Soil pH is a major driver of soil diazotrophic community assembly in Qinghai-Tibet alpine meadows

Wang, Yansu; Li, Chaonan; Kou, Yongping; Wang, Jianjun; Tu, Bo; Li, Huan; Li, Xiangzhen; Wang, Changting; Yao, Minjie

doi:10.1016/j.soilbio.2017.09.024

Cited by 153 publications

(95 citation statements)

References 63 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Using phylogenetic metrics such as βNTI to infer community assembly processes requires significant phylogenetic signal (the traits that regulate assembly processes should be phylogenetically conserved) (Stegen et al, ). To test for the phylogenetic signal, the relationship between phylogenetic distance of pairwise OTUs and their environmental optimal differences was tested using “mantel.correlog” (Stegen et al, ; Tripathi et al, ; Wang, Li, et al, ). Phylogenetic distance of pairwise OTUs was calculated using ”cophenetic” function in ”picante” package (R 3.1.4).…”

Section: Methodsmentioning

confidence: 99%

“…Such studies have also disentangled the contribution of habitat heterogeneity and biogeographic differences to distance‐decay patterns (Fan et al, ; Langenheder & Ragnarsson, ; Ramette & Tiedje, ; Ranjard et al, ; Shi et al, ; Zhang et al, ). Recently, the development of methods for understanding community assembly processes has enabled us to explore the underlying processes that result in the observed microbial biogeographic patterns (Hanson, Fuhrman, Horner‐Devine, & Martiny, ; Shi et al, ; Stegen et al, ; Stegen, Lin, Fredrickson, & Konopka, ; Stegen, Lin, Konopka, & Fredrickson, ; Wang, Li, et al, ). However, there have been few studies on how these assembly processes vary at different spatial scales.…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Interpreting distance‐decay pattern of soil bacteria via quantifying the assembly processes at multiple spatial scales

et al. 2019

View full text Add to dashboard Cite

It has been widely accepted that there is a distance‐decay pattern in the soil microbiome. However, few studies have attempted to interpret the microbial distance‐decay pattern from the perspective of quantifying underlying processes. In this study, we examined the processes governing bacterial community assembly at multiple spatial scales in maize fields of Northeast China using Illumina MiSeq sequencing. Results showed that the processes governing spatial turnover in bacterial community composition shifted regularly with spatial scale, with homogenizing dispersal dominating at small spatial scales and variable selection dominating at larger scales, which in turn explained the distance‐decay pattern that closer located sites tended to have higher community similarity. Together, homogenizing dispersal and dispersal limitation resulting from geographic factors governed about 33% of spatial turnover in bacterial community composition. Deterministic selection processes had the strongest influence, at 57%, with biotic factors and abiotic environmental filtering (mainly imposed by soil pH) respectively contributing about 37% and 63% of variation. Our results provided a novel and comprehensive way to explain the distance‐decay pattern of soil microbiome via quantifying the assembly processes at multiple spatial scales, as well as the method to quantify the influence of abiotic, biotic, and geographic factors in shaping microbial community structure, thus enabling understanding of widely acknowledged microbial biogeographic patterns and microbial ecology.

show abstract

Section: Methodsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Interpreting distance‐decay pattern of soil bacteria via quantifying the assembly processes at multiple spatial scales

et al. 2019

View full text Add to dashboard Cite

show abstract

“…Barrett [53], which documented NH 4 + -N as a metabolic substrate that drives the distribution patterns in richness of ammonia-oxidizing archaea (AOA). Moreover, our results revealed that the content of NH 4 + -N in the rhizosphere was signi cantly higher than it was in the bulk soil (Table 1), and the increase of NH 4 + -N concentration in the rhizosphere may be due to the enrichment of diazotrophic bacteria in the rhizosphere, which can convert atmospheric N 2 into ammonium via biological nitrogen xation [54,55], although the results of this study cannot be directly con rmed. The relative abundance of the class Thermoplasmata was positively correlated with soil NH 4 + -N ( Fig.…”

Section: Important Drivers Of Archaea Communitiesmentioning

confidence: 52%

“…In fact, former researches have already proved that the assembly of ecological communities are regulated concurrently by both stochastic and deterministic processes [37,71,72]. In addition, We also found that the rhizosphere βNTI values were signi cantly greater than those measured in the bulk soil, suggesting that the phylogenetic turnover of archaea in the rhizosphere were higher than what was in the bulk soil [55,72]. This could be attributed to dynamic rhizosphere microhabitats potentially stimulating the activities and evolutions of archaeal species [3].…”

