Dark septate endophytes and arbuscular mycorrhizal fungi ( Paris ‐morphotype) affect the stable isotope composition of ‘classically’ non‐mycorrhizal plants

Mixotrophy in orchids: facts, questions, and perspectives

While orchids germinate thanks to carbon from their symbiotic fungi, variable carbon exchanges exist between adult orchids and their mycorrhizal fungi. Although some truly autotrophic orchids reward their fungi with carbon at adulthood, some species remain achlorophyllous and fully dependent on fungal carbon (mycoheterotrophy). Others are photosynthetic but also import fungal carbon: The so-called mixotrophic (MX) orchids rely on fungi of diverse taxonomy and ecology. Here, we classify MX nutrition of orchids into three types. Type I mixotrophy associates with diverse Asco- and Basidiomycota that are either saprotrophic or ectomycorrhizal, entailing enrichment of the orchids in 2H, 13C, and 15N. The two other types associate with rhizoctonias, a polyphyletic assemblage of Basidiomycotas that is ancestrally mycorrhizal in orchids. Type II mixotrophy associates with rhizoctonias that secondarily evolved into saprotrophic or ectomycorrhizal ecology, and thus enrich the orchid in 2H, 13C, and 15N. Type III mixotrophy, which remains debated, associates with rhizoctonias that have retained their ancestral lifestyle, that is saprotrophic and/or endophytic in nonorchids, and only entail orchid enrichment in 2H and 15N. Based on a case study of achlorophyllous variants in Mediterranean Ophrys and on published data, we discuss the distinct nature and research perspectives of type III mixotrophy.

Regional scale diversity and distribution of soil inhabiting Tetracladium

The genus Tetracladium has historically been regarded as an aquatic hyphomycete. However, sequencing of terrestrial ecosystems has shown that Tetracladium species might also be terrestrial soil and plant-inhabiting fungi. The diversity of Tetracladium species, their distribution across ecosystems, and the factors that shape community composition remain largely unknown. Using internal transcribed spacer (ITS) amplicon sequencing, we investigated the spatial distribution of Tetracladium in 970 soil samples representing the major ecosystems found across the British landscape. Species of the genus were found in 57% of the samples and across all vegetation types. The Tetracladium sequences we recovered included species common in aquatic ecosystems. However, we found five additional clades that clustered with environmental sequences previously found in terrestrial environments. The community composition of the Tetracladium OTUs was mainly related to vegetation type and soil pH. Strikingly, both taxon richness and overall abundance were highest in arable soils and showed positive relationships with soil pH. T. maxilliforme and a taxon of environmental sequences, Tetracladium group 1, was the biggest group, had the most relative abundance across ecosystems and was found in all vegetation types. Overall, this study provides insights into the community composition patterns of Tetracladium in terrestrial ecosystems and highlights the importance of vegetation characteristics in shaping Tetracladium communities.

Japonolirion osense, a close relative of the mycoheterotrophic genus Petrosavia, exhibits complete autotrophic capabilities

The plant kingdom exhibits a diversity of nutritional strategies, extending beyond complete autotrophy. In addition to full mycoheterotrophs and holoparasites, it is now recognized that a greater number of green plants than previously assumed use partly of fungal carbon. These are termed partial mycoheterotrophs or mixotrophs. Notably, some species exhibit a dependency on fungi exclusively during early ontogenetic stages, referred to as initial mycoheterotrophy. Japonolirion osense, a rare plant thriving in serpentinite soils, emerges as a potential candidate for initial mycoheterotrophy or mixotrophy. Several factors support this hypothesis, including its diminutive sizes of shoot and and seeds, the establishment of Paris-type arbuscular mycorrhizal associations, its placement within the Petrosaviales-largely composed of fully mycoheterotrophic species-and its ability to face the challenging conditions of its environment. To explore these possibilities, our study adopts a multidisciplinary approach, encompassing stable isotope abundance analyses, in vitro experiments, anatomical analyses, and comparative plastome analyses. Our study aims to (1) determine whether J. osense relies on fungal carbon during germination, indicating initial mycoheterotrophy, (2) determine if it employs a dual carbon acquisition strategy as an adult, and (3) investigate potential genomic reductions in photosynthetic capabilities. Contrary to expectations, our comprehensive findings strongly indicate that J. osense maintains complete autotrophy throughout its life cycle. This underscores the contrasting nutritional strategies evolved by species within the Petrosaviales.

