Unveiling growth-promoting attributes of peanut root endophyte Micromonospora sp.

In this study, 20 endophytic actinobacteria were isolated from different parts of peanut plants growing in cropland with low and high salt in West Bengal, India. The endophytes underwent a rigorous morphological, biochemical, and genetic screening process to evaluate their effectiveness in enhancing plant growth. About 20% of these isolates were identified as potential plant growth-promoting endophytic actinobacteria, which showed high 16S rRNA gene sequence similarity (up to 99-100%) with different species of Micromonospora. Among these isolates, Micromonospora sp. ASENR15 produced the highest levels of indole acetic acid (IAA) and gibberellic acid (GA), while Micromonospora sp. ASENL2, Micromonospora sp. ANENR4, and Micromonospora sp. ASENR12 produced the highest level of siderophore. Among these leaf and root endophytic Micromonospora, strain ANENR4 was tested for its plant growth-promoting attributes. ANENR4 can be transmitted into the roots of a healthy peanut plant, enhances growth, and colonize the roots in abundance, suggesting the potential agricultural significance of the strain. Moreover, the study is the first report of endophytic Micromonospora in peanuts with PGP effects. The outcomes of this study open avenues for further research on harnessing the benefits of this endophytic Micromonospora for optimizing plant growth in agriculture.

Endophytic Streptomyces sp. MSARE05 isolated from roots of Peanut plant produces a novel antimicrobial compound.

AIM: This study aimed to isolate, endophytic Streptomyces sp. MSARE05 isolated from root of a peanut (Arachis hypogaea) inhibits the growth of other bacteria. The research focused on characterizing the strain and the antimicrobial compound. METHODS AND RESULTS: The surface-sterilized peanut roots were used to isolate the endophytic bacterium Streptomyces sp. MSARE05. A small-scale fermentation was done to get the antimicrobial compound SM05 produced in highest amount in ISP-2 medium (pH 7) for 7 days at 30°C in shaking (180 rpm) condition. Extraction, purification, and chemical analysis of the antibacterial component revealed a novel class of antibiotics with a 485.54 Dalton molecular weight. The MIC was 0.4-0.8 µg ml-1 against the tested pathogens. It also inhibits multidrug-resistant (MDR) pathogens and Mycobacterium with 0.8-3.2 µg ml-1 MIC. SM05 was found to disrupt cell membrane of target pathogen as evident by significant leakage of intracellular proteins and nucleic acids. It showed synergistic activity with ampicillin, chloramphenicol, streptomycin, and kanamycin. CONCLUSIONS: The new-class antimicrobial SM05 consisting naphthalene core moiety was effective against drug-resistant pathogens but non-cytotoxic to human cells. This study underscores the significance of endophytic Streptomyces as a source of innovative antibiotics, contributing to the ongoing efforts to combat antibiotic resistance.

HIV-1 Vpu protein forms stable oligomers in aqueous solution via its transmembrane domain self-association.

We report our findings on the assembly of the HIV-1 protein Vpu into soluble oligomers. Vpu is a key HIV-1 protein. It has been considered exclusively a single-pass membrane protein. Previous observations show that this protein forms stable oligomers in aqueous solution, but details about these oligomers still remain obscure. This is an interesting and rather unique observation, as the number of proteins transitioning between soluble and membrane embedded states is limited. In this study we made use of protein engineering, size exclusion chromatography, cryoEM and electron paramagnetic resonance (EPR) spectroscopy to better elucidate the nature of the soluble oligomers. We found that Vpu oligomerizes via its N-terminal transmembrane domain (TM). CryoEM suggests that the oligomeric state most likely is a hexamer/heptamer equilibrium. Both cryoEM and EPR suggest that, within the oligomer, the distal C-terminal region of Vpu is highly flexible. Our observations are consistent with both the concept of specific interactions among TM helices or the core of the oligomers being stabilized by hydrophobic forces. While this study does not resolve all of the questions about Vpu oligomers or their functional role in HIV-1 it provides new fundamental information about the size and nature of the oligomeric interactions.

In vivo 'turn on' fluorescence detection of free cysteine in zebrafish kidney and liver.

