Survey of Annual and Seasonal Fungal Communities in Japanese &amp;lt;i&amp;gt;Prunus mume&amp;lt;/i&amp;gt; Orchard Soil by Next-Generation Sequencing

Aoki, Yoshinao; Fujita, Keiko; Shima, Hiroyuki; Suzuki, Shunji

doi:10.4236/aim.2015.513086

Cited by 4 publications

(3 citation statements)

References 11 publications

(13 reference statements)

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“…In our experiment, the fungal phyla Chytridiomycota, Glomeromycota, and Zygomycota, were also found to vary significantly over the different seasonal sampling dates (Fig 7). It has been reported that Ascomycota and Glomeromycota increase in summer, whereas Basidiomycota are dominant in winter [74] or alternatively that Ascomycota, Basidiomycota, and Zygomycota are variable from spring to winter [75]. Changes in litter decomposition and phytosynthate allocation likely also contribute to the seasonal variations of fungal community [76] in addition to the direct effects of soil moisture and temperature [26].…”

Section: Discussionmentioning

confidence: 99%

One-time nitrogen fertilization shifts switchgrass soil microbiomes within a context of larger spatial and temporal variation

et al. 2019

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Soil microbiome responses to short-term nitrogen (N) inputs remain uncertain when compared with previous research that has focused on long-term fertilization responses. Here, we examined soil bacterial/archaeal and fungal communities pre- and post-N fertilization in an 8 year-old switchgrass field, in which twenty-four plots received N fertilization at three levels (0, 100, and 200 kg N ha -1 as NH 4 NO 3 ) for the first time since planting. Soils were collected at two depths, 0–5 and 5–15 cm, for DNA extraction and amplicon sequencing of 16S rRNA genes and ITS regions for assessment of microbial community composition. Baseline assessments prior to fertilization revealed no significant pre-existing divergence in either bacterial/archaeal or fungal communities across plots. The one-time N fertilizations increased switchgrass yields and tissue N content, and the added N was nearly completely removed from the soil of fertilized plots by the end of the growing season. Both bacterial/archaeal and fungal communities showed large spatial (by depth) and temporal variation (by season) within each plot, accounting for 17 and 12–22% of the variation as calculated from the Sq. root of PERMANOVA tests for bacterial/archaeal and fungal community composition, respectively. While N fertilization effects accounted for only ~4% of overall variation, some specific microbial groups, including the bacterial genus Pseudonocardia and the fungal genus Archaeorhizomyces , were notably repressed by fertilization at 200 kg N ha -1 . Bacterial groups varied with both depth in the soil profile and time of sampling, while temporal variability shaped the fungal community more significantly than vertical heterogeneity in the soil. These results suggest that short-term effects of N fertilization are significant but subtle, and other sources of variation will need to be carefully accounted for study designs including multiple intra-annual sampling dates, rather than one-time “snapshot” analyses that are common in the literature. Continued analyses of these trends over time with fertilization and management are needed to understand how these effects may persist or change over time.

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Section: Discussionmentioning

confidence: 99%

One-time nitrogen fertilization shifts switchgrass soil microbiomes within a context of larger spatial and temporal variation

et al. 2019

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“…For instance, model plants ( Arabidopsis thaliana and Medicago truncatula ) can retain certain fungal populations in the soil through certain chemicals secreted by their root systems [ 5 ]. In addition, advances in sequencing technology provide a foundation for research on the dynamic changes of microbes in the rhizosphere of plants in space and time [ 6 ]. Similarly, these types of studies are needed to understand the immigration and emigration patterns of microorganisms between different parts of the plant, between different points of time and between different plants and soil environments [ 7 , 8 , 9 ], especially the related research on time series.…”

