Spartinivicinus poritis sp. nov., a red pigment-producing bacterium isolated from a scleractinian coral Porites lutea.

A Gram-stain-negative, red pigment-producing, aerobic, and rod-shaped bacterial strain (A2-2T) was isolated from a bleached scleractinian coral (Porites lutea). Strain A2-2T grew with 1.0-7.0 % (w/v) NaCl (optimum, 3.0 %), at pH 6.0-11.0 (optimum, pH 8.0), and at 18-41 °C (optimum, 35 °C). Results of phylogenetic analysis based on 16S rRNA gene sequences suggested that strain A2-2T fell within the genus Spartinivicinus and was closely related to Spartinivicinus ruber S2-4-1HT (98.1 % sequence similarity) and Spartinivicinus marinus SM1973T (98.0 % sequence similarity). The predominant cellular fatty acids of strain A2-2T were C16 : 0 (31.0 %), summed feature 3 (29.0 %), summed feature 8 (11.7 %), C12 : 0 3-OH (6.4 %), and C10 : 0 3-OH (5.5 %), while the major respiratory quinone was Q-9. The polar lipids mainly comprised phosphatidylethanolamine, phosphatidylglycerol, diphosphatidylglycerol, and an unidentified phospholipid. The genome size of strain A2-2T was 6.8 Mb, with a G+C content of 40.2 mol%. The DNA-DNA hybridization value was 24.2 % between A2-2T and S. ruber S2-4-1HT and 36.9 % between A2-2T and S. marinus SM1973T, while the average nucleotide identity values were 80.1 and 88.8 %, respectively. Based on these findings, strain A2-2T could be recognized to represent a novel species of the genus Spartinivicinus, for which the name Spartinivicinus poritis sp. nov. is proposed. The type strain is A2-2T (=MCCC 1K08228T=KCTC 8323T).

Degradation of agricultural waste is dependent on chemical fertilizers in long-term paddy-dry rotation field.

The practice of returning straw to agricultural fields is a globally employed technique. Such agricultural fields also receive a significant amount of nitrogen (N) and phosphorus (P) fertilizers, because these two macronutrients are essential for plant growth and development. However, the consequences of such macronutrients input on straw decomposition, soil dissolved organic matter (DOM), key microbes, and lignocellulolytic enzymes are still unclear. In a similar aim, we designed a long-term straw returning study without and with different N and P nutrient supplementation: CK (N0P0), T1 (N120P0), T2 (N120P60), T3 (N120P90), T4 (N120P120), T5 (N0P90), T6 (N60P90), and T7 (N180P90), and evaluated their impact on rice and oilseed rape yield, soil DOM, enzymes, lignocellulose content, microbial diversity, and composition. We found straw returning improved overall yield in all treatments and T7 showed the highest yield for oilseed rape (30.31-38.87 g/plant) and rice (9.14-9.91 t/ha) during five-years of study. The fertilizer application showed a significant impact on soil physicochemical properties, such as water holding capacity and soil porosity decreased, and bulk density increased in fertilized treatments, as compared to CK. Similarly, significantly low OM, cellulose, hemicellulose, and lignin content were found in T7, T4, T3, and T2, while high values were found in CK and T5, respectively. The fluorescence excitation-emission matrix spectra of DOM of different treatments revealed that T3, T7, T4, and T6 showed high peak M (microbial by-products), peak A and peak C (humic acid-like) as compared to others. The microbial composition was also distinctive in each treatment and a high relative abundance of Chloroflexi, Actinobacteriota, Ascomycota, and Basidiomycota were found in T2 and T3 treatments, respectively. These findings indicate that the decomposition of straw in the agricultural field was dependent on nutrients input, which facilitated key microbial growth and impacted positively on lignocellulolytic enzymes, which further aided the breakdown of all components of straw in the field efficiently. On the other hand, high input of chemical based fertilizers to soil can lead to several environmental issues, such as nutrient imbalance, nutrient runoff, soil pH change and changes in microbial activities. Keeping that in consideration, we recommend moderate fertilizer dosage (N120P90) in such fields to achieve higher decomposition of crop straw with a small yield compromise.