Interplay of biotic and abiotic factors shapes tree seedling growth and root-associated microbial communities

Root-associated microbes can alleviate plant abiotic stresses, thus potentially supporting adaptation to a changing climate or to novel environments during range expansion. While climate change is extending plant species fundamental niches northward, the distribution and colonization of mutualists (e.g., arbuscular mycorrhizal fungi) and pathogens may constrain plant growth and regeneration. Yet, the degree to which biotic and abiotic factors impact plant performance and associated microbial communities at the edge of their distribution remains unclear. Here, we use root microscopy, coupled with amplicon sequencing, to study bacterial, fungal, and mycorrhizal root-associated microbial communities from sugar maple seedlings distributed across two temperate-to-boreal elevational gradients in southern Québec, Canada. Our findings demonstrate that soil pH, soil Ca, and distance to sugar maple trees are key drivers of root-associated microbial communities, overshadowing the influence of elevation. Interestingly, changes in root fungal community composition mediate an indirect effect of soil pH on seedling growth, a pattern consistent at both sites. Overall, our findings highlight a complex role of biotic and abiotic factors in shaping tree-microbe interactions, which are in turn correlated with seedling growth. These findings have important ramifications for tree range expansion in response to shifting climatic niches.

Landscape scale ecology of Tetracladium spp. fungal root endophytes

BACKGROUND

The genus Tetracladium De Wild. (Ascomycota) has been traditionally regarded as a group of Ingoldian fungi or aquatic hyphomycetes-a polyphyletic group of phylogenetically diverse fungi which grow on decaying leaves and plant litter in streams. Recent sequencing evidence has shown that Tetracladium spp. may also exist as root endophytes in terrestrial environments, and furthermore may have beneficial effects on the health and growth of their host. However, the diversity of Tetracladium spp. communities in terrestrial systems and the factors which shape their distribution are largely unknown.

RESULTS

Using a fungal community internal transcribed spacer amplicon dataset from 37 UK Brassica napus fields we found that soils contained diverse Tetracladium spp., most of which represent previously uncharacterised clades. The two most abundant operational taxonomic units (OTUs), related to previously described aquatic T. furcatum and T. maxilliforme, were enriched in roots relative to bulk and rhizosphere soil. For both taxa, relative abundance in roots, but not rhizosphere or bulk soil was correlated with B. napus yield. The relative abundance of T. furcatum and T. maxilliforme OTUs across compartments showed very similar responses with respect to agricultural management practices and soil characteristics. The factors shaping the relative abundance of OTUs homologous to T. furcatum and T. maxilliforme OTUs in roots were assessed using linear regression and structural equation modelling. Relative abundance of T. maxilliforme and T. furcatum in roots increased with pH, concentrations of phosphorus, and increased rotation frequency of oilseed rape. It decreased with increased soil water content, concentrations of extractable phosphorus, chromium, and iron.

CONCLUSIONS

The genus Tetracladium as a root colonising endophyte is a diverse and widely distributed part of the oilseed rape microbiome that positively correlates to crop yield. The main drivers of its community composition are crop management practices and soil nutrients.

