A comparison of microbial composition under three tree ecosystems using the stochastic process and network complexity approaches DOI Creative Commons
Peng Kang, Yaqing Pan, Pan Yang

et al.

Frontiers in Microbiology, Journal Year: 2022, Volume and Issue: 13

Published: Oct. 10, 2022

Soil microbes act as “players” in regulating biogeochemical cycles, whereas environmental heterogeneity drives microbial community assembly patterns and is influenced by stochastic deterministic ecological processes. Currently, the limited understanding of soil interactions under temperate forest stand differences pose a challenge studying involvement during succession from coniferous to broad-leaved forests. This study investigated changes bacterial fungal diversity structure at regional scale identified pathways influencing their interactions. The results showed that cover forests significantly increased pH, effectively water content, total carbon (TC), nitrogen (TN), phosphorus (TP) contents. Both alpha indices were correlated with physicochemical properties, especially forest. composition was dominated process (bacteria: 69.4%; fungi: 88.9%), while (77.8%) (52.8%). Proteobacteria, Acidobacteriota, Actinobacteriota, Verrucomicrobiota dominant phyla communities Whereas Ascomycota, Mortierellomycota, Basidiomycota, Rozellomycota Most members phylum regulated physical chemical properties. In addition, conducive maintaining complex network bacteria fungi, top 20 degree major taxa reflected positive response nutrients succession. not only shows mechanism which species northern China affect processes, but also further emphasizes importance microbiome key ecosystem factor through co-occurrence analysis.

Language: Английский

Organism body size structures the soil microbial and nematode community assembly at a continental and global scale DOI Creative Commons
Lu Luan, Yuji Jiang,

Menghua Cheng

et al.

Nature Communications, Journal Year: 2020, Volume and Issue: 11(1)

Published: Dec. 17, 2020

Body size is a key life-history trait that influences community assembly by affecting how ecological processes operate at the organism level. However, extent to which relative of mediate differentially sized soil organisms still unknown. Here, we investigate microorganisms and microfauna using continental-scale sampling effort combined with global-scale meta-analysis. Our results reveal general relationship between body stochastic-deterministic balance operating on assembly. The smallest (bacteria) are relatively more influenced dispersal-based stochastic processes, while larger ones (fungi, protists nematodes) structured selection-based deterministic processes. This study elucidates significant consistent an distinct in mediating their respective assemblages, thus providing better understanding mechanisms supporting biodiversity.

Language: Английский

Citations

204
Specific metabolites drive the deterministic assembly of diseased rhizosphere microbiome through weakening microbial degradation of autotoxin DOI Creative Commons
Tao Wen,

Penghao Xie,

C. Ryan Penton

et al.

Microbiome, Journal Year: 2022, Volume and Issue: 10(1)

Published: Oct. 21, 2022

Abstract Background Process and function that underlie the assembly of a rhizosphere microbial community may be strongly linked to maintenance plant health. However, their processes functional changes in deterioration soilborne disease remain unclear. Here, we investigated features microbiomes related Fusarium wilt assessed by comparison pair diseased/healthy sequencing data. The untargeted metabolomics was employed explore potential drivers, shotgun metagenome used reveal mechanisms metabolite-mediated process after soil conditioning. Results showed deterministic associated with diseased microbiomes, this significantly correlated five metabolites (tocopherol acetate, citrulline, galactitol, octadecylglycerol, behenic acid). Application resulted microbiome high morbidity watermelon. Furthermore, metabolite conditioning found weaken autotoxin degradation undertaken specific bacterial group ( Bradyrhizobium , Streptomyces Variovorax Pseudomonas Sphingomonas ) while promoting metabolism small-molecule sugars acids initiated from another Anaeromyxobacter Bdellovibrio Conexibacter Flavobacterium Gemmatimonas ). Conclusion These findings suggest shifts underpin establishment avenues for future research focusing on ameliorating crop loss due pathogen.

Language: Английский

Citations

77
Straw return drives soil microbial community assemblage to change metabolic processes for soil quality amendment in a rice-wheat rotation system DOI
Xueqing Liu, Hongrun Liu, Yushi Zhang

et al.

Soil Biology and Biochemistry, Journal Year: 2023, Volume and Issue: 185, P. 109131 - 109131

Published: Aug. 2, 2023

Language: Английский

Citations

56
Assembly processes of abundant and rare microbial communities in orchard soil under a cover crop at different periods DOI
Zhiyuan Zhao,

Yanting Ma,

Tianyu Feng

et al.

Geoderma, Journal Year: 2021, Volume and Issue: 406, P. 115543 - 115543

Published: Oct. 21, 2021

Language: Английский

Citations

95
Characteristics of microbial community composition and its relationship with carbon, nitrogen and sulfur in sediments DOI
Wenfei Liao, Di Tong, Zhongwu Li

et al.

The Science of The Total Environment, Journal Year: 2021, Volume and Issue: 795, P. 148848 - 148848

Published: July 3, 2021

Language: Английский

Citations

69
Soil aggregate modulates microbial ecological adaptations and community assemblies in agricultural soils DOI
Hao Liao, Xiuli Hao, Yuchen Zhang

et al.

