontology (GO) and biological pathway, as well as the validation of such data, are carried out using enrichment studies such as protein–protein interaction and gold benchmark databases. The results contribute to a more profound knowledge of the disease mechanisms and unveil the projected correlations among the diseases.
Three-Dimensional Printing of an Apigenin-Loaded Mucoadhesive Film for Tailored Therapy to Oral Leukoplakia and the Chemopreventive Effect on a Rat Model of Oral Carcinogenesis
Authors: Takashima Hiroyuki , Tagami Tatsuaki , Kato Shinichiro , Pae Heeju , Ozeki Tetsuya , Shibuya Yasuyuki
Published: July 2022

Oral leukoplakia, which presents as white lesions in the oral cavity, including on the tongue, is precancerous in nature. Conservative treatment is preferable, since surgical removal can markedly reduce the patient’s quality of life. In the present study, we focused on the flavonoid apigenin as a potential compound for preventing carcinogenesis, and an apigenin-loaded mucoadhesive oral film was prepared using a three-dimensional (3D) bioprinter (semi-solid extrusion-type 3D printer). Apigenin-loaded printer inks are composed of pharmaceutical excipients (HPMC, CARBOPOL, and Poloxamer), water, and ethanol to dissolve apigenin, and the appropriate viscosity of printer ink after adjusting the ratios allowed for the successful 3D printing of the film. After drying the 3D-printed object, the resulting film was characterized. The chemopreventive effect of the apigenin-loaded film was evaluated using an experimental rat model that had been exposed to 4-nitroquinoline 1-oxide (4NQO) to induce oral carcinogenesis. Treatment with the apigenin-loaded film showed a remarkable chemopreventive effect based on an analysis of the specimen by immunohistostaining. These results suggest that the apigenin-loaded mucoadhesive film may help prevent carcinogenesis. This successful preparation of apigenin-loaded films by a 3D printer provides useful information for automatically fabricating other tailored films (with individual doses and shapes) for patients with oral leukoplakia in a future clinical setting.
Novel Drug Delivery Systems as an Emerging Platform for Stomach Cancer Therapy
Authors: Hani Umme , Osmani Riyaz Ali M. , Yasmin Sabina , Gowda B. H. Jaswanth , Ather Hissana , Ansari Mohammad Yousuf , Siddiqua Ayesha , Ghazwani Mohammed , Fatease Adel Al , Alamri Ali H. , Rahamathulla Mohamed , Begum M. Yasmin , Wahab Shadma
Published: July 2022

Cancer has long been regarded as one of the world’s most fatal diseases, claiming the lives of countless individuals each year. Stomach cancer is a prevalent cancer that has recently reached a high number of fatalities. It continues to be one of the most fatal cancer forms, requiring immediate attention due to its low overall survival rate. Early detection and appropriate therapy are, perhaps, of the most difficult challenges in the fight against stomach cancer. We focused on positive tactics for stomach cancer therapy in this paper, and we went over the most current advancements and progressions of nanotechnology-based systems in modern drug delivery and therapies in great detail. Recent therapeutic tactics used in nanotechnology-based delivery of drugs aim to improve cellular absorption, pharmacokinetics, and anticancer drug efficacy, allowing for more precise targeting of specific agents for effective stomach cancer treatment. The current review also provides information on ongoing research aimed at improving the curative effectiveness of existing anti-stomach cancer medicines. All these crucial matters discussed under one overarching title will be extremely useful to readers who are working on developing multi-functional nano-constructs for improved diagnosis and treatment of stomach cancer.
Short-Term Physiological and Transcriptomic Analysis of Saxitoxin-Producing and Nonproducing Raphidiopsis raciborskii (Cyanobacteria) under an Extremely High CO2 Environment
Authors: Paranhos Ricardo Rogers , Vilar Mauro , Hoffmann Luísa , Bottaro Thayane , Silva Rosane , Pereira Renato C. , Azevedo Sandra M. F. O.
Published: July 2022