Unearthing the plant-microbe quid pro quo in root associations with beneficial fungi

Mutualistic symbiotic associations between multicellular eukaryotes and their microbiota are driven by the exchange of nutrients in a quid pro quo manner. In the widespread arbuscular mycorrhizal (AM) symbiosis involving plant roots and Glomeromycotina fungi, the mycobiont is supplied with carbon through photosynthesis, which in return supplies the host plant with essential minerals such as phosphorus (P). Most terrestrial plants are largely dependent on AM fungi for nutrients, which raises the question of how plants that are unable to form a functional AM sustain their P nutrition. AM nonhost plants can form alternative, evolutionarily younger, mycorrhizal associations such as the ectomycorrhiza, ericoid and orchid mycorrhiza. However, it is unclear how plants such as the Brassicaceae species Arabidopsis thaliana, which do not form known mycorrhizal symbioses, have adapted to the loss of these essential mycorrhizal traits. Isotope tracing experiments with root-colonizing fungi have revealed the existence of new 'mycorrhizal-like' fungi capable of transferring nutrients such as nitrogen (N) and P to plants, including Brassicaceae. Here, we provide an overview of the biology of trophic relationships between roots and fungi and how these associations might support plant adaptation to climate change.

Distinguishing carbon gains from photosynthesis and heterotrophy in C3-hemiparasite-C3-host pairs

BACKGROUND AND AIMS

Previous carbon stable isotope (13C) analyses have shown for very few C3-hemiparasites utilizing C4- or CAM-hosts the use of two carbon sources, autotrophy and heterotrophy. This 13C approach, however, failed for the frequently occurring C3-C3 parasite-host pairs. Thus, we used hydrogen stable isotope (2H) natural abundances as a substitute for 13C within a C3-Orobanchaceae sequence graded by haustoria complexity and C3-Santalaceae.

METHODS

Parasitic plants and their real or potential host plants as references were collected in Central European lowland and alpine mountain meadows and forests. Parasitic plants included the xylem-feeding holoparasite Lathraea squamaria parasitizing on the same carbon nutrient source (xylem-transported organic carbon compounds) as potentially Pedicularis, Rhinanthus, Bartsia, Melampyrum and Euphrasia hemiparasites. Reference plants were used for an autotrophy-only isotope baseline. A multi-element stable isotope natural abundance approach was applied.

KEY RESULTS

Species-specific heterotrophic carbon gain ranging from 0 to 51 % was estimated by a 2H mixing-model. The sequence in heterotrophic carbon gain mostly met the morphological grading by haustoria complexity: Melampyrum- < Rhinanthus- < Pedicularis-type.

CONCLUSION

Due to higher transpiration and lower water-use efficiency, depletion in 13C, 18O and 2H compared to C3-host plants should be expected for tissues of C3-hemiparasites. However, 2H is counterbalanced by transpiration (2H-depletion) and heterotrophy (2H-enrichment). Progressive 2H-enrichment can be used as a proxy to evaluate carbon gains from hosts.

Arbuscular mycorrhizal and dark septate endophyte colonization in Artemisia roots responds differently to environmental gradients in eastern and central China

Arbuscular mycorrhizal fungi (AMF) and dark septate endophytes (DSE) are two types of root symbiotic fungi that enhance nutrient uptake by host plants and their resistance to biotic and abiotic stresses. However, it remains unclear whether AMF and DSE are synergistic or antagonistic in the presence of host plants to environmental gradients, especially on large geographical scales. To determine the relationships between AMF and DSE and their adaptability on a regional scale, we measured AMF and DSE colonization in the roots of 1023 plants of different species within the Artemisia genus collected from 81 sites across central and eastern China. We used general linear mixed models to analyze the relationships between colonization, and temperature and precipitation conditions. We found no significant correlation between AMF and DSE. The AMF colonization rate followed a significant longitudinal trend, but there was no latitudinal pattern. DSE colonization did not follow any geographical pattern. The AMF colonization rate was positively correlated with temperature and precipitation, whereas it was not significantly correlated with soil. There was no significant correlation between DSE colonization and climate or soil. Our results suggest that AMF and DSE play independent roles in the response of Artemisia to the regional environment. Therefore, studies on mycorrhizal symbiosis should discern the differential responses between AMF and DSE to climate and soil when evaluating the adaptability of the two types of symbiosis on large geographical scales.

