Global dataset of soil organic carbon in tidal marshes.

Tidal marshes store large amounts of organic carbon in their soils. Field data quantifying soil organic carbon (SOC) stocks provide an important resource for researchers, natural resource managers, and policy-makers working towards the protection, restoration, and valuation of these ecosystems. We collated a global dataset of tidal marsh soil organic carbon (MarSOC) from 99 studies that includes location, soil depth, site name, dry bulk density, SOC, and/or soil organic matter (SOM). The MarSOC dataset includes 17,454 data points from 2,329 unique locations, and 29 countries. We generated a general transfer function for the conversion of SOM to SOC. Using this data we estimated a median (± median absolute deviation) value of 79.2 ± 38.1 Mg SOC ha-1 in the top 30 cm and 231 ± 134 Mg SOC ha-1 in the top 1 m of tidal marsh soils globally. This data can serve as a basis for future work, and may contribute to incorporation of tidal marsh ecosystems into climate change mitigation and adaptation strategies and policies.

Synthesis, Antifungal Ergosterol Inhibition, Antibiofilm Activities, and Molecular Docking on ß-Tubulin and Sterol 14-Alpha Demethylase along with DFT-Based Quantum Mechanical Calculation of Pyrazole Containing Fused Pyridine-Pyrimidine Derivatives.

Multidrug-resistant fungal infections have become much more common in recent years, especially in immune-compromised patients. Therefore, researchers and pharmaceutical professionals have focused on the development of novel antifungal agents that can tackle the problem of resistance. In continuation to this, a novel series of pyrazole-bearing pyrido[2,3-d]pyrimidine-2,4(1H,3H)-dione derivatives (4a-4o) have been developed. These compounds have been screened against Candida albicans, Aspergillus niger, and Aspergillus clavatus. The synthesized compounds were characterized by well-known spectroscopic techniques, i.e., IR, 1H NMR, 13C NMR, and mass spectrometry. In vitro antifungal results revealed that compound 4n showed activity against C. albicans having MIC value of 200 µg/mL. To know the plausible mode of action, the active derivatives were screened for anti-biofilm and ergosterol biosynthesis inhibition activities. The compounds 4h, 4j, 4k, and 4n showed greater ergosterol biosynthesis inhibition than the control DMSO. To comprehend how molecules interact with the receptor, studies of molecular docking of 4k and 4n have been performed on the homology-modeled protein of ß-tubulin. The molecular docking revealed that the active compounds 4h, 4j, 4k, 4l, and 4n interacting with the active site amino acid of sterol 14-alpha demethylase (PDB ID: 5v5z) indicate one of the possible modes of action of ergosterol inhibition activity. The synthesized compounds 4c, 4e, 4h, 4i, 4j, 4k, 4l, and 4n inhibited biofilm formation and possessed the potential for anti-biofilm activity. DFT-based quantum mechanical calculations were carried out to optimize, predict, and compare the vibration modes of the molecule 4a.

Surface-associated bacterial assemblages on marine anthropogenic litter in the intertidal zone of the Arabian Sea, India.

Anthropogenic marine litter (mainly plastic pollution) is a serious concern globally. The interactions between terrestrial and marine ecosystems lead to the accumulation of marine litter in the intertidal zone. The biofilm-forming bacteria tend to colonize on surfaces of marine litter which are composed of diverse bacteria and are less studied. The present study investigated the bacterial community composition using both culturable and non-culturable (Next-generation sequencing (NGS)) approaches associated with the marine litter (polyethylene (PE), styrofoam (SF) and fabric (FB)) at three distinct locations (Alang, Diu and Sikka) of the Arabian Sea, Gujarat, India. Predominant bacteria observed using culturable and NGS techniques belonged to Proteobacteria phyla. Alphaproteobacteria class dominated on polyethylene and styrofoam surfaces in the culturable fraction among the sites while the Bacillus dominated fabric surfaces. In the metagenomics fraction, Gammaproteobacteria dominated the surfaces except for PE and SF surfaces from Sikka and Diu, respectively. The PE surface at Sikka was dominated by Fusobacteriia while SF surface from Diu was dominated by Alphaproteobacteria. Both culture-dependent and NGS approaches identified hydrocarbon-degrading bacteria as well as pathogenic bacteria on the surfaces. The outcome of the present study illustrates diverse bacterial assemblages which occur on marine litter and increases our understanding of the plastisphere community.