Findings about CO2 dynamics in the Earth’s ancestral atmosphere have suggested much higher concentrations in past eras. Along this line, cyanobacteria are an early evolved photosynthetic group that is suggested to have experienced both high and low CO2 availability since their Precambrian origin, and therefore, it is reasonable to assume that these microbes have the potential to cope with these scenarios by rapidly adjusting to various carbon dioxide levels. Thus, in this work, we performed a short-term (72-h) investigation of the physiological parameters (cell growth, photosynthesis and saxitoxin production) of toxic and nontoxic strains of the cyanobacterium Raphidiopsis raciborskii challenged by an extremely high pCO2 (40,000 ppm). Additionally, the transcriptomic profile (regarding the carbon concentrating mechanism and photosynthesis) of selected toxic and nontoxic strains is also presented. We found that short-term exposure to extremely elevated CO2 concentrations did not affect R. raciborskii physiology regardless of toxin production. However, transcripts related to bicarbonate transporters and the RuBisCO enzyme indicated the upregulation of CCM and downregulation of the Calvin cycle, respectively. According to our findings, at least at the initial growth phase, R. raciborskii was able to cope with a very high CO2 level, which shed light on the understanding that this species might have the potential to cope with carbon dioxide in water above the predicted levels.
Genetic Diversity and Population Structure of Jubaea chilensis, an Endemic and Monotype Gender from Chile, Based on SNP Markers
Authors: Jara-Arancio Paola , da Silva Carvalho Carolina , Carmona-Ortiz Martín R. , Bustamante Ramiro O. , Schmidt Villela Priscilla M. , da Silva Andrade Sónia C. , Peña-Gómez Francisco T. , González Luís A. , Fleury Marina
Published: July 2022

Jubaea chilensis (Molina) Baill., also named Chilean palm, is an endemic species found in the coastal area of Mediterranean sclerophyllous forest in Chile. It has a highly restricted and fragmented distribution along the coast, being under intense exploitation and anthropogenic impact. Based on 1038 SNP markers, we evaluated the genetic diversity and population structure among six J. chilensis natural groups encompassing 96% of the species distribution. We observed low levels of genetic diversity, a deficit of heterozygotes (mean HE = 0.024; HO = 0.014), and high levels of inbreeding (mean FIS = 0.424). The fixation index (FST) and Nei’s genetic distance pairwise comparisons indicated low to moderate structuring among populations. There was no evidence of isolation by distance (r = −0.214, p = 0.799). In the cluster analysis, we observed a closer relationship among Culimo, Cocalán, and Candelaria populations. Migration rates among populations were low, except for some populations with moderate values. The K value that best represented the spatial distribution of genetic diversity was ∆K = 3. Habitat fragmentation, deterioration of the sclerophyllous forest, lack of long-distance dispersers, and a natural regeneration deficit may have driven inbreeding and low levels of genetic diversity in the palm groves of J. chilensis. Although extant populations are not at imminent risk of extinction, the rate of inbreeding could increase and migration could decrease if the effects of climate change and human impact become more acute.
The Divergence of Chromosome Structures and 45S Ribosomal DNA Organization in Cucumis debilis Inferred by Comparative Molecular Cytogenetic Mapping
Authors: Setiawan Agus Budi , Purwantoro Aziz , Teo Chee How , Nhi Phan Thi Phuong , Kato Kenji , Kikuchi Shinji , Koba Takato
Published: July 2022

Cucumis debilis W.J.de Wilde & Duyfjes is an annual and monoecious plant. This species is endemic to Southeast Asia, particularly Vietnam. However, C. debilis is rarely studied, and no detailed information is available regarding its basic chromosome number, 45S ribosomal DNA (rDNA) status, and divergence among other Cucumis species. In this study, we characterized the morphological characters and determined and investigated the basic chromosome number and chromosomal distribution of 45S rDNA of C. debilis using the fluorescent in situ hybridization (FISH) technique. A maximum likelihood tree was constructed by combining the chloroplast and internal transcribed spacer of 45S rDNAs to infer its relationship within Cucumis. C. debilis had an oval fruit shape, green fruit peel, and protrusion-like white spots during the immature fruit stage. FISH analysis using 45S rDNA probe showed three pairs of 45S rDNA loci located at the terminal region in C. debilis, similar to C. hystrix. Meanwhile, two, two, and five pairs of 45S rDNA loci were observed for C. melo, C. metuliferus, and C. sativus, respectively. One melon (P90) and cucumber accessions exhibited different chromosomal localizations compared with other members of Cucumis. The majority of Cucumis species showed the terminal location of 45S rDNA, but melon P90 and cucumber exhibited terminal–interstitial and all interstitial orientations of 45S rDNA loci. Based on molecular cytogenetics and phylogenetic evidence, C. debilis is more closely related to cucumber than melon. Therefore, C. debilis may serve as a potential parental accession for genetic improvement of cucumber through interspecific hybridization.
Water Deficit Timing Differentially Affects Physiological Responses of Grapevines Infected with Lasiodiplodia theobromae
Authors: Dinis Lia-Tânia , Jesus Cláudia , Amaral Joana , Gómez-Cadenas Aurelio , Correia Barbara , Alves Artur , Pinto Glória
Published: July 2022