Can stable isotopes quantify soil carbon build-up from organic fertilizers?

The application of organic fertilizers (OF) can supply carbon (C) to the soil in crop fields. OF-derived C (OF-C) is often estimated using the differential method that can be biased due to indirect effects of OF on soil C. This study tested three methods to quantify OF-C: (i) the widespread differential method, (ii) the synchronic isotope method comparing plots with and without OF and (iii) the asynchronic isotope method mimicking a trial without a control plot. These methods were implemented on an Arenosol and an Andosol supplied during 13 years with slurry or compost. The results highlighted the relevance of using the synchronic isotope method, which focuses on the direct effect of OFs on the soil organic matter (without bias of vegetation change) and considers control soil's evolution. The higher the isotopic difference between soil and OF, the shorter the method implementation time needed: for an initial difference of 7.5 ‰ and 3.5 ‰, quantification is suitable after 4 and 9 years of fertilization respectively. Attention should be paid to OF-δ¹³C variability to guarantee the method validity. The method proved to be suitable to study the factors controlling the OF-C fate in tropical soils.

Stable Isotope Ratios of Herbs and Spices Commonly Used as Herbal Infusions in the Italian Market

Stable isotope ratio analysis has been widely used for traceability and authenticity purposes in relation to various food commodities, but only in a limited number of herb and spice species. This study explored the stable isotope ratios of carbon, nitrogen, sulfur, oxygen, and hydrogen (δ¹³C, δ¹⁵N, δ³⁴S, δ¹⁸O, and δ²H) of 119 herbs and spices belonging to 116 plant species and 57 plant families collected from the Italian market for the first time. The characteristic value ranges of δ¹³C, δ¹⁵N, δ³⁴S, δ¹⁸O, and δ²H of the herbs and spices went from -31.0 to -11.6, -4.7 to 12.0, -5.0 to 22.0, 14.7 to 46.0, and -158 to -12‰, respectively. The isotopic profiles within and between common botanical families and their similarity/dissimilarity between herbs and spices belonging to the common botanical families are also discussed here. The results of this exploratory work highlight the possibility of characterizing herbs and spices and suggest widening the scope of the survey through more extensive sampling and focusing on specific plant species.

Partial mycoheterotrophy is common among chlorophyllous plants with Paris-type arbuscular mycorrhiza

BACKGROUND AND AIMS

An arbuscular mycorrhiza is a mutualistic symbiosis with plants as carbon providers for fungi. However, achlorophyllous arbuscular mycorrhizal species are known to obtain carbon from fungi, i.e. they are mycoheterotrophic. These species all have the Paris type of arbuscular mycorrhiza. Recently, two chlorophyllous Paris-type species proved to be partially mycoheterotrophic. In this study, we explore the frequency of this condition and its association with Paris-type arbuscular mycorrhiza.

METHODS

We searched for evidence of mycoheterotrophy in all currently published 13C, 2H and 15N stable isotope abundance patterns suited for calculations of enrichment factors, i.e. isotopic differences between neighbouring Paris- and Arum-type species. We found suitable data for 135 plant species classified into the two arbuscular mycorrhizal morphotypes.

KEY RESULTS

About half of the chlorophyllous Paris-type species tested were significantly enriched in 13C and often also enriched in 2H and 15N, compared with co-occurring Arum-type species. Based on a two-source linear mixing model, the carbon gain from the fungal source ranged between 7 and 93 % with ferns > horsetails > seed plants. The seed plants represented 13 families, many without a previous record of mycoheterotrophy. The 13C-enriched chlorophyllous Paris-type species were exclusively herbaceous perennials, with a majority of them thriving on shady forest ground.

CONCLUSIONS

Significant carbon acquisition from fungi appears quite common and widespread among Paris-type species, this arbuscular mycorrhizal morphotype probably being a pre-condition for developing varying degrees of mycoheterotrophy.