Dye degradation by early colonizing marine bacteria from the Arabian Sea, India.

Malachite green dye belongs to the triphenylmethane group and is a common environmental pollutant that threatens non-target organisms. We report the potential of the early colonizing marine bacterium Pseudomonas sp. ESPS40 isolated from the Arabian Sea, India, to decolorize malachite green (MG). The bacterium ESPS40 exhibited a higher ability for MG degradation (86-88%) at varying NaCl concentrations (1-3%). The highest MG degradation (~ 88%) was observed at 1% NaCl. The bacterial strain ESPS40 showed degradation up to 800 mg L-1 MG. Further, enzyme activities such as tyrosinase (63.48-526.52 U L-1) and laccase (3.62-28.20 U L-1) were also analyzed with varying concentrations (100 mg L-1-1000 mg L-1) of MG during the degradation process. The dye degradation was confirmed by Fourier transform infrared spectroscopy (FTIR) and high-performance liquid chromatography (HPLC). The outcome of the present study demonstrated Pseudomonas sp. ESPS40 as a potential strain for the efficient degradation of MG at higher concentrations. Thus, Pseudomonas sp. ESPS40 can be utilized as a potential candidate for the biodegradation of MG in wastewater treatment.

Sediment microbial community structure, enzymatic activities and functional gene abundance in the coastal hypersaline habitats.

Salt marsh vegetation, mudflat and salt production are common features in worldwide coastal areas; however, their influence on microbial community composition and structure has been poorly studied and rarely compared. In the present study, microbial community composition (phospholipid fatty acid (PLFA) profiling and 16S rRNA gene sequencing (bacterial and archaeal)) and structure, enzymatic activities and abundance of functional genes in the sediments of salt ponds (crystallizer, condenser and reservoir), mudflat and vegetated mudflat were determined. Enzyme activities (ß-glucosidase, urease and alkaline phosphatase) were considerably decreased in saltpan sediments because of elevated salinity while sediment of vegetated mudflat sediments showed the highest enzyme activities. Concentrations of total microbial biomarker PLFAs (total bacterial, Gram-positive, Gram-negative, fungal and actinomycetes) were the highest in vegetated mudflat sediments and the lowest in crystallizer sediments. Nonmetric-multidimensional scaling (NMDS) analysis of PLFA data revealed that the microbial community of crystallizer, mudflat and vegetated mudflat was significantly different from each other as well as different from condenser and reservoir. The most predominant phyla within the classified bacterial fractions were Proteobacteria followed by Firmicutes, Bacteroidetes and Planctomycetes, while Euryarchaeota and Crenarchaeota phyla dominated the classified archaeal fraction. Cyanobacterial genotypes were the most dominant in the condenser. Mudflat and vegetated mudflat supported a greater abundance of Bacteroidetes and Actinobacteria, respectively. The results of the present study suggest that salt ponds had significantly decreased the microbial and enzyme activities in comparison to mudflat and vegetated mudflat sediments due to very high salinity, ionic concentrations and devoid of vegetation. The present study expands our understanding of microbial resource utilization and adaptations of microorganisms in a hypersaline environment.

An appraisal of early stage biofilm-forming bacterial community assemblage and diversity in the Arabian Sea, India.

The community composition and distribution of early-stage (24 h) biofilm-forming bacteria on two different surfaces (glass slide and polystyrene plastic slide) at three different locations (Diu, Alang and Sikka) were studied using a culture-dependent and next-generation sequencing (NGS) approach in the Arabian Sea, Gujarat, India. The most dominant phyla observed using the NGS approach were the Proteobacteria among the sampling sites. Gammaproteobacteria class dominated both the surfaces among the sites and accounted for 46.7% to 89.2% of total abundance. The culture-dependent analysis showed Proteobacteria and Firmicutes as the dominant phyla on the surfaces within the sampling sites. During the initial colonization, hydrocarbon-degrading bacterial strains have also attached to the surfaces. The outcome of this study would be of great importance for targeting the early stage biofilm-forming and hydrocarbon-degrading bacterial isolates may help to degrade plastic in the marine environment.

Marine bacteria-based polyvinyl chloride (PVC) degradation by-products: Toxicity analysis on Vigna radiata and edible seaweed Ulva lactuca.

