Disease dynamics in a specialized parasite of ant societies, PLoS One, vol.7, 2012. ,
Zombie-ant fungi across continents: 15 new species and new combinations within Ophiocordyceps I. Myrmecophilous hirsutelloid species, Stud. Mycol, vol.90, pp.119-160, 2018. ,
Diversity of entomopathogenic fungi. Which groups conquered the insect body?, Adv. Genet, vol.94, pp.1-39, 2016. ,
Widespread selective sweeps throughout the genome of model plant pathogenic fungi and identification of effector candidates, Mol. Ecol, vol.26, pp.2041-2062, 2017. ,
URL : https://hal.archives-ouvertes.fr/hal-01448856
How many DNA markers are needed to reveal cryptic fungal species?, Fungal Biol, vol.119, pp.940-945, 2015. ,
Sex, outcrossing and mating types: Unsolved questions in fungi and beyond, J. Evol. Biol, vol.25, pp.1020-1038, 2012. ,
URL : https://hal.archives-ouvertes.fr/hal-00690911
A simple and robust statistical test for detecting the presence of recombination, Genetics, vol.172, pp.2665-2681, 2006. ,
Species delimitation with gene flow: a methodological comparison and population genomics approach to elucidate cryptic species boundaries in Malaysian Torrent Frogs, Mol. Ecol, vol.26, pp.5435-5450, 2017. ,
Large-scale phylogenetic analyses provide insights into unrecognized diversity and historical biogeography of Asian leaf-litter frogs, genus Leptolalax (Anura: Megophryidae). Mol. Phylogenet. Evol, vol.124, pp.162-171, 2018. ,
Ant-infecting Ophiocordyceps genomes reveal a high diversity of potential behavioral manipulation genes and a possible major role for enterotoxins, Sci. Rep, vol.7, p.12508, 2017. ,
Cospeciation vs host-shift speciation: methods for testing, evidence from natural associations and relation to coevolution, New Phytol, vol.198, pp.347-385, 2013. ,
Fast algorithms for large-scale genome alignment and comparison, Nucl. Acids Res, vol.30, pp.2478-2483, 2002. ,
Cryptic species as a window into the paradigm shift of the species concept, Mol. Ecol, vol.27, pp.613-635, 2018. ,
Sympatric genetic differentiation of a generalist pathogenic fungus, Botrytis cinerea, on two different host plants, grapevine and bramble, J. Evol. Biol, vol.21, pp.122-132, 2008. ,
New Software for the Fast Estimation of Population Recombination Rates (FastEPRR) in the Genomic Era, G3 Genes|Genomes|Genetics, vol.6, pp.1563-1571, 2016. ,
Ancient host-pathogen associations maintained by specificity of chemotaxis and antibiosis, PLoS Biol, vol.4, pp.1358-1363, 2006. ,
Exploiting a mutualism: parasite specialization on cultivars within the fungus-growing ant symbiosis, Proc. R. Soc. B Biol. Sci, vol.271, pp.1791-1798, 2004. ,
Mating system of the anther smut fungus Microbotryum violaceum: selfing under heterothallism, Eukaryot. Cell, vol.7, pp.765-775, 2008. ,
, M. 2004Genetic consequences of climatic oscillations in the QuaternaryPhilosophical Transactions of the Royal Society of London. Series B: Biological, 2004.
Behavioral mechanisms and morphological symptoms of zombie ants dying from fungal infection, BMC Ecol, vol.11, p.13, 2011. ,
Application of phylogenetic networks in evolutionary studies, Mol. Biol. Evol, vol.23, pp.254-267, 2006. ,
Genetic differentiation of the giant honey bee (Apis dorsata) in Thailand analyzed by mitochondrial genes and microsatellites, Biochem. Genet, vol.45, pp.345-361, 2007. ,
Molecular phylogeny and biogeography of langurs and leaf monkeys of South Asia, Primates: Colobinae). Mol. Phylogenet. Evol, vol.46, pp.683-694, 2008. ,
Cryptic species within Ophiocordyceps myrmecophila complex on formicine ants from Thailand, Mycol. Prog, vol.18, pp.147-161, 2019. ,
Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in hominoidea, J. Mol. Evol, vol.29, pp.170-179, 1989. ,
Molecular phylogenies reveal host-specific divergence of Ophiocordyceps unilateralis sensu lato following its host ants, Mol. Ecol, vol.21, pp.3022-3031, 2012. ,
New species of Ophiocordyceps unilateralis, an ubiquitous pathogen of ants from Thailand, Fungal Biol, vol.119, pp.44-52, 2015. ,
, Molecular Phylogenetics and Evolution
A genome scan of diversifying selection in Ophiocordyceps zombie-ant fungi suggests a role for enterotoxins in co-evolution and host specificity, Mol. Ecol, vol.27, pp.3582-3598, 2018. ,
URL : https://hal.archives-ouvertes.fr/hal-01921814
Versatile and open software for comparing large genomes, Genome Biol, vol.5, p.12, 2004. ,
Colobopsis explodens sp. n., model species for studies on "exploding ants" (Hymenoptera, Formicidae), with biological notes and first illustrations of males of the Colobopsis cylindrica group, Zookeys, vol.751, pp.1-40, 2018. ,
BUCKy: Gene tree/species tree reconciliation with Bayesian concordance analysis Bret, Bioinformatics, vol.26, pp.2910-2911, 2010. ,
Aligning sequence reads, clone sequences and assembly contigs with BWA-MEM, 2013. ,
When taxonomy meets genomics: lessons from a common songbird, Mol. Ecol, vol.24, pp.2901-2903, 2015. ,
