Shifts in soil microbial community functional gene structure across a 61-year desert revegetation chronosequence

Hu, Yigang; Zhang, Zhishan; Huang, Lei; Qi, Qi; Liu, Lichao; Zhao, Yang; Wang, Zengru; Zhou, Huakun; Lv, Xingyu; Mao, Zhongchao; Yang, Yunfeng; Zhou, Jizhong; Kardol, Paul

doi:10.1016/j.geoderma.2019.03.046

Cited by 55 publications

(30 citation statements)

References 42 publications

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“…Soil archaeal abundance is closely related to OC and OM, which suggests that OM and the most basic metabolic source of archaea can significantly affect soil archaeal abundance (Yang et al 2014). Moisture, pH, and soil EC were considered as possible determinants limiting the abundance of soil (Hu et al 2019a;Liu et al 2017) [37,38]. However, in this study, Spearman correlation analysis showed that moisture was not a determinant of soil archaebacterial abundance in desert soil of PV parks.…”

Section: Discussioncontrasting

confidence: 57%

“…A study of archaea in the Tengger Desert during the vegetation recovery period showed that the 16S rRNA gene copy number of archaeal communities increased significantly during the first 5 a of biological soil crust development, and then decreased with ecological succession (Zhao et al 2020). However, another study on Tengger Desert soil showed that the abundance of archaeal genes generally increased throughout the succession after 61 a of vegetation restoration (Hu et al 2019b). The results of several previous studies have also shown that soil microbial communities can increase rapidly in the early stages of desert vegetation restoration (Liu et al 2013).…”

Section: Discussionmentioning

confidence: 99%

“…The insignificant role of pH in regulating archaeal community abundance in this study may be attributed to the small variation in soil pH across sites. The lack of correlation between archaeal abundance and EC may be due to high soil salinity levels that exceeded the migration threshold of the archaeal community in response to salinity changes (Hu et al 2019a). Diversity and Community Composition of Archaea in Desert Soils.…”

Section: Discussionmentioning

confidence: 99%

“…GPS (UG802, Tibbo, China) was used to locate the sites throughout the sampling process, and the latitude, longitude, and elevation information of the sites were recorded. The sampling points were divided into three groups: flat single axis (FSA, sampling number 1, 10), oblique single axis (OSA, sampling number 2, 3, 9), and fixed axis (FIX, sampling number 6,11,12,17,18,19,21) according to the orientation of the PV tracking brackets. For each group, samples were collected at the sampling points under the PV stand panels (SX) and between the panels (SJ).…”

Section: Methodsmentioning

confidence: 99%

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Community structure, distribution pattern, and influencing factors of soil Archaea in the construction area of a large-scale photovoltaic power station

Yuan

Yue

et al. 2021

Preprint

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The photovoltaic power station in Qinghai has been built for 8 years, however, its impact on the regional soil ecological environment has not been studied in depth. To reveal the structure and distribution pattern of archaeal communities in desert soil under the influence of a large photovoltaic power station, a comparative study was carried out between the soil affected by photovoltaic panels and the bare land samples outside the photovoltaic station in Gonghe, Qinghai Province. The abundance, community structure, diversity, and distribution characteristics of archaea were analyzed by quantitative PCR and Illumina-MiSeq high-throughput sequencing, and the main environmental factors affecting the variation of soil archaeal community were identified by RDA. The contribution rate of environmental factors and human factors to microbial community diversity was quantitatively evaluated by VPA. The results showed that there was no significant difference in soil nutrients and other physicochemical factors between the photovoltaic power station and bare land. Thaumarchaeota was the dominant archaeal phylum in the area, accounting for more than 99% of archaeal phylum, while at the level of genus, Nitrososphaera was the dominant archaeal genera. There was no significant difference in archaeal community structure between and under different types of PV panels. The analysis has shown that the construction of a photovoltaic station has little effect on the community structure of soil archaea in a desert area, and it was speculated that the selection of niche played a leading role in the distribution pattern of soil archaeal community. This study provides the basis for a scientific understanding of the characteristics and distribution patterns of soil archaeal communities affected by the construction of a photovoltaic power station.

