The Diversity of Fungal Endophytes from Wild Grape Vitis amurensis Rupr

Aleynova, Olga A.; Nityagovsky, Nikolay N.; Suprun, Andrey R.; Ananev, Alexey A.; Dubrovina, Alexandra S.; Kiselev, Konstantin V.

doi:10.3390/plants11212897

Cited by 13 publications

(13 citation statements)

References 48 publications

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“…The richness of Trichosporon and Cutaneotrichosporon was significantly higher in estrus than that observed in the non-estrus period, and the results of the LEfSe analysis were consistent. In addition, Cladosporium and Vishniacozyma were significantly less abundant compared to levels in the NEV group, whereas Cladosporium and Vishniacozyma are commonly found in the environment and in crops (Ghiaie Asl et al, 2017;Aleynova et al, 2022). Therefore, female giant pandas were hypothesized to be affected by hormones that induce the production of large amounts of vaginal secretions during estrus, which would reduce fungal colonization to a certain extent, thus decreasing the diversity of vaginal fungal species and increasing the abundance of dominant fungal genera during estrus.…”

Section: Analysis Of High-throughput Sequencing Results During Estrus...mentioning

confidence: 99%

High-throughput sequencing and characterization of potentially pathogenic fungi from the vaginal mycobiome of giant panda (Ailuropoda melanoleuca) in estrus and non-estrus

Ma,

Liu,

Yue

et al. 2024

Front. Microbiol.

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IntroductionThe giant panda (Ailuropoda melanoleuca) reproduction is of worldwide attention, and the vaginal microbiome is one of the most important factors affecting the reproductive rate of giant pandas. The aim of this study is to investigate the diversity of vaginal mycobiota structure, and potential pathogenic fungi in female giant pandas during estrus and non-estrus.MethodsThis study combined with high-throughput sequencing and laboratory testing to compare the diversity of the vaginal mycobiota in giant pandas during estrus and non-estrus, and to investigate the presence of potentially pathogenic fungi. Potentially pathogenic fungi were studied in mice to explore their pathogenicity.Results and discussionThe results revealed that during estrus, the vaginal secretions of giant pandas play a crucial role in fungal colonization. Moreover, the diversity of the vaginal mycobiota is reduced and specificity is enhanced. The abundance of Trichosporon and Cutaneotrichosporon in the vaginal mycobiota of giant pandas during estrus was significantly higher than that during non-estrus periods. Apiotrichum and Cutaneotrichosporon were considered the most important genera, and they primarily originate from the environment owing to marking behavior exhibited during the estrous period of giant pandas. Trichosporon is considered a resident mycobiota of the vagina and is an important pathogen that causes infection when immune system is suppressed. Potentially pathogenic fungi were further isolated and identified from the vaginal secretions of giant pandas during estrus, and seven strains of Apiotrichum (A. brassicae), one strain of Cutaneotrichosporon (C. moniliiforme), and nine strains of Trichosporon (two strains of T. asteroides, one strain of T. inkin, one strain of T. insectorum, and five strains of T. japonicum) were identified. Pathogenicity results showed that T. asteroides was the most pathogenic strain, as it is associated with extensive connective tissue replacement and inflammatory cell infiltration in both liver and kidney tissues. The results of this study improve our understanding of the diversity of the vaginal fungi present in giant pandas and will significantly contribute to improving the reproductive health of giant pandas in the future.

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Section: Analysis Of High-throughput Sequencing Results During Estrus...mentioning

confidence: 99%

High-throughput sequencing and characterization of potentially pathogenic fungi from the vaginal mycobiome of giant panda (Ailuropoda melanoleuca) in estrus and non-estrus

Ma,

Liu,

Yue

et al. 2024

Front. Microbiol.

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“…The grapevine tissues (1.5 g) were surface-sterilized according to the method described earlier [ 58 , 59 ]. To check the efficacy of this method of surface sterilization, 100 µL of the last wash water were incubated on R2A (PanReac, AppliChem, Darmstadt, Germany) and on potato dextrose agar (PDA, Neogene, Watford (Hertfordshire), UK) plates to check for the absence of colony growth from the outside.…”

Section: Methodsmentioning

confidence: 99%

“…For NGS, the DNA was isolated from leaves and stems of V. amurensis and V. coignetiae using the CTAB-spin method described earlier [ 58 , 59 , 65 ]. The DNA samples were sent to Sintol (Moscow, Russia) for high-throughput sequencing using Illumina technology.…”

Section: Methodsmentioning

confidence: 99%

The Endophytic Microbiome of Wild Grapevines Vitis amurensis Rupr. and Vitis coignetiae Pulliat Growing in the Russian Far East

