Dataset Information

Amplicon sequencing dataset of soil fungi and associated environmental variables collected in karst and non-karst sites across Yunnan province, southwest China.

ABSTRACT: Fungi are among the most widely distributed organisms on Earth, performing key roles in nutrient cycling, disease, and the global carbon cycle. However, studies on regional-scale fungal assemblage patterns and the underlying drivers, are scarce. The aim of this research was to determine the relative importance of environmental heterogeneity and spatial distance on the metacommunity structure of soil fungi in Yunnan province, southwest China. This dataset is supplementary to research by [1] and presents 12,843 fungal operational taxonomic unit (OTU) sequences, OTU distribution and abundance across 220 samples, OTU taxonomic and ecological annotations, and environmental characteristics of the sites where the samples were collected. Differences in fungal alpha and beta diversity indices between karst and non-karst soils for the full dataset, six class-level (Agaricomycetes, Dothideomycetes, Sordariomycetes, Leotiomycetes, Tremellomycetes, and Eurotiomycetes) and four functional-level (symbiotrophs, pathotrophs, saprotrophs, and ectomycorrhizal fungi) datasets are presented.

SUBMITTER: Beng KC

PROVIDER: S-EPMC6817666 | biostudies-literature | 2019 Dec

REPOSITORIES: biostudies-literature

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Amplicon sequencing dataset of soil fungi and associated environmental variables collected in karst and non-karst sites across Yunnan province, southwest China.

Beng Kingsly C KC Corlett Richard T RT

Data in brief 20190927

Fungi are among the most widely distributed organisms on Earth, performing key roles in nutrient cycling, disease, and the global carbon cycle. However, studies on regional-scale fungal assemblage patterns and the underlying drivers, are scarce. The aim of this research was to determine the relative importance of environmental heterogeneity and spatial distance on the metacommunity structure of soil fungi in Yunnan province, southwest China. This dataset is supplementary to research by [1] and p ...[more]

PMID: 31673581

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Project description:Yunnan Province, China is thought to be the original source of biovar Orientalis of Yersinia pestis, the causative agent of the third plague pandemic that has spread globally since the end of the 19th century. Although encompassing a large area of natural plague foci, Y. pestis strains have rarely been found in live rodents during surveillance in Yunnan, and most isolates are from rodent corpses and their fleas. In 2017, 10 Y. pestis strains were isolated from seven live rodents and three fleas in Heqing County (HQ) of Yunnan. These strains were supposed to have low virulence to local rodents Eothenomys miletus and Apodemus chevrieri because the rodents were healthy and no dead animals were found in surrounding areas, as had occurred in previous epizootic disease. We performed microscopic and biochemical examinations of the isolates,and compared their whole-genome sequences and transcriptome with those of 10 high virulence Y. pestis strains that were isolated from the adjacent city (Lijiang). We analyzed the phenotypic, genomic, and transcriptomic characteristics of live rodent isolates. The isolates formed a previously undefined monophyletic branch of Y. pestis that was named 1.IN5. Six SNPs, two indels, and one copy number variation were detected between live rodent isolates and the high virulence neighbors. No obvious functional consequence of these variations was found according to the known annotation information. Among the genes that were differentially expressed between the live rodent isolates and their high virulence neighbors, we detected five iron transfer-related genes that were significantly up-regulated in live rodent isolates compared with high virulence isolates (|log2 (FC) | >1, p.adjust <0.05), indicating these genes may be related to the low-virulence phenotype. The novel genotype of Y. pestis reported here provides further insights into the evolution and spread of plague as well as clues that may help to decipher the virulence mechanism of this notorious pathogen.

Dataset Information

Amplicon sequencing dataset of soil fungi and associated environmental variables collected in karst and non-karst sites across Yunnan province, southwest China.

Publications

Amplicon sequencing dataset of soil fungi and associated environmental variables collected in karst and non-karst sites across Yunnan province, southwest China.

Similar Datasets

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