Relevant bibliographies by topics / Culturable mycobiome

Academic literature on the topic 'Culturable mycobiome'

Author: Grafiati
Published: 10 December 2022
Last updated: 28 January 2023

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Journal articles on the topic "Culturable mycobiome"

1

Ben-Dor Cohen, Eyal, Micha Ilan, and Oded Yarden. "The Culturable Mycobiome of Mesophotic Agelas oroides: Constituents and Changes Following Sponge Transplantation to Shallow Water." Journal of Fungi 7, no. 7 (July 16, 2021): 567. http://dx.doi.org/10.3390/jof7070567.

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Marine sponges harbor a diverse array of microorganisms and the composition of the microbial community has been suggested to be linked to holo-biont health. Most of the attention concerning sponge mycobiomes has been given to sponges present in shallow depths. Here, we describe the presence of 146 culturable mycobiome taxa isolated from mesophotic niche (100 m depth)-inhabiting samples of Agelas oroides, in the Mediterranean Sea. We identify some potential in vitro interactions between several A. oroides-associated fungi and show that sponge meso-hyl extract, but not its predominantly collagen-rich part, is sufficient to support hyphal growth. We demonstrate that changes in the diversity of culturable mycobiome constituents occur following sponge transplantation from its original mesophotic habitat to shallow (10 m) waters, where historically (60 years ago) this species was found. We conclude that among the 30 fungal genera identified as associated with A. oroides, Aspergillus, Penicillium and Trichoderma constitute the core mycobiome of A. oroides, and that they persist even when the sponge is transplanted to a suboptimal environment, indicative of the presence of constant, as well as dynamic, components of the sponge mycobiome. Other genera seemed more depth-related and appeared or disappeared upon host’s transfer from 100 to 10 m.
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Rubio-Portillo, Esther, David Orts, Eleuterio Llorca, Cleofé Fernández, Josefa Antón, Consuelo Ferrer, Beatriz Gálvez, et al. "The Domestic Environment and the Lung Mycobiome." Microorganisms 8, no. 11 (November 2, 2020): 1717. http://dx.doi.org/10.3390/microorganisms8111717.

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This study analyzes the relationship between the mycobiome of the Lower Respiratory Tract (LRT) and the fungi in the domestic environment. Samples studied consisted of Broncho-Alveolar Lavage (BAL) from 45 patients who underwent bronchoscopy for different diagnostic purposes, and dust and air from the houses (ENV) of 20 of them (44.4%). Additionally, five bronchoscopes (BS) were also analyzed and negative controls were included for every procedure. All samples were processed for DNA extraction and cultures, which were performed in Sabouraud Dextrose and Potato Dextrose Agar. The fungal Internal Transcribed Spacer (ITS2) was sequenced by the Solexa/Illumina system and sequences were analyzed by QIIME 1.8.0 and compared with the UNITE Database for identification. The similarity between the two fungal communities (BAL and ENV) for a specific patient was assessed via the percentage of coincidence in the detection of specific operational taxonomic units (OTUs), and about 75% of co-occurrence was detected between the mycobiome of the LRT and the houses. Cultures confirmed the presence of the core mycobiome species. However, the low rate of isolation from BAL suggests that most of its mycobiome corresponds to non-culturable cells. This likely depends on the patient’s immune system activity and inflammatory status.
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Lifshitz, Nofar, Lena Hazanov, Maoz Fine, and Oded Yarden. "Seasonal Variations in the Culturable Mycobiome of Acropora loripes along a Depth Gradient." Microorganisms 8, no. 8 (July 28, 2020): 1139. http://dx.doi.org/10.3390/microorganisms8081139.

