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Assembly and co-occurrence patterns of rare and abundant bacterial sub-communities in rice rhizosphere soil under short-term nitrogen deep placement

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Journal of Integrative Agriculture 2021年第12期20卷 3299-3311页

作者： LI Gui-long WU Meng LI Peng-fa WEI Shi-ping LIU Jia JIANG Chun-yu LIU Ming LI Zhong-pei State Key Laboratory of Soil and Sustainable Agriculture Institute of Soil ScienceChinese Academy of SciencesNanjing 210008P.R.China University of Chinese Academy of Sciences Beijing 100049P.R.China Soil and Fertilizer&Resources and Environment Institute Jiangxi Academy of Agricultural SciencesNanchang 330200P.R.China

Nitrogen(N)deep placement has been found to reduce N leaching and increase N use efficiency in paddy fields.However,relatively little is known how bacterial consortia,especially abundant and rare taxa,respond to N deep placement,which is critical for understanding the biodiversity and function of agricultural ecosystem.In this study,lllumina sequencing and ecological models were conducted to examine the diversity patterns and underlying assembly mechanisms of abundant and rare taxa in rice rhizosphere soil under different N fertilization regimes at four rice growth stages in paddy fields.The results showed that abundant and rare bacteria had distinct distribution patterns in rhizosphere samples.Abundant bacteria showed ubiquitous distribution;while rare taxa exhibited uneven distribution across all samples.Stochastic processes dominated community assembly of both abundant and rare bacteria,with dispersal limitation playing a more vital role in abundant bacteria,and undominated processes playing a more important role in rare bacteria.The N deep placement was associated with a greater influence of dispersal limitation than the broadcast N fertilizer(BN)and no N fertilizer(NN)treatments in abundant and rare taxa of rhizosphere soil;while greater contributions from homogenizing dispersal were observed for BN and NN in rare taxa.Network analysis indicated that abundant taxa with closer relationships were usually more likely to occupy the central position of the network than rare taxa.Nevertheless,most of the keystone species were rare taxa and might have played essential roles in maintaining the network stability.Overall,these findings highlighted that the ecological mechanisms and co-occurrence patterns of abundant and rare bacteria in rhizosphere soil under N deep placement.

关键词： rare bacteria community assembly network analysis co-occurrence patterns N deep placement

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Differences in distributions, assembly mechanisms, and putative interactions of AOB and NOB at a large spatial scale

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Frontiers of Environmental Science & Engineering 2023年第10期17卷 55-64页

作者： Bing Zhang Chenxiang Sun Huimin Lin Wei Liu Wentao Qin Tan Chen Ting Yang Xianghua Wen college of Life and Environmental Sciences Minzu University of ChinaBeijing 100081China Environmental Simulation and Pollution control State Key Joint Laboratory School of EnvironmentTsinghua UniversityBeijing 100084China Institute of Plant Protection Beijing Academy of Agriculture and Forestry SciencesBeijing 100097China

Ammonia-oxidizing bacteria (AOB) and nitrite-oxidizing bacteria (NOB) play crucial roles in removing nitrogen from sewage in wastewater treatment plants (WWTPs) to protect water resources. However, the differences in ecological properties and putative interactions of AOB and NOB in WWTPs at a large spatial scale remain unclear. Hence, 132 activated sludge (AS) samples collected from 11 cities across China were studied by utilizing 16S rRNA gene sequencing technology. Results indicated that Nitrosomonas and Nitrosospira accounted for similar ratios of the AOB community and might play nearly equal roles in ammonia oxidation in AS. However, Nitrospira greatly outnumbered other NOB genera, with proportions varying from 94.7% to 99.9% of the NOB community in all WWTPs. Similar compositions and, hence, a low distance–decay turnover rate of NOB (0.035) across China were observed. This scenario might have partly resulted from the high proportions of homogenizing dispersal (~13%). Additionally, drift presented dominant roles in AOB and NOB assembling mechanisms (85.2% and 81.6% for AOB and NOB, respectively). The partial Mantel test illustrated that sludge retention time and temperature were the primary environmental factors affecting AOB and NOB communities. Network results showed that NOB played a leading role in maintaining module structures and node connections in AS. Moreover, most links between NOB and other microorganisms were positive, indicating that NOB were involved in complex symbioses with bacteria in AS.

关键词： Activated sludge Spatial distributions Microbial assembly co-occurrence patterns Nitrifying bacteria

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Long-term agricultural contamination shaped diversity response of sediment microbiome

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Journal of Environmental Sciences 2021年第1期33卷 90-99页

作者： Lei Zhang Ziyin Wang Hua Cai Wenxuan Lu Jing Li School of Civil Engineering and Architecture Chuzhou UniversityChuzhou 239000China Nanjing Institute of Geography and Limnology Chinese Academy of SciencesNanjing 210008China Fisheries Research Institute Anhui Academy of Agricultural SciencesHefei 230036China

The pollution caused by agricultural production poses a threat to the ecological integrity of river ecosystems,altering the structure and function of river ecosystems.Differences in microbial community structure provide useful information about the impact of agricultural pollution on the biological integrity of ecosystems,but generally convey little information regarding ecosystem functions.In this study,using Illumina MiSeq sequencing technology based on the 16 S rRNA gene,river sediment samples associated with four different types of agricultural pollution were comprehensively analyzed.The results show that the total organic carbon(TOC)content was highest at the YZS site(animal husbandry sewage)among the assayed sites,but the species richness and uniformity were lowest at this site,which may have been caused by the high nutrient source of the sewage.Furthermore,in the three YZS samples affected by the long-term discharge of aquaculture tail-water,the unique genus Dechloromonas and the genus Candidatus-competitor were observed,which are strongly correlated with phosphorus conversion.The formation of network modules may correspond to the coexistence of functional bacteria accustomed to multiple niche combinations under different agricultural pollution conditions in river sediments.According to the PICRUSt functional prediction,the bacterial community in the agricultural polluted river sediment primarily harbored 46 subfunctions,exhibiting richness of functions.Overall,our results provide a more comprehensive understanding of the structure and ecological processes associated with the aggregation of bacterial communities,which is beneficial for the management of river environments.

关键词： Agricultural pollution Bacterial community Illumina miseq sequencing co-occurrence patterns Functional prediction

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