Effect of bacterial root symbiosis and urea as source of nitrogen on performance of soybean plants grown hydroponically for Bioregenerative Life Support Systems (BLSSs)

Management of Inoculation with Bradyrhizobium japonicum and Application of Vitamins for Hydroponic Soybean Cultivation

The exchange of technologies used in field cultivation for hydroponic systems can potentially increase plant development and grain production, requiring studies to verify the best management forms, such as growth-promoting bacteria and biostimulant compounds. With this in mind, the study aimed to evaluate the effect of the application of thiamine and niacin, alone and combined, to soybean plants in the absence and presence of inoculation with B. japonicum on the agronomic and physiological characteristics of the crop grown in an ebb and flow hydroponic system. Eight treatments were evaluated using t-test (LSD) and Tukey's test, both at 5% probability (P < 0.05), in addition to Pearson correlation and canonical variables. The treatments consist of inoculation with B. japonicum at 1 mL 500 g-1 seeds (with and without) and foliar application of four solutions (water, niacin (0.1 g·L-1), thiamine (0.1 g·L-1), and niacin + thiamine (0.05 g·L-1 + 0.05 g·L-1)). We found that inoculation significantly improved the parameters evaluated and resulted in a gain of approximately 84.8% in yield when compared by t-test (P < 0.05). In addition, the action of the vitamins was more significant when they were applied without the presence of B. japonicum, especially niacin, either alone or combined with thiamine, which increased yield parameters in this condition, identified when the Tukey's test (P < 0.05) was applied. We conclude that inoculation with Bradyrhizobium japonicum in soybean seeds grown in a hydroponic system significantly benefits the development and grain yield, mainly when combined with vitamin solutions. Niacin also has the potential to be used alone or combined with thiamine in noninoculated or inoculated hydroponic soybean crops, respectively.

Transcriptomic analysis of humic acid in relieving the inhibitory effect of high nitrogen on soybean nodulation

Introduction

Nitrogen fertilizer intake promotes soybean growth before the formation of nodules, but excess nitrogen has an inhibitory effect on soybean nodulation. It is important to balance nitrogen levels to meet both growth and nodulation needs.

Methods

the nitrogen level suitable for soybean growth and nodulation was studied, the role of humic acid (HA) in alleviating the inhibition of high nitrogen on soybean nodulation was analyzed, and transcriptomic analysis was performed to understand its mechanism.

Results

The results showed that a lower level of nitrogen with 36.4 mg urea per pot could increase the number of nodules of soybean, and a higher level of nitrogen with 145.9 mg urea per pot (U4 group) had the best growth indicators but inhibited nodulation significantly. HA relieved the inhibitory effect at high nitrogen level, and the number of nodules increased by 122.1% when 1.29 g HA was added (H2 group) compared with the U4 group. The transcriptome analysis was subsequently performed on the H2 and U4 groups, showing that there were 2995 differentially expressed genes (DEGs) on the 25th day, accounting for 6.678% of the total annotated genes (44,848) under the test conditions. These DEGs were enriched in mitogen-activated protein kinase signaling pathway-plant, flavonoid biosynthesis, and plant hormone signal transduction based on the -log10 (P adjusted) value in the Kyoto Encyclopedia of Genes and Genomes pathway (KEGG).

Discussion

HA balanced the nitrogen level through the above pathways in soybean planting to control the number of nodules.

Critical role for uricase and xanthine dehydrogenase in soybean nitrogen fixation and nodule development

De novo purine biosynthesis is required for the incorporation of fixed nitrogen in ureide exporting nodules, as formed on soybean [Glycine max (L.) Merr.] roots. However, in many cases, the enzymes involved in this pathway have been deduced strictly from genome annotations with little direct genetic evidence, such as mutant studies, to confirm their biochemical function or importance to nodule development. While efforts to develop large mutant collections of soybean are underway, research on this plant is still hampered by the inability to obtain mutations in any specific gene of interest. Using a forward genetic approach, as well as CRISPR/Cas9 gene editing via Agrobacterium rhizogenes-mediated hairy root transformation, we identified and characterized the role of GmUOX (Uricase) and GmXDH (Xanthine Dehydrogenase) in nitrogen fixation and nodule development in soybean. The gmuox knockout soybean mutants displayed nitrogen deficiency chlorosis and early nodule senescence, as exemplified by the reduced nitrogenase (acetylene reduction) activity in nodules, the internal greenish-white internal appearance of nodules, and diminished leghemoglobin production. In addition, gmuox1 nodules showed collapsed infected cells with degraded cytoplasm, aggregated bacteroids with no discernable symbiosome membranes, and increased formation of poly-β-hydroxybutyrate granules. Similarly, knockout gmxdh mutant nodules, generated with the CRISPR/Cas9 system, also exhibited early nodule senescence. These genetic studies confirm the critical role of the de novo purine metabolisms pathway not only in the incorporation of fixed nitrogen but also in the successful development of a functional, nitrogen-fixing nodule. Furthermore, these studies demonstrate the great utility of the CRISPR/Cas9 system for studying root-associated gene traits when coupled with hairy root transformation.

