Biology subjects

Lefebvre, B.

Publications and source records attributed to Lefebvre, B..

9 recordsLinked to original sources

bioRxiv2026

Natural habitats are reservoirs of Fusarium lineages highly pathogenic on Triticum aestivum

Fungal plant diseases are a major cause of crop loss worldwide. Understanding the processes driving these diseases is therefore crucial to anticipate and control epidemics while improving crop yield production. Moreover, the new European Green Deal aims to reduce the use of pesticides, while, few alternatives are currently available on the market. There is therefore an urgent need to better track and anticipate fungal crop epidemics in the current context of fungicide reduction. In light of this, our study aims to understand Fusarium spill overs from non-agricultural habitats in order to better characterise potential non-host Fusarium reservoirs that may be implicated in the emergence of Fusarium diseases. To address this question, we isolated Fusarium lineages from natural populations of Brassica rapa. We characterised their phylogenomic affiliation and found that they display high diversity, with a population structure related to the locality of isolation. By inoculation assays, we identified Fusarium strains from non-agricultural habitats that were highly aggressive on wheat. In addition, we observed a strong effect of wheat variety on disease development. We monitored the Fusarium colonisation through a microscopy approach in both wheat and Brassica plants. We observed that while the fungus is mostly on root surface in Brassica plants, it spreads inter-cellularly in wheat roots with vascular colonisation in the wheat shoots. Finally, we showed that most aggressive Fusarium strains were isolated from Brittany, a French region where wheat is vastly cultivated.

ecology↗

bioRxiv2025

Discovering flexible codes for prediction across timescales in the retina

The retina must encode visual information in a way that supports fast, predictive behavior despite significant processing delays. How this encoding adapts in an ever-changing world, when the temporal statistics of visual input shift, remains an open question. Here we record from populations of retinal ganglion cells in the axolotl as they respond to a stochastic moving bar stimulus across five different temporal correlation scales. Using the information bottleneck (IB) framework, and treating the prediction horizon as a free parameter inferred from the data, we ask what timescale of future motion the retina is optimized to predict under each stimulus condition. We find that the retina adapts its predictive encoding to the changing stimulus statistics: as the time constant of the stimulus dynamics increases, the inferred prediction horizon lengthens. The population shifts toward encoding more velocity information, and motion anticipation grows, all the while maintaining near-optimal prediction efficiency. Population surprise, quantified through a Boltzmann machine model of the retinal response distribution, tracks stimulus surprise under the inferred optimal compression. This connects the retinas reversal response to efficient predictive encoding. These results show that retinal population codes flexibly adjust their predictive timescale to the temporal structure of their inputs. More broadly, they demonstrate that the IB framework can be used to discover, not just test for, computational objectives in sensory populations.

neuroscience↗

bioRxiv2025

Soil phosphate availability modulates the arbuscular mycorrhizal fungal community and mycorrhizal nutrition in wheat

O_LIUnderstanding the contributions of arbuscular mycorrhizal fungi (AMF) to plant nutrition is essential for sustainable agriculture. We hypothesised that soil phosphorus (P) availability modulates the diversity and functionality of wheat root-associated AMF community, particularly the mycorrhizal nutrition. C_LIO_LIWheat plants were sampled over two campaigns (2019 and 2022) in a long-term P fertilisation trial. The expression of the wheat transporters involved in the mycorrhizal nutrition was assessed by RT-qPCR, and AMF community composition by metabarcoding. Complementary experiments under controlled conditions were performed to further study the interaction between nitrogen (N) and P availability on AM. C_LIO_LIDifferent effects of P on AMF colonisation and transporter expression were observed in field-grown wheat depending on the campaigns, which differed in wheat N status. Controlled experiments confirmed that AMF colonisation depends on the limitation of either P or N, but that regulation of peri-arbuscular phosphate, ammonium and nitrate transporters depends on the nature of the limiting soil nutrients. Additionally, AMF communities varied according to the soil P availability, with the Funneliformis genus becoming more dominant under high P conditions for both years. C_LIO_LITogether, our findings show that N and P availability jointly shape root AMF communities and AM functioning. Combining community profiling and molecular markers of colonisation and nutrition offers a framework to better understand AMF contributions to plant nutrition across agroecosystems. C_LI

plant biology↗

bioRxiv2024

A Receptor Like Cytoplasmic Kinase evolved in Aeschynomene legumes to mediate Nod-independent rhizobial symbiosis

Many plants interact symbiotically with arbuscular mycorrhizal (AM) fungi to enhance inorganic phosphorus uptake, and legumes also develop a nodule symbiosis with rhizobia for nitrogen acquisition. Establishment and functioning of both symbioses rely on a common plant signaling pathway activated by structurally related Myc- and Nod-factors. Recently, a SPARK Receptor-like-Kinase (RLK)/Receptor-like Cytoplasmic Kinase (RLCK) complex was shown to be essential for AM in both monocot and dicot plants. Here, we show that in Aeschynomene legumes the RLCK component of this receptor complex has evolved following a gene duplication event and mediates a unique nodule symbiosis that is independent of rhizobial Nod factors. In Aeschynomene evenia, AeRLCK2 is crucial for nodule initiation but not for AM. Additionally, AeRLCK2 physically interacts with and is phosphorylated by the Cysteine-rich RLK, AeCRK, also required for nodulation. This work reveals a novel evolutionary origin of this Nod-independent symbiosis from AM.

plant biology↗

bioRxiv2024

A new group of LysM-RLKs involved in symbiotic signal perception and arbuscular mycorrhiza establishment

