Symbiotic Endophytes Research Articles

Anti-herbivory defences delivered by Epichloë fungal endophytes: a quantitative review of alkaloid concentration variation among hosts and plant parts.

In the subfamily Poöideae (Poaceae), certain grass species possess anti-herbivore alkaloids synthesized by fungal endophytes that belong to the genus Epichloë (Clavicipitaceae). The protective role of these symbiotic endophytes can vary, depending on alkaloid concentrations within specific plant-endophyte associations and plant parts. We conducted a literature review to identify articles containing alkaloid concentration data for various plant parts in six important pasture species, Lolium arundinaceum, Lolium perenne, Lolium pratense, Lolium multiflorum|Lolium rigidum and Festuca rubra, associated with their common endophytes. We considered the alkaloids lolines (1-aminopyrrolizidines), peramine (pyrrolopyrazines), ergovaline (ergot alkaloids) and lolitrem B (indole-diterpenes). While all these alkaloids have shown bioactivity against insect herbivores, ergovaline and lolitrem B are harmful for mammals. Loline alkaloid levels were higher in the perennial grasses L. pratense and L. arundinaceum compared to the annual species L. multiflorum and L. rigidum, and higher in reproductive tissues than in vegetative structures. This is probably due to the greater biomass accumulation in perennial species that can result in higher endophyte mycelial biomass. Peramine concentrations were higher in L. perenne than in L. arundinaceum and not affected by plant part. This can be attributed to the high within-plant mobility of peramine. Ergovaline and lolitrem B, both hydrophobic compounds, were associated with plant parts where fungal mycelium is usually present, and their concentrations were higher in plant reproductive tissues. Only loline alkaloid data were sufficient for below-ground tissue analyses and concentrations were lower than in above-ground parts. Our study provides a comprehensive synthesis of fungal alkaloid variation across host grasses and plant parts, essential for understanding the endophyte-conferred defence extent. The patterns can be understood by considering endophyte growth within the plant and alkaloid mobility. Our study identifies research gaps, including the limited documentation of alkaloid presence in roots and the need to investigate the influence of different environmental conditions.

Intergenerational consequences of an auxin-like herbicide on plant sensitivity to a graminicide mediated by a fungal endophyte

In agroecosystems, herbicides are the predominant anthropogenic selection pressure for agriculture weed species. While weeds are the primary target, herbicides can have adverse impacts on non-target plant beneficial microorganisms. We aimed to investigate the influence of a foliar endophytic fungus (Epichloë occultans) on the sensitivity of Lolium multiflorum to a graminicide herbicide (diclofop-methyl) during both plant ontogeny and progeny. Susceptible individuals to diclofop-methyl with and without endophyte were pre-exposed to the auxin 2,4-D herbicide. This herbicide is known to stimulate the metabolic detoxification mechanism (CYP-450) of diclofop-methyl. Regardless of the endophyte, 2,4-D pre-treatment increased mother plant survival to nearly 100 % under diclofop treatment but not in the progeny. Furthermore, maternal plant exposure to 2,4-D reduced endophyte transmission to the seeds and from seed-to-seedlings. Our findings suggest that, despite a reduction in diclofop-methyl sensitivity during the ontogeny of mother plants, 2,4-D-mediated induction of likely CYP-450 metabolism is not intergenerationally transmitted and shows detrimental effects on the symbiotic endophyte persistence.

