A phylum-level phylogenetic classification of zygomycete fungi based on genome-scale data

Spatafora, Joseph W.; Chang, Ying; Benny, Gerald L.; Lazarus, Katy; Smith, Matthew E.; Berbee, Mary L.; Bonito, Gregory; Corradi, Nicolas; Grigoriev, Igor V.; Gryganskyi, Andrii P.; James, Timothy Y.; O’Donnell, Kerry; Roberson, Robert W.; Taylor, Thomas N.; Uehling, Jessie K.; Vilgalys, Rytas; White, Merlin M.; Stajich, Jason E.

doi:10.3852/16-042

Cited by 1,053 publications

(880 citation statements)

References 97 publications

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“…But the algal progenitors of land plants would have encountered (terrestrial and/or non-terrestrial) microbes even before this time. Berbee and colleagues [47] recently argued that the occurrence of pectinases (enzymes used for the degradation of pectin in plant cell walls) in even the earliest-diverging fungi [see [48]] argues for the antiquity of the fungal ability to exploit plant material. How so?…”

Section: Ancient Land Plant-microbe Interactions and Evidence From Momentioning

confidence: 99%

On plant defense signaling networks and early land plant evolution

Vries

Dahlen

Gould

et al. 2018

Communicative & Integrative Biology

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All land plants must cope with phytopathogens. Algae face pathogens, too, and it is reasonable to assume that some of the strategies for dealing with pathogens evolved prior to the origin of embryophytes – plant terrestrialization simply changed the nature of the plant-pathogen interactions. Here we highlight that many potential components of the angiosperm defense toolkit are i) found in streptophyte algae and non-flowering embryophytes and ii) might be used in non-flowering plant defense as inferred from published experimental data. Nonetheless, the common signaling networks governing these defense responses appear to have become more intricate during embryophyte evolution. This includes the evolution of the antagonistic signaling pathways of jasmonic and salicylic acid, multiple independent expansions of resistance genes, and the evolution of resistance gene-regulating microRNAs. Future comparative studies will illuminate which modules of the streptophyte defense signaling network constitute the core and which constitute lineage- and/or environment-specific (peripheral) signaling circuits.

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Section: Ancient Land Plant-microbe Interactions and Evidence From Momentioning

confidence: 99%

On plant defense signaling networks and early land plant evolution

Vries

Dahlen

Gould

et al. 2018

Communicative & Integrative Biology

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“…The role of the PM as the agent for cellular morphogenesis and nutrient exchanges is especially accentuated in endosymbiosis with soil-borne microbes (Brewin 1990;Bapaume and Reinhardt 2012). Among those, arbuscular mycorrhizal (AM) fungi of the sub-phylum Glomeromycotina (Spatafora et al 2016) engage in a mutualistic relationship with the roots Electronic supplementary material The online version of this article (doi:10.1007/s00572-017-0789-5) contains supplementary material, which is available to authorized users. of most vascular plants.…”

Section: Introductionmentioning

confidence: 99%

The plasma membrane proteome of Medicago truncatula roots as modified by arbuscular mycorrhizal symbiosis

Aloui¹,

Recorbet²,

Lemaître‐Guillier³

et al. 2017

Mycorrhiza

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In arbuscular mycorrhizal (AM) roots, the plasma membrane (PM) of the host plant is involved in all developmental stages of the symbiotic interaction, from initial recognition to intracellular accommodation of intra-radical hyphae and arbuscules. Although the role of the PM as the agent for cellular morphogenesis and nutrient exchange is especially accentuated in endosymbiosis, very little is known regarding the PM protein composition of mycorrhizal roots. To obtain a global overview at the proteome level of the host PM proteins as modified by symbiosis, we performed a comparative protein profiling of PM fractions from Medicago truncatula roots either inoculated or not with the AM fungus Rhizophagus irregularis. PM proteins were isolated from root microsomes using an optimized discontinuous sucrose gradient; their subsequent analysis by liquid chromatography followed by mass spectrometry (MS) identified 674 proteins. Cross-species sequence homology searches combined with MS-based quantification clearly confirmed enrichment in PM-associated proteins and depletion of major microsomal contaminants. Changes in protein amounts between the PM proteomes of mycorrhizal and non-mycorrhizal roots were monitored further by spectral counting. This workflow identified a set of 82 mycorrhiza-responsive proteins that provided insights into the plant PM response to mycorrhizal symbiosis. Among them, the association of one third of the mycorrhiza-responsive proteins with detergent-resistant membranes pointed at partitioning to PM microdomains. The PM-associated proteins responsive to mycorrhization also supported host plant control of sugar uptake to limit fungal colonization, and lipid turnover events in the PM fraction of symbiotic roots. Because of the depletion upon symbiosis of proteins mediating the replacement of phospholipids by phosphorus-free lipids in the plasmalemma, we propose a role of phosphate nutrition in the PM composition of mycorrhizal roots.

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“…In both regions, we did not recover many OTUs among the classical "true" Fungi, such as Dikarya, Glomeromycota or Zygomycota (Karpov et al, 2014a;Spatafora et al, 2016). Instead, we recovered a large number of Opisthosporidia, which is also the group with a high number of OTUs placed in both terminal and internal nodes: the latter probably indicating the presence of novel groups (see details of the phylogenetic placement approach in Materials and Methods).…”

Section: Novel Opisthokonta Diversitymentioning

confidence: 87%

Novel Diversity of Deeply Branching Holomycota and Unicellular Holozoans Revealed by Metabarcoding in Middle Paraná River, Argentina

et al. 2018

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Opisthokonta represents a major lineage of eukaryotes and includes fungi and metazoans, as well as other less known unicellular groups. The latter are paraphyletic assemblages that branch in between the former two groups, and thus are important for understanding the origin and early diversification of opisthokonts. The full range of their diversity, however, has not yet been explored from diverse ecological habitats. Freshwater environments are crucial sources for new diversity; they are considered even more heterogeneous than marine ecosystems. This heterogeneity implies more ecological niches where local eukaryotic communities are located. However, knowledge of the unicellular opisthokont diversity is scarce from freshwater environments. Here, we performed an 18S rDNA metabarcoding study in the Middle Paraná River, Argentina, to characterize the molecular diversity of microbial eukaryotes, in particular unicellular members of Opisthokonta. We identified a potential novel clade branching as a sister-group to Fungi. We also detected in our data that more than 60% operational taxonomic units classified as unicellular holozoans (animals and relatives) represent new taxa at the species level. Of the remaining, the majority was assigned to the newly described holozoan species, Syssomonas multiformis. Together, our results show that a large hidden diversity of unicellular members of opisthokonts still remain to be uncovered. We also found that the geographical and ecological distribution of several taxa considered exclusive to marine environments is wider than previously thought.

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A phylum-level phylogenetic classification of zygomycete fungi based on genome-scale data

Cited by 1,053 publications

References 97 publications

On plant defense signaling networks and early land plant evolution

On plant defense signaling networks and early land plant evolution

The plasma membrane proteome of Medicago truncatula roots as modified by arbuscular mycorrhizal symbiosis

Novel Diversity of Deeply Branching Holomycota and Unicellular Holozoans Revealed by Metabarcoding in Middle Paraná River, Argentina

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