Hoeflea poritis sp. nov., isolated from a bleached scleractinian coral Porites lutea.

A Gram-stain-negative, aerobic, rod-shaped, nonmotile and yellow-pigmented bacterium designated E7-10T was isolated from a bleached scleractinian coral Porites lutea. Strain E7-10T grew with 1.0-8.0 % (w/v) NaCl (optimum, 4.0 %), at 18-41 °C (optimum, 28 °C) and at pH 6.0-10.0 (optimum, pH 8.0). Phylogenetic analysis using 16S rRNA gene sequences revealed that E7-10T formed a lineage within the genus Hoeflea, but it was distinct from the closest species 'Hoeflea prorocentri' PM5-8T, showing 98.01 % sequence similarity. The predominant cellular fatty acids of E7-10T were summed feature 8 (26.7 %), C18 : 1 ω7c 11-methyl (26.2 %), C16 : 0 (20.8 %) and C19 : 0 cyclo ω8c (17.9 %). The major respiratory quinone was Q-10. The polar lipids mainly comprised phosphatidylethanolamine, two glycolipids and five phospholipids. The genome size of E7-10T was 5.58 Mb with G+C content 60.27 mol%. The digital DNA-DNA hybridization and average nucleotide identity values between the genomes of strains E7-10T and PM5-8T were 19.50 and 75.95 %, respectively, which were both below the defined cutoff values (70 % and 95-96 %, respectively) for species delimitation. Thus, strain E7-10T represents a novel species within the genus Hoeflea, for which the name Hoeflea poritis sp. nov. is proposed. The type strain is E7-10T (=JCM 35852T=MCCC 1K08229T).

Chitosan microspheres-based controlled-release nitrogen fertilizers improve the biological characteristics of Brassica rapa ssp. pekinensis and the soil.

Present study investigates the impact of chitosan microspheres-based controlled-release nitrogen fertilizer (Cm-CRNFs) on biological characteristics of Brassica rapa ssp. pekinensis (Chinese cabbage) and soil. The study was carried out under various four treatments, urea (0.8033 g), blank chitosan microspheres (without urea), Cm-CRNFs (0.8033 g), and a control group (CK). The results indicated that Cm-CRNFs significantly prolonged the nitrogen release and enhanced the plant shoot length, shoot diameter, number of branches, pods, total amino acids, and vitamin C of Brassica rapa ssp. pekinensis as well as increased the soil nutrient availability. Chao index of bacterial diversity analysis showed a significant reduction of 15.89 % in Cm-CRNFs, but the Shannon index value in Cm-CRNFs was increased by 23.55 % compared to CK. Furthermore, Cm-CRNFs treatment significantly influenced genus richness level of Arthrobacter, Archangium, Bacillus, and Flavihumibacter. Moreover, relative abundance of bacteria significantly enhanced Cm-CRNFs, including Acidobacteriota, Acitinobacteriota, Cloroflexi, Cyanobacteria, and Patescibacteria. Soil enzyme activity such as: urease, acid phosphatase, and catalase enzymes in Cm-CRNFs and urea treatment significantly increased. Besides, other enzymes such as: cellulase and ß-glucosidase activity decreased in the Cm-CRNFs treatment. It was concluded that Cm-CRNFs potentially prolonged discharge of micro/macronutrients and improved soil bacterial diversity, which ultimately enhanced the soil fertility and improved the soil enzyme activity.

Reduction of Cd Uptake in Rice (Oryza sativa) Grain Using Different Field Management Practices in Alkaline Soils.

Cadmium contamination and toxicity on plants and human health is a major problem in China. Safe rice production in Cd-contaminated alkaline soils, with acceptably low Cd levels and high yields, remains an important research challenge. To achieve this, a small-scale field experiment with seven different soil amendment materials was conducted to test their effects performance. Two best-performing materials were selected for the large-scale field experiment. Combinations of humic acid, foliar, and/or soil silicon fertilization and deep or shallow plowing were designed. It was found that the combination, including humic acid, soil and foliar silicate fertilization, and shallow plowing (5-10 cm), produced the most desirable results (the lowest soil bioavailable Cd, the lowest grain Cd concentrations, and the highest grain yield). Rice farmers are therefore recommended to implement this combination to attain high grain yield with low Cd concentrations in alkaline soils.