14 Mitigation Strategies for Heifer Development on ‘KY-31’ Tall Fescue

Abstract Tall fescue (Schedonorus arundinaceus) is the predominant cool-season perennial forage in the Eastern U.S. However, a symbiotic endophyte reduces performance of animals grazing tall fescue. This results in losses of around $2 billion annually. Due to the vasoconstriction caused by the endophyte, a decrease in conception rates among cows and heifers consuming tall fescue has been observed. With rising input costs, it is necessary to explore alternative mitigation strategies these production losses. The objective of this study was to mitigate the toxic effects of ‘KY 31’ tall fescue by limit-grazing cool-season annuals as an alternative to feed supplementation. In January 2022, 48 heifers [14 months of age; 365.9 ± 11.89 kg body weight (BW)] were randomly assigned to tall fescue only, tall fescue with supplemental feed at 1% of BW, tall fescue with limit grazing of cool-season annuals for 24 h per week, and cool-season annuals only. Four animals grazed in each of three replicated paddocks per treatment. Cool-season annual pasture was a mixture of crimson clover (Trifolium incarnatum), annual ryegrass (Lolium multiflorum), and oat (Avena sativa). Body condition scores (BCS), hair coat scores (HCS), and BW were recorded every 30 d. Forage samples were taken for biomass, nutritive value, and ergovaline concentration every 30 d. On April 1, 2022, heifers were artificially inseminated (AI), and conception rates were determined 45 d after AI. Data were analyzed using the Glimmix procedure of SAS 9.4 (SAS Inst, Cary, NC) with α = 0.05. There were no differences among treatments in HCS at any weigh date (P > 0.05). The BCS for all treatments was less in February than January or March (5.6, 6.1, 6.1, respectively; P < 0.0001), but there were no differences among treatments at any sampling date (P > 0.05). Conception rates were not different among treatments (P > 0.10) but averaged 75, 67, 42, and 50% for the continuous-cool season, limit graze, supplemental feed, and tall fescue treatments, respectively. Crude protein (CP) concentrations for the control and limit grazing fescue treatments were greater than the limit grazing cool-season annual treatment, continuous grazing cool-season annual treatment, and the supplemental feed treatment (13.5, 10.7, 10.4, and 8.9%, respectively, (P < 0.012). Neutral detergent fiber (NDF) and acid detergent fiber (ADF) were different among the supplemental treatment when compared with the limit grazing fescue, limit grazing cool-season annual, control, and continuous cool-season annual (48.2 vs 64.7% NDF and 25.8 vs. 37.0% ADF; P < 0.0361). At this time, the results indicate that limit grazing cool-season annual forages may be an advantageous option to mitigate fescue toxicosis in replacement heifers grazing tall fescue pastures in the spring.

Microbiome-Driven Proline Biogenesis in Plants under Stress: Perspectives for Balanced Diet to Minimize Depression Disorders in Humans.

According to the World Health Organization (WHO), depression is a leading cause of disability worldwide and a major contributor to the overall global burden of mental disorders. An increasing number of studies have revealed that among 20 different amino acids, high proline consumption is a dietary factor with the strongest impact on depression in humans and animals, including insects. Recent studies acknowledged that gut microbiota play a key role in proline-related pathophysiology of depression. In addition, the multi-omics approach has alleged that a high level of metabolite proline is directly linked to depression severity, while variations in levels of circulating proline are dependent on microbiome composition. The gut-brain axis proline analysis is a gut microbiome model of studying depression, highlighting the critical importance of diet, but nothing is known about the role of the plant microbiome-food axis in determining proline concentration in the diet and thus about preventing excessive proline intake through food consumption. In this paper, we discuss the protocooperative potential of a holistic study approach combining the microbiota-gut-brain axis with the microbiota-plant-food-diet axis, as both are involved in proline biogenesis and metabolism and thus on in its effect on mood and cognitive function. In preharvest agriculture, the main scientific focus must be directed towards plant symbiotic endophytes, as scavengers of abiotic stresses in plants and modulators of high proline concentration in crops/legumes/vegetables under climate change. It is also implied that postharvest agriculture-including industrial food processing-may be critical in designing a proline-balanced diet, especially if corroborated with microbiome-based preharvest agriculture, within a circular agrifood system. The microbiome is suggested as a target for selecting beneficial plant endophytes in aiming for a balanced dietary proline content, as it is involved in the physiology and energy metabolism of eukaryotic plant/human/animal/insect hosts, i.e., in core aspects of this amino acid network, while opening new venues for an efficient treatment of depression that can be adapted to vast groups of consumers and patients. In that regard, the use of artificial intelligence (AI) and molecular biomarkers combined with rapid and non-destructive imaging technologies were also discussed in the scope of enhancing integrative science outcomes, agricultural efficiencies, and diagnostic medical precisions.

Assembly of high-quality genomes of the locoweed Oxytropis ochrocephala and its endophyte Alternaria oxytropis provides new evidence for their symbiotic relationship and swainsonine biosynthesis.