Diseases and climate change are major factors limiting grape productivity and fruit marketability. Lasiodiplodia theobromae is a fungus of the family Botryosphaeriaceae that causes Botryosphaeria dieback of grapevine worldwide. Abiotic stress may change host vitality and impact susceptibility to the pathogen and/or change the pathogen’s life cycle. However, the interaction between both stress drivers is poorly understood for woody plants. We addressed the hypothesis that distinct morpho-physiological and biochemical responses are induced in grapevine (Vitis vinifera)–L. theobromae interactions depending on when water deficits are imposed. Grapevines were submitted to water deficit either before or after fungus inoculation. Water deficit led to the reduction of the net photosynthetic rate, stomatal conductance, and transpiration rate, and increased the abscisic acid concentration regardless of fungal inoculation. L. theobromae inoculation before water deficit reduced plant survival by 50% and resulted in the accumulation of jasmonic acid and reductions in malondialdehyde levels. Conversely, grapevines inoculated after water deficit showed an increase in proline and malondialdehyde content and all plants survived. Overall, grapevines responded differently to the primary stress encountered, with consequences in their physiological responses. This study reinforces the importance of exploring the complex water deficit timing × disease interaction and the underlying physiological responses involved in grapevine performance.
Comparative Genome Analyses of Plant Rust Pathogen Genomes Reveal a Confluence of Pathogenicity Factors to Quell Host Plant Defense Responses
Authors: Nandety Raja Sekhar , Gill Upinder S. , Krom Nick , Dai Xinbin , Dong Yibo , Zhao Patrick X. , Mysore Kirankumar S.
Published: July 2022

Switchgrass rust caused by Puccinia novopanici (P. novopanici) has the ability to significantly affect the biomass yield of switchgrass, an important biofuel crop in the United States. A comparative genome analysis of P. novopanici with rust pathogen genomes infecting monocot cereal crops wheat, barley, oats, maize and sorghum revealed the presence of larger structural variations contributing to their genome sizes. A comparative alignment of the rust pathogen genomes resulted in the identification of collinear and syntenic relationships between P. novopanici and P. sorghi; P. graminis tritici 21–0 (Pgt 21) and P. graminis tritici Ug99 (Pgt Ug99) and between Pgt 21 and P. triticina (Pt). Repeat element analysis indicated a strong presence of retro elements among different Puccinia genomes, contributing to the genome size variation between ~1 and 3%. A comparative look at the enriched protein families of Puccinia spp. revealed a predominant role of restriction of telomere capping proteins (RTC), disulfide isomerases, polysaccharide deacetylases, glycoside hydrolases, superoxide dismutases and multi-copper oxidases (MCOs). All the proteomes of Puccinia spp. share in common a repertoire of 75 secretory and 24 effector proteins, including glycoside hydrolases cellobiohydrolases, peptidyl-propyl isomerases, polysaccharide deacetylases and protein disulfide-isomerases, that remain central to their pathogenicity. Comparison of the predicted effector proteins from Puccinia spp. genomes to the validated proteins from the Pathogen–Host Interactions database (PHI-base) resulted in the identification of validated effector proteins PgtSR1 (PGTG_09586) from P. graminis and Mlp124478 from Melampsora laricis across all the rust pathogen genomes.
Optimal Fertilizer Application Reduced Nitrogen Leaching and Maintained High Yield in Wheat-Maize Cropping System in North China
Authors: Luo Xiaosheng , Kou Changlin , Wang Qian
Published: July 2022