Newly isolated halotolerant Aspergillus sp. showed high diesel degradation efficiency under high salinity environment aided with hematite.

The contamination of saline soil with hazardous petroleum hydrocarbons is a common problem across coastal areas globally. Bioaugmentation combined with chemical treatment is an emerging remediation technique, but it currently shows low efficiency under high saline environments. In this study, we screened and used a novel halotolerant lipolytic fungal consortium (HLFC) combined with hematite (Fe2O3) for the bioremediation of diesel contaminated saline soils. The changes in total petroleum hydrocarbons (TPH) concentrations, enzyme activity, and microbial diversity were compared among different treatments (HLFC, hematite, hematite-HLFC, and control). The results showed that TPH degradation was significantly (P < 0.05) enhanced in hematite-HLFC (47.59-88.01%) and HLFC (24.26-72.04%) amended microcosms across all salinity levels, compared to the treatments of hematite (23.71-66.26%) and control (6.39-55.20%). TPH degradation was positively correlated with lipase and laccase enzyme activities, electrical conductivity, and the water holding capacity of the soil. Analyses of the microbial community structure showed that microbial richness decreased, while evenness increased in HLFC and hematite-HLFC treatments. The relative abundances of Alicyclobacillus, Sediminibacillus, Alcanivorax, Penicillium, Aspergillus, and Candida genera were significantly high in hematite-HLFC and HLFC amended microcosms. Our findings provide a promising new microbial-based technique, which can degrade TPH efficiently in saline soil.

Comprehensive Phytohormone Profiling of Kohlrabi during In Vitro Growth and Regeneration: The Interplay with Cytokinin and Sucrose.

The establishment of an efficient protocol for in vitro growth and regeneration of kohlrabi (Brassica oleracea var. gongylodes) allowed us to closely examine the phytohormone profiles of kohlrabi seedlings at four growth stages (T1-T4), additionally including the effects of cytokinins (CKs)-trans-zeatin (transZ) and thidiazuron (TDZ)-and high sucrose concentrations (6% and 9%). Resulting phytohormone profiles showed complex time-course patterns. At the T2 stage of control kohlrabi plantlets (with two emerged true leaves), levels of endogenous CK free bases and gibberellin GA20 increased, while increases in jasmonic acid (JA), JA-isoleucine (JA-Ile), indole-3-acetic acid (IAA) and indole-3-acetamide (IAM) peaked later, at T3. At the same time, the content of most of the analyzed IAA metabolites decreased. Supplementing growth media with CK induced de novo formation of shoots, while both CK and sucrose treatments caused important changes in most of the phytohormone groups at each developmental stage, compared to control. Principal component analysis (PCA) showed that sucrose treatment, especially at 9%, had a stronger effect on the content of endogenous hormones than CK treatments. Correlation analysis showed that the dynamic balance between the levels of certain bioactive phytohormone forms and some of their metabolites could be lost or reversed at particular growth stages and under certain CK or sucrose treatments, with correlation values changing between strongly positive and strongly negative. Our results indicate that the kohlrabi phytohormonome is a highly dynamic system that changes greatly along the developmental time scale and also during de novo shoot formation, depending on exogenous factors such as the presence of growth regulators and different sucrose concentrations in the growth media, and that it interacts intensively with these factors to facilitate certain responses.

Pretreatment of rice straw by newly isolated fungal consortium enhanced lignocellulose degradation and humification during composting.