Locoweeds are perennial forbs poisonous to livestock and cause extreme losses to animal husbandry. Locoweed toxicity is attributed to the symbiotic endophytes in Alternaria sect. Undifilum, which produce a mycotoxin swainsonine (SW). We performed a de novo whole genome sequencing of the most common locoweed in China, Oxytropis ochrocephala (2n=16), and assembled a high-quality, chromosome-level reference genome. Its genome size is 958.83 Mb with 930.94 Mb (97.09%) anchored and oriented onto eight chromosomes, and 31,700 protein-coding genes were annotated. Phylogenetic and collinearity analysis showed it is closely related to Medicago truncatula with a pair of large interchromosomal rearrangements, and both species underwent a whole-genome duplication event. We also derived the genome of A. oxytropis at 74.48 Mb with a contig N50 of 8.87 Mb and 10,657 protein-coding genes, and refined the genes of SW biosynthesis. Multiple Alternaria species containing the swnK gene were grouped into a single clade, but in other genera, swnK's homologues are diverse. Resequencing of 41 A. oxytropis strains revealed one SNP in the SWN cluster causing changes in SW concentration. Comparing the transcriptomes of symbiotic and nonsymbiotic interactions identified differentially expressed genes (DEGs) linked to defence and secondary metabolism in the host. Within the endophyte DEGs were linked to cell wall degradation, fatty acids and nitrogen metabolism. Symbiosis induced the upregulation of most of the SW biosynthetic genes. These two genomes and relevant sequencing data should provide valuable genetic resources for the study of the evolution, interaction, and SW biosynthesis in the symbiont.

Microbial Contributions for Rice Production: From Conventional Crop Management to the Use of 'Omics' Technologies.

Rice, the main staple food for about half of the world’s population, has had the growth of its production stagnate in the last two decades. One of the ways to further improve rice production is to enhance the associations between rice plants and the microbiome that exists around, on, and inside the plant. This article reviews recent developments in understanding how microorganisms exert positive influences on plant growth, production, and health, focusing particularly on rice. A variety of microbial species and taxa reside in the rhizosphere and the phyllosphere of plants and also have multiple roles as symbiotic endophytes while living within plant tissues and even cells. They alter the morphology of host plants, enhance their growth, health, and yield, and reduce their vulnerability to biotic and abiotic stresses. The findings of both agronomic and molecular analysis show ways in which microorganisms regulate the growth, physiological traits, and molecular signaling within rice plants. However, many significant scientific questions remain to be resolved. Advancements in high-throughput multi-omics technologies can be used to elucidate mechanisms involved in microbial–rice plant associations. Prospectively, the use of microbial inoculants and associated approaches offers some new, cost-effective, and more eco-friendly practices for increasing rice production.

111 Metsulfuron and variable nitrogen application rates on infected tall fescue: effects on stocker performance, forage yield, nutritive value, ergovaline concentration and botanical composition

Abstract Chemical seed-head suppression of endophyte infected tall fescue (Lolium arundinaceum) improves stocker cattle performance but may decrease forage yield. Spring nitrogen application increases tall fescue growth with a concomitant increase in ergot alkaloids, produced by the symbiotic endophyte Epichloë coenophiala. We hypothesized that greater amounts of nitrogen applied to tall fescue would increase forage yield and offset losses in forage production from chemical suppression of seed-heads with metsulfuron without effect on alkaloid concentration. Ninety-six steers (270 ± 20 kg) were randomly assigned to one of sixteen paddocks (1.8 ha) on April 18 and continuously grazed for 57 d. Paddocks were blocked by previous use (n = 4) and randomly assigned to one of four treatments; no metsulfuron, no nitrogen (NEGCON), metsulfuron with 0 (MET0), 67 (MET67), or 134 (MET134) kg/ha of ammonium nitrate, applied March 11. Steers grazing MET0 paddocks were removed 17 d early due to insufficient forage availability. Steer weight, forage yield, forage nutritive value and ergot alkaloids in forage samples were measured monthly. Seed-head frequency and species composition were determined in June. Metsulfuron application reduced (P < 0.01) tall fescue seed-heads by 80%. Metsulfuron decreased (P = 0.03) ergovaline but ergovaline increased (P < 0.01) at each monthly sampling across treatments. Nitrogen had no impact on ergovaline concentration (P = 0.50). Forage yield tended to be least (P = 0.07) for MET0, intermediate for NEGCON and MET67, and tended to be greatest for MET134 (P = 0.08). Steer ADG was not affected by treatment (P < 0.80). Metsulfuron decreased NDF (P=0.02) regardless of fertilization rate. Forage CP increased with fertilization (P < 0.01) and no differences were detected between NEGCON and MET0 (P = 0.45). Species composition was not impacted (P >0.07) by treatment. Metsulfuron decreased seed-head growth and ergovaline concentration in tall fescue. Additional nitrogen fertilizer ameliorated forage yield lost to metsulfuron application but did not impact steer gain.

