Details
| Original language | English |
|---|---|
| Pages (from-to) | 1201-1210 |
| Number of pages | 10 |
| Journal | Biology and fertility of soils |
| Volume | 56 |
| Issue number | 8 |
| Early online date | 5 May 2020 |
| Publication status | Published - Nov 2020 |
Abstract
Root-associated compartments, including rhizosphere soil, rhizoplane soil, and the endosphere, are found to harbor distinguished bacterial populations and community composition, but how microbiome in these rhizo-compartments are affected by edaphic variables remains largely unknown. Goethite is a prevalent crystalline iron (hydr)oxide mineral of the soil matrix and strongly interact with microbial communities. The objective of our study was to determine how goethite (α-FeOOH) amendment assemble bacterial communities in the rhizo-compartments of Maize (Zea mays. L). Using sequencing of microbial 16S ribosomal RNA gene amplicons, we revealed that goethite amendment into soil enriched Actinobacteria and depleted Proteobacteria in all rhizo-compartments. Also, goethite enlarged the differences in the alpha diversity (Chao) between rhizo-compartments, with much lower mean diversity in the endosphere and rhizoplane compared with rhizosphere soil, indicating a higher selection of the microbiome assemblage. This was supported by beta Nearest Taxon Index (βNTI > + 2), indicating that changes in environmental conditions progressively increase the strength of selection. It suggests that variable selection (a deterministic process) was the dominant process influencing the microbial assembly in soil amended with goethite. According to the distance-based linear modeling (distLM), the assemblage of bacterial communities in the rhizosphere compartments was regulated by specific edaphic variables, with the major contributors being goethite (62%), total C (52%), soil pH (50%), and FeOM (25%). Stabilization of rhizosphere C in the presence of goethite would be the selective step for its accessibility and consequent microbial community. For instance, the keystone microorganisms, e.g., Pseudomonas, had more negative links within the goethite added co-occurrence network, indicating its mutual exclusions and outcompete other microbes in C/nutrients limited conditions. Thus, goethite narrows the composition of rhizosphere mainly due to “gate selection” effects on rhizodeposits, which limited microbial penetrance into inner-compartments, consequently assemble the rhizosphere bacterial community via deterministic process.
Keywords
- Chao diversity, Gene sequencing, Goethite, Microbial assembly processes, Niche selection, Rhizo-compartments
ASJC Scopus subject areas
- Immunology and Microbiology(all)
- Microbiology
- Agricultural and Biological Sciences(all)
- Agronomy and Crop Science
- Agricultural and Biological Sciences(all)
- Soil Science
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In: Biology and fertility of soils, Vol. 56, No. 8, 11.2020, p. 1201-1210.
Research output: Contribution to journal › Article › Research › peer review
}
TY - JOUR
T1 - Shifts in the bacterial community along with root-associated compartments of maize as affected by goethite
AU - Jeewani, Peduruhewa H.
AU - Chen, Lin
AU - Van Zwieten, Lukas
AU - Shen, Congcong
AU - Guggenberger, Georg
AU - Luo, Yu
AU - Xu, Jianming
N1 - Funding information: This work was supported by the National Natural Science Foundation of China (41671233 41721001 41807017).
PY - 2020/11
Y1 - 2020/11
N2 - Root-associated compartments, including rhizosphere soil, rhizoplane soil, and the endosphere, are found to harbor distinguished bacterial populations and community composition, but how microbiome in these rhizo-compartments are affected by edaphic variables remains largely unknown. Goethite is a prevalent crystalline iron (hydr)oxide mineral of the soil matrix and strongly interact with microbial communities. The objective of our study was to determine how goethite (α-FeOOH) amendment assemble bacterial communities in the rhizo-compartments of Maize (Zea mays. L). Using sequencing of microbial 16S ribosomal RNA gene amplicons, we revealed that goethite amendment into soil enriched Actinobacteria and depleted Proteobacteria in all rhizo-compartments. Also, goethite enlarged the differences in the alpha diversity (Chao) between rhizo-compartments, with much lower mean diversity in the endosphere and rhizoplane compared with rhizosphere soil, indicating a higher selection of the microbiome assemblage. This was supported by beta Nearest Taxon Index (βNTI > + 2), indicating that changes in environmental conditions progressively increase the strength of selection. It suggests that variable selection (a deterministic process) was the dominant process influencing the microbial assembly in soil amended with goethite. According to the distance-based linear modeling (distLM), the assemblage of bacterial communities in the rhizosphere compartments was regulated by specific edaphic variables, with the major contributors being goethite (62%), total C (52%), soil pH (50%), and FeOM (25%). Stabilization of rhizosphere C in the presence of goethite would be the selective step for its accessibility and consequent microbial community. For instance, the keystone microorganisms, e.g., Pseudomonas, had more negative links within the goethite added co-occurrence network, indicating its mutual exclusions and outcompete other microbes in C/nutrients limited conditions. Thus, goethite narrows the composition of rhizosphere mainly due to “gate selection” effects on rhizodeposits, which limited microbial penetrance into inner-compartments, consequently assemble the rhizosphere bacterial community via deterministic process.
AB - Root-associated compartments, including rhizosphere soil, rhizoplane soil, and the endosphere, are found to harbor distinguished bacterial populations and community composition, but how microbiome in these rhizo-compartments are affected by edaphic variables remains largely unknown. Goethite is a prevalent crystalline iron (hydr)oxide mineral of the soil matrix and strongly interact with microbial communities. The objective of our study was to determine how goethite (α-FeOOH) amendment assemble bacterial communities in the rhizo-compartments of Maize (Zea mays. L). Using sequencing of microbial 16S ribosomal RNA gene amplicons, we revealed that goethite amendment into soil enriched Actinobacteria and depleted Proteobacteria in all rhizo-compartments. Also, goethite enlarged the differences in the alpha diversity (Chao) between rhizo-compartments, with much lower mean diversity in the endosphere and rhizoplane compared with rhizosphere soil, indicating a higher selection of the microbiome assemblage. This was supported by beta Nearest Taxon Index (βNTI > + 2), indicating that changes in environmental conditions progressively increase the strength of selection. It suggests that variable selection (a deterministic process) was the dominant process influencing the microbial assembly in soil amended with goethite. According to the distance-based linear modeling (distLM), the assemblage of bacterial communities in the rhizosphere compartments was regulated by specific edaphic variables, with the major contributors being goethite (62%), total C (52%), soil pH (50%), and FeOM (25%). Stabilization of rhizosphere C in the presence of goethite would be the selective step for its accessibility and consequent microbial community. For instance, the keystone microorganisms, e.g., Pseudomonas, had more negative links within the goethite added co-occurrence network, indicating its mutual exclusions and outcompete other microbes in C/nutrients limited conditions. Thus, goethite narrows the composition of rhizosphere mainly due to “gate selection” effects on rhizodeposits, which limited microbial penetrance into inner-compartments, consequently assemble the rhizosphere bacterial community via deterministic process.
KW - Chao diversity
KW - Gene sequencing
KW - Goethite
KW - Microbial assembly processes
KW - Niche selection
KW - Rhizo-compartments
UR - http://www.scopus.com/inward/record.url?scp=85085139130&partnerID=8YFLogxK
U2 - 10.1007/s00374-020-01458-9
DO - 10.1007/s00374-020-01458-9
M3 - Article
AN - SCOPUS:85085139130
VL - 56
SP - 1201
EP - 1210
JO - Biology and fertility of soils
JF - Biology and fertility of soils
SN - 0178-2762
IS - 8
ER -