Section: Deterministic Processes Govern the Assembly Of Archaeal Commmentioning

confidence: 59%

“…Brie y, environmental optima for each OTU with respect to all physicochemical variables were calculated. The correlation coe cients between phylogenetic distances and differences in environmental optima were calculated by phylogenetic Mantel correlograms [55], and the signi cance of these correlations were examined with 999 randomizations using the 'mantel.correlog' function from the vegan package. The phylogenetic diversity within each sample was calculated as the mean nearest taxon distance (MNTD) and nearest taxon index (NTI) using the 'mntd' and 'ses.mntd' functions from the picante package [86] Note that MNTD refers to the phylogenetic distance between each OTU and its closest relative also found per sample, and NTI measures the deviation of observed MNTD from MNTD in a null model with 999 randomizations.…”

Section: Discussionmentioning

confidence: 99%

See 1 more Smart Citation

Deciphering the archaeal communities in tree rhizosphere of the Qinghai-Tibetan Plateau

Zhang

Chai

Huang

et al. 2020

Preprint

View full text Add to dashboard Cite

Background: The Qinghai-Tibetan Plateau represents one of the most important component of the terrestrial ecosystem and a particularly vulnerable region, which harbouring complex and diverse microbiota. The knowledge about their underground microorganisms have largely been studied, but the characteristics of rhizosphere microbiota, particularly archaeal communities remains unclear.Results: High-throughput Illumina sequencing was used to investigate the rhizosphere archaeal communities of two native alpine trees (Picea crassifolia and Populus szechuanica) living on the Qinghai-Tibetan Plateau. The archaeal community structure in rhizospheres significantly differed from that in bulk soil. Thaumarchaeota was the dominant archaeal phylum in all soils tested (92.46-98.01%), while its relative abundance in rhizospheres were significantly higher than that in bulk soil. Ammonium nitrogen, soil organic matter, available phosphorus and pH were significantly correlated with the archaeal community structure, and the deterministic processes dominated the assembly of archaeal communities across all soils. In addition, the network structures of the archaeal community in the rhizosphere were less complex than they were in the bulk soil, and an unclassified archaeal group (Unclassified_k_norank) was identified as the keystone species in all archaeal networks. Conclusions: Overall, the structure, assembly and co-occurrence patterns of archaeal communities are significantly affected by the presence of roots of alpine trees living on the Qinghai-Tibetan Plateau. This study provides new insights into our understanding of archaeal communities in vulnerable ecosystems.

show abstract

Land use indirectly affects the cycling of multiple nutrients by altering the diazotrophic community in black soil

Yan

Han

et al. 2022

J Sci Food Agric

View full text Add to dashboard Cite

BACKGROUND: Diazotrophic bacteria, as one of most important group of soil microorganisms, play critical roles in multiple ecosystem functions (i.e., multifunctionality). However, little information is available about the diazotrophic community in driving soil nutrient cycling and multifunctionality at different depths with distinct vegetation in the black soil region of northeastern China. To learn the interactions among land use, cycling of multiple nutrients and the diazotrophic community, we performed this study in grassland (GL), forested land and a cropland (CL) in soils at depths of 0-15 cm and 15-35 cm.RESULTS: The highest nifH gene abundances were found in the CL treatment, while the highest diazotrophic species richness and diversity were detected in the GL in both soil layers. The nifH gene abundance was directly/positively correlated with soil bulk density and negatively correlated with land use and soil depth. The index of multiple nutrient cycling was directly/ negatively affected by soil depth and indirectly/positively affected by land use. Land use directly/negatively affected soil pH and thus indirectly affected the diazotrophic community composition and the nutrient cycling index. The diversity and community composition of the diazotrophs together accounted for 95% of the differences in the multiple nutrient cycling index.CONCLUSION: Soil diazotrophic communities undertake important roles in maintaining nutrient cycling and soil multifunctionality at depths of 0-15 cm and 15-35 cm layers with different land uses of the black soil region of China.

show abstract

Soil pH is a major driver of soil diazotrophic community assembly in Qinghai-Tibet alpine meadows

Cited by 153 publications

References 63 publications

Interpreting distance‐decay pattern of soil bacteria via quantifying the assembly processes at multiple spatial scales

Interpreting distance‐decay pattern of soil bacteria via quantifying the assembly processes at multiple spatial scales

Deciphering the archaeal communities in tree rhizosphere of the Qinghai-Tibetan Plateau

Land use indirectly affects the cycling of multiple nutrients by altering the diazotrophic community in black soil

Contact Info

Product

Resources

About