Host Genotype and Precipitation Influence of Fungal Endophyte Symbiosis and Mycotoxin Abundance in a Locoweed.

Many plant endophytes produce mycotoxins, but how host genetic variation influences endophyte colonization and mycotoxin production under natural conditions is poorly understood. This interaction has not been fully considered in many previous studies which used controlled experiments with agronomic or model plant species. Here, we investigated this interaction in a naturally occurring forb (a locoweed species) Oxytropis ochrocephala, its symbiotic endophyte Alternaria oxytropis, and the mycotoxin swainsonine. Host genetic variation was characterized by microsatellite markers. Endophyte infection rate and swainsonine levels were determined by PCR and HPLC, respectively. Genetic markers defined two distinct host populations and revealed that host genetics were significantly correlated with geographical location, elevation, and precipitation. As the host diverged, symbiotic interactions were reduced or failed to produce detectable swainsonine in one host population. Host genotype and precipitation had a significant impact in shaping swainsonine production at the population level. This study highlights the effect of host genotype in influencing this interaction in locoweeds.

Symbiotic Root-Endophytic Soil Microbes Improve Crop Productivity and Provide Environmental Benefits.

Plants should not be regarded as entities unto themselves, but as the visible part of plant-microbe complexes which are best understood as “holobiomes.” Some microorganisms when given the opportunity to inhabit plant roots become root symbionts. Such root colonization by symbiotic microbes can raise crop yields by promoting the growth of both shoots and roots, by enhancing uptake, fixation, and/or more efficient use of nutrients, by improving plants' resistance to pests, diseases, and abiotic stresses that include drought, salt, and other environmental conditions, and by enhancing plants' capacity for photosynthesis. We refer plant-microbe associations with these capabilities that have been purposefully established as enhanced plant holobiomes (EPHs). Here, we consider four groups of phylogenetically distinct and distant symbiotic endophytes: (1) Rhizobiaceae bacteria; (2) plant-obligate arbuscular mycorrhizal fungi (AMF); (3) selected endophytic strains of fungi in the genus Trichoderma; and (4) fungi in the Sebicales order, specifically Piriformospora indica. Although these exhibit quite different “lifestyles” when inhabiting plants, all induce beneficial systemic changes in plants' gene expression that are surprisingly similar. For example, all induce gene expression that produces proteins which detoxify reactive oxygen species (ROS). ROS are increased by environmental stresses on plants or by overexcitation of photosynthetic pigments. Gene overexpression results in a cellular environment where ROS levels are controlled and made more compatible with plants' metabolic processes. EPHs also frequently exhibit increased rates of photosynthesis that contribute to greater plant growth and other capabilities. Soil organic matter (SOM) is augmented when plant root growth is increased and roots remain in the soil. The combination of enhanced photosynthesis, increasing sequestration of CO2 from the air, and elevation of SOM removes C from the atmosphere and stores it in the soil. Reductions in global greenhouse gas levels can be accelerated by incentives for carbon farming and carbon cap-and-trade programs that reward such climate-friendly agriculture. The development and spread of EPHs as part of such initiatives has potential both to enhance farm productivity and incomes and to decelerate global warming.

