Draft Genome Sequence of
            <i>Cryptococcus terricola</i>
            JCM 24523, an Oleaginous Yeast Capable of Expressing Exogenous DNA

Close, Dan; Ojumu, John O.; Zhang, Gui X.

doi:10.1128/genomea.01238-16

Cited by 4 publications

(4 citation statements)

References 6 publications

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“…For the fungal ASVs, there was no overlap across all plots and only one ASV was found in all cultivated plots, after excluding the forest plots (Supporting Information Fig. S6B), which was identified as Solicoccozyma terricola (synonym Cryptococcus terricola ) an oleaginous basidiomycete yeast capable of turning starch to fatty acids (Close et al ., 2016). Although it was found in all cultivated plots, its relative abundance is low, representing only 0.27% of the filtered sequences (Supporting Information Table S3).…”

Section: Resultsmentioning

confidence: 99%

Into the wild blueberry (Vaccinium angustifolium) rhizosphere microbiota

Morvan

Meglouli

Sahraoui

et al. 2020

Environmental Microbiology

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The ability of wild blueberries to adapt to their harsh environment is believed to be closely related to their symbiosis with ericoid mycorrhizal fungi, which produce enzymes capable of organic matter mineralization. Although some of these fungi have been identified and characterized, we still know little about the microbial ecology of wild blueberry. Our study aims to characterize the fungal and bacterial rhizosphere communities of Vaccinium angustifolium (the main species encountered in wild blueberry fields). Our results clearly show that the fungal order Helotiales was the most abundant taxon associated with V. angustifolium. Helotiales contains most of the known ericoid mycorrhizal fungi which are expected to dominate in such a biotope. Furthermore, we found the dominant bacterial order was the nitrogenfixing Rhizobiales. The Bradyrhizobium genus, whose members are known to form nodules with legumes, was among the 10 most abundant genera in the bacterial communities. In addition, Bradyrhizobium and Roseiarcus sequences significantly correlated with higher leaf-nitrogen content. Overall, our data documented fungal and bacterial community structure differences in three wild blueberry production fields.

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Section: Resultsmentioning

confidence: 99%

Into the wild blueberry (Vaccinium angustifolium) rhizosphere microbiota

Morvan

Meglouli

Sahraoui

et al. 2020

Environmental Microbiology

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“…Characterization of CAZymes content revealed that F. floriforme contains a high diversity of CAZymes, which includes 267 and 247 genes for CBS6241 and CBS6242, respectively ( Figure 5 ). Solicoccozyma terricola , a promising biotechnological strain ( Tanimura et al 2014 ; Close et al 2016 ) contained the highest number of CAZymes (277), but a similar number (149) of glycoside hydrolases (GHs) compared to the F. floriforme strains (143 and 134). Filobasidium floriforme contained the highest number of carbohydrate esterases (CEs), while Cystofilobasidium capitatum contained the most glycosyltransferases (GTs) and polysaccharide lyases (PLs).…”

Section: Resultsmentioning

confidence: 99%

“…For the Tremellomycete order Filobasidiales, which branches basally to the Tremellales, Trichosporonales, and Holtermanniales ( Liu et al 2015b ), genomes have been published for the genera Naganishia and Solicoccozyma, but none were analyzed with respect to the mating type ( Close et al 2016 ; Vajpeyi and Chandran 2016 ; Yong et al 2016 ; Bijlani et al 2020 ; Han et al 2020 ; Nizovoy et al 2021 ). Here, we present the first draft genome sequences including an analysis of MAT genes for two strains of the genus Filobasidium, Filobasidium floriforme strains CBS6241 and CBS6242.…”

Section: Introductionmentioning

confidence: 99%

Draft genome sequences of strains CBS6241 and CBS6242 of the basidiomycetous yeastFilobasidium floriforme