Lipo-chitooligosaccharides (LCO) and short-chain chitooligosaccharides (CO) are produced by arbuscular mycorrhizal fungi (AMF) and activate the plant symbiosis signalling pathway, which is essential for mycorrhiza formation. High affinity LCO receptors belonging to the LysM receptor-like kinase (LysM-RLK) phylogenetic group LYR-IA play a role in AM establishment, but no plant high affinity short-chain CO receptors have yet been identified. Here we studied members of the uncharacterized LYR-IB group, and found that they show high affinity for LCO, short- and long-chain CO, and play a complementary role with the LYR-IA LCO receptors for AM establishment. While LYR-IB knock out mutants had a reduced AMF colonization in several species, constitutive/ectopic expression in wheat increased AMF colonization. LYR-IB function is conserved in all tested angiosperms, but in most japonica rice a deletion creates a frameshift in the gene, explaining differences in AM phenotypes between rice and other monocot single LYR-IA mutants. In conclusion, we identified a class of LysM-RLK receptors in angiosperms with new biochemical properties and a role in both LCO and CO perception for AM establishment.

plant biology↗

bioRxiv2021

Context-dependent selectivity to natural scenes in the retina

Retina ganglion cells extract specific features from natural scenes and send this information to the brain. In particular, they respond to local light increase (ON responses), and/or decrease (OFF). However, it is unclear if this ON-OFF selectivity, characterized with synthetic stimuli, is maintained when they are stimulated with natural scenes. Here we recorded the responses of ganglion cells of mice and axolotls to stimuli composed of natural images slightly perturbed by patterns of random noise to determine their selectivity during natural stimulation. The ON-OFF selectivity strongly depended on the natural image. A single ganglion cell can signal luminance increase for one natural image, and luminance decrease for another. Modeling and experiments showed that this was due to the non-linear combination of different pathways of the retinal circuit. Despite the versatility of the ON-OFF selectivity, a systematic analysis demonstrated that contrast was reliably encoded in these responses. Our perturbative approach thus uncovers the selectivity of retinal ganglion cells to more complex features than initially thought during natural scene stimulation.

neuroscience↗

bioRxiv2020

Rhizobium leguminosarum symbiovar viciae strains are natural wheat endophytes and can stimulate root development and colonization by arbuscular mycorrhizal fungi

O_LIAlthough rhizobia establishing a nitrogen-fixing symbiosis with legumes are also known to promote growth in non-legumes, studies on rhizobia association with wheat roots are scarce. C_LIO_LIWe searched for Rhizobium leguminosarum symbiovar viciae (Rlv) strains naturally competent for wheat roots colonization. We isolated 20 strains and tested the ability of a subset for wheat roots colonization when co-inoculated with other Rlv. We also measured the effect of these strains on wheat root architecture and Arbuscular Mycorrhizal Fungal (AMF) colonization. C_LIO_LIWe found a low diversity of Rlv in wheat roots compared to that observed in the Rlv species complex. Only a few strains, including those isolated from wheat roots, and one strain isolated from pea nodules, were efficient to colonize wheat roots in co-inoculation conditions. These strains had a high ability for endophytic colonization of wheat root and were able to stimulate root development and AMF colonization in single strain inoculation conditions. C_LIO_LIThese results suggest that wheat is an alternative host for some Rlv; nevertheless, there is a strong competition between Rlv strains for wheat root colonization. Furthermore, our study suggests that the level of endophytic colonization is critical for Rlv ability to promote wheat growth. C_LI

microbiology↗

bioRxiv2019

Experimental system and image analysis software for high throughput phenotyping of mycorrhizal growth response in Brachypodium distachyon

O_LIPlant growth response to Arbuscular Mycorrhizal (AM) fungi is variable and depends on genetic and environment factors that still remain largely unknown. Identification of these factors can be envisaged using high-throughput and accurate plant phenotyping.\nC_LIO_LIWe setup experimental conditions based on a two-compartment system allowing to measure Brachypodium distachyon mycorhizal growth response (MGR) in an automated phenotyping greenhouse. We developed a new image analysis software \"IPSO Phen\" to estimate of B. distachyon aboveground biomass.\nC_LIO_LIWe found a positive MGR in the B. distachyon Bd3-1 genotype inoculated with the AM fungi Rhizophagus irregularis only if nitrogen and phosphorus were added together in the compartment restricted to AM fungi. Using this condition, we found genetic diversity in B. distachyon for MGR ranging from positive to negative MGR depending on the plant genotype tested.\nC_LIO_LIOur result on the interaction between nitrogen and phosphorus for MGR in B. distachyon opens new perspectives about AM functioning. In addition, our open-source software allowing to test and run image analysis parameters on large amount of images generated by automated plant phenotyping facilities, will help to screen large panels of genotypes and environmental conditions to identify the factors controlling the MGR.\nC_LI

plant biology↗

bioRxiv2016

Recent progress in multi-electrode spike sorting methods

In recent years, arrays of extracellular electrodes have been developed and manufactured to record simultaneously from hundreds of electrodes packed with a high density. These recordings should allow neuroscientists to reconstruct the individual activity of the neurons spiking in the vicinity of these electrodes, with the help of signal processing algorithms. Algorithms need to solve a source separation problem, also known as spike sorting. However, these new devices challenge the classical way to do spike sorting. Here we review different methods that have been developed to sort spikes from these large-scale recordings. We describe the common properties of these algorithms, as well as their main differences. Finally, we outline the issues that remain to be solved by future spike sorting algorithms.

neuroscience↗