Mutualistic Interaction of <i>Piriformospora indica</i> (<i>Serendipita indica</i>) with <i>Aloe vera</i>, the Wonder Plant for Modern Living

Aloe vera, a short-stemmed shrub is described as a “wonder plant”, due to its vast uses in various medical products. Since many decades, extensive research has revealed that the pharmacological active ingredients are distributed in both the gel and rind of the Aloe vera leaves. A. vera is very popular in cosmetic and pharmaceutical industries and it is needed in large quantities with higher fractions of important constituents. To satisfy the market demand, intervention of microbial community seems to be a promising approach, which helps to increase the growth and metabolites along with plant fitness. Piriformospora indica is a root colonizing endophytic fungus, having unique plant growth-promoting properties. It helps the plant to acquire more nutrients from soil even under extreme physical and nutrient stress conditions. It interacts with a wide range of hosts. Interaction of P. indica with A. vera resulted in overall increase in plant biomass and greater shoot and root length, as well as number of shoots and roots as compared to control under both in vitro and in vivo environment conditions. Apart from that, the photosynthetic pigments (Chl a, Chl b and total Chl) and aloin content were observed significantly higher in A. vera plantlets colonized with symbiotic endophyte. The antioxidant activities were also tested and found significantly higher as compared to control plants. This imparts the potential of P. indica, to resist the plants against phyto-pathogenic microbes. P. indica has been proved as a potential candidate to enhance the biomass production along with various value additions in the form of active ingredients in A. vera.

Effects of changes in soil moisture and precipitation patterns on plant-mediated biotic interactions in terrestrial ecosystems

Due to climate change, the amount, frequency, and intensity of precipitation worldwide are changing. There is increasing evidence that hydrological change severely affects species interactions and that these effects might overrule direct autecological responses, although this is currently understudied. Here, I synthesize published data on 405 interactions to show how changes in soil moisture affect the frequency or strength of plant-mediated biotic interactions. Despite substantial variation among published responses, general patterns have emerged. A recurrent finding in the synthesized studies is that dryness impedes beneficial interactions between plants and other organisms (decreased mycorrhization and infection with other symbiotic endophytes, less pollinator visits, less active decomposers) and increases detrimental interactions (increased performance of sucking insects, pathogen infection and competition between functionally similar plants). For increased wetness, which is far less studied, stress intensity seems to matter: Slightly increased precipitation often benefits plants and thereby associated interaction partners (increased mycorrhization and infection with symbiotic endophytes, increased herbivore performance), while extreme waterlogging or flooding impedes many interactions (decreased decomposer activity and mycorrhization). Legacy effects of changed soil moisture on plant community composition can amplify or reverse short-term effects on interactions. Although some concepts acknowledge the role of stress intensity (mild versus severe) and stress type (permanent versus pulsed) empirical research testing-related hypotheses is largely lacking, as is research on the role of soil moisture legacies for interactions.

Effects of Epichloë sinica on Roegneria kamoji seedling physiology under PEG-6000 simulated drought stress

Some Epichloe species are beneficial to their plant hosts by improving fitness and resistance to stress. The natural, seedborne, asymptomatic symbiotic endophyte Epichloe sinica is specific for Roegneria spp., which are perennial grasses found in grasslands or meadows; many species of Roegneria are excellent forage plants. This study was designed to reveal the biological function of E. sinica via seedling assays with drought simulation using polyethylene glycol (PEG)-6000. Endophyte infected (EI) and endophyte free (EF) R. kamoji seeds (obtained by heat treatment) were germinated and grown on 0, 10, 15 and 20% PEG-6000 for 10 days; seedling and root system morphologies were investigated, and reactive oxygen species (ROS), which act as signaling molecules in plant responses to abiotic stress, were detected. E. sinica enhanced both the germination potential and rate of R. kamoji seeds treated with high concentrations of PEG-6000. After PEG treatment, shoot and root morphologies differed significantly between EF and EI seedlings. Additionally, lower amounts of ROS concentration were detected in the leaves of EI seedlings treated with high concentrations of PEG-6000. In conclusion, E. sinica promoted PEG-6000 simulated drought stress resistance in R. kamoji seedlings.

