Data from: Relationships between rhizosphere microbial communities, soil abiotic properties and root trait variation within a pine species
Data files
Mar 15, 2024 version files 2.22 MB
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all_bac_rab.csv
995.07 KB
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all_fungi_rab.csv
359.04 KB
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copiotrophic_bac_rab.csv
415.34 KB
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ecm_fungi_rab.csv
12.27 KB
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fg_data.csv
1.10 KB
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oligotrophic_bac_rab.csv
353.43 KB
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r_script.txt
14.36 KB
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README.md
7.74 KB
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root_traits.csv
1.50 KB
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sap_fungi_rab.csv
60.34 KB
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soil_factors.csv
3.50 KB
Abstract
Rhizosphere microbes play important roles in plant performance and ecosystem functioning. It is becoming increasingly clear that rhizosphere communities vary with soil properties and variation in root traits among plant species. However, less is known about whether and how variation in root traits within plant species influences the rhizosphere microbial communities.
We evaluated the intraspecific root traits variation and explored their associations with bacterial and fungal communities in rhizosphere by focusing on an ectomycorrhizal tree species, i.e., Pinus massoniana, in 22 sites in subtropical China.
The first dimension of the principal component analysis on root traits revealed evidence for the ‘conservation’ gradient of the root economics space. Overall, root traits explained more variation in fungal communities than in bacterial communities in the rhizosphere. Functional composition of rhizosphere microbial communities changed significantly along the ‘conservation’ gradient, with fast-growing copiotrophic bacteria and symbiotic ectomycorrhizal fungi were significantly enriched on the ‘acquisition’ side, while slow-growing oligotrophic bacteria were significantly enriched on the ‘conservation’ side of the gradient.
Synthesis: Our study demonstrates that intraspecific variation in plant roots significantly influence rhizosphere microbial communities, which in turn can influence plant nutrition and therefore plant performance within the community.
The data set was obtained from a field observation study in Pinus massoniana forests in subtropical China. The data set includes root traits data, soil properties data, and bacterial and fungal community composition data from the rhizosphere based on high-throughput sequencing.
GENERAL INFORMATION
1. Title of Dataset: Relationships between rhizosphere microbial communities, soil abiotic properties and root trait variation within a pine species
2. Author Information
Principal Investigator Contact Information
Name: Dunmei Lin
Institution: Chongqing University
Address: Chongqing， China
Email: lindunmei@cqu.edu.cn
3. Date of data collection (approximate date): 2019-2020
4. Geographic location of data collection: 'Sishan area' of Chongqing, China
5. Information about funding sources that supported the collection of the data: Chongqing Technology Innovation and Application Demonstration Major Theme Special Project
SHARING/ACCESS INFORMATION
1. Licenses/restrictions placed on the data: CC0 1.0 Universal (CC0 1.0) Public Domain
2. Links to publications that cite or use the data:
Dunmei Lin, Ron Shen, Jiani Lin, Guangyu Zhu, Yongchuan Yang, Nicolas Fanin. 2024. Relationships between rhizosphere microbial communities, soil abiotic properties and root trait variation within a pine species. Journal of Ecology
3. Links to other publicly accessible locations of the data: None
4. Links/relationships to ancillary data sets: None
5. Was data derived from another source? No
A. If yes, list source(s): NA
6. Recommended citation for this dataset:
Lin, Dunmei et al. (2024). Data from: Relationships between rhizosphere microbial communities, soil abiotic properties and root trait variation within a pine species [Dataset]. Dryad. https://doi.org/10.5061/dryad.0zpc8672s
DATA & FILE OVERVIEW
1. File List:
A) all_bac_rab.csv
B) all_fungi_rab.csv
C) copiotrophic_bac_rab.csv
D) ecm_fungi_rab.csv
E) fg_data.csv
F) oligotrophic_bac_rab.csv
G) root_traits.csv
H) sap_fungi_rab.csv
I) Soil_factors.csv
J) r_script.txt
2. Relationship between files, if important: None
3. Additional related data collected that was not included in the current data package: The raw sequence data for microorganisms is deposited in the NCBI’s BioProject database under accession number PRJNA905526.