Section: Introductionmentioning

confidence: 99%

Rhizosphere Fungal Dynamics in Sugarcane during Different Growth Stages

Liu

Pang

Liu

et al. 2023

IJMS

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Understanding the normal variation of the sugarcane rhizosphere fungal community throughout its life cycle is essential for the development of agricultural practices for fungal and ecological health associated with the microbiota. Therefore, we performed high-throughput sequencing of 18S rDNA of soil samples using the Illumina sequencing platform for correlation analysis of rhizosphere fungal community time series, covering information from 84 samples in four growth periods. The results revealed that the sugarcane rhizosphere fungi possessed the maximum fungal richness in Tillering. Rhizosphere fungi were closely associated with sugarcane growth, including Ascomycota, Basidiomycota, and Chytridiomycota, which showed high abundance in a stage-specific manner. Through the Manhattan plots, 10 fungal genera showed a decreasing trend throughout the sugarcane growth, and two fungal genera were significantly enriched at three stages of sugarcane growth (p < 0.05) including Pseudallescheria (Microascales, Microascaceae) and Nectriaceae (Hypocreales, Nectriaceae). In addition, soil pH, soil temperature, total nitrogen, and total potassium were critical drivers of fungal community structure at different stages of sugarcane growth. We also found that sugarcane disease status showed a significant and strong negative effect on selected soil properties by using structural equation modeling (SEM), suggesting that poor soil increases the likelihood of sugarcane disease. In addition, the assembly of sugarcane rhizosphere fungal community structure was mainly influenced by stochastic factors, but after the sugarcane root system became stable (Maturity), the stochastic contribution rate decreased to the lowest value. Our work provides a more extensive and solid basis for the biological control of sugarcane potential fungal diseases.

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“…21.497116 doi: bioRxiv preprint Medicago truncatula) can retain certain fungal populations in the soil through certain chemicals secreted by the root system (5). In addition, advances in sequencing technology provide a foundation for the research on the dynamic changes of microbes in the rhizosphere of plants in space and time (6). Similarly, these types of studies are needed to understand the immigration and emigration patterns of microorganims between different parts of the plant, between different points of time and between different plants and soil environments (7)(8)(9), especially the related research of time series.…”

Section: Introductionmentioning

confidence: 99%

Response of sugarcane rhizosphere soil fungal communities on a temporal gradient to changes in critical growth periods

Yuan

Liu

Pang

et al. 2022

Preprint

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Understanding the normal variation of the sugarcane rhizosphere fungal microbiota throughout its life cycle is essential for the development of agricultural practices for fungal diseases (e.g., sugarcane tip rot, sugarcane red rot, and sugarcane smut) and ecological health associated with the microbiota. Therefore, we performed high-throughput sequencing of 18S rDNA of soil samples using the Illumina sequencing platform for correlation analysis of sugarcane rhizosphere microbiota time series, covering information from 84 samples in four growth periods. The results revealed that the sugarcane rhizosphere fungi possessed the maximum fungal richness in July (Tillering). Rhizosphere fungi are closely associated with sugarcane growth, including Ascomycota, Basidiomycota, and Ochrophyta showed high abundance in a stage-specific manner. Through the Manhattan plots, 11 fungal genera were found to show a decreasing trend throughout the sugarcane growth period, and two fungal genera were significantly enriched at three stages of sugarcane growth (p < 0.05) including Pseudallescheria and Nectriaceae. In addition, soil pH, soil temperature (Tem), total nitrogen (TN) and total potassium (TP) were important drivers of fungal community structure at different stages of sugarcane growth. Using structural equation modeling (SEM) found that sugarcane disease status showed a significant and strong negative effect with selected soil properties, suggesting that poor soil may increase the likelihood of sugarcane disease. In addition changes in sugarcane rhizosphere community structure over time were mainly influenced by stochastic factors, but the contribution decreased to the lowest value after the sugarcane root adaptation system was stabilized (Maturity).

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Survey of Annual and Seasonal Fungal Communities in Japanese <i>Prunus mume</i> Orchard Soil by Next-Generation Sequencing

Cited by 4 publications

References 11 publications

One-time nitrogen fertilization shifts switchgrass soil microbiomes within a context of larger spatial and temporal variation

One-time nitrogen fertilization shifts switchgrass soil microbiomes within a context of larger spatial and temporal variation

Rhizosphere Fungal Dynamics in Sugarcane during Different Growth Stages

Response of sugarcane rhizosphere soil fungal communities on a temporal gradient to changes in critical growth periods

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