Agricultural nitrogen (N) non-point source pollution in the North China Plain is a major factor that affects water quality and human health. The characteristics of N leaching under different N application conditions should be further quantified accurately in winter wheat (Triticum aestivum L.) and summer maize (Zea mays L.) rotation farmland in North China, and a basis for reducing the risk and evaluation of N leaching in this area. A three-year field experiment was conducted using an in situ leakage pond method at a typical farmland in Henan in 2017–2020. Crop yield, soil nitrate N residues, and N utilization were also studied during the study period. Five N fertilizer rates were established with 0 (CK), 285 (LN), 465 (MN), 510 (MNO), and 645 (HN) kg N ha−1 for one rotation cycle. MNO was applied with chemical and organic fertilizers. The concentration of nitrate N in the soil leaching solution of CK, LN, MN, MNO, and HN was 0.81-, 1.49-, 3.65-, 5.55-, and 7.57-fold that of the World Health Organization’s standard for underground drinking water. The exponential relationship between the N application rate and leaching was obtained when the annual N input exceeded 300 kg ha−1, and the N leaching rate increased greatly. The leaching rate of nitrate N in the total N was 50.6–82.4% under different treatments of N application. The combination of chemical and organic fertilizers treatment (MNO) reduced the amount of N that was leached in dry years. The nitrate leaching amount of summer maize accounts for 83.0%, 49.4%, and 72.0% of the total nitrate leaching amount of the whole rotation cycles in 2017–2020. LN and MN were recommended as the optimized N application here (285–465 kg N ha−1) with the two-season rotation grain yield of 17.2 ton ha−1 (16.5–17.9 ton ha−1) and nitrate N leaching of 21.6 kg ha−1 (12.6–30.5 kg ha−1).
Pisum sativum Response to Nitrate as Affected by Rhizobium leguminosarum-Derived Signals
Authors: Boeglin Laure , Morère Le-Paven Marie-Christine , Clochard Thibault , Fustec Joëlle , Limami Anis M.
Published: July 2022

Legumes are suitable for the development of sustainable agroecosystems because of their ability to use atmospheric N2 through symbiotic nitrogen fixation (SNF). However, a basic NO3− input is necessary before SNF takes place to ensure successful seedling establishment. Since Rhizobia not only induce nodulation but also affect root branching by stimulating the development of lateral roots, and NO3− as a signal also modulates root system architecture, we investigated whether Rhizobium-derived signals interfere in nitrate signaling. Here, we bring evidence that (i) Rhizobium-altered NO3−-mediated processes in pea expressions of major players in NO3− transport, sensing, and signaling were affected, and (ii) the characteristic limitation of root foraging and branching in response to NO3− supply was abolished. The number of tertiary roots per secondary root was higher in infected compared to uninfected peas, thus indicating that the Rhizobium effect allows for favorable management of trade-offs between nodules growth for nitrogen capture and root foraging for water and other nutrient uptake in pea. The outcome of this basic research can be used to produce molecular tools for breeding pea genotypes able to develop deep-foraging and branched root systems, and more competitive architectures and molecular levels for soil NO3− absorption during seedling establishment without jeopardizing nodulation.
Molecular Breeding to Overcome Biotic Stresses in Soybean: Update
Authors: Tripathi Niraj , Tripathi Manoj Kumar , Tiwari Sushma , Payasi Devendra K.
Published: July 2022

Soybean (Glycine max (L.) Merr.) is an important leguminous crop and biotic stresses are a global concern for soybean growers. In recent decades, significant development has been carried outtowards identification of the diseases caused by pathogens, sources of resistance and determination of loci conferring resistance to different diseases on linkage maps of soybean. Host-plant resistance is generally accepted as the bestsolution because of its role in the management of environmental and economic conditions of farmers owing to low input in terms of chemicals. The main objectives of soybean crop improvement are based on the identification of sources of resistance or tolerance against various biotic as well as abiotic stresses and utilization of these sources for further hybridization and transgenic processes for development of new cultivars for stress management. The focus of the present review is to summarize genetic aspects of various diseases caused by pathogens in soybean and molecular breeding research work conducted to date.
Evaluation of Dittrichia viscosa Aquaporin Nip1.1 Gene as Marker for Arsenic-Tolerant Plant Selection
Authors: De Paolis Angelo , De Caroli Monica , Rojas Makarena , Curci Lorenzo Maria , Piro Gabriella , Di Sansebastiano Gian-Pietro
Published: July 2022