Guerreiro

Ahrendt

Pangilinan

et al. 2021

G3 Genes|Genomes|Genetics

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The Tremellomycetes are a species-rich group within the basidiomycete fungi; however, most analyses of this group to date have focused on pathogenic Cryptococcus species within the order Tremellales. Recent genome-assisted studies of other Tremellomycetes have identified interesting features with respect to biotechnological applications as well as the evolution of genes involved in mating and sexual development. Here, we report genome sequences of two strains of Filobasidium floriforme, a species from the order Filobasidiales, which branches basally to the Tremellales, Trichosporonales, and Holtermanniales. The assembled genomes of strains CBS6241 and CBS6242 are 27.4 Mb and 26.4 Mb in size, respectively, with 8314 and 7695 predicted protein-coding genes. Overall sequence identity at nucleic acid level between the strains is 97%. Among the predicted genes are pheromone precursor and pheromone receptor genes as well as two genes encoding homedomain (HD) transcription factors, which are predicted to be part of the mating type (MAT) locus. Sequence analysis indicates that CBS6241 and CBS6242 carry different alleles for both the pheromone/receptor genes as well as the HD transcription factors. Orthology inference identified 1482 orthogroups exclusively found in F. floriforme, some of which were involved in carbohydrate transport and metabolism. Subsequent CAZyme repertoire characterization identified 267 and 247 enzymes for CBS6241 and CBS6242, respectively, the second highest number of CAZymes among the analyzed Tremellomycete species. In addition, F. floriforme contains five CAZymes absent in other species and several plant-cell-wall degrading CAZymes with the highest copy number in Tremellomycota, indicating the biotechnological potential of this species.

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“…As the genomes sequences of many of them are now available (e.g. [102][103][104]), this should facilitate the study of their respective contribution to ecosystem processes through metatranscriptomic or metaproteomic approaches.…”

Section: Discussionmentioning

confidence: 99%

Metabarcoding on both environmental DNA and RNA highlights differences between fungal communities sampled in different habitats

et al. 2020

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In recent years, metabarcoding has become a key tool to describe microbial communities from natural and artificial environments. Thanks to its high throughput nature, metabarcoding efficiently explores microbial biodiversity under different conditions. It can be performed on environmental (e)DNA to describe so-called total microbial community, or from environmental (e)RNA to describe active microbial community. As opposed to total microbial communities, active ones exclude dead or dormant organisms. For what concerns Fungi, which are mostly filamentous microorganisms, the relationship between DNA-based (total) and RNA-based (active) communities is unclear. In the present study, we evaluated the consequences of performing metabarcoding on both soil and wood-extracted eDNA and eRNA to delineate molecular operational taxonomic units (MOTUs) and differentiate fungal communities according to the environment they originate from. DNA and RNA-based communities differed not only in their taxonomic composition, but also in the relative abundances of several functional guilds. From a taxonomic perspective, we showed that several higher taxa are globally more represented in either “active” or “total” microbial communities. We also observed that delineation of MOTUs based on their co-occurrence among DNA and RNA sequences highlighted differences between the studied habitats that were overlooked when all MOTUs were considered, including those identified exclusively by eDNA sequences. We conclude that metabarcoding on eRNA provides original functional information on the specific roles of several taxonomic or functional groups that would not have been revealed using eDNA alone.

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Draft Genome Sequence of Cryptococcus terricola JCM 24523, an Oleaginous Yeast Capable of Expressing Exogenous DNA

Abstract: Cryptococcus terricola JCM 24523 has recently been identified as an oleaginous yeast capable of converting starch into fatty acids. This draft genome sequence provides a platform for elucidating its fatty acid production potential and supporting comparisons with other oleaginous species.

Cited by 4 publications

References 6 publications

Into the wild blueberry (Vaccinium angustifolium) rhizosphere microbiota

Into the wild blueberry (Vaccinium angustifolium) rhizosphere microbiota

Draft genome sequences of strains CBS6241 and CBS6242 of the basidiomycetous yeastFilobasidium floriforme

Metabarcoding on both environmental DNA and RNA highlights differences between fungal communities sampled in different habitats

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