Claude Murat

Claude Murat
French National Institute for Agriculture, Food, and Environment (INRAE) | INRAE · Interactions Arbres/Micro-organismes (IAM)

About

168
Publications
41,329
Reads
How we measure 'reads'
A 'read' is counted each time someone views a publication summary (such as the title, abstract, and list of authors), clicks on a figure, or views or downloads the full-text. Learn more
10,560
Citations
Additional affiliations
June 2008 - present
French National Institute for Agriculture, Food, and Environment (INRAE)
Position
  • Research ingineer

Publications

Publications (168)
Article
Voici le lien pour télécharger l'article : https://www.afes.fr/wp-content/uploads/2021/12/EGS_2021_Imbert_193-206.pdf La biodiversité du sol représenterait environ un quart des espèces de la planète. Elle est menacée, et bien qu’indispensable aux activités humaines, elle est encore fortement méconnue et peu considérée. Le Réseau de Mesures de la Q...
Article
Full-text available
The Périgord black truffle (Tuber melanosporum Vittad.) is an ectomycorrhizal fungus forming edible fructifications. The production of T. melanosporum relies mainly on man-made plantations. T. melanosporum is a heterothallic species requiring the meeting of two partners of opposite mating types to fruit. It is common to have productive and non-prod...
Article
Full-text available
Globalization and international trade have impacted organisms around the world leading to a considerable number of species establishing in new geographic areas. Many organisms have taken advantage of human‐made environments, including buildings. One such species is the dry rot fungus Serpula lacrymans, which is the most aggressive wood‐decay fungus...
Preprint
Full-text available
Globalization and international trade have impacted organisms around the world leading to a considerable number of species establishing in new geographic areas. Many organisms have taken advantage of human-made environments, including buildings. One such species is the dry rot fungus Serpula lacrymans , which is the most aggressive wood-decay fungu...
Article
Truffles are ectomycorrhizal species forming edible ascocarps. The Italian white truffle (Tuber magnatum Pico) is the most famous and expensive species harvested to date; it comes exclusively from natural habitats in European countries. The annual production of T. magnatum is generally insufficient to respond to the high demands making its cultivat...
Article
Full-text available
Tuber brumale and Tuber indicum (Pezizomycetes) are two edible black truffles establishing ectomycorrhizal symbiosis with trees and shrubs. T. brumale is ubiquitous in Europe, and T. indicum is mainly found in China. Here, we present the draft genome sequences of T. brumale and T. indicum .
Article
Full-text available
Mycorrhizal fungi are mutualists that play crucial roles in nutrient acquisition in terrestrial ecosystems. Mycorrhizal symbioses arose repeatedly across multiple lineages of Mucor-omycotina, Ascomycota, and Basidiomycota. Considerable variation exists in the capacity of mycorrhizal fungi to acquire carbon from soil organic matter. Here, we present...
Article
Full-text available
The success of Ericaceae in stressful habitats enriched in heavy metals has been ascribed to the distinctive abilities of their mycorrhizal fungal partners to withstand heavy metal stress and to enhance metal tolerance in the host plant. Whereas heavy metal tolerance has been extensively investigated in some ericoid mycorrhizal (ERM) fungi, the mol...
Article
Full-text available
Sphaerosporella brunnea is a pioneer ectomycorrhizal fungus with facul-tative saprophytic capacities. Here, we sequenced the genome of S. brunnea strain Sb_GMNB300, which is estimated at 51.6 Mb in size with 872 assembled contigs accounting for 12,597 predicted coding genes. This genome will be useful for comparative studies of Pezizales ectomycorr...
Article
Serendipitous findings and studies on Tuber species suggest that some ectomycorrhizal fungi, beyond their complex interaction with ectomycorrhizal hosts, also colonize roots of non‐ectomycorrhizal plants in a loose way called endophytism. Here, we investigate endophytism of T. melanosporum and T. aestivum. We visualized endophytic T. melanosporum h...
Article
Full-text available
Tuber aestivum, also known as the summer or Burgundy truffle, is an ectomycorrhizal Ascomycete associated with numerous trees and shrubs. Its life cycle occurs in the soil, and thus soil parameters such as temperature and water availability could influence it. T. aestivum cultivation has started in several countries, but ecological and agronomic re...
Article
Tuber borchii (the Bianchetto truffle) is a heterothallic Ascomycete living in symbiotic association with trees and shrubs. Maternal and paternal genotype dynamics have already been studied for the black truffles Tuber melanosporum and Tuber aestivum but not yet for T. borchii. In this study we analyzed maternal and paternal genotypes in the first...