Cysteine is directly associated with a wide range of biological processes. Besides its essential role in protein synthesis, cysteine undergoes a variety of post-translational modifications which modulate several physiological processes. Dysregulated cysteine metabolism is associated with several neurodegenerative disorders. Accordingly, restoring cysteine balance has therapeutic benefits. It is therefore essential to detect the presence of endogenous free cysteine in order to understand different physiological modes of action inside the cell. Here, a carbazole-pyridoxal conjugate system (CPLC) has been developed to detect endogenous free cysteine in the liver and kidney of an adult zebrafish. In consequence, we have also determined the fluorescence intensity statistics of zebrafish kidney and liver images. CPLC interacts in a very fascinating way with two cysteine molecules through chemodosimetric and chemosensing approaches which are conclusively proved by different spectroscopic analyses (UV-vis, fluorescence, NMR) and theoretical calculations (DFT). The detection limit of CPLC towards cysteine is 0.20 µM. Moreover, this preliminary experiment has been done using HuH-7 cell line to check the permeability of CPLC, interaction with cysteine intracellularly, and assessment of the toxicity of CPLC, if any, before performing details in-vivo experiments in zebrafish model.

HIV-1 Vpu protein forms stable oligomers in aqueous solution via its transmembrane domain self-association.

We report our findings on the assembly of the HIV-1 protein Vpu into soluble oligomers. Vpu is a key to HIV-1 protein. It has been considered exclusively a single-pass membrane protein. However, we revealed that this protein forms stable oligomers in aqueous solution, which is an interesting and rather unique observation, as the number of proteins transitioning between soluble and membrane embedded states is limited. Therefore, we undertook a study to characterize these oligomers by utilizing protein engineering, size exclusion chromatography, cryoEM and electron paramagnetic resonance (EPR) spectroscopy. We found that Vpu oligomerizes via its N-terminal transmembrane domain (TM). CryoEM analyses suggest that the oligomeric state most likely is a hexamer or hexamer-to-heptamer equilibrium. Both cryoEM and EPR suggest that, within the oligomer, the distant C-terminal region of Vpu is highly flexible. To the best of our knowledge, this is the first comprehensive study on soluble Vpu. We propose that these oligomers are stabilized via possibly hydrophobic interactions between Vpu TMs. Our findings contribute valuable information about this protein properties and about protein supramolecular complexes formation. The acquired knowledge could be further used in protein engineering, and could also help to uncover possible physiological function of these Vpu oligomers.

Cobalt-conjugated carbon quantum dots for in vivo monitoring of the pyruvate dehydrogenase kinase inhibitor drug dichloroacetic acid.

Dichloroacetic acid (DCA), an organohalide that present in environmental sample and biological systems, got high attention for its therapeutic potential as the inhibitor of pyruvate dehydrogenase kinase (PDK), elevated in obesity, diabetes, heart disease and cancer. Herein, we developed a Cobalt conjugated carbon quantum dots (N-CQDs/Co) that selectively detect DCA by fluorescence "turn-on" mechanism. Utilizing TEM, DLS, UV-vis and fluorescence spectroscopy, the mechanism has been thoroughly elucidated and is attributed to disaggregation induced enhancement (DIE). The limit of detection of the N-CQDs/Co complex is 8.7 µM. The structural characteristics and size of the N-CQDs and N-CQDS/Co complex have been verified using FT-IR, XPS, HRTEM, DLS, EDX have been performed. Additionally, the complex is used to specifically find DCA in the human cell line and in zebrafish.Journal instruction requires a city for affiliations; however, these are missing in affiliation [4]. Please verify if the provided city is correct and amend if necessary.Kharagpur is the city. The address is okay.

Draft Genome Sequence of an Endophytic Micromonospora sp. Strain, ANENR4, Isolated from the Root of a Peanut Plant (Arachis hypogaea).

The genus Micromonospora was found to occur in a diverse range of habitats. Here, we report the genome sequence of an endophytic strain of Micromonospora sp., ANENR4. ANENR4 was isolated from the healthy roots of a peanut (Arachis hypogaea) plant from Egra, West Bengal, India.

Endophytic Microbiota of Rice and Their Collective Impact on Host Fitness.