Biodegradation of polyvinyl chloride (PVC) by marine bacteria is a sustainable approach that leads to the production of different by-products but their toxicity needs to be evaluated. In the present study, polyvinyl chloride degradation products (PVCDP) produced by three marine bacterial isolates (T-1.3, BP-4.3 and S-237) in the culture supernatant were evaluated for toxicity on the germination of Vigna radiata and growth of Ulva lactuca. A total of 24 compounds comprising of benzene, fatty acid, ether, ester and plastic stabilizer (tris (2, 4-di-tert-butylphenyl) phosphate) were identified by GC-MS using diethyl ether solvent extraction from the supernatant. The per cent germination rate of the seed treated with PVCDP showed no significant effect but germination index and elongation inhibition rate were influenced significantly by PVCDP treatments. In seaweed (U. lactuca), PVCDP showed improvement in the daily growth rate. After ten days of treatment with PVCDP, pigment contents were improved in seaweed and PVCDP (2%) of isolate T-1.3 recorded the highest chlorophyll-a and chlorophyll-b.

Transcriptome-Guided Insights Into Plastic Degradation by the Marine Bacterium.

Polyethylene terephthalate (PET) is a common single-use plastic that accumulated in the environment because of its non-degradable characteristics. In recent years, microbes from different environments were found to degrade plastics and suggested their capability to degrade plastics under varying environmental conditions. However, complete degradation of plastics is still a void for large-scale implications using microbes because of the lack of knowledge about genes and pathways intricate in the biodegradation process. In the present study, the growth and adherence of marine Bacillus species AIIW2 on PET surface instigating structural deterioration were confirmed through weight loss and hydrophobicity reduction, as well as analyzing the change in bond indexes. The genome-wide comparative transcriptomic analysis of strain AIIW2 was completed to reveal the genes during PET utilization. The expression level of mRNA in the strain AIIW2 was indexed based on the log-fold change between the presence and absence of PET in the culture medium. The genes represent carbon metabolism, and the cell transport system was up-regulated in cells growing with PET, whereas sporulation genes expressed highly in the absence of PET. This indicates that the strain AIIW2 hydrolyzes PET and assimilated via cellular carbon metabolism. A protein-protein interaction network was built to obtain the interaction between genes during PET utilization. The genes traced to degrade PET were confirmed by detecting the hydrolytic product of PET, and genes were cloned to improve PET utilization by microbial system as an eco-friendly solution.

Bioremediation of polyvinyl chloride (PVC) films by marine bacteria.

Polyvinyl chloride (PVC) is the third one after polyethylene and polypropylene in the production demand. It intends to grow further, causing an increase in the risk of health and ecological problems due to environmental accumulation and incineration. In the present study, we determined the biodegradative abilities of marine bacteria for PVC. Three potential marine bacterial isolates, T-1.3, BP-4.3 and S-237 (Vibrio, Altermonas and Cobetia, respectively) were identified after preliminary screening. They led to active biofilm formation, viability and protein formation on the PVC surface. The highest weight loss (1.76%) of PVC films was exhibited by BP-4.3 isolate after 60 days of incubation. Remineralization of PVC film was confirmed by CO2 assimilation assay. Change in surface topography was confirmed by field emission scanning electron microscopy (FE-SEM) and atomic force microscopy (AFM). The functional group peak intensity was decreased for the terminal chlorine group at the region 1000-1300 cm-1, which indicated the dechlorination. Thermogravimetric, tensile strength and contact angle analysis showed a decline in the mechanical properties and a rise in PVC film's hydrophilic nature after biodegradation. These results demonstrated promising evidence of PVC degradation by marine bacteria.

Marine bacterial biodegradation of low-density polyethylene (LDPE) plastic.