English

Five species of Acacia (Acacia ehrenbergiana Hayne, A. nilotica (L.) Delile, A. seyal Delile, A. tortilis (Forssk.) Hayne and A. laeta Delile) indigenous to Tamanrasset (Algeria) were investigated for their nodulation status and nodular endophytic diversity. A. ehrenbergiana showed the highest nodulation ability across the different sites in this region, indicating the widespread occurrence of compatible rhizobia in the soils. Altogether 81 strains were purified. Among this endophytic strain collection, only four bacterial endophytes nodulated their respective host plants. On the basis of partial 16S rDNA sequencing, they were affiliated to Ensifer sp., Ensifer teranga, Mesorhizobium sp. and Rhizobium sp. Among the 79 non- symbiotic endophytes, 24 representative strains on the basis of PCR-RFLP profile obtained with MSPI enzyme digestion were characterized. They belonged to nine genera, namely: Paenibacillus, Ochrobactrum, Stenotrophomonas, Pseudomonas, Microbacterium, Rhizobium, Agrobacterium, Brevibacillus and Advenella. The isolated nodular endophytes in this study revealed a strong tolerance profile to salinity and high temperature. Principal component analysis confirmed that no correlation was found between bacterial tolerance to a maximum temperature of growth and soil depth of sampling. This tolerance profile was distributed over the three levels of soil depth sampling: 20, 40 and 60 cm. On the other hand, there was no relationship between in vitro tolerances of rhizobial strains to NaCl and high temperature and corresponding edaphoclimatic characteristics of the sampling sites. This study is a contribution to nodular bacterial diversity knowledge of desert African Acacia species growing in preserved ecosystems. Key words: Acacia spp., bacterial endophytic diversity, desert, nodules, salinity tolerance, temperature tolerance.

Making Rice Production More Environmentally-Friendly

Irrigated rice production is one of the most essential agricultural activities for sustaining our global population, and at the same time, one of the agricultural sectors considered most eco-unfriendly. This is because it consumes a larger share of available freshwater resources, competing with varied ecosystems as well as other economic sectors; its paddy fields are responsible for significant emission of greenhouse gases; and the reliance on chemical fertilizers and various agrochemicals contributes to pollution of soils and water systems. These stresses on soils, hydrology and atmosphere are actually not necessary for rice production, which can be increased by modifying agronomic practices though more agroecologically-sound management practices. These, combined under the rubric of the System of Rice Intensification (SRI), can reduce requirements of irrigation water, chemical fertilizer and agrochemicals while increasing paddy yields and farmer’s net incomes. Here we discuss how irrigated rice production can be made more eco-friendly for the benefit of farmers, consumers and the environment. This is achieved by introducing practices that improve the growth and functioning of rice plants’ root systems and enhance the abundance, diversity and activity of beneficial soil organisms that live around plant roots and within the plants themselves as symbiotic endophytes.

The diversity of citrus endophytic bacteria and their interactions with Xylella fastidiosa and host plants.

The bacterium Xylella fastidiosa is the causal agent of citrus variegated chlorosis (CVC) and has been associated with important losses in commercial orchards of all sweet orange [Citrus sinensis (L.)] cultivars. The development of this disease depends on the environmental conditions, including the endophytic microbial community associated with the host plant. Previous studies have shown that X. fastidiosa interacts with the endophytic community in xylem vessels as well as in the insect vector, resulting in a lower bacterial population and reduced CVC symptoms. The citrus endophytic bacterium Methylobacterium mesophilicum can trigger X. fastidiosa response in vitro, which results in reduced growth and induction of genes associated with energy production, stress, transport, and motility, indicating that X. fastidiosa has an adaptive response to M. mesophilicum. Although this response may result in reduced CVC symptoms, the colonization rate of the endophytic bacteria should be considered in studies that intend to use this endophyte to suppress CVC disease. Symbiotic control is a new strategy that uses symbiotic endophytes as biological control agents to antagonize or displace pathogens. Candidate endophytes for symbiotic control of CVC must occupy the xylem of host plants and attach to the precibarium of sharpshooter insects to access the pathogen. In the present review, we focus on interactions between endophytic bacteria from sweet orange plants and X. fastidiosa, especially those that may be candidates for control of CVC.