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Coral associated fungi are widespread, highly diverse and are part and parcel of the coral holobiont. To study how environmental conditions prevailing near the coral-host may affect fungal diversity, the culturable (isolated on potato dextrose agar) mycobiome associated with Acropora loripes colonies was seasonally sampled along a depth gradient in the Gulf of Aqaba. Fragments were sampled from both apparently healthy coral colonies as well as those exhibiting observable lesions. Based on phylogenetic analysis of 197 fungal sequences, Ascomycota were the most prevalent (91.9%). The abundance of fungi increased with increasing water depth, where corals sampled at 25 m yielded up to 70% more fungal colony forming units (CFUs) than those isolated at 6 m. Fungal diversity at 25 m was also markedly higher, with over 2-fold more fungal families represented. Diversity was also higher in lesioned coral samples, when compared to apparently healthy colonies. In winter, concurrent with water column mixing and increased levels of available nutrients, at the shallow depths, Saccharomytacea and Sporidiobolacea were more prevalent, while in spring and fall Trichocomacea (overall, the most prevalent family isolated throughout this study) were the most abundant taxa isolated at these depths as well as at deeper sampling sites. Our results highlight the dynamic nature of the culturable coral mycobiome and its sensitivity to environmental conditions and coral health.
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Conejo-Saucedo, Ulises, Alejandro Ledezma-Villanueva, Gabriela Ángeles de Paz, Mario Herrero-Cervera, Concepción Calvo, and Elisabet Aranda. "Evaluation of the Potential of Sewage Sludge Mycobiome to Degrade High Diclofenac and Bisphenol-A Concentrations." Toxics 9, no. 6 (May 23, 2021): 115. http://dx.doi.org/10.3390/toxics9060115.

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One of the most challenging environmental threats of the last two decades is the effects of emerging pollutants (EPs) such as pharmaceutical compounds or industrial additives. Diclofenac and bisphenol A have regularly been found in wastewater treatment plants, and in soils and water bodies because of their extensive usage and their recalcitrant nature. Due to the fact of this adversity, fungal communities play an important role in being able to safely degrade EPs. In this work, we obtained a sewage sludge sample to study both the culturable and non-culturable microorganisms through DNA extraction and massive sequencing using Illumina MiSeq techniques, with the goal of finding degraders adapted to polluted environments. Afterward, degradation experiments on diclofenac and bisphenol A were performed with the best fungal degraders. The analysis of bacterial diversity showed that Dethiosulfovibrionaceae, Comamonadaceae, and Isosphaeraceae were the most abundant families. A predominance of Ascomycota fungi in the culturable and non-culturable population was also detected. Species such as Talaromyces gossypii, Syncephalastrum monosporum, Aspergillus tabacinus, and Talaromyces verruculosus had remarkable degradation rates, up to 80% of diclofenac and bisphenol A was fully degraded. These results highlight the importance of characterizing autochthonous microorganisms and the possibility of selecting native fungal microorganisms to develop tailored biotransformation technologies for EPs.
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Summers, Katie L., Juli Foster Frey, Timothy G. Ramsay, and Ann M. Arfken. "The piglet mycobiome during the weaning transition: a pilot study1." Journal of Animal Science 97, no. 7 (May 28, 2019): 2889–900. http://dx.doi.org/10.1093/jas/skz182.

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Abstract The importance of the microbiota in the gastrointestinal tract of animals is recognized as a critical player in host health. Recently, the significance of the mycobiome has been recognized, but culture-independent studies are limited, especially in swine. Weaning is a time of stress, dietary changes, and a predisposition to infections, making it a time point of interest to industry. In this pilot study, we sought to assess and characterize the mycobiome in the feces of swine from birth through the critical weaning transition to investigate the mycobiome population and its temporal dynamics in piglet feces. Cultured fecal samples demonstrate a significant increase in fungal burden following weaning that does not differ from adult levels, suggesting stable colonization. Culturable fungi were not found in any environmental samples tested, including water, food, sow milk or colostrum. To determine the fungal diversity present and to address the problem of unculturable fungi, we performed a pilot study utilizing ITS and 16S rRNA focused primers for high-throughput sequencing of fungal and bacterial species, respectively. Bacterial populations increase in diversity over the experimental timeline (days 1 to 35 postbirth), but the fungal populations do not demonstrate the same temporal trend. Following weaning, there is a dynamic shift in the feces to a Saccharomycetaceae-dominated population. The shift in fungal population was because of the dominance of Kazachstania slooffiae, a poorly characterized colonizer of animal gastrointestinal tracts. This study provides insights into the early colonization and subsequent establishment of fungi during the weaning transition in piglets. Future studies will investigate the effect of the mycobiome on piglet growth and health during the weaning transition.
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Korneykova, Maria V., Anastasia S. Soshina, Andrey I. Novikov, Kristina V. Ivashchenko, Olesya I. Sazonova, Marina V. Slukovskaya, Anna A. Shirokaya, Viacheslav I. Vasenev, Anna A. Vetrova, and Olga Gavrichkova. "Microscopic Fungi in Big Cities: Biodiversity, Source, and Relation to Pollution by Potentially Toxic Metals." Atmosphere 12, no. 11 (November 7, 2021): 1471. http://dx.doi.org/10.3390/atmos12111471.