Aleynova

Nityagovsky

Ananev

et al. 2023

Plants

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Many grape endophytic microorganisms exhibit high potential for suppressing the development of grape diseases and stimulating grapevine growth and fitness, as well as beneficial properties of the crop. The microbiome of wild grapevines is a promising source of biocontrol agents, which can be beneficial for domesticated grapevines. Using next-generation sequencing (NGS) and classical microbiology techniques, we performed an analysis of bacterial and fungal endophytic communities of wild grapevines Vitis amurensis Rupr. and Vitis coignetiae Pulliat growing in the Russian Far East. According to the NGS analysis, 24 and 18 bacterial taxa from the class level were present in V. amurensis and V. coignetiae grapevines, respectively. Gammaproteobacteria (35%) was the predominant class of endophytic bacteria in V. amurensis and Alphaproteobacteria (46%) in V. coignetiae. Three taxa, namely Sphingomonas, Methylobacterium, and Hymenobacter, were the most common bacterial genera for V. amurensis and V. coignetiae. Metagenomic analysis showed the presence of 23 and 22 fungi and fungus-like taxa of class level in V. amurensis and V. coignetiae, respectively. The predominant fungal classes were Dothideomycetes (61–65%) and Tremellomycetes (10–11%), while Cladosporium and Aureobasidium were the most common fungal genera in V. amurensis and V. coignetiae, respectively. A comparative analysis of the endophytic communities of V. amurensis and V. coignetiae with the previously reported endophytic communities of V. vinifera revealed that the bacterial biodiversity of V. amurensis and V. coignetiae was similar in alpha diversity to V. vinifera’s bacterial biodiversity. The fungal alpha diversity of V. amurensis and V. coignetiae was statistically different from that of V. vinifera. The beta diversity analysis of bacterial and fungal endophytes showed that samples of V. vinifera formed separate clusters, while V. amurensis samples formed a separate cluster including V. coignetiae samples. The data revealed that the endophytic community of bacteria and fungi from wild V. amurensis was richer than that from V. coignetiae grapes and cultivated V. vinifera grapes. Therefore, the data obtained in this work could be of high value in the search for potentially useful microorganisms for viticulture.

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“…First, they were immersed in 75% ethanol for 2 min, followed by a 1-min treatment with 10% hydrogen peroxide. Finally, they were rinsed five times with sterile water [26,27]. In order to assess the effectiveness of this surface sterilization method, a 100 µL sample of the final rinse water was cultured on R2A (PanReac, AppliChem, Darmstadt, Germany) and potato dextrose agar (PDA, Neogene, Watford, UK) plates to ascertain the absence of any bacterial or fungal colony growth originating from the external sources.…”

Section: Plant Materials and Surface Sterilization Of Samplesmentioning

confidence: 99%

Distribution of Plasmopara viticola Causing Downy Mildew in Russian Far East Grapevines

Nityagovsky,

Ananev,

Suprun

et al. 2024

Horticulturae

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Downy mildew is a severe disease that leads to significant losses in grape yields worldwide. It is caused by the oomycete Plasmopara viticola. The study of the distribution of this agent and the search for endophytic organisms that inhibit the growth of P. viticola are essential objectives to facilitate the transition to sustainable and high-yield agriculture, while respecting the environment. In this study, high-throughput sequencing of the ITS (ITS1f/ITS2 region) and 16S (V4 region) amplicons was employed to analyze 80 samples of leaves and stems from different grapevine species and cultivars grown in the Russian Far East (Vitis amurensis Rupr., Vitis coignetiae Pulliat, and several grapevine cultivars). The analysis revealed the presence of P. viticola in 53.75% of the grape samples. The pathogen P. viticola was not detected in V. amurensis samples collected near Vladivostok and Russky Island. Among the P. viticola-affected samples, only two (out of the eighty analyzed grape samples) from the Makarevich vineyard in Primorsky Krai exhibited disease symptoms, while the majority appeared visually healthy. We also found six distinct P. viticola ASVs in our metagenomic data. Based on phylogenetic analysis, we hypothesize that the P. viticola population in the Russian Far East may have originated from the invasive P. viticola clade aestivalis, which has spread around the world from North America. To identify putative microbial antagonists of P. viticola, a differential analysis of high-throughput sequencing data was conducted using the DESeq2 method to compare healthy and P. viticola-affected samples. The in silico analysis revealed an increased representation of certain taxa in healthy samples compared to P. viticola-affected ones: fungi—Kabatina sp., Aureobasidium sp., and Vishniacozyma sp.; bacteria—Hymenobacter spp., Sphingomonas spp., Massilia spp., Methylobacterium-Methylorubrum spp., and Chryseobacterium spp. This in-silico-obtained information on the potential microbial antagonists of P. viticola serves as a theoretical basis for the development of biocontrol agents for grapevine downy mildew.

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The Diversity of Fungal Endophytes from Wild Grape Vitis amurensis Rupr

Cited by 13 publications

References 48 publications

High-throughput sequencing and characterization of potentially pathogenic fungi from the vaginal mycobiome of giant panda (Ailuropoda melanoleuca) in estrus and non-estrus

High-throughput sequencing and characterization of potentially pathogenic fungi from the vaginal mycobiome of giant panda (Ailuropoda melanoleuca) in estrus and non-estrus

The Endophytic Microbiome of Wild Grapevines Vitis amurensis Rupr. and Vitis coignetiae Pulliat Growing in the Russian Far East

Distribution of Plasmopara viticola Causing Downy Mildew in Russian Far East Grapevines

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