Improving the phenotypic expression of rice genotypes: Rethinking “intensification” for production systems and selection practices for rice breeding

Intensification in rice crop production is generally understood as requiring increased use of material inputs: water, inorganic fertilizers, and agrochemicals. However, this is not the only kind of intensification available. More productive crop phenotypes, with traits such as more resistance to biotic and abiotic stresses and shorter crop cycles, are possible through modifications in the management of rice plants, soil, water, and nutrients, reducing rather than increasing material inputs. Greater factor productivity can be achieved through the application of new knowledge and more skill, and (initially) more labor, as seen from the System of Rice Intensification (SRI), whose practices are used in various combinations by as many as 10 million farmers on about 4millionhectares in over 50 countries. The highest yields achieved with these management methods have come from hybrids and improved rice varieties, confirming the importance of making genetic improvements. However, unimproved varieties are also responsive to these changes, which induce better growth and functioning of rice root systems and more abundance, diversity, and activity of beneficial soil organisms. Some of these organisms as symbiotic endophytes can affect and enhance the expression of rice plants' genetic potential as well as their phenotypic resilience to multiple stresses, including those of climate change. SRI experience and data suggest that decades of plant breeding have been selecting for the best crop genetic endowments under suboptimal growing conditions, with crowding of plants that impedes their photosynthesis and growth, flooding of rice paddies that causes roots to degenerate and forgoes benefits derived from aerobic soil organisms, and overuse of agrochemicals that adversely affect these organisms as well as soil and human health. This review paper reports evidence from research in India and Indonesia that changes in crop and water management can improve the expression of rice plants' genetic potential, thereby creating more productive and robust phenotypes from given rice genotypes. Data indicate that increased plant density does not necessarily enhance crop yield potential, as classical breeding methods suggest. Developing cultivars that can achieve their higher productivity under a wide range of plant densities—breeding for density-neutral cultivars using alternative selection strategies—will enable more effective exploitation of available crop growth resources. Density-neutral cultivars that achieve high productivity under ample environmental growth resources can also achieve optimal productivity under limited resources, where lower densities can avert crop failure due to overcrowding. This will become more important to the extent that climatic and other factors become more adverse to crop production. Focusing more on which management practices can evoke the most productive and robust phenotypes from given genotypes is important for rice breeding and improvement programs since it is phenotypes that feed our human populations.

Camptothecin from Nothapodytes nimmoniana: review on biotechnology applications

Since the first report on Camptothecin detection in Nothapodytes nimmoniana by Govindachari and Viswanathan (Phytochem 11:35–29, 1972), considerable work has been done on biotechnology and its applications on the species. Plant tissue culture techniques have applications in clonal propagation, CPT production, and conservation of N. nimmoniana. Discovery of CPT production by endophytes existing in symbiotic association with N. nimmoniana has provided new insights into finding alternative sources of the alkaloid. Development of molecular markers such as RFLP, RAPD, ISSR, and AFLP has facilitated understanding of population ecology and genetics of the species. Molecular information generated from these studies is promising in establishing strategies for conservation and sustainable use of N. nimmoniana populations under overexploitation pressure. The advances in instrumentation in the 20th century, such as desorption electrospray ionization mass spectrometry allowed CPT analysis in tissues without sample pretreatment. Other ancient techniques for qualitative and quantitative analysis such as chromatography, spectroscopy, and H1-NMR are applied in the detection of CPT due to variable sensitivity to the alkaloid. The review covers work on plant tissue culture for clonal propagation and CPT production in N. nimmoniana. Besides symbiotic endophyte sources of CPT in N. nimmoniana, population genetics studies and instrumentation analysis of the alkaloids are reviewed.

Shifts in Symbiotic Endophyte Communities of a Foundational Salt Marsh Grass following Oil Exposure from the Deepwater Horizon Oil Spill.

Symbiotic associations can be disrupted by disturbance or by changing environmental conditions. Endophytes are fungal and bacterial symbionts of plants that can affect performance. As in more widely known symbioses, acute or chronic stressor exposure might trigger disassociation of endophytes from host plants. We tested this hypothesis by examining the effects of oil exposure following the Deepwater Horizon (DWH) oil spill on endophyte diversity and abundance in Spartina alterniflora – the foundational plant in northern Gulf coast salt marshes affected by the spill. We compared bacterial and fungal endophytes isolated from plants in reference areas to isolates from plants collected in areas with residual oil that has persisted for more than three years after the DWH spill. DNA sequence-based estimates showed that oil exposure shifted endophyte diversity and community structure. Plants from oiled areas exhibited near total loss of leaf fungal endophytes. Root fungal endophytes exhibited a more modest decline and little change was observed in endophytic bacterial diversity or abundance, though a shift towards hydrocarbon metabolizers was found in plants from oiled sites. These results show that plant-endophyte symbioses can be disrupted by stressor exposure, and indicate that symbiont community disassembly in marsh plants is an enduring outcome of the DWH spill.