Polyethylene has considered as non-degradable for decades, and their degradation through marine bacteria has rarely studied. However, LDPE found a significant source of pollution in the marine environment. In the present study, four bacterial strains capable of biodegradation of LDPE were isolated from the marine environment. These bacterial isolates H-237, H-255, H-256 and H-265 were revealed close similarity with Cobetia sp., Halomonas sp., Exigobacterium sp. and Alcanivorax sp., respectively based on 16S rRNA gene sequencing method. These bacterial isolates were individually incubated for 90 days supplied with LDPE films as a carbon source using the Bushnell-Haas medium. During the biodegradation assay, bacterial isolates were formed the viable biofilm on the LDPE surface, which decreased the thermal stability of the films. At the end of the incubation study, a maximum weight loss of 1.72% of LDPE film was observed by the bacterial isolate H-255. The bacterial attachment on the film changed the physical structure (surface erosion, roughness and degradation) which were confirmed by field emission scanning electron microscopy and atomic force microscopy. The changes in the chemical structure of the LDPE film were analyzed by Attenuated total reflection Fourier-transform infrared spectroscopy (ATR-FTIR). This ATR-FTIR showed the shifting of peaks of C-H stretch and C=C bond stretching and the new peaks formation of C-O and -C=C- bonds in comparison to control LDPE film. Further, biodegradation of LDPE film was also confirmed by remineralization of carbon and enzymatic activities. This study revealed that the active biodegradation of LDPE film by marine bacteria and these bacteria could reduce plastic pollution in the marine environment.

Draft genome sequence of plastic degrading Bacillus sp. AIIW2 isolated from the Arabian ocean.

The endemic spread of plastic in the environment requires urgent need of a sustainable approach. Marine microbes found to have vast bioactivity and play a central role in biogeochemical cycling in the ocean; however, very few of them had been explored for biochemical cycling or plastic degradation. In the present study, we report the draft genome sequence of marine Bacillus sp. AIIW2 which was found to utilize plastic as a carbon source. The Bacillus sonorensis SRCM101395 was used as a reference genome for mapping the reads. The genome size of strain AIIW2 was approximately 4.4 Mb and composed of 4737 coding sequences with 45.7% G + C contents. The whole genome comparison of strain AIIW2 with three closest Bacillus strains showed strain specificity, the 16S ribosomal RNA sequence shows 99.93% similarity with Bacillus paralicheniformis KJ-16T (KY694465). This genome data would provide the genetic basis in developing plastic bioremediation approaches and discover the enzymes pertinent in the biodegradation processes.

Microbial mechanism for enhanced methane emission in deep soil layer of Phragmites-introduced tidal marsh.

The introduction of Phragmites australis is known to substantially increase methane emission in the tidal salt marsh. Previous studies suggested that enhanced carbon input by the introduction may stimulate methanogenic activity. However, the exact mechanisms and the effects of the introduction of P. australis to methane dynamics in the deep soil layer are still unclear. In this study we collected 1 m deep intact soil cores and gas samples at native Suaeda japonica- and P. australis-vegetated temperate tidal salt marshes in Suncheon Bay, Republic of Korea. Rates of methane emission and vertical distribution of soil biogeochemistry and microbial communities were analyzed to understand the relationship among chemical and microbiological properties. The introduction of P. australis significantly enhanced methane emission in sites, which was caused by increased DOC and reduced competitive inhibition between sulfate reducer and methanogens. In particular, reduced competitive inhibition between sulfate reducers and methanogens in deep soil layer may play a substantial role in the enhanced methane emission by the introduction of P. australis. Potential methane production was also significantly higher in deeper soil layers than the surface soil layer. We suggest that deep soil layer plays a critical role in the methane dynamics of tidal salt marsh which is introduced by deep root plants, such as P. australis.

Destabilization of polyethylene and polyvinylchloride structure by marine bacterial strain.

Plastics are recalcitrant and inert to degrade, and destabilization leads to accumulate in the terrestrial and marine ecosystems; need for the development of strategies for reducing these plastic wastes in a sustainable manner would be revolutionary. We studied the bacterial adherence, degradation and destabilization of polyvinylchloride (PVC), low-density polyethylene (LDPE), and high-density polyethylene (HDPE) by marine bacterial strain AIIW2 by a series of analytical and microscopic observations over 3 months. Based on 16S rRNA gene sequence and the phylogenetic analysis of the strain AIIW2, it showed 97.39% similarity with Bacillus species. Degradation of plastics was determined by the weight loss after 90 days with bacterial strain which detected up to 0.26 ± 0.02, 0.96 ± 0.02, and 1.0 ± 0.01% for PVC, LDPE, and HDPE films, respectively over initial weights. The mineralization of plastic film was found to be maximum in LDPE followed by HDPE and PVC. Bacterial interaction had increased roughness and deteriorated the surface of plastics which is revealed by the scanning electron microscope and atomic force microscope. Bending vibrations of the alkane rock chain (-CH2 and -CH3) and carbonyl (-CO) regions in LDPE and HDPE films, while there was slight stretching in the hydroxyl (-OH) regions of carboxylic acid in PVC which is evidenced through Fourier transform infrared spectral studies, suggested the oxidative activities of the bacteria. Though, the bacterial activity was higher on the LDPE and HDPE than PVC film which may be due to the presence of chlorine atom in PVC structure making it more versatile. The results of the present study revealed the ability of marine bacterial strain for instigating their colonization over plastic films and deteriorating the polymeric structure.

