Molecular systematics in the genus Mucor with special regards to species encountered in cheese

Hermet, Antoine; Méheust, Delphine; Mounier, Jérôme; Barbier, Georges; Jany, Jean‐Luc

doi:10.1016/j.funbio.2012.04.002

Cited by 62 publications

(40 citation statements)

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“…Several studies on certain species or species complexes (Li et al 2011;Lu et al 2013) or a particular ecological group (Hermet et al 2012) used multi-marker approaches for phylogenetic species recognition in the genus Mucor. However, a comprehensive study on the entire genus is still lacking.…”

Section: Species Identification and Numbersmentioning

confidence: 99%

“…Budziszewska et al 2010) genes have frequently been used in molecular phylogenetic analyses of Mucor because the ITS is too variable to be confidently aligned across the entire genus ). In addition, the RNA polymerase subunit gene (rpb1) was successfully used for multi-marker studies at the species level (Li et al 2011;Hermet et al 2012;Lu et al 2013). Hermet et al (2012) also used the fragment of a mini-chromosome maintenance protein (MCM7) and of the 20 S rRNA accumulation protein (tsr1).…”

Section: Molecular Phylogenymentioning

confidence: 99%

“…In addition, the RNA polymerase subunit gene (rpb1) was successfully used for multi-marker studies at the species level (Li et al 2011;Hermet et al 2012;Lu et al 2013). Hermet et al (2012) also used the fragment of a mini-chromosome maintenance protein (MCM7) and of the 20 S rRNA accumulation protein (tsr1). The multi-marker analysis of the entire Mucorales including representatives of genus Mucor by Hoffmann et al (2013) were based on partial genes of actin and the translation elongation factor 1-alpha in addition to the rRNA genes.…”

Section: Molecular Phylogenymentioning

confidence: 99%

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One stop shop: backbones trees for important phytopathogenic genera: I (2014)

et al. 2014

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Many fungi are pathogenic on plants and cause significant damage in agriculture and forestry. They are also part of the natural ecosystem and may play a role in regulating plant numbers/density. Morphological identification and analysis of plant pathogenic fungi, while important, is often hampered by the scarcity of discriminatory taxonomic characters and the endophytic or inconspicuous nature of these fungi. Molecular (DNA sequence) data for plant pathogenic fungi have emerged as key information for diagnostic and classification studies, although hampered in part by non-standard laboratory practices and analytical methods. To facilitate current and future research, this study provides phylogenetic synopses for 25 groups of plant pathogenic fungi in the Ascomycota, Basidiomycota, Mucormycotina (Fungi), and Oomycota, using recent molecular data, up-to-date names, and the latest taxonomic insights. Lineagespecific laboratory protocols together with advice on their application, as well as general observations, are also provided. We hope to maintain updated backbone trees of these fungal lineages over time and to publish them jointly as new data emerge. Researchers of plant pathogenic fungi not covered by the present study are invited to join this future effort. Bipolaris, Botryosphaeriaceae,

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Section: Species Identification and Numbersmentioning

confidence: 99%

Section: Molecular Phylogenymentioning

confidence: 99%

Section: Molecular Phylogenymentioning

confidence: 99%

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One stop shop: backbones trees for important phytopathogenic genera: I (2014)

et al. 2014

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“…Mucoralean strains have been used for centuries in the fermentation of traditional Asian and African food such as tempeh or furu (fermented tofu) (Nout & Aidoo 2010), and they also play a role in the production of several kinds of cheese (Hermet et al 2012). On the other hand, some members of the Mucorales are responsible for the spoilage of fresh and manufactured food (Pitt & Hocking 2009).…”