The slow decomposition rate of the reluctant structure of lignocellulose in agricultural waste is the great limitation of composting processes, which can be averted by pretreatment-strategies. This study focused on the impacts of pretreating rice straw using a consortium of newly isolated fungal species on lignocellulose degradation and humic substances during composting. Fungal pretreatment had a significant impact on lignocellulose degradation (84%) of rice straw by producing higher lignocellulytic enzymes than chemical pretreatments (79%) or the control (61%). The compost with fungal pretreated rice straw (FPT) showed significantly high composting temperature in the late mesophilic stage, which enhanced the degradation of lignocellulose. The fluorescence excitation emission spectroscopy revealed that significantly more humic acid-like compounds were formed in FPT. These findings suggest that fungal pretreatment is a feasible method to accelerate straw degradation and humification.

The anthocyanin-rich tomato genotype LA-1996 displays superior efficiency of mechanisms of tolerance to salinity and drought.

Tomato cultivation is affected by high soil salinity and drought stress, which cause major yield losses worldwide. In this work, we compare the efficiency of mechanisms of tolerance to salinity, and osmotic stress applied as mannitol or drought, in three tomato genotypes: LA-2838 (Ailsa Craig), LA-2662 (Saladette), and LA-1996 (Anthocyanin fruit - Aft), a genotype known for high anthocyanin content. Exposure to salinity or drought induced stress in all three genotypes, but the LA-1996 plants displayed superior tolerance to stress compared with the other two genotypes. They were more efficient in anthocyanin and proline accumulation, superoxide dismutase (SOD), peroxidase (POD), and catalase (CAT) activity, and leaf Na+, K+, and Ca2+ homeostasis. In addition, they suffered lesser oxidative damage as measured by chlorophyll (Chl) loss and malondialdehyde (MDA) accumulation, and bioassays showed that they were less affected in terms of seed germination and root elongation. Exposure to stress induced the upregulation of stress-related genes SlNCED1, SlAREB1, SlABF4, SlWRKY8, and SlDREB2A more efficiently in LA-1996 than in the two susceptible genotypes. Conversely, the upregulation of the NADPH oxidase gene SlRBOH1 was more pronounced in LA-2838 and LA-2662. Principal component analysis showed obvious distinction between the tolerant genotype LA-1996 and the susceptible LA-2838 and LA-2662 in response to stress, and association of leaf and stem anthocyanin content with major stress tolerance traits. We suggest that anthocyanin accumulation can be considered as a marker of stress tolerance in tomato, and that LA-1996 can be considered for cultivation in salinity- or drought-affected areas.

Response of root development and nutrient uptake of two chinese cultivars of hybrid rice to nitrogen and phosphorus fertilization in Sichuan Province, China.

BACKGROUND: Chemical fertilization helped modern agriculture in grain yield improvement to ensure food security. The response of chemical fertilization for higher hybrid rice production is highly dependent on optimal fertilization management in paddy fields. To assess such responses, in the current work we examine the yield, root growth, and expression of related genes responsible for stress metabolism of nitrogen (N) and phosphorus (P) in two hybrid-rice cultivars Deyou4727 (D47) and Yixiangyou2115 (Y21). METHODS AND RESULTS: The experiment followed four nitrogen (N) (N0, N60, N120, and N180 kg/ha) and phosphorus (P) (P0, P60, P90, and P120 kg/ha) fertilizer levels. The grain yield in D47 was more sensitive to nitrogen application, while Y21 was more sensitive to phosphorus application, which resulted in comparatively higher biomass and yield. Our findings were corroborated by gene expression studies of glutamine synthetase OsGS1;1 and OsGS1;2 and phosphate starvation-related genes PHR1 and SPX, confirming sensitivity to N and P application. The number of roots was less sensitive to nitrogen application in D47 between N0 and N60, but the overall nutrient response difference was significantly higher due to the deep rooting system as compared to Y21. CONCLUSIONS: The higher yield, high N and P use efficiency, and versatile root growth of D47 make it suitable to reduce unproductive usage of N and P from paddy fields, improving hybrid rice productivity, and environmental safety in the Sichuan basin area of China.

Unraveling the effects of arbuscular mycorrhizal fungi on cadmium uptake and detoxification mechanisms in perennial ryegrass (Lolium perenne).