Production of phenolics and the emission of volatile organic compounds by perennial ryegrass (Lolium perenne L.)/Neotyphodium lolii association as a response to infection by Fusarium poae

Grasses very often form symbiotic associations with Neotyphodium/Epichloë endophytic fungi. These endophytes often allow the host grass to be protected from different pathogens. However, there is little known about the mechanisms of such endophyte influence on the host. Thus, the purpose of this research was to examine the effect of the N. lolii endophyte on the total production of phenolic compounds, VOCs emission and the resistance of three perennial ryegrass genotypes infected by pathogenic Fusarium poae. Analyses of total phenolics content were performed in control (not inoculated) and inoculated plants after 1, 2, 3, 4, 5, and 6 days (DAI) and for VOCs after 0, 3, 6 and 12 DAI. The presence of endophytes significantly reduced the disease index in two of the three genotypes relative to that in E−. Plants infected by N. lolii exhibited higher production of phenolics relative to the E− plants. The highest amounts of phenolics were observed on the second and sixth DAI. Genotype Nl22 showed the strongest effect of the endophyte on the production of phenolics, which increased by over 61%. Both the endophyte infected and non-infected plants emitted most abundantly two GLVs ((Z)-3-hexenal, (Z)-3-hexen-1-yl acetate), three terpenes (linalool, (Z)-ocimene, β-caryophyllene) and three shikimic acid pathway derivatives (benzyl acetate, indole, and methyl salicylate). The endophyte presence and the intervals of VOCs detection were a highly significant source of variation for all emitted volatiles (P<0.001). The genotype of the perennial ryegrass significantly affected only the emission of methyl salicylate (P<0.05) and β-caryophyllene (P<0.05). Most of the VOCs ((Z)-3-hexen-1-yl acetate, (Z)-3-hexenal, linalool and methyl salicylate) reached their highest levels of emission on the sixth DAI, when averaged over genotypes and endophyte status. The results highlight the role of Neotyphodium spp. in the mediation of quadro-trophic interactions among plants, symbiotic endophytes, invertebrate herbivores and plant pathogenic fungi. Our results also confirm the fact that symbiotic plants can activate a defense reaction faster than non-symbiotic plants after a pathogen attack. Thus, N. lolii can be involved in the defense of perennial ryegrass against pathogens and potentially could be central to the host plants’ protection.

Costs, benefits, and loss of vertically transmitted symbionts affect host population dynamics

The costs and benefits of symbiotic interactions may vary with host and symbiont ontogeny. Effects of symbionts at different stages of host development or on different host demographic rates do not contribute equally to fitness. Although rarely applied, a population dynamics approach that integrates over the host life cycle is therefore necessary for capturing the net costs or benefits and, thus, the mutualistic or parasitic nature of symbioses. Using the native, disturbance‐specialist grassAgrostis hyemalis, we asked how a symbiotic endophyte affected the population dynamics of its host and how imperfect vertical transmission influenced symbiont frequency in a late successional environment. A size‐structured integral projection model (IPM) parameterized with experimental field data showed that greater rates of individual growth and reproduction for endophyte‐symbiotic (E+) hosts outweighed their lower rates of survival, leading to a net positive effect of symbiosis on equilibrium plant population growth (slower rate of extinction). Given that populations under going successional transitions are unlikely to be at an equilibrium size structure, we also conducted transient analysis that showed an initial short‐term cost to endophyte symbiosis. We used a megamatrix approach to link E− and E+ IPMs via imperfect vertical transmission and found that this parameter strongly influenced the frequency of symbiosis via complex interactions with host demographic rates. Overall, our population dynamics approach improves the ability to characterize the outcome of symbiotic interactions, and results suggest that particular attention should be paid to interactions between the rate of vertical transmission and host demography.