Dittrichia viscosa (L.) Greuter is gaining attention for its high genetic plasticity and ability to adapt to adverse environmental conditions, including heavy metal and metalloid pollution. Uptake and translocation of cadmium, copper, iron, nickel, lead, and zinc to the shoots have been characterized, but its performance with arsenic is less known and sometimes contradictory. Tolerance to As is not related to a reduced uptake, but the null mutation of the aquaporin Nip1.1 gene in Arabidopsis makes the plant completely resistant to the metalloid. This aquaporin, localized in the endoplasmic reticulum, is responsible for arsenite and antimony (Sb) membrane permeation, but the uptake of arsenite occurs also in the null mutant, suggesting a more sophisticated action mechanism than direct uptake. In this study, the DvNip1 gene homologue is cloned and its expression profile in roots and shoots is characterized in different arsenic stress conditions. The use of clonal lines allowed to evidence that DvNip1.1 expression level is influenced by arsenic stress. The proportion of gene expression in roots and shoots can be used to generate an index that appears to be a promising putative selection marker to predict arsenic-resistant lines of Dittrichia viscosa plants.
Waterlogging Priming Enhances Hypoxia Stress Tolerance of Wheat Offspring Plants by Regulating Root Phenotypic and Physiological Adaption
Authors: Feng Kai , Wang Xiao , Zhou Qin , Dai Tingbo , Cao Weixing , Jiang Dong , Cai Jian
Published: July 2022

With global climate change, waterlogging stress is becoming more frequent. Waterlogging stress inhibits root growth and physiological metabolism, which ultimately leads to yield loss in wheat. Waterlogging priming has been proven to effectively enhance waterlogging tolerance in wheat. However, it is not known whether waterlogging priming can improve the offspring’s waterlogging resistance. Here, wheat seeds that applied waterlogging priming for one generation, two generations and three generations are separately used to test the hypoxia stress tolerance in wheat, and the physiological mechanisms are evaluated. Results found that progeny of primed plants showed higher plant biomass by enhancing the net photosynthetic rate and antioxidant enzyme activity. Consequently, more sugars are transported to roots, providing a metabolic substrate for anaerobic respiration and producing more ATP to maintain the root growth in the progeny of primed plants compared with non-primed plants. Furthermore, primed plants’ offspring promote ethylene biosynthesis and further induce the formation of a higher rate of aerenchyma in roots. This study provides a theoretical basis for improving the waterlogging tolerance of wheat.
Effects of Contaminated Soil on the Survival and Growth Performance of European (Populus tremula L.) and Hybrid Aspen (Populus tremula L. × Populus tremuloides Michx.) Clones Based on Stand Density
Authors: Salam Mir Md Abdus , Ruhui Wen , Sinkkonen Aki , Pappinen Ari , Pulkkinen Pertti
Published: July 2022

This study was conducted to assess the survival rates, growth, and chlorophyll fluorescence (Fv/Fm) of four hybrid aspen (14, 191, 27, 291) and two European aspen (R3 and R4) clones cultivated in creosote- and diesel oil-contaminated soil treatments under three different plant densities: one plant per pot (low density), two plants per pot (medium density), and six plants per pot (high density) over a period of two years and three months. Evaluating the survival, growth, and Fv/Fm values of different plants is a prerequisite for phytoremediation to remediate polluted soils for ecological restoration and soil health. The results revealed that contaminated soils affected all plants’ survival rates and growth. However, plants grown in the creosote-contaminated soil displayed a 99% survival rate, whereas plants cultivated in the diesel-contaminated soil showed a 22–59% survival rate. Low plant density resulted in a higher survival rate and growth than in the other two density treatments. In contrast, the medium- and high-density treatments did not affect the plant survival rate and growth to a greater extent, particularly in contaminated soil treatments. The effects of clonal variation on the survival rate, growth, and Fv/Fm values were evident in all treatments. The results suggested that hybrid aspen clones 14 and 291, and European aspen clone R3 were suitable candidates for the phytoremediation experiment, as they demonstrated reasonable survival rates, growth, and Fv/Fm values across all treatments. A superior survival rate for clone 291, height and diameter growth, and stem dry biomass production for clone 14 were observed in all soil treatments. Overall, a reasonable survival rate (~75%) and Fv/Fm value (>0.75) for all plants in all treatments, indicating European aspen and hybrid aspen have considerable potential for phytoremediation experiments. As the experiment was set up for a limited period, this study deserves further research to verify the growth potential of different hybrid aspen and European aspen clones in different soil and density treatment for the effective phytoremediation process to remediate the contaminated soil.
Unmodified Gum Arabic/Chitosan/Nanohydroxyapatite Nanocomposite Hydrogels as Potential Scaffolds for Bone Regeneration
Authors: Makar Lara E. , Nady Norhan , Abd El-Fattah Ahmed , Shawky Neivin , Kandil Sherif H.
Published: July 2022