Section: Introductionmentioning

confidence: 99%

DNA barcoding in <I>Mucorales</I>: an inventory of biodiversity

Walther¹,

et al. 2013

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The order Mucorales comprises predominantly fast-growing saprotrophic fungi, some of which are used for the fermentation of foodstuffs but it also includes species known to cause infections in patients with severe immune or metabolic impairments. To inventory biodiversity in Mucorales ITS barcodes of 668 strains in 203 taxa were generated covering more than two thirds of the recognised species. Using the ITS sequences, Molecular Operational Taxonomic Units were defined by a similarity threshold of 99 %. An LSU sequence was generated for each unit as well. Analysis of the LSU sequences revealed that conventional phenotypic classifications of the Mucoraceae are highly artificial. The LSU- and ITS-based trees suggest that characters, such as rhizoids and sporangiola, traditionally used in mucoralean taxonomy are plesiomorphic traits. The ITS region turned out to be an appropriate barcoding marker in Mucorales. It could be sequenced directly in 82 % of the strains and its variability was sufficient to resolve most of the morphospecies. Molecular identification turned out to be problematic only for the species complexes of Mucor circinelloides, M. flavus, M. piriformis and Zygorhynchus moelleri. As many as 12 possibly undescribed species were detected. Intraspecific variability differed widely among mucorealean species ranging from 0 % in Backusella circina to 13.3 % in Cunninghamella echinulata. A high proportion of clinical strains was included for molecular identification. Clinical isolates of Cunninghamella elegans were identified molecularly for the first time. As a result of the phylogenetic analyses several taxonomic and nomenclatural changes became necessary. The genus Backusella was emended to include all species with transitorily recurved sporangiophores. Since this matched molecular data all Mucor species possessing this character were transferred to Backusella. The genus Zygorhynchus was shown to be polyphyletic based on ITS and LSU data. Consequently, Zygorhynchus was abandoned and all species were reclassified in Mucor. Our phylogenetic analyses showed, furthermore, that all non-thermophilic Rhizomucor species belong to Mucor. Accordingly, Rhizomucor endophyticus was transferred to Mucor and Rhizomucor chlamydosporus was synonymised with Mucor indicus. Lecto-, epi- or neotypes were designated for several taxa.

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“…The definition of species by the possibility of sexual genetic exchange is of limited use in these fungi, because few complete the sexual cycle in the laboratory, but many initiate unfruitful sexual interactions with distant partners assigned to different genera and families (Blakeslee 1904;Blakeslee & Cartledge 1927). The intraspecific variation of the Mucorales and its geographical distribution remain largely unexplored (Tak o & Csernetics 2005;Hermet et al 2012).…”

Section: Introductionmentioning

confidence: 99%

Diversity, ecology, and evolution in Phycomyces

2015

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The fungal genus Phycomyces (Mucoromycotina, Mucorales) has been revised by examining 96 strains, received from established collections or newly isolated from different environments. Morphology, sexuality, DNA sequences, and population structure clearly identify the genus and set it apart from other Mucorales. The size of the spores, the sexual interactions, the sequences of genes sexM and sexP that determine sexual identity, and the DNA for ribosomal RNAs validate the species Phycomyces blakesleeanus and Phycomyces nitens and the family Phycomycetaceae. Isolates from the same sample of biomass often differ in spore size, sex, DNA sequences, and restriction-length polymorphisms. The widest diversity was found in similar environments in three of the Canary Islands, implying a failure to disperse rapidly over the sea. All strains have apparently functional sexM and sexP genes and all but some strains of P. nitens complete the sexual cycle in the laboratory. The genetic diversity of P. blakesleeanus strains provides evidence for geographical clustering. Various sequence comparisons, including the newly isolated genes sexM and sexP of P. nitens and Blakeslea trispora, clarify phylogenetic relationships in the Mucorales and recommend the sex genes for the study of speciation.

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Molecular systematics in the genus Mucor with special regards to species encountered in cheese

Cited by 62 publications

References 61 publications

One stop shop: backbones trees for important phytopathogenic genera: I (2014)

One stop shop: backbones trees for important phytopathogenic genera: I (2014)

DNA barcoding in <I>Mucorales</I>: an inventory of biodiversity

Diversity, ecology, and evolution in Phycomyces

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