Biology and crop production in Space environments: Challenges and opportunities

Long-term manned space-exploration missions and the permanence of human colonies on orbital stations or planetary habitats will require the regeneration of resources onboard or in-situ. Bioregenerative Life Support Systems (BLSSs) are artificial environments where different compartments, involving both living organisms and physical-chemical processes, are integrated to achieve a safe, self-regulating, and chemically balanced Earth-like environment to support human life. Higher plants are key elements of such systems and Space greenhouses represent the producers' compartment. Growing plants in Space requires the knowledge of their growth responses not only to all environmental factors acting on Earth, but also to specific Space constraints such as altered gravity, ionizing radiations and confined volume. Moreover, cultivation techniques need to be adjusted considering such limitations. The type and intensity of environmental factors to be taken into account depend on the mission scenarios. Here, we summarize constraints and opportunities of cultivating higher plants in Space to regenerate resources and produce fresh food onboard. Both biological and agro-technological issues are considered briefly going through experiments both ground-based on Earth and in Space.

An Appraisal of Urine Derivatives Integrated in the Nitrogen and Phosphorus Inputs of a Lettuce Soilless Cultivation System

Reinforcing and optimizing sustainable food production is an urgent contemporary issue. The depletion of natural mineral resources is a key problem that is addressed by recycling mined potassium and phosphorus, and nitrogen, whose production depends on very high energy input. A closed-loop approach of fertilizer use asserts the necessity for efficient management and practices of organic waste rich in minerals. Human-derived urine is an underutilized yet excellent source for nitrogen fertilizer, and, in this study, processed urine fertilizer was applied to greenhouse soilless cultivation of lettuce (Lactuca sativa L.) cv. Grand Rapids. Biomass increase, biometric parameters, soil plant analysis development (SPAD) index, minerals, and organic acids content of lettuce were analyzed. From eight different urine fertilizer products generated, K-struvite, urine precipitate-CaO, and the liquid electrodialysis (ED) concentrate supported the growth of lettuce similar to that of commercial mineral fertilizer. ED concentrate application led to the accumulation of potassium (+17.2%), calcium (+82.9%), malate (+185.3%), citrate (+114.4%), and isocitrate (+185.7%); K-struvite augmented the accumulation of magnesium (+44.9%); and urine precipitate-CaO induced the highest accumulation of calcium (+100.5%) when compared to the control, which is an added value when supplemented in daily diet. The results underlined the potential of nitrogen- and phosphate-rich human urine as a sustainable source for the fertilization of lettuce in soilless systems.

Investigation of a biosystem based on Arthrospira platensis for air revitalisation in spacecrafts: Performance evaluation through response surface methodology

Arthrospira platensis is featured as a promising microalgae candidate for the development of the biosystems for air revitalisation in spacecrafts and life support in space. An enhanced configuration of a sparged type photobioreactor (PBR), containing 5 L of A. platensis culture, which was equipped with an external LED lighting tube around the reactor, was used in this study. The PBR was operated under dynamic conditions (0.5 L/min) with synthetic air containing CO₂ (400, 900, 1400 ppm) and other gas traces (NO₂ 1 ppm, SO₂ 2.5 ppm, acetic acid vapours 1 ppm), at various light intensities (1.5, 2.5, 3.5 klux), according to an experimental design. The removal of gas traces (NO₂, SO₂ and acetic acid vapours) was below the detection limit (e.g. above 90% removal efficiency), while the removal of CO₂ ranged between 69% and 85%, depending on the initial CO₂ concentration and the light intensity. Thus, the system is able to roughly decrease the contaminant concentration from 1 ppm to below 0.1 ppm for NO₂, 2.5 ppm to below 0.1 ppm for SO₂, 1 ppm to below 1 ppb for acetic acid vapours and from 1400 ppm to 370 or from 400 ppm to 60 ppm for CO₂. The system performance was thus subject to mathematical modelling and optimization in terms of CO₂ removal efficiency and CO₂ elimination capacity, which were also corroborated with the power consumption for illumination.