Soil Biology and Biochemistry, Journal Year: 2022, Volume and Issue: 172, P. 108769 - 108769

Published: June 30, 2022

Language: Английский

Citations

47
Long-term rice-crayfish-turtle co-culture maintains high crop yields by improving soil health and increasing soil microbial community stability DOI Creative Commons

Peng Li,

Guogan Wu,

Yujie Li

et al.

Geoderma, Journal Year: 2022, Volume and Issue: 413, P. 115745 - 115745

Published: Feb. 10, 2022

Crop and aquatic animal co-culture systems have been used for over 1200 years can very efficiently utilize nutrients materials available in agroecology settings. These are sustainable forms of agriculture, extensively practiced worldwide. Microorganisms play critical roles promoting ecosystem nutrient transformations material circulations. However, the long-term effects this farming system on soil health microbial community stability, addition to their relationships with rice yields, remain unclear. Here, 7- 12-year experiments rice-crayfish-turtle (RCT) were conducted compared against monoculture (RM) a suburb Shanghai, China. Increased RCT led higher contents organic carbon (SOC), total nitrogen (TN), (Avail_N), but less phosphorus (TP) when same layers RM treatment. Thus, generally had positive physiochemical properties across all layers. qPCR analyses indicated that abundance ratio fungi bacteria (F:B) soils than soils, suggesting an improvement metabolic efficiency sustainability these agroecosystems. High-throughput sequencing demonstrated much diversity. Network analysis revealed more abundant network modules larger proportion negative correlations 7-year networks. Overall, compositional promoted increased stability. Stochastic processes dominated bacterial fungal assembly, while random distributions evident networks communities. interactions between amplicon sequence variants (ASVs) equivalent structures structure Structural equation models (SEM) indirect yields by influencing or Altogether, promotion suitable environments communities, which could contribute cycling further increase crop production yields. results provide new insights into co-associations shifts fertility quality diversity production, thereby helping inform ecological systems.

Language: Английский

Citations

44
Effect of biochar application rate on changes in soil labile organic carbon fractions and the association between bacterial community assembly and carbon metabolism with time DOI

Husen Qiu,

Jieyun Liu,

Mohammad Reza Boorboori

et al.

The Science of The Total Environment, Journal Year: 2022, Volume and Issue: 855, P. 158876 - 158876

Published: Sept. 21, 2022

Language: Английский

Citations

44
Global assembly of microbial communities DOI Creative Commons
Jianing Wang, Zhuo Pan,

Jianshui Yu

et al.

mSystems, Journal Year: 2023, Volume and Issue: 8(3)

Published: May 17, 2023

Different habitats harbor different microbial communities with elusive assembly mechanisms. This study comprehensively investigated the global mechanisms of and effects community-internal influencing factors using Earth Microbiome Project (EMP) data set. We found that deterministic stochastic processes contribute approximately equally to community assembly, and, specifically, generally play a major role in free-living plant-associated (but not plant corpus) environments, while are contributor animal-associated environments. In contrast microorganisms, functional genes, predicted from PICRUSt, is mainly attributed all communities. The sink source normally assembled similar mechanisms, core microorganisms specific environment types. On scale, positively related alpha diversity, interaction degree bacterial predatory-specific gene abundance. Our analysis provides panoramic picture regularities environment-typical assemblies. IMPORTANCE With development sequencing technologies, research topic ecology has evolved composition including relative contribution for formation maintenance diversity. Many studies have reported various habitats, but remain unknown. this study, we analyzed EMP set combined pipeline explore communities, sources construct microbes types, assembly. results provide rules assemblies, which enhances our understandings globally controlling diversity species coexistence.

Language: Английский

Citations

31
Microbiota and functional analyses of nitrogen-fixing bacteria in root-knot nematode parasitism of plants DOI Creative Commons
Ye Li,

Shaonan Lei,

Zhiqiang Cheng

et al.

Microbiome, Journal Year: 2023, Volume and Issue: 11(1)

Published: March 10, 2023

Abstract Background Root-knot nematodes (RKN) are among the most important root-damaging plant-parasitic nematodes, causing severe crop losses worldwide. The plant rhizosphere and root endosphere contain rich diverse bacterial communities. However, little is known about how RKN bacteria interact to impact parasitism health. Determining keystone microbial taxa their functional contributions health development for understanding developing efficient biological control strategies in agriculture. Results analyses of microbiota plants with without showed that host species, developmental stage, ecological niche, nematode parasitism, as well interactions, contributed significantly variations root-associated microbiota. Compared healthy tomato at different stages, significant enrichments belonging Rhizobiales, Betaproteobacteriales, Rhodobacterales were observed endophytic nematode-parasitized samples. Functional pathways related pathogenesis nitrogen fixation enriched plants. In addition, we nifH gene NifH protein, key gene/enzyme involved fixation, within roots, consistent a potential contribution nitrogen-fixing parasitism. Data from further assay soil amendment could reduce both prevalence galling Conclusions demonstrated (1) community variation assembly affected by parasitism; (2) taxonomic association was found (3) change communities through addition fertilizers affect occurrence RKN. Our results provide new insights into interactions microbiota, RKN, plants, contributing novel management against

Language: Английский

Citations

25