Exploring the Human Microbiome: The Potential Future Role of Next-Generation Sequencing in Disease Diagnosis and Treatment

The interaction between the human microbiome and immune system has an effect on several human metabolic functions and impacts our well-being. Additionally, the interaction between humans and microbes can also play a key role in determining the wellness or disease status of the human body. Dysbiosis is related to a plethora of diseases, including skin, inflammatory, metabolic, and neurological disorders. A better understanding of the host-microbe interaction is essential for determining the diagnosis and appropriate treatment of these ailments. The significance of the microbiome on host health has led to the emergence of new therapeutic approaches focused on the prescribed manipulation of the host microbiome, either by removing harmful taxa or reinstating missing beneficial taxa and the functional roles they perform. Culturing large numbers of microbial taxa in the laboratory is problematic at best, if not impossible. Consequently, this makes it very difficult to comprehensively catalog the individual members comprising a specific microbiome, as well as understanding how microbial communities function and influence host-pathogen interactions. Recent advances in sequencing technologies and computational tools have allowed an increasing number of metagenomic studies to be performed. These studies have provided key insights into the human microbiome and a host of other microbial communities in other environments. In the present review, the role of the microbiome as a therapeutic agent and its significance in human health and disease is discussed. Advances in high-throughput sequencing technologies for surveying host-microbe interactions are also discussed. Additionally, the correlation between the composition of the microbiome and infectious diseases as described in previously reported studies is covered as well. Lastly, recent advances in state-of-the-art bioinformatics software, workflows, and applications for analysing metagenomic data are summarized

Endophytic Bacteria Improve Plant Growth, Symbiotic Performance of Chickpea (Cicer arietinum L.) and Induce Suppression of Root Rot Caused by Fusarium solani under Salt Stress

Salinity causes disturbance in symbiotic performance of plants, and increases susceptibility of plants to soil-borne pathogens. Endophytic bacteria are an essential determinant of cross-tolerance to biotic and abiotic stresses in plants. The aim of this study was to isolate non–rhizobial endophytic bacteria from the root nodules of chickpea (Cicer arietinum L.), and to assess their ability to improve plant growth and symbiotic performance, and to control root rot in chickpea under saline soil conditions. A total of 40 bacterial isolates from internal root tissues of chickpea grown in salinated soil were isolated. Four bacterial isolates, namely Bacillus cereus NUU1, Achromobacter xylosoxidans NUU2, Bacillus thuringiensis NUU3, and Bacillus subtilis NUU4 colonizing root tissue demonstrated plant beneficial traits and/or antagonistic activity against F. solani and thus were characterized in more detail. The strain B. subtilis NUU4 proved significant plant growth promotion capabilities, improved symbiotic performance of host plant with rhizobia, and promoted yield under saline soil as compared to untreated control plants under field conditions. A combined inoculation of chickpea with M. ciceri IC53 and B. subtilis NUU4 decreased H2O2 concentrations and increased proline contents compared to the un-inoculated plants indicating an alleviation of adverse effects of salt stress. Furthermore, the bacterial isolate was capable to reduce the infection rate of root rot in chickpea caused by F. solani. This is the first report of F. solani causing root rot of chickpea in a salinated soil of Uzbekistan. Our findings demonstrated that the endophytic B. subtilis strain NUU4 provides high potentials as a stimulator for plant growth and as biological control agent of chickpea root rot under saline soil conditions. These multiple relationships could provide promising practical approaches to increase the productivity of legumes under salt stress

Assessment of Pulpine Mineral effect on root maturation for immature dog teeth with infected pulp

The aim of the study was to assess the effect of pulpine mineral on root maturation for immature dog teeth with infected pulp and compare the results with Mineral Trioxide Aggregate (MTA). Materials and methods: Sixty (60) permanent dog teeth from six mongrel dogs were selected. Dogs were randomly divided into 2 equal study groups (3 dogs/ group), according to the post-treatment evaluation period. Group one (1 month, n= 30 teeth), Group two (3 months, n= 30 teeth). Each main group was then subdivided according to the materials used into 4 experimental subgroups: Pulpine mineral, n=9, MTA group, n=9, Positive control group, n=6 and negative control group, n=6. Radiographic evaluation was performed to assess the increase in the root length. Results: The results showed that after 1 month; the radiographic evaluation regarding root length revealed that the difference in root length between one month after treatment and the preoperative condition was recorded 9.94±5.19 mm in the pulpine mineral group while it was recorded 5.38±3.78 mm in the MTA group, the positive control group showed the least one in the change in the root length 1.00±1.87 mm, while the negative control group was 7.00±4.06 mm. After 3 months; results showed The difference in root length between three months after treatment and the preoperative condition was recorded 8.36±2.45 mm in the pulpine mineral group while it was recorded 8.63±5.83 mm in the MTA group, the least change in the root length was detected 1.60±3.13 mm, while the highest change was 12.00±4.90 mm which was the negative control group. Conclusion: PMIN is a promising alternative to MTA when used for pulpotomy. Clinical relevance: Vital pulp therapy in immature teeth can be done using PMIN as an alternative to MTA