Article
Full-text available
According to isotopic labeling experiments, most of the carbon used by truffle (Tuber sp.) fruiting bodies to develop underground is provided by host trees, suggesting that trees and truffles are physically connected. However, such physical link between trees and truffle fruiting bodies has never been observed. We discovered fruiting bodies of Tube...
Article
Full-text available
From 1903–1904 to 1988–1989, the two World Wars and sociological factors as rural desertification and changes in land uses mainly explained the decline of black truffle production in the Vaucluse department, which well reflects that of the whole of France. These can be correlated with the annual climatic variations as well as, from 1924–1925 to 194...
Article
Full-text available
Tuberaceae is one of the most diverse lineages of symbiotic truffle-forming fungi. To understand the molecular underpinning of the ectomycorrhizal truffle lifestyle, we compared the genomes of Piedmont white truffle (Tuber magnatum), Périgord black truffle (Tuber melanosporum), Burgundy truffle (Tuber aestivum), pig truffle (Choiromyces venosus) an...
Article
The ascomycete Tuber borchii (Pezizomycetes) is a whitish edible truffle that establishes ectomycorrhizal symbiosis with trees and shrubs. This fungus is ubiquitous in Europe and is also cultivated outside Europe. Here, we present the draft genome sequence of T. borchii strain Tbo3840 (97.18 Mb in 969 scaffolds, with 12,346 predicted protein-coding...
Article
Some soil fungi in the Leotiomycetes form ericoid mycorrhizal (ERM) symbioses with Ericaceae. In the harsh habitats in which they occur, ERM plant survival relies on nutrient mobilization from soil organic matter (SOM) by their fungal partners. The characterization of the fungal genetic machinery underpinning both the symbiotic lifestyle and SOM de...
Article
The P?rigord black truffle (Tuber melanosporum Vittad.) is a heterothallic ascomycete that establishes ectomycorrhizal symbiosis with trees and shrubs. Small-scale genetic structures of female genotypes in truffle orchards are known, but it has not yet been studied in male genotypes. In this study, our aim was to characterize the small-scale geneti...
Article
Full-text available
Despite an increasing demand for Burgundy truffles (Tuber aestivum), gaps remain in our understanding of the fungus’ overall lifecycle and ecology. Here, we compile evidence from three independent surveys in Hungary and Switzerland. First, we measured the weight and maturity of 2,656 T. aestivum fruit bodies from a three-day harvest in August 2014...
Data
This excel-file contains all data relevant to our manuscript. (XLSX)
Article
The patterns of the distribution of fungal species and their potential interactions with trees remain understudied in Neotropical rainforests, which harbor more than 16,000 tree species, mostly dominated by endomycorrhizal trees. Our hypothesis was that tree species shape the non-mycorrhizal fungal assemblages in soil and litter and that the divers...
Article
Full-text available
Quelques considérations sur le réensemencement par ascospores des truffières à [i]Tuber melanosporum[/i]
Article
Full-text available
Although the Burgundy truffle (Tuber aestivum) is an ectomycorrhizal fungus of important economic value, its subterranean life cycle and population biology are still poorly understood. Here, we determine mating type and simple sequence repeat (SSR) maternal genotypes of mapped fruiting bodies to assess their genetic structure within two naturally c...
Article
During the diversification of Fungi and the rise of conifer-dominated and angiosperm- dominated forests, mutualistic symbioses developed between certain trees and ectomycorrhizal fungi that enabled these trees to colonize boreal and temperate regions. The evolutionary success of these symbioses is evident from phylogenomic analyses that suggest tha...
Chapter
The ecology of fungi, and the sub-field of community ecology of ectomycorrhizal (ECM) fungi, has changed significantly since the introduction of PCR and its application to fungal species identification. This chapter discusses recent progress and pitfalls in molecular technologies, and new highlights and future research domains in the ecology of ECM...
Article
Full-text available
The Périgord black truffle, Tuber melanosporum Vittad., is an ectomycorrhizal fungus that forms edible hypogeous ascomata. It is now harvested in plantations and is recognized as an agricultural product by European policy. Empirical techniques without scientific demonstration of their efficiency are often used to improve the production of truffles...
Article
The most frequently encountered symbiont on tree roots is the ascomycete Cenococcum geophilum, the only mycorrhizal species within the largest fungal class Dothideomycetes, a class known for devastating plant pathogens. Here we show that the symbiotic genomic idiosyncrasies of ectomycorrhizal basidiomycetes are also present in C. geophilum with sym...