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Section: Discussioncontrasting

confidence: 57%

Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

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Community structure, distribution pattern, and influencing factors of soil Archaea in the construction area of a large-scale photovoltaic power station

Yuan

Yue

et al. 2021

Preprint

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“…The hierarchical clustering of level 2 KEGG ortholog function prediction at metabolism level showed that the microbial community has responded more towards amino acid (20.66%), carbohydrate (19.85%), energy (10.76%) and lipid metabolism (7.23%) and less towards glycan biosynthesis, synthesis of secondary metabolites, terpenoids and biodegradation (1.8 -7%). Few studies has predicted the prevalence and abundance of carbon (C), nitrogen (N) and phosphorus (P) cycle related genes [79][80][81][82]. At energy metabolism level, methane metabolism, which is confiscated by methanogenesis, was higher since the experimental soil was under flooded conditions.…”

Section: Ommentioning

confidence: 99%

Variation in Microbial Community Profiles and Their Energy Metabolism Predictions Under the Influence of Pure and Mixed Fertilizer in Soil Microcosms

Barq¹,

Hassan²,

Lorenz³

et al. 2021

Preprint

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The impact of environmental perturbations (e.g., nitrogen (N), phosphorus (P), potassium (K) and rice straw (Rs)) on the dynamics of soil bacterial and archaeal community are multifactor dependent and seeks more investigation concerning underlying mechanisms. Current study was designed to establish the effect of pure and mixed fertilizers on microbial community profiles in paddy soil. A short-term microcosm based experiment was established in which each microcosm is amended with N as C(H2N)2O, P and K as KH2PO4, K as KCl and Rs with concentrations equivalent to 160 kg N ha−1, 60 kg P ha−1, 130 kg K ha−1 and 1% respectively. Soil pH, electrical conductivity (EC), total C (TC), total nitrogen (TN), organic matter (OM), available K (AK) and extractable P (EP) were evaluated. To understand the microbial community variation in soil and to predict their metabolic functions, a high throughput sequencing (HTS) approach of 16S rRNA gene along with phylogenetic investigation of communities by reconstruction of unobserved states (PICRUSt) was employed and analyzed. The results showed that microbial richness and diversity were increased under all amendments compared to control. Proteobacteria, Actinobacteria and Firmicutes were dominant bacterial phyla. In all amendments, regarding relative abundance, Chloroflexi, Bacteroidetes and Verrucomicrobia showed positive while Actinobacteria, Acidobacteria and Gemmatimonadetes showed negative trends when compared with controlled observations. Thaumarchaeota and Euryarchaeota were dominant archaeal phyla and exhibited increasing and decreasing trends, respectively. The PICRUSt indicated microbial community shift significantly towards amino acid, carbohydrate, energy, and lipid metabolism while less towards glycan biosynthesis, synthesis of secondary metabolites, terpenoids and biodegradation. Regarding metabolism (methane metabolism), most and least responsive treatments were predicted to be KP and controls, respectively. These findings enhanced our understanding regarding soil quality, fertilizer composition and their impact on microbial diversity.

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Microbial Inoculants Modify the Functions of Resident Soil Microbes to Expedite the Field Restoration of the Abandoned Mine

Li,

Shi,

Jia

et al. 2024

Land Degrad Dev

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Global‐scale mining activities have had significant deleterious impacts on local ecosystems and the overall environment, which will necessitate robust restoration efforts. A practical approach includes combining microbial inoculants with the technology of external soil spray seeding. This approach holds the potential for sustainable abandoned mine site restoration by enhancing plant growth through the modulation of soil nutrients and microbial communities. Nonetheless, the detailed effects of microbial inoculants on specific aspects of soil microbial community functions and their complex interactions with plant growth remain underexplored, particularly in the context of restoration efforts. To bridge this gap, we performed a four‐year field study at an abandoned carbonate mine location, using metagenomic sequencing to evaluate the influence of microbial inoculants on soil microbial functionality. Our research revealed that introducing microbial inoculants greatly enhanced essential soil parameters and notably increased plant biomass. Additionally, these inoculants altered the functional gene makeup of the microbial community, significantly boosting the relative abundance of processes such as nitrogen fixation, nitrification, denitrification, assimilatory nitrate reduction (ANRA), dissimilatory nitrate reduction (DNRA), and organic phosphorus mineralization. Conversely, there was a decrease in the relative abundance of carbon degradation, phosphorus regulation, and transport processes. We observed strong correlations between the abundance of nitrogen and phosphorus cycles and plant biomass. Crucially, microbial inoculants affect plant biomass by initially altering soil properties and subsequently coordinating nitrogen and phosphorus cycles. These findings provide valuable insights into the role of microbial inoculants in mine site restoration and offer a theoretical foundation for their broader practical application.

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Shifts in soil microbial community functional gene structure across a 61-year desert revegetation chronosequence

Cited by 55 publications

References 42 publications

Community structure, distribution pattern, and influencing factors of soil Archaea in the construction area of a large-scale photovoltaic power station

Community structure, distribution pattern, and influencing factors of soil Archaea in the construction area of a large-scale photovoltaic power station

Variation in Microbial Community Profiles and Their Energy Metabolism Predictions Under the Influence of Pure and Mixed Fertilizer in Soil Microcosms

Microbial Inoculants Modify the Functions of Resident Soil Microbes to Expedite the Field Restoration of the Abandoned Mine

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