Tapping Into Actinobacterial Genomes for Natural Product Discovery

The presence of secondary metabolite biosynthetic gene clusters (BGCs) makes actinobacteria well-known producers of diverse metabolites. These ubiquitous microbes are extensively exploited for their ability to synthesize diverse secondary metabolites. The extent of their ability to synthesize various molecules is yet to be evaluated. Current advancements in genome sequencing, metabolomics, and bioinformatics have provided a plethora of information about the mechanism of synthesis of these bioactive molecules. Accessing the biosynthetic gene cluster responsible for the production of metabolites has always been a challenging assignment. The genomic approach developments have opened a new gateway for examining and manipulating novel antibiotic gene clusters. These advancements have now developed a better understanding of actinobacterial physiology and their genetic regulation for the prolific production of natural products. These new approaches provide a unique opportunity to discover novel bioactive compounds that might replenish antibiotics’ exhausted stock and counter the microbes’ resistance crisis

A review of the interaction of medicinal plants and arbuscular mycorrhizal fungi in the rhizosphere

Medicinal plants are well known to have the advantages of high concentration of medicinal ingredients having clinical importance, curative value, small toxic and side effects. Important compounds viz., paclitaxel, camptothecin, and vincristine have been developed from medicinal plants as first-line of clinical drugs, leading to their consistently increasing demand globally. However, the destruction of natural environment due to excessive mining threatened such resources jeopardizing the successful growing of medicinal plants. A group of beneficial arbuscular mycorrhizal (AM) fungi is known to exist in the rhizosphere of medicinal plants, which can establish a reciprocal symbiosis with their roots, namely arbuscular mycorrhizas. These AM fungi are pivotal in the habitat adaptation of medicinal plants. Studies have demonstrated that AM fungi aided in growth promotion and nutrient absorption of medicinal plants, thereby, accelerating the accumulation of medicinal ingredients and aiding resistance against abiotic stresses such as drought, low temperature, and salinity. An AM-like fungus Piriformospora indica is known to be cultured in vitro without roots, later showed analogous effects of AM fungi on medicinal plants. These fungi provide new mechanistic pathways towards the artificial cultivation of medicinal plants loaded with ingredients in huge demand in international market. This review provides an overview of the diversity of AM fungi inhabiting the rhizosphere of medicinal plants, and analyzes the functioning of AM fungi and P. indica, coupled with future lines of research

Synergistic Interaction of Rhizobium tropici, Rhizophagus irregularis and Serendipita indica in Promoting Snap Bean Growth

The overuse of chemical pesticides and fertilizers in crop farming has led to a decrease in crop quality and negative impacts on soil and the environment. It is crucial to adopt alternative strategies to maintain soil and environmental quality while enhancing crop growth and yield. To explore this, a study was conducted under greenhouse conditions to investigate the effect of Rhizobium tropici CIAT 899 alone, as well as in association with mycorrhizae (Rhizophagus irregularis) and endophytic fungus (Serendipita indica), on the growth, yield, and nutrient status of snap bean plants. At harvest, the rhizobial strain CIAT 899 demonstrated the highest effectiveness. It significantly increased the number of nodules in both Contender and Garrafal Enana varieties by 6.97% and 14.81%, respectively, compared with the control without inoculation. Furthermore, the results indicated that co-inoculation of Rhizobium and symbiotic fungi had positive effects on nitrogen content, phosphorus availability, and overall plant growth. Regardless of the variety, plants inoculated with R. tropici CIAT 899 and Serendipita indica exhibited the highest values for plant growth parameters. This combination resulted in 168% and 135% increases in root dry biomass, as well as 140% and 225% increases in the number of pods for Contender and Garrafal Enana, respectively, compared with the control at harvest. Additionally, this study highlights the potential benefits of combining R. tropici with either Serendipita indica or Rhizophagus irregularis in terms of nitrogen and phosphorus uptake. These symbiotic microorganisms demonstrated synergistic interactions with snap bean plants, leading to improved mineral nutrition and enhanced growth. Overall, these findings suggest that utilizing these symbiotic microorganisms can effectively enhance the mineral nutrition and growth of snap bean plants.info:eu-repo/semantics/publishedVersio

Ameliorations in dyslipidemia and atherosclerotic plaque by the inhibition of HMG-CoA reductase and antioxidant potential of phytoconstituents of an aqueous seed extract of Acacia senegal (L.) Willd in rabbits