Article
Full-text available
Fungi display a rich variety of sexual reproduction systems and are therefore good models to investigate sex evolution. Moreover, understanding the investment in sexual reproduction of edible fungi is a critical challenge for improving their cultivation. The Perigord black truffle (Tuber melanosporum Vittad.) is a heterothallic ascomycete associate...
Article
Full-text available
Truffles are ascomycete fungi belonging to genus Tuber, and they form ectomycorrhizal associations with trees and shrubs. Transposable elements constitute more than 50 % of the black Périgord truffle (Tuber melanosporum) genome, which are mainly class 1 gypsy retrotransposons, but their impact on its genome is unknown. The aims of this study are to...
Chapter
Filamentous fungi genome sequencing began in the early 2000s and there are currently 1204 fungal genomes deposited in the NCBI database. The mycorrhizal species genome was sequenced during the Mycorrhizal Genome Initiative project. We initially identified the general features of basidiomycete ectomycorrhizal genome species. To gain information on A...
Chapter
The European species Tuber melanosporum and the Asian species T. indicum are phylogenetically and morphologically very close. T. indicum is formed by a complex of cryptic species or ecotypes spread from India to Japan, while T. melanosporum is a well-defined species localised in South of Europe. T. melanosporum has been harvested and consumed in Eu...
Chapter
Truffl es are ectomycorrhizal fungi harvested mainly in human managed agroforestry ecosystems. Truffl e production in truffl e orchards faces two important bottlenecks or challenges: the initiation of the sexual reproduction and the growth of the ascocarps during several months. The black Périgord truffl e, Tuber melanosporum , is a heterothallic s...
Book
This book focuses on the taxonomic diversity of the genus Tuber as economically important truffles. In contributions by internationally respected scientists, it examines truffle systematics, interactions with abiotic and biotic environments, strategies for spore dispersal, and molecular processes in truffles. Topics discussed include: evolutionary...
Article
Full-text available
Tuber species are ectomycorrhizal ascomycetes establishing relationships with different host trees and forming hypogeous fruiting bodies known as truffles. Among Tuber species, Tuber aestivum Vittad. has a wide distributional range being found naturally all over Europe. Here, we performed large-scale population genetic analyses in T. aestivum to (i...
Article
Truffles are symbiotic fungi in high demand by food connoisseurs. Improving yield and product quality requires a better understanding of truffle genetics and aroma biosynthesis. One aim here was to investigate the diversity and fine-scale spatial genetic structure of the Burgundy truffle Tuber aestivum. The second aim was to assess how genetic stru...
Article
Full-text available
To elucidate the genetic bases of mycorrhizal lifestyle evolution, we sequenced new fungal genomes, including 13 ectomycorrhizal (ECM), orchid (ORM) and ericoid (ERM) species, and five saprotrophs, which we analyzed along with other fungal genomes. Ectomycorrhizal fungi have a reduced complement of genes encoding plant cell wall–degrading enzymes (...
Article
Full-text available
Key message Several aspects of the life cycle of the Périgord black truffle have been elucidated only recently, while others remain either controversial or unstudied. In this paper, we present a revised life cycle of this fungus and highlight key aspects that have yet to be addressed or require further understanding.• ContextThe hypogeous sporophor...
Article
The Périgord black truffle (Tuber melanosporum Vittad.), considered a gastronomic delicacy worldwide, is an ectomycorrhizal filamentous fungus that is ecologically important in Mediterranean French, Italian, and Spanish woodlands. In this study, we developed a novel resource of single nucleotide polymorphisms (SNPs) for T. melanosporum using Illumi...
Chapter
Truffles are ectomycorrhizal filamentous fungi belonging to genus Tuber naturally found across a range of climates in the Northern Hemisphere. Some truffle species such as Périgord black truffle (T. melanosporum) and the white truffle (T. magnatum) in Europe, the black Chinese truffle (T. indicum) in Asia, and the pecan truffle (T. lyonii) in North...
Article
Full-text available
The first commercialization of seedlings inoculated with truffle fungi occurred in 1973. Over the last 40 years, considerable progress has been made relative to quality control for inoculated seedlings. A recently published paper by Andrés-Alpuente and colleagues (Mycorrhiza 24:29-37, 2014) reviewed and tested the different methods of mycorrhizatio...
Article
Full-text available
Background: Saprophytic filamentous fungi are ubiquitous micro-organisms that play an essential role in photosynthetic carbon recycling. The wood-decayer Pycnoporus cinnabarinus is a model fungus for the study of plant cell wall decomposition and is used for a number of applications in green and white biotechnology. Results: The 33.6 megabase ge...
