Likulunga, Likulunga Emmanuel; Rivera Pérez, Carmen Alicia; Schneider, Dominik; Daniel, Rolf; Polle, Andrea (2021): The abundance of soil fungi with associated functional and taxonomic guilds in pure and mixed beech-conifer tree stands [dataset]. PANGAEA, https://doi.org/10.1594/PANGAEA.933499
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Abstract:
This dataset provides operational taxonomic units (OTU) abundance table of soil fungi with assigned taxonomic and functional guilds. The soil samples were collected in pure and beech-conifer mixed tree stands in Germany in November/December 2017, at 10 cm depth after removal of non-decomposed litter layer. The tree stands and site descriptions are provided (Ammer et al., 2020; Glatthorn, 2020). DNA was extracted from the samples using the DNeasy® PowerSoil® Pro kit (Qiagen, Hilden, Germany) and purified with DNeasy® PowerClean® kit (Qiagen, Hilden, Germany). Amplification (PCR) was achieved by using primers Mi_ITS3KYO2 (1:10) (Toju et al., 2012) and Mi_ITS4 (1:10) (White et al., 1990). The purification, pooling and quantification of PRC reactions were done as described (Clausing et al., 2020). Illumina sequencing was conducted by the Göttingen Genomics Laboratory (G2L) on MiSeq Platform using MiSeq Reagent Kit v3 (Illumina Inc., San Diego, USA). Raw paired - end reads (fasta.gz files: forward and reverse) were analyzed with MiSeq Marker gene pipeline V1.9. The abundance table contains 97% similarity fungal sequences rarefied to same number of counts (13668). Functional annotation of fungi was done using the FUNGuild database (Nguyen et al., 2016). The raw data were deposited in NCBI (National Center for Biotechnology Information) SRA (Sequence Read Archive) with bioproject accession number: PRJNA704813.
Supplement to:
Likulunga, Likulunga Emmanuel; Rivera Pérez, Carmen Alicia; Schneider, Dominik; Daniel, Rolf; Polle, Andrea (submitted): Forest tree species composition and abiotic site conditions drive soil fungal communities and functional groups. Forest Ecology and Management
Related to:
Ammer, Christian; Annighöfer, Peter; Balkenhol, Niko; Hertel, Dietrich; Leuschner, Christoph; Polle, Andrea; Lamersdorf, Norbert; Scheu, Stefan; Glatthorn, Jonas (2020): RTG 2300 - Study design, location, topography and climatic conditions of research plots in 2020. PANGAEA, https://doi.org/10.1594/PANGAEA.923125
Clausing, Simon; Likulunga, Likulunga Emmanuel; Janz, Denis; Schneider, Dominik; Daniel, Rolf; Krüger, Jaane; Lang, Fritzi; Polle, Andrea (in review): Impact of nitrogen and phosphorus addition on resident soil and root mycobiomes in beech forests. bioRxiv, https://doi.org/10.1101/2020.12.29.424645
Glatthorn, Jonas: RTG 2300 - exact location of research plots (2020). PANGAEA, https://doi.pangaea.de/10.1594/PANGAEA.925226
Nguyen, Nhu H; Song, Zewei; Bates, Scott T; Branco, Sara; Tedersoo, Leho; Menke, Jon; Schilling, Jonathan S; Kennedy, Peter G (2016): FUNGuild: An open annotation tool for parsing fungal community datasets by ecological guild. Fungal Ecology, 20, 241-248, https://doi.org/10.1016/j.funeco.2015.06.006
Toju, Hirokazu; Tanabe, Akifumi S; Yamamoto, Satoshi; Sato, Hirotoshi (2012): High-Coverage ITS Primers for the DNA-Based Identification of Ascomycetes and Basidiomycetes in Environmental Samples. PLoS ONE, 7(7), e40863, https://doi.org/10.1371/journal.pone.0040863
White, T J; Bruns, T; Lee, S; Taylor, J (1990): Amplification and direct Sequencing of fungal ribosomal rna genes for phylogenetics. In: PCR Protocols, Elsevier, 315-322, https://doi.org/10.1016/B978-0-12-372180-8.50042-1
Project(s):
Funding:
Coverage:
Median Latitude: 52.330292 * Median Longitude: 10.053434 * South-bound Latitude: 51.664759 * West-bound Longitude: 9.281230 * North-bound Latitude: 53.201222 * East-bound Longitude: 10.813566
Event(s):
Dassel * Latitude: 51.725459 * Longitude: 9.703892 * Location: Germany * Campaign: RTG2300-I * Method/Device: Visual identification (VID)
Goehrde_I * Latitude: 53.201222 * Longitude: 10.800878 * Location: Germany * Campaign: RTG2300-I * Method/Device: Visual identification (VID)
Goehrde_II * Latitude: 53.126535 * Longitude: 10.813566 * Location: Germany * Campaign: RTG2300-I * Method/Device: Visual identification (VID)
Parameter(s):
| # | Name | Short Name | Unit | Principal Investigator | Method/Device | Comment |
|---|---|---|---|---|---|---|
| 1 | Binary Object | Binary | Polle, Andrea | |||
| 2 | Binary Object (Media Type) | Binary (Type) | Polle, Andrea | |||
| 3 | Binary Object (File Size) | Binary (Size) | Bytes | Polle, Andrea |
License:
Creative Commons Attribution 4.0 International (CC-BY-4.0)
Status:
Curation Level: Basic curation (CurationLevelB)
Size:
2 data points