Dynamic light caused less photosynthetic suppression, rather than more, under nitrogen deficit conditions than under sufficient nitrogen supply conditions in soybean

BACKGROUND

Plants are always exposed to dynamic light. The photosynthetic light use efficiency of leaves is lower in dynamic light than in uniform irradiance. Research on the influence of environmental factors on dynamic photosynthesis is very limited. Nitrogen is critical for plants, especially for photosynthesis. Low nitrogen (LN) decreases ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) and thus limits photosynthesis. The decrease in Rubisco also delays photosynthetic induction in LN leaves; therefore, we hypothesized that the difference of photosynthetic CO2 fixation between uniform and dynamic light will be greater in LN leaves compared to leaves with sufficient nitrogen supply.

RESULTS

To test this hypothesis, soybean plants were grown under low or high nitrogen (HN), and the photosynthetic gas exchange, enzyme activity and protein amount in leaves were measured under uniform and dynamic light. Unexpectedly, dynamic light caused less photosynthetic suppression, rather than more, in LN leaves than in HN leaves. The underlying mechanism was also clarified. Short low-light (LL) intervals did not affect Rubisco activity but clearly deactivated fructose-1,6-bisphosphatase (FBPase) and sedoheptulose-1,7-bisphosphatase (SBPase), indicating that photosynthetic induction after a LL interval depends on the reactivation of FBPase and SBPase rather than Rubisco. In LN leaves, the amount of Rubisco decreased more than FBPase and SBPase, so FBPase and SBPase were present in relative excess. A lower fraction of FBPase and SBPase needs to be activated in LN leaves for photosynthesis recovery during the high-light phase of dynamic light. Therefore, photosynthetic recovery is faster in LN leaves than in HN leaves, which relieves the photosynthetic suppression caused by dynamic light in LN leaves.

CONCLUSIONS

Contrary to our expectations, dynamic light caused less photosynthetic suppression, rather than more, in LN leaves than in HN leaves of soybean. This is the first report of a stress condition alleviating the photosynthetic suppression caused by dynamic light.

A Nodulation-Proficient Nonrhizobial Inhabitant of Pueraria phaseoloides

Pueraria phaseoloides is a legume cover crop, found chiefly in the wet zone of Sri Lanka. Nitrogen fixation is performed by nodular inhabitants of this cover crop, comparable to the nodule-dwelling bacteria of most other legume plants. We isolated a bacterium (Sub1) from Pueraria phaseoloides, of coccobacillus cell shape, that showed nodulation, when assessed by hydroponics, showing nodules as early as 3 weeks after reinfection. When a nifH fragment from the genome of this bacterium was amplified using a pair of nifH primers, it yielded an amplicon of 360 bp that, when sequenced, helped us identify the bacterium, as belonging to a species of Pseudacidovorax intermedius, at 99% sequence identity. When we constructed a phylogenetic tree with neighboring sequences, we encountered nifH sequences of Pseudacidovorax, forming a monophyletic cluster, which too contained a single Azospirillum species. The genus Pseudacidovorax is a bacterium that, so far, has not been associated with legume nodules. Sub1 secreted a pair of enzymes to the extracellular medium to degrade cellulose and milk proteins. The Sub1 bacterium showed biofilm formation and secreted into the extracellular medium, indole acetic acid. Sub1 also showed a "bulls eye" swarming pattern for the chemoattractant proline, while showing no significant chemotaxis movement, for naringenin, quercetin, and glutamate. Sub1 too possesses the basic genetic foundation (nifH and nifD) to produce a molybdenum-dependent nitrogenase enzyme. We finally show that this rare nonrhizobial bacterium is able to impact, positively, nodulation and shoot length of Pueraria plants, demonstrating that this beta-proteobacterium can abet the biological vigor of this legume cover crop.