The assigned work was aimed to examine the capability of phytoconstituents of an aqueous seed extract of Acacia senegal (L.) Willd to inhibit HMG-CoA reductase and regression of the atherosclerotic plaque. The chemical fingerprinting of the test extract was assessed by LC-MS/MS. Consequently, the analyses of in-vitro, in-vivo, and in-silico were executed by using the standard protocols. The in-vitro assessment of the test extract revealed 74.1% inhibition of HMG-CoA reductase. In-vivo assessments of the test extract indicated that treated hypercholesterolemic rabbits exhibited a significant (P≤0.001) amelioration in the biomarker indices of the dyslipidaemia i.e., atherogenic index, Castelli risk index(I&II), atherogenic coefficient along with lipid profile. Subsequently, significant reductions were observed in the atherosclerotic plaque and antioxidant levels. The in-silico study of molecular docking shown interactions capabilities of the leading phytoconstituents of the test extract i.e., eicosanoic acid, linoleic acid, and flavan-3-ol with target protein of HMG-CoA reductase. The values of RSMF and potential energy of top docked complexes were show significant interactions. Accordingly, the free energy of solvation, interaction angle, radius of gyration and SASA were shown significant stabilities of top docked complex. The cumulative data of results indicate phytoconstituents of an aqueous seed extract of Acacia senegal have capabilities to inhibit the HMG-CoA reductase and improve the levels of antioxidants

Recent developments in ultrasound approach for preservation of animal origin foods

Ultrasound is a contemporary non-thermal technology that is currently being extensively evaluated for its potential to preserve highly perishable foods, while also contributing positively to the economy and environment. There has been a rise in the demand for food products that have undergone minimal processing or have been subjected to non-thermal techniques. Livestock-derived food products, such as meat, milk, eggs, and seafood, are widely recognized for their high nutritional value. These products are notably rich in proteins and quality fats, rendering them particularly vulnerable to oxidative and microbial spoilage. Ultrasound has exhibited significant antimicrobial properties, as well as the ability to deactivate enzymes and enhance mass transfer. The present review centers on the production and classification of ultrasound, as well as its recent implementation in the context of livestock-derived food products. The commercial applications, advantages, and limitations of the subject matter are also subject to scrutiny. The review indicated that ultrasound technology can be effectively utilized in food products derived from livestock, leading to favorable outcomes in terms of prolonging the shelf life of food while preserving its nutritional, functional, and sensory attributes. It is recommended that additional research be conducted to investigate the effects of ultrasound processing on nutrient bioavailability and extraction. The implementation of hurdle technology can effectively identify and mitigate the lower inactivation of certain microorganisms or vegetative cells.info:eu-repo/semantics/publishedVersio

Plant distribution, ecological traits and diversity patterns of vegetation in subtropical managed forests as guidelines for forest management policy

Forest vegetation is an important component of forest ecosystems, contributing to terrestrial plant diversity while also providing a variety of ecological services. In managed landscapes, plantations emerge as dominant kinds after stand-replacing disturbances. However, the dynamics of vegetation cover, diversity, and composition in plantation forests remains poorly understood in the subtropical region. Our study recorded a rich floral diversity with 173 angiosperm species, characterized by varying life forms and distinct flowering phenology. The uneven distribution of species across families demonstrated the complexity of the ecosystem, with Poaceae being dominant. Diversity patterns among different plantation types varied, with Dalbergia sissoo and Populus nigra plantations exhibiting higher species richness and diversity. Conversely, Eucalyptus camaldulensis and Morus alba plantations displayed lower diversity, emphasizing the influence of plantation type on biodiversity. Non-metric multidimensional scaling (nMDS) and PERMANOVA analyses revealed significant dissimilarity patterns of vegetation composition. Indicator species analysis identified unique compositions within each plantation type, emphasizing the importance of conserving specific types to protect indicator species and maintained ecological distinctiveness. Canonical Correspondence Analysis (CCA) demonstrated that road accessibility, stem cutting, and fire significantly influenced plant distribution patterns. The present research underscored the importance of considering plantation type in forest management for biodiversity conservation and highlighted the environmental variables’ influence on the formation of plant communities. These results provided major implications for sustainable forest management and conservation efforts in tropical regions

Empirical phenotyping and genome-wide association study reveal the association of panicle architecture with yield in Chenopodium quinoa

Chenopodium quinoa manifests adaptability to grow under varying agro-climatic scenarios. Assessing quinoa germplasm’s phenotypic and genetic variability is a prerequisite for introducing it as a potential candidate in cropping systems. Adaptability is the basic outcome of ecological genomics of crop plants. Adaptive variation predicted with a genome-wide association study provides a valuable basis for marker-assisted breeding. Hence, a panel of 72 quinoa plants was phenotyped for agro morphological attributes and association-mapping for distinct imperative agronomic traits. Inter simple sequence repeat (ISSR) markers were employed to assess genetic relatedness and population structure. Heatmap analysis showed three genotypes were early maturing, and six genotypes were attributed for highest yield. The SD-121-07 exhibited highest yield per plant possessing green, glomerulate shaped, compact density panicle with less leaves. However, SJrecm-03 yielded less exhibiting pink, intermediate shape, intermediate density panicles with less leaves. The phenotyping revealed strong correlation of panicle architecture with yield in quinoa. A genome-wide association study unraveled the associations between ISSR makers and agro-morphological traits. Mixed linear modes analysis yielded nine markers associated with eight traits at p ≤ 0.01. Moreover, ISSR markers significantly associated with panicle shape and leafiness were also associated with yield per plant. These findings contribute to the provision of authenticity for marker-assisted selection that ultimately would support quinoa breeding programs