4. Are there multiple versions of the dataset? No
A. If yes, name of file(s) that was updated: NA
i. Why was the file updated? NA
ii. When was the file updated? NA
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DATA-SPECIFIC INFORMATION FOR: all_bac_rab.csv ( i.e., the relative abundance data for overall bacterial community in the rhizosphere)
1. Number of variables: 11137
2. Number of cases/rows: 22
3. Variable List:
* ASV: amplicon sequence variants (with the number means different ASVs)
4. Missing data codes: None
5. Specialized formats or other abbreviations used: None
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DATA-SPECIFIC INFORMATION FOR: all_fungi_rab.csv ( i.e., the relative abundance data for overall fungal community in the rhizosphere)
1. Number of variables: 4908
2. Number of cases/rows: 22
3. Variable List:
* ASV: amplicon sequence variants (with the number means different ASVs)
4. Missing data codes: None
5. Specialized formats or other abbreviations used: None
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DATA-SPECIFIC INFORMATION FOR: copiotrophic_bac_rab.csv ( i.e., the relative abundance data for copiotrophic bacterial community in the rhizosphere)
1. Number of variables: 4501
2. Number of cases/rows: 22
3. Variable List:
* ASV: amplicon sequence variants (with the number means different ASVs)
4. Missing data codes: None
5. Specialized formats or other abbreviations used: None
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DATA-SPECIFIC INFORMATION FOR: ecm_fungi_rab.csv ( i.e., the relative abundance data for ectomycorrhizal fungal community in the rhizosphere)
1. Number of variables: 166
2. Number of cases/rows: 22
3. Variable List:
* ASV: amplicon sequence variants (with the number means different ASVs)
4. Missing data codes: None
5. Specialized formats or other abbreviations used: None
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DATA-SPECIFIC INFORMATION FOR: fg_data.csv ( i.e., the total relative abundance data for different functioanl guild of microorganismes in the rhizosphere)
1. Number of variables: 4
2. Number of cases/rows: 22
3. Variable List:
* co_bac：total relative abundance data for copiotrophic bacteria
* o_bac：total relative abundance data for oligotrophic bacteria
* sap_fungi：total relative abundance data for saprotrophic fungi
* ecm_fungi： total relative abundance data for ectomycorrhizal fungi
4. Missing data codes: None
5. Specialized formats or other abbreviations used: None
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DATA-SPECIFIC INFORMATION FOR: oligotrophic_bac_rab.csv ( i.e., the relative abundance data for oligotrophic bacterial community in the rhizosphere)
1. Number of variables: 3968
2. Number of cases/rows: 22
3. Variable List:
* ASV: amplicon sequence variants (with the number means different ASV
4. Missing data codes: None
5. Specialized formats or other abbreviations used: None
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DATA-SPECIFIC INFORMATION FOR: root_traits.csv ( i.e., mean root trait value)
1. Number of variables: 8
2. Number of cases/rows: 22
3. Variable List:
* RDMC: root dry matter content (unit: %)
* SRL:specific root length(unit: cm/g)
* SRA: specific root area(unit: cm2/g)
* RTD: root tissue density(unit: g/cm3)
* RD: root mean diameter(unit: mm)
* RC:root carbon concentration(unit: mg/g)
* RN:root nitrogen concentration(unit: mg/g)
* RP:root phosphorus concentration(unit: mg/g)
4. Missing data codes: None
5. Specialized formats or other abbreviations used: None
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DATA-SPECIFIC INFORMATION FOR: sap_fungi_rab.csv ( i.e., the relative abundance data for saprotrophic fungal community in the rhizosphere)
1. Number of variables: 751
2. Number of cases/rows: 22
3. Variable List:
* ASV: amplicon sequence variants (with the number means different ASVs)
4. Missing data codes: None
5. Specialized formats or other abbreviations used: None
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DATA-SPECIFIC INFORMATION FOR: Soil_factors.csv ( i.e., mean value of soil properties)
1. Number of variables: 15
2. Number of cases/rows: 22
3. Variable List:
* TC： total carbon (unit: mg/g)
* TN: total nitrogen (unit: mg/g)
* TP： total phosphorus (unit: mg/g)
* CN: soil C:N
* CP: soil C:P
* NP: soil N:P
* pH: soil pH
* BD: bulk density (unit: g/cm3)
* clay: clay content (unit: %)
* slit: slit content (unit: %)
* sand: sand content (unit: %)
* Condu: soil electrical conductivity (unit: ds/m)
* NO3: N-NO3- (unit: mg/kg)
* NH4: N-NH4+ (unit: mg/kg)
* AP: available phosphorus (unit: mg/kg)
4. Missing data codes: None
5. Specialized formats or other abbreviations used: None
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SPECIFIC INFORMATION FOR: r_script.txt
R script used to runing the data analysis, with the mian results presented in the publihsed paper.