Nitrate Supply-Dependent Shifts in Communities of Root-Associated Bacteria in Arabidopsis

Root-associated bacterial communities are necessary for healthy plant growth. Nitrate is a signal molecule as well as a major nitrogen source for plant growth. In this study, nitrate-dependent alterations in root-associated bacterial communities and the relationship between nitrate signaling and root-associated bacteria in Arabidopsis were examined. The bacterial community was analyzed by a ribosomal RNA intergenic spacer analysis (RISA) and 16S rRNA amplicon sequencing. The Arabidopsis root-associated bacterial community shifted depending on the nitrate amount and timing of nitrate application. The relative abundance of operational taxonomic units of 25.8% was significantly changed by the amount of nitrate supplied. Moreover, at the family level, the relative abundance of several major root-associated bacteria including Burkholderiaceae, Paenibacillaceae, Bradyrhizobiaceae, and Rhizobiaceae markedly fluctuated with the application of nitrate. These results suggest that the application of nitrate strongly affects root-associated bacterial ecosystems in Arabidopsis. Bulk soil bacterial communities were also affected by the application of nitrate; however, these changes were markedly different from those in root-associated bacteria. These results also suggest that nitrate-dependent alterations in root-associated bacterial communities are mainly affected by plant-derived factors in Arabidopsis. T-DNA insertion plant lines of the genes for two transcription factors involved in nitrate signaling in Arabidopsis roots, NLP7 and TCP20, showed similar nitrate-dependent shifts in root-associated bacterial communities from the wild-type, whereas minor differences were observed in root-associated bacteria. Thus, these results indicate that NLP7 and TCP20 are not major regulators of nitrate-dependent bacterial communities in Arabidopsis roots.

Changes in Leaf Anatomical Traits Enhanced Photosynthetic Activity of Soybean Grown in Hydroponics with Plant Growth-Promoting Microorganisms

The use of hydroponic systems for cultivation in controlled climatic conditions and the selection of suitable genotypes for the specific environment help improving crop growth and yield. We hypothesized that plant performance in hydroponics could be further maximized by exploiting the action of plant growth-promoting organisms (PGPMs). However, the effects of PGPMs on plant physiology have been scarcely investigated in hydroponics. Within a series of experiments aimed to identify the best protocol for hydroponic cultivation of soybean [Glycine max (L.) Merr.], we evaluated the effects of a PGPMs mix, containing bacteria, yeasts, mycorrhiza and trichoderma beneficial species on leaf anatomy, photosynthetic activity and plant growth of soybean cv. 'Pr91m10' in closed nutrient film technique (NFT). Plants were grown in a growth chamber under semi-aseptic conditions and inoculated at seed, seedling and plant stages, and compared to non-inoculated (control) plants. Light and epi-fluorescence microscopy analyses showed that leaves of inoculated plants had higher density of smaller stomata (297 vs. 247 n/mm2), thicker palisade parenchyma (95.0 vs. 85.8 μm), and larger intercellular spaces in the mesophyll (57.5% vs. 52.2%), compared to non-inoculated plants. The modifications in leaf functional anatomical traits affected gas exchanges; in fact starting from the reproductive phase, the rate of leaf net photosynthesis (NP) was higher in inoculated compared to control plants (8.69 vs. 6.13 μmol CO2 m-2 s-1 at the beginning of flowering). These data are consistent with the better maximal PSII photochemical efficiency observed in inoculated plants (0.807 vs. 0.784 in control); conversely no difference in leaf chlorophyll content was found. The PGPM-induced changes in leaf structure and photosynthesis lead to an improvement of plant growth (+29.9% in plant leaf area) and seed yield (+36.9%) compared to control. Our results confirm that PGPMs may confer benefits in photosynthetic traits of soybean plants even in hydroponics (i.e., NFT), with positive effects on growth and seed production, prefiguring potential application of beneficial microorganisms in plant cultivation in hydroponics.

Toward biotechnology in space: High-throughput instruments for in situ biological research beyond Earth

Space biotechnology is a nascent field aimed at applying tools of modern biology to advance our goals in space exploration. These advances rely on our ability to exploit in situ high throughput techniques for amplification and sequencing DNA, and measuring levels of RNA transcripts, proteins and metabolites in a cell. These techniques, collectively known as "omics" techniques have already revolutionized terrestrial biology. A number of on-going efforts are aimed at developing instruments to carry out "omics" research in space, in particular on board the International Space Station and small satellites. For space applications these instruments require substantial and creative reengineering that includes automation, miniaturization and ensuring that the device is resistant to conditions in space and works independently of the direction of the gravity vector. Different paths taken to meet these requirements for different "omics" instruments are the subjects of this review. The advantages and disadvantages of these instruments and technological solutions and their level of readiness for deployment in space are discussed. Considering that effects of space environments on terrestrial organisms appear to be global, it is argued that high throughput instruments are essential to advance (1) biomedical and physiological studies to control and reduce space-related stressors on living systems, (2) application of biology to life support and in situ resource utilization, (3) planetary protection, and (4) basic research about the limits on life in space. It is also argued that carrying out measurements in situ provides considerable advantages over the traditional space biology paradigm that relies on post-flight data analysis.