Seasonal variation in natural abundance of δ13C and 15N in Salicornia brachiata Roxb. populations from a coastal area of India.

High and fluctuating salinity is characteristic for coastal salt marshes, which strongly affect the physiology of halophytes consequently resulting in changes in stable isotope distribution. The natural abundance of stable isotopes (δ13C and δ15N) of the halophyte plant Salicornia brachiata and physico-chemical characteristics of soils were analysed in order to investigate the relationship of stable isotope distribution in different populations in a growing period in the coastal area of Gujarat, India. Aboveground and belowground biomass of S. brachiata was collected from six different populations at five times (September 2014, November 2014, January 2015, March 2015 and May 2015). The δ13C values in aboveground (-30.8 to -23.6 ‰, average: -26.6 ± 0.4 ‰) and belowground biomass (-30.0 to -23.1 ‰, average: -26.3 ± 0.4 ‰) were similar. The δ13C values were positively correlated with soil salinity and Na concentration, and negatively correlated with soil mineral nitrogen. The δ15N values of aboveground (6.7-16.1 ‰, average: 9.6 ± 0.4 ‰) were comparatively higher than belowground biomass (5.4-13.2 ‰, average: 7.8 ± 0.3 ‰). The δ15N values were negatively correlated with soil available P. We conclude that the variation in δ13C values of S. brachiata was possibly caused by soil salinity (associated Na content) and N limitation which demonstrates the potential of δ13C as an indicator of stress in plants.

Influences of Different Halophyte Vegetation on Soil Microbial Community at Temperate Salt Marsh.

Salt marshes are transitional zone between terrestrial and aquatic ecosystems, occupied mainly by halophytic vegetation which provides numerous ecological services to coastal ecosystem. Halophyte-associated microbial community plays an important role in the adaptation of plants to adverse condition and also affected habitat characteristics. To explore the relationship between halophytes and soil microbial community, we studied the soil enzyme activities, soil microbial community structure, and functional gene abundance in halophytes- (Carex scabrifolia, Phragmites australis, and Suaeda japonica) covered and un-vegetated (mud flat) soils at Suncheon Bay, South Korea. Higher concentrations of total, Gram-positive, Gram-negative, total bacterial, and actinomycetes PLFAs (phospholipid fatty acids) were observed in the soil underneath the halophytes compared with mud flat soil and were highest in Carex soil. Halophyte-covered soils had different microbial community composition due to higher abundance of Gram-negative bacteria than mud flat soil. Similar to PLFA concentrations, the increased activities of ß-glucosidase, cellulase, phosphatase, and sulfatase enzymes were observed under halophyte soil compared to mud flat soil and Carex exhibited highest activities. The abundance of archaeal 16S rRNA, fungal ITS, and denitrifying genes (nirK, nirS, and nosZ) were not influenced by the halophytes. Abundance bacterial 16S rRNA and dissimilatory (bi)sulfite (dsrA) genes were highest in Carex-covered soil. The abundance of functional genes involved in methane cycle (mcrA and pmoA) was not affected by the halophytes. However, the ratios of mcrA/pmoA and mcrA/dsrA increased in halophyte-covered soils which indicate higher methanogenesis activities. The finding of the study also suggests that halophytes had increased the microbial and enzyme activities, and played a pivotal role in shaping microbial community structure.

Spatial and halophyte-associated microbial communities in intertidal coastal region of India.