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For the first time, a mycological analysis of outdoor urban environment (air, leaves, sealed surfaces) was carried in the cities of subarctic (Murmansk) and temperate (Moscow) climatic zones. The chemical composition of dust deposited on leaves of dominant tree species was taken as an indicator of the air quality. Assessment of the complex impact of factors (climate zone, type of substrate, anthropogenic load) on the quantitative and qualitative parameters of mycobiome was performed. Compared to Moscow, Murmansk was characterized by an increased number and concentrations of pollutants in the deposited dust. The number of culturable airborne fungi in Murmansk was substantially lower than in Moscow. Half of the species belonged to the opportunistic in both cities. Most dangerous opportunistic fungi were absent in the air of recreational zones but present on leaves surface and in road dust in all assessed zones of the cities. Dust chemical composition affected the diversity of fungi species. While the relationship of biological parameters with concentration of potentially toxic metals was generally negative, Cd increased the fraction of opportunistic fungi in road dust. The study revealed an importance of substrate in determining the sensitivity of outdoor mycobiome to pollution and highlighted its biological characteristics sensitive to climate.
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Ljaljević Grbić, Milica, Ivica Dimkić, Željko Savković, Miloš Stupar, Aleksandar Knežević, Aleksa Jelikić, and Nikola Unković. "Mycobiome Diversity of the Cave Church of Sts. Peter and Paul in Serbia—Risk Assessment Implication for the Conservation of Rare Cavern Habitat Housing a Peculiar Fresco Painting." Journal of Fungi 8, no. 12 (November 30, 2022): 1263. http://dx.doi.org/10.3390/jof8121263.

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The mycobiome of the cave Church of Sts. Peter and Paul, housing the peculiar fresco painting of “The Bald-headed Jesus”, was analyzed via culture-dependent and -independent methods. Salt efflorescence, colored patinas, and biofilm, as well as biopitting, discolorations, and fruiting bodies of wood-decay fungi were observed on surfaces within the church. Microscopic analyses showed an abundance of fungal structures, i.e., conidiophores, conidia, chlamydospores, and ascospores. The estimated values of the contamination classified all surfaces as the “Danger zone”. A total of 24 fungi from 17 genera were determined as part of the culturable mycobiome, with a dominance of Ascomycota of genera Penicillium. Biodegradative profiles analyzed via plate assays demonstrated positive reactions for 16 isolates: most commonly acid production (8), followed by pigment production and ligninolytic activity (6), protein degradation (5), cellulolytic activity (3) and carbonate dissolution (2). Metabarcoding analysis showed a dominance of Ascomycota in all samples (79.9–99.7%), with high relative abundance documented for Hypoxylon fuscopurpureum on the iconostasis and unclassified Mycosphaerellaceae family within order Capnodiales on fresco and stone, as well as moderate relative abundance for unclassified Dothideomycetes, Botryolepraria lesdainii, Verrucaria sp. and Cladosporium sp. on stone walls. The used set of integrative methods pointed out species of genus Neodevriesia and H. fuscopurpureum as the main deteriogenic agents of fresco and iconostasis surfaces, respectively.
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Haarith, Deepak, Dong-gyu Kim, Noah B. Strom, Senyu Chen, and Kathryn E. Bushley. "In Vitro Screening of a Culturable Soybean Cyst Nematode Cyst Mycobiome for Potential Biological Control Agents and Biopesticides." Phytopathology® 110, no. 8 (August 2020): 1388–97. http://dx.doi.org/10.1094/phyto-01-20-0015-r.

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Fungal biological control of soybean cyst nematodes (SCN) is an important component of integrated pest management for soybean. However, very few fungal biological control agents are available in the market. In this study, we have screened fungi previously isolated from SCN cysts over 3 years from a long-term crop rotation field experiment for their ability to antagonize SCN using (i) parasitism, (ii) egg hatch inhibition, and (iii) J2 mortality. We evaluated egg parasitism using an in-vitro egg parasitism bioassays and scored parasitism using the egg parasitic index (EPI) and fluorescent microscopy. The ability of these fungi to produce metabolites causing egg hatch inhibition and J2 mortality was assessed in bioassays using filter-sterilized culture filtrates. We identified 10 high-performing isolates each for egg parasitism and toxicity toward SCN eggs and J2s and repeated the tests after storage for 1 year of cryopreservation at −80°C to validate the durability of biocontrol potential of the chosen 20 isolates. Although the parasitic ability changed slightly for the majority of strains after cryopreservation, they still scored 5/10 on EPI scales. There were no differences in the ability of fungi to produce antinemic metabolites after cryopreservation. [Formula: see text] Copyright © 2020 The Author(s). This is an open access article distributed under the CC BY 4.0 International license .
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Adams, Sarah J., Brent M. Robicheau, Diane LaRue, Robin D. Browne, and Allison K. Walker. "Foliar Endophytic Fungi from the Endangered Eastern Mountain Avens (Geum peckii, Rosaceae) in Canada." Plants 10, no. 5 (May 20, 2021): 1026. http://dx.doi.org/10.3390/plants10051026.