Cadmium (Cd) is a major environmental pollutant and one of the most toxic metals in the environment. Arbuscular mycorrhizal fungi (AMF) assisted phytoremediation can be used to remove Cd from polluted soils but the role of AMF, which mediate in Cd accumulation and tolerance, remains poorly understood. Here we inoculated Lolium perenne with two different AMF species (Glomus etunicatum and Glomus mosseae). Mycorrhizal L. perenne and non-mycorrhizal controls were exposed to Cd stress and we tested the effects of AMF mycorrhization on Cd uptake and subsequent tolerance, as well as the underlying mechanisms. Mycorrhizal infection increased root Cd2+ uptake and we observed that net Cd2+ influx was coupled with net Ca2+ influx. The inactivation of Ca2+ transporter channels decreased Cd2+ uptake in non-inoculated roots to a greater extent than in inoculated roots, indicating that AMF activates additional ion transport channels. In consequence, inoculated plants exhibited higher Cd accumulation in both roots and shoots than non-inoculated controls. However, AMF-inoculated plants showed higher chlorophyll concentrations, photosynthesis, and growth under Cd, indicating lower Cd toxicity in AMF-inoculated plants, despite the increase in Cd uptake. We observed that AMF-inoculated favored the isolation of Cd within cell walls and vacuoles, and had higher concentrations of superoxide dismutase activity and glutathione concentration in roots than non-inoculated plants, consequently experiencing less stress upon Cd exposure. Our results highlight the potential and mechanism of AMF for enhancing phytoremediation of L. perenne in heavy metal contaminated environments.

Purification and Characterization of Cellulase from Obligate Halophilic Aspergillus flavus (TISTR 3637) and Its Prospects for Bioethanol Production.

A cellulase from the extreme obligate halophilic fungus, Aspergillus flavus, isolated from a man-made solar saltern in Phetchaburi, Thailand, was purified by ammonium sulfate precipitation and using Sephadex G-100 gel filtration column chromatography. The cellulase was found to be approximately 55 kDa by SDS-PAGE. Using CMC as a substrate, the specific activity of the cellulase was 62.9 units (U) mg-1 with Vmax and Km values of 37.87 mol min-1 mg-1 and 3.02 mg mL-1, respectively. Characterization of the enzyme revealed it to be an extremozyme, having an optimum activity at pH 10, 60 °C, and 200 g L-1 of NaCl. The enzyme activity was not significantly altered by the addition of divalent metal cations at 2 mM and neither did ß-mercaptoethanol, while EDTA was found strongly inhibiting the cellulase. Compared with commercial cellulase, the purified cellulase from A. flavus was more active in the extremity of conditions, especially at pH 10, 60 °C, and 150 g L-1 NaCl, whereas the commercial cellulase had a very low activity.

Biosorption of heavy metals by obligate halophilic fungi.

The presence of heavy metals in the environment poses a serious threat to human health. Remediation of this problem using microorganisms has been widely researched to find a sustainable solution. Obligate halophilic fungi comprising Aspergillus flavus, Aspergillus gracilis, Aspergillus penicillioides (sp. 1), Aspergillus penicillioides (sp. 2), Aspergillus restrictus and Sterigmatomyces halophilus were used for the biosorption of cadmium, copper, ferrous, manganese, lead and zinc. The metals were supplemented as salts in potato dextrose broth for the growth of obligate halophilic fungi and incubated for 14 days. The supernatant and biomass were obtained by the acid digestion method. The biosorption was screened by atomic absorption spectroscopy. All tested fungi showed moderate to high adsorption of heavy metals, amongst which A. flavus and S. halophilus showed the best average adsorption of all heavy metals studied, with an average of 86 and 83%, respectively. On average, Fe and Zn are best removed from the liquid media of obligate halophilic fungi, with an average of 85 and 84%, respectively. This pioneering study of biosorption by obligate halophilic fungi using inexpensive media in stagnant conditions provides a cost-effective environmental solution for the removal of heavy metals.