Microbial communities in intertidal coastal soils respond to a variety of environmental factors related to resources availability, habitat characteristics, and vegetation. These intertidal soils of India are dominated with Salicornia brachiata, Aeluropus lagopoides, and Suaeda maritima halophytes, which play a significant role in carbon sequestration, nutrient cycling, and improving microenvironment. However, the relative contribution of edaphic factors, halophytes, rhizosphere, and bulk sediments on microbial community composition is poorly understood in the intertidal sediments. Here, we sampled rhizosphere and bulk sediments of three dominant halophytes (Salicornia, Aeluropus, and Suaeda) from five geographical locations of intertidal region of Gujarat, India. Sediment microbial community structure was characterized using phospholipid fatty acid (PLFA) profiling. Microbial biomass was significantly influenced by the pH, electrical conductivity, organic carbon, nitrogen, and sodium and potassium concentrations. Multivariate analysis of PLFA profiles had significantly separated the sediment microbial community composition of regional sampling sites, halophytes, rhizosphere, and bulk sediments. Sediments from Suaeda plants were characterized by higher abundance of PLFA biomarkers of Gram-negative, total bacteria, and actinomycetes than other halophytes. Significantly highest abundance of Gram-positive and fungal PLFAs was observed in sediments of Aeluropus and Salicornia, respectively than in those of Suaeda. The rhizospheric sediment had significantly higher abundance of Gram-negative and fungal PLFAs biomarkers compared to bulk sediment. The results of the present study contribute to our understanding of the relative importance of different edaphic and spatial factors and halophyte vegetation on sediment microbial community of intertidal sediments of coastal ecosystem.

Biomass production, nutrient cycling, and carbon fixation by Salicornia brachiata Roxb.: A promising halophyte for coastal saline soil rehabilitation.

In order to increase our understanding of the interaction of soil-halophyte (Salicornia brachiata) relations and phytoremediation, we investigated the aboveground biomass, carbon fixation, and nutrient composition (N, P, K, Na, Ca, and Mg) of S. brachiata using six sampling sites with varying characteristics over one growing season in intertidal marshes. Simultaneously, soil characteristics and nutrient concentrations were also estimated. There was a significant variation in soil characteristics and nutrient contents spatially (except pH) as well as temporally. Nutrient contents in aboveground biomass of S. brachiata were also significantly differed spatially (except C and Cl) as well as temporally. Aboveground biomass of S. brachiata ranged from 2.51 to 6.07 t/ha at maturity and it was positively correlated with soil electrical conductivity and available Na, whereas negatively with soil pH. The K/Na ratio in plant was below one, showing tolerance to salinity. The aboveground C fixation values ranged from 0.77 to 1.93 C t/ha at all six sampling sites. This study provides new understandings into nutrient cycling-C fixation potential of highly salt-tolerant halophyte S. brachiata growing on intertidal soils of India. S. brachiata have a potential for amelioration of the salinity due to higher Na bioaccumulation factor.

Bioaccumulation of nutrient elements from fly ash-amended soil in Jatropha curcas L.: a biofuel crop.

Fly ash (FA) from coal-burning industries may be a potential inorganic soil amendment; the insight of its nutrient release and supply to soil may enhance their agricultural use. The study was conducted to assess the ability of fly ash (a coal fired thermal plant waste) to reduce soil fertility depletion and to study bioaccumulation of mineral nutrients in Jatropha curcas grown on soils amended with fly ash. Fly ash was amended to field soil at six rates (0, 5, 10, 20, 40, and 70 % w/w) on which J. curcas was grown. After 8 months of growth, the height of jatropha plants was significantly increased at 5 and 10 % FA-amended soil, whereas, biomass significantly increased at 5, 10, and 20 % FA-amended soil compared to control soil (0 % FA). Leaf nutrients uptake, followed by stems and roots uptake were highly affected by fly ash amendment to soil. Most of nutrients accumulation were increased up to 20 % fly ash and decreased thereafter. The results of available nutrient analysis of soil revealed that availability of nitrogen, potassium, sulfur, copper, iron, mangnese, and zinc declined significantly at higher levels of fly ash amendments, whereas, availability of phosphorus increased at these levels. However, pH, organic carbon, and available boron were not influenced significantly by fly ash amendment to soil. Microbial biomass C, N, and ratio of microbial-C to organic C were significantly reduced at 20 % fly ash and higher amounts. This study revealed that J. curcas plants could gainfully utilize the nutrients available in fly ash by subsequently amending soil.