Endophytic microbiota mainly includes positive modulator of plant growth, productivity, stress tolerance and ability to control the phytopathogens. Rice endophytes colonize in different parts like roots, shoots, leaves, seeds, flowers, ovules, etc. The diversity and colonization of endophytes depend on several factors like host specificity, environment specificity, chemotaxis, motility, etc. A mutualistic relationship between rice plant and their endophytes improves the host health. Several crucial activities of rice plants are influenced by the presence of endophytes as they endorse plant growth by producing different phytohormones, solubilized minerals, or mitigating various environmental adverse conditions. Endophytes also protect rice plants from various phytopathogen by the production of secondary metabolites, lytic enzymes, antibiotics and induced systemic acquired resistance. Furthermore, the endophytes from rice and major crops are recently been shown useful in environmental waste management and also for the synthesis of green nanoparticles. This study highlights the beneficial interaction between rice plants and their endophytic microbiota with special emphasis on highlighting their application for sustainable agricultural and environmental practices in order to enhance the agro-economy in an eco-friendly manner.

Viable bacterial counts of the Pangasius catfish (Pangasianodon hypophthalmus), their responses to seasonal variations of physicochemical parameters, and bacterial counts of the cultured ponds.

Objectives: The study was undertaken to evaluate the influences of some physicochemical parameters and viable bacterial counts in cultured ponds (water and sediment) on the viable counts of the Pangasius catfish (Pangasianodon hypophthalmus) (gill and intestine) on a seasonal scale. Materials and Methods: Physicochemical parameters, viz., ambient temperature, water temperature, water transparency, pH of the pond waters, and viable bacterial counts of pond water, sediment, fish gills, and intestines, were monitored during four different seasons. The responses of viable counts of bacteria to the seasonal changes of physicochemical parameters were also assessed using redundancy analysis (RDA) and a heatmap coupled with the clustering analysis. Results: Except for fluctuations in air and water temperatures, the other two physicochemical parameters were almost stable throughout the study periods. The gills and water counts were relatively lower than those of the intestine and sediment. Pearson's correlation analysis established no significant correlations between the physicochemical parameters and viable bacterial counts. However, significant positive correlations were detected between the viable counts of water and sediment and between the gill and intestine. The RDA plot showed that, except in spring, the viable counts of a particular sample type were similar among the four locations. The results of permutation test showed that, individually none of the studied physicochemical parameters was significant; however, the seasons significantly affected the viable counts.

Different soil salinity imparts clear alteration in rhizospheric bacterial community dynamics in rice and peanut.

The rhizospheric microbiome is capable of changing the physio-chemical properties of its own micro-environment and found to be indispensable in the overall health of the hostplant. The interplay between the rhizospheric environment and the microbiota residing therein tune the physiology of the associated plant. In this study, we have determined how the soil properties and the host-plant remains as an important parameter for microbial community dynamics in the rhizosphere of rice and peanut. In addition to check the physio-chemical parameters of the rhizospheric soil, we have also prepared the metagenomic DNA from each rhizospheric soil followed by high-throughput sequencing and sequence analysis to predict the OTUs that represents the community structure. The alpha-diversity of the bacterial community in the RRN sample was highest, while the lowest was in PRS sample. Actinobacteria is the most predominant phylum in PRN, PRS and RRN, whereas Acidobacteria in RRS. We found a clear shift in bacterial community over the rice and peanut rhizosphere and also over these host-rhizospheres from normal and high saline region. The rhizospheric bacterial community composition found to be affected by the close-by environmental factors. Thus, the rhizospheric bacterial community structure is related to both the adjoining soil characters and the type of the hosts.

A ratiometric triazine-based colorimetric and fluorometric sensor for the recognition of Zn2+ ions and its application in human lung cancer cells.

Herein, we introduce new ratiometric 2,4,6-triamino-1,3,5-triazine-based probes (R1 and R2) having three different binding sites for three metal ion binders, which can selectively detect Zn2+ ions and, particularly, the probe R1 strongly interacts with the human lung cancer cell line (A549). Both the probes R1 and R2 are competently selective towards the Zn2+ ions with the detection limits of 1.22 × 10-7 M and 1.13 × 10-7 M, respectively. The changes in the structure and absorption properties of the probes are explained by density functional theory (DFT) and time dependent density functional theory (TDDFT) calculations. The absorption and fluorescence color change in the solid TLC plate makes it a brilliant Zn2+ sensor in a portable form.