In this work, physical cross-linking was used to create nanocomposite hydrogels composed of unmodified gum arabic (GA), chitosan (Ch), and natural nanohydroxyapatite (nHA), using an acrylic acid (AA) solvent. Different GA/chitosan contents (15%, 25%, and 35% of the used AA) as well as different nHA contents (2, 5, and 10 wt.%), were used and studied. The natural nHA and the fabricated GA/Ch/nHA nanocomposite hydrogels were characterized using different analysis techniques. Using acrylic acid solvent produced novel hydrogels with compressive strength of 15.43–22.20 MPa which is similar to that of natural cortical bone. The addition of natural nHA to the hydrogels resulted in a significant improvement in the compressive strength of the fabricated hydrogels. In vitro studies of water absorption and degradation—and in vivo studies—confirmed that the nanocomposite hydrogels described here are biodegradable, biocompatible, and facilitate apatite formation while immersed in the simulated body fluid (SBF). In light of these findings, the GA/Ch/nHA nanocomposite hydrogels are recommended for preparing bioactive nanoscaffolds for testing in bone regeneration applications.
The Microhardness and Surface Roughness Assessment of Bulk-Fill Resin Composites Treated with and without the Application of an Oxygen-Inhibited Layer and a Polishing System: An In Vitro Study
Authors: Carrillo-Marcos Ann , Salazar-Correa Giuliany , Castro-Ramirez Leonor , Ladera-Castañeda Marysela , López-Gurreonero Carlos , Cachay-Criado Hernán , Aliaga-Mariñas Ana , Cornejo-Pinto Alberto , Cervantes-Ganoza Luis , Cayo-Rojas César Félix
Published: July 2022

The aim of this study was to assess the microhardness and surface roughness of bulk-fill resin composites treated with and without the application of an oxygen-inhibited layer (OIL) and a polishing system. This in vitro experimental study consisted of 72 resin composite blocks divided into three groups: Tetric N-Ceram Bulk Fill, Opus Bulk Fill APS, and Filtek Bulk Fill. Each resin composite group was further divided into two subgroups: with and without OIL control. Subsequently, surface roughness and microhardness were measured before and after polishing. A t-test was used to compare independent and related measures. For the intergroup comparison of variation before and after polishing, the Kruskal–Wallis test with Bonferroni post hoc was used considering a significance level of p < 0.05. When comparing surface roughness, significant differences were observed between Opus Bulk Fill resin composite with and without OIL control (p = 0.003) before polishing. The same occurred when comparing Tetric N-Ceram resin composite with and without OIL control (p = 0.039) after polishing. In addition, the surface roughness of Filtek Bulk Fill, Opus Bulk Fill, and Tetric N-Ceram Bulk Fill resin composites, with and without OIL control, decreased significantly after polishing (p < 0.001), while surface microhardness significantly increased (p < 0.05), with the exception of Opus Bulk Fill resin with OIL control (p = 0.413). In conclusion, OIL control and polishing significantly improved the surface roughness and surface microhardness of Filtek Bulk Fill and Tetric N-Ceram Bulk Fill resin composites. However, in the case of Opus Bulk Fill resin composite, only its surface roughness was significantly improved.
Advancement of the Power-Law Model and Its Percolation Exponent for the Electrical Conductivity of a Graphene-Containing System as a Component in the Biosensing of Breast Cancer
Authors: Zare Yasser , Rhee Kyong Yop , Park Soo Jin
Published: July 2022

The power-law model for composite conductivity is expanded for graphene-based samples using the effects of interphase, tunnels and net on the effective filler fraction, percolation start and “b” exponent. In fact, filler dimensions, interphase thickness, tunneling distance and net dimension/density express the effective filler fraction, percolation start and “b” exponent. The developed equations are assessed by experimented values from previous works. Additionally, the effects of all parameters on “b” exponent and conductivity are analyzed. The experimented quantities of percolation start and conductivity confirm the predictability of the expressed equations. Thick interphase, large tunneling distance, high aspect ratio and big nets as well as skinny and large graphene nano-sheets produce a low “b” and a high conductivity, because they improve the conduction efficiency of graphene nets in the system. Graphene-filled nanocomposites can be applied in the biosensing of breast cancer cells and thus the developed model can help optimize the performance of biosensors.