Article
Orchids fully depend on symbiotic interactions with specific soil fungi for seed germination and early development. Germinated seeds give rise to a protocorm, a heterotrophic organ that acquires nutrients, including organic carbon, from the mycorrhizal partner. It has long been debated if this interaction is mutualistic or antagonistic. To investig...
Article
Production of the black truffle (Tuber melanosporum Vittad.) has experienced a decline in France over the last century. Different sociological factors as well as climate change have been suggested as possible explanations for this decline. The aims of this study were to assess the effects of annual climatic variations on black truffle sales by anal...
Chapter
Truffles are ectomycorrhizal filamentous fungi belonging to genus Tuber naturally found across a range of climates in the Northern Hemisphere. Some truffle species such as Perigord black truffle (T. melanosporum) and the white truffle (T. magnatum) in Europe, the black Chinese truffle (T. indicum) in Asia, and the pecan truffle (T. lyonii) in North...
Article
Full-text available
The mutualistic symbiosis involving Glomeromycota, a distinctive phylum of early diverging Fungi, is widely hypothesized to have promoted the evolution of land plants during the middle Paleozoic. These arbuscular mycorrhizal fungi (AMF) perform vital functions in the phosphorus cycle that are fundamental to sustainable crop plant productivity. The...
Chapter
Full-text available
In the last decade, the genome of several dozen filamentous fungi have been sequenced. Recently, Raffaele and Kamoun (2012) highlighted that the genomes of several lineages of filamentous plant pathogens have been shaped by repeat-driven expansion. Repeated elements can be classified in two major types: satellites DNA and transposable elements (TEs...
Article
The use of next-generation DNA sequencing methods, which produce massive volumes of data, has transformed fungal molecular ecology. These technologies offer the opportunity to describe microbial communities in depth and to investigate fungal diversity at a large geographical scale. In particular, due to the emergence of studies conducted at a large...
Article
The development of high-throughput methods such as pyrosequencing and microarrays has greatly improved our understanding of the microbial diversity in complex environments such as soils. Nevertheless, albeit advancements in such techniques, the first major step is to obtain high quantity and good quality genomic DNA (gDNA). The work presented here...
Article
Full-text available
The genetic structure of ectomycorrhizal (ECM) fungal populations results from both vegetative and sexual propagation. In this study, we have analysed the spatial genetic structure of Tuber melanosporum populations, a heterothallic ascomycete that produces edible fruit bodies. Ectomycorrhizas from oaks and hazels from two orchards were mapped and g...
Article
Full-text available
ENVIRONMENTAL SCIENCES Correction for “Genome sequence of the button mushroom Agaricus bisporus reveals mechanisms governing adaptation to a humic-rich ecological niche,” by Emmanuelle Morin, Annegret Kohler, Adam R. Baker, Marie Foulongne-Oriol, Vincent Lombard, Laszlo G. Nagy, Robin A. Ohm, Aleksandrina Patyshakuliyeva, Annick Brun, Andrea L. Aer...
Article
Full-text available
The natural resources are currently overexploited and since 1992 the Conference of Rio de Janeiro has focused on sustainable development to safeguard our planet for future generations. The Fungi kingdom includes producers of goods and services for ecosystems and organisms widely used in the food industry. Besides, macrofungi are recognized as non-t...
Article
Full-text available
Abstract: Identifying a soil core microbiome is crucial to appreciate the established microbial consortium, which is not usually subjected to change and, hence, possibly resistant/resilient to disturbances and a varying soil context. Fungi are a major part of soil biodiversity, yet the mechanisms driving their large-scale ecological ranges and dist...
Data
Full-text available
Abstract: Identifying a soil core microbiome is crucial to appreciate the established microbial consortium, which is not usually subjected to change and, hence, possibly resistant/resilient to disturbances and a varying soil context. Fungi are a major part of soil biodiversity, yet the mechanisms driving their large-scale ecological ranges and dist...
Article
Full-text available
Premise of the study: Tuber aestivum, the most common truffle in Europe, tends to take an important place in the truffle economic market. For the first time, microsatellites primers were developed to investigate the polymorphism within this species. Methods and results: Using direct shotgun pyrosequencing, fifteen polymorphic microsatellites were...
Article
Full-text available
Truffles have evolved from epigeous (aboveground) ancestors in nearly every major lineage of fleshy fungi. Because accelerated rates of morphological evolution accompany the transition to the truffle form, closely related epigeous ancestors remain unknown for most truffle lineages. This is the case for the quintessential truffle genus Tuber, which...