Long-term disease dynamics for a specialized parasite of ant societies: a field study, PLoS One, vol.9, 2014. ,
Ophiocordyceps halabalaensis: A new species of Ophiocordyceps pathogenic to Camponotus gigas in Hala Bala Wildlife Sanctuary, Southern Thailand, Fungal Biol, vol.115, pp.608-614, 2011. ,
Fungal species boundaries in the genomics era. Fungal Genet, Biol, vol.131, p.103249, 2019. ,
The Genome Analysis Toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data, 2010. ,
, Genome Res, vol.20, pp.1297-1303
An Anthropocene map of genetic diversity, Science, vol.353, pp.1532-1535, 2016. ,
Another example of cryptic diversity in lichen-forming fungi: The new species Parmelia mayi (Ascomycota: Parmeliaceae), Org. Divers. Evol, vol.11, pp.331-342, 2011. ,
Life cycle, host range and temporal variation of Ophiocordyceps unilateralis/Hirsutella formicarum on Formicine ants, J. Invertebr. Pathol, vol.111, pp.217-224, 2012. ,
Disentangling cryptic species with isaria-like morphs in Cordycipitaceae, Mycologia, vol.110, pp.230-257, 2018. ,
Spatio-temporal distribution of Erysiphe necator genetic groups and their relationship with disease levels in vineyards, Eur. J. Plant Pathol, vol.123, pp.61-70, 2009. ,
, 2015. Parasite Diversity and Diversification: Evolutionary Ecology Meets Phylogenetics
URL : https://hal.archives-ouvertes.fr/hal-02005693
The frequency of sex in fungi, Philos. Trans. R. Soc. B Biol. Sci, vol.371, 2016. ,
PopGenome: an efficient swiss army knife for population genomic analyses in R, Mol. Biol. Evol, vol.31, pp.1929-1936, 2014. ,
Inference of population splits and mixtures from genome-wide allele frequency data, PLoS Genet, vol.8, p.1002967, 2012. ,
Phylogeography of the black fly Simulium tani (Diptera: Simuliidae) from Thailand as inferred from mtDNA sequences, Mol. Ecol, vol.14, pp.3989-4001, 2005. ,
PLINK: a tool set for whole-genome association and population-based linkage analyses, Am. J. Hum. Genet, vol.81, pp.559-575, 2007. ,
fastSTRUCTURE: variational inference of population structure in large SNP data sets, Genetics, vol.197, pp.573-589, 2014. ,
MrBayes 3.2: efficient bayesian phylogenetic inference and model choice across a large model space, Syst. Biol, vol.61, pp.539-542, 2012. ,
Genetic differentiation and estimation of gene flow from F-statistics under isolation by distance, Genetics, vol.145, pp.1219-1228, 1997. ,
A population genomics approach shows widespread geographical distribution of cryptic genomic forms of the symbiotic fungus Rhizophagus irregularis, ISME J, vol.12, 2018. ,
mclust 5: clustering, classification and density estimation using Gaussian finite mixture models. R, J, vol.8, pp.289-317, 2016. ,
Genome sequences reveal cryptic speciation in the human pathogen Histoplasma capsulatum, vol.8, pp.1339-1356, 2017. ,
Genetic differentiation of the honey bee (Apis cerana) in Thailand revealed by polymorphism of a large subunit of mitochondrial ribosomal DNA, Insectes Sociaux, vol.48, pp.266-272, 2001. ,
A latitudinal phylogeographic diversity gradient in birds, PLoS Biol, vol.15, pp.1-24, 2017. ,
Finding evolutionary processes hidden in cryptic species, Trends Ecol. Evol, vol.33, pp.153-163, 2018. ,
Fine-scale recombination maps of fungal plant, Genetics, vol.208, 2018. ,
Clonal reproduction in fungi, Proc. Natl. Acad. Sci, vol.112, pp.8901-8908, 2015. ,
Phylogenetic species recognition and species concepts in fungi, Fungal Genet. Biol, vol.31, pp.21-32, 2000. ,
Population genomics of the wild yeast Saccharomyces paradoxus: quantifying the life cycle, Proc. Natl. Acad. Sci. 105, pp.4957-4962, 2008. ,
Comparative phylogeography of bamboo bats of the genus Tylonycteris (Chiroptera, Vespertilionidae) in Southeast Asia, Eur. J. Taxon, 2017. ,
Glacial refugia in pathogens: European genetic structure of anther smut pathogens on Silene latifolia and Silene dioica, PLoS Pathog, vol.6, 2010. ,
Out of Asia: biogeography of fungal populations reveals Asian origin of diversification of the Laccaria amethystina complex, and two new species of violet Laccaria, Fungal Biol, vol.121, pp.939-955, 2017. ,
URL : https://hal.archives-ouvertes.fr/hal-02180986
A revised phylogenetic classification of the ant subfamily Formicinae (Hymenoptera: Formicidae), with resurrection of the genera Colobopsis and Dinomyrmex, Zootaxa, vol.4072, pp.343-357, 2016. ,
Genome-wide single-nucleotide polymorphism data reveal cryptic species within cryptic freshwater snail species-the N. Kobmoo et al. Molecular Phylogenetics and Evolution xxx (xxxx) xxx-xxx case of the Ancylus fluviatilis species complex, Ecol. Evol, vol.8, pp.1063-1072, 2018. ,
Biogeography and conservation in Southeast Asia: how 2.7 million years of repeated environmental fluctuations affect today's patterns and the future of the remaining refugial-phase biodiversity, Biodivers. Conserv, vol.19, pp.919-941, 2010. ,
Multiple parapatric pollinators have radiated across a continental fig tree displaying clinal genetic variation, Mol. Ecol, vol.28, pp.2391-2409, 2019. ,