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Eastern Mountain Avens (Geum peckii Pursh, Rosaceae) is a globally rare and endangered perennial plant found only at two coastal bogs within Digby County (Nova Scotia, Canada) and at several alpine sites in the White Mountains of New Hampshire (USA). In Canada, the G. peckii population has declined over the past forty years due in part to habitat degradation. We investigated the culturable foliar fungi present in G. peckii leaves at five locations with varying degrees of human impact within this plant species’ Canadian range. Fungal identifications were made using ITS rDNA barcoding of axenic fungal cultures isolated from leaf tissue. Differences in foliar fungal communities among sites were documented, with a predominance of Gnomoniaceae (Class: Sordariomycetes, Phylum: Ascomycota). Habitats with more human impact showed lower endophytic diversities (10–16 species) compared to the pristine habitat (27 species). Intriguingly, several fungi may represent previously unknown taxa. Our work represents a significant step towards understanding G. peckii’s mycobiome and provides relevant data to inform conservation of this rare and endangered plant.
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Wasti, Ibrahem, Foo She Fui, Tan Qin Zhi, Cheh Wai Mun, Mohammad Hafiz Syukri Kassim, Mahadimenakbar Mohd Dawood, Noor Haliza Hasan, Vijay Kumar Subbia, Faisal Ali Anwarali Khan, and Jaya Seelan Sathiya Seelan. "Fungi from dead arthropods and bats of Gomantong Cave, northern Borneo, Sabah (Malaysia)." Journal of Cave and Karst Studies 82, no. 4 (December 15, 2020): 261–75. http://dx.doi.org/10.4311/2019mb0146.

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Borneo is a biodiversity and ecotourism hotspot, yet one of its least-studied ecosystems is their limestone caves. Not many studies have been conducted on the role fungi play in tropical cave ecosystems, and no fungal surveys have been conducted in the caves of Sabah, Malaysia. Here, we assess the mycofloral diversity on bat and arthropod cadavers in one of the most popular ecotourism destinations of northern Borneo, Gomantong caves. Opportunistic sampling of cadavers within the Semud Hitam chamber of Gomantong cave yielded nine dead arthropods and four dead bats. Twenty-four culturable fungi were isolated, of which 14 morphological taxonomic units (MTU) were observed. Twelve of the 14 MTUs underwent molecular characterization of the ITS gene region to confirm identification. All fungi were Ascomycetes except for one Basidiomycete isolate. Aspergillus spp. had the highest occurrence (45.8%), followed by Penicillium spp. (25.0%), and Fusarium sp. (12.5%). Ceratobasidium sp., Diaporthe sp., Pestalotiopsis sp., and Xylaria feejeensis were isolated once each. No more than one fungal taxon was isolated from each arthropod cadaver, and not all arthropods yielded culturable fungi. Bat cadavers yielded 14 out of 24 isolates (58.3%), with the highest occurrence of the fungi sampled from their skin. Our results corroborate that bats and arthropods play a role in fungal dispersion and introduction in the cave because their exteriors are likely to harbor fungi they are exposed to in the environment. We also conclude that cadavers are important substrates for fungal growth and proliferation, perpetuating the role of fungi as important decomposers in caves. This study provides a baseline of information of the mycobiome of Bornean caves for future bioprospecting and potential biotechnological applications.
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Conference papers on the topic "Culturable mycobiome"

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Scadding, AJ, C. Pashley, W. Monteiro, H. Bhatt, and AJ Wardlaw. "P8 Cultural fungal mycobiome in non-cystic fibrosis bronchiectasis." In British Thoracic Society Winter Meeting 2018, QEII Centre, Broad Sanctuary, Westminster, London SW1P 3EE, 5 to 7 December 2018, Programme and Abstracts. BMJ Publishing Group Ltd and British Thoracic Society, 2018. http://dx.doi.org/10.1136/thorax-2018-212555.166.

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