Long‐term straw returning affects<i>Nitrospira</i>‐like nitrite oxidizing bacterial community in a rapeseed‐rice rotation soil

Luo, Xuesong; Han, Shun; Lai, Songsong; Huang, Qiaoyun; Chen, Wenli

doi:10.1002/jobm.201600400

Cited by 29 publications

(16 citation statements)

References 29 publications

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“…Of them, the soil pH had no significant changes over six years between the straw return and removal treated soils at both soil depths ( Table 1 ). It is consistent with the previous results [ 16 , 26 ], and means that straw return will not result in soil acidification. In addition, straw return improved the contents of TC, TN, available N, available K and SOC at both depths but the effects were not significant ( Table 1 ).…”

Section: Discussionsupporting

confidence: 93%

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Effects of straw return on bacterial communities in a wheat-maize rotation system in the North China Plain

Wen

et al. 2018

PLoS ONE

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Straw return plays an important role in reducing the use of chemical fertilizer, promoting soil carbon sequestration, thus maintaining soil fertility and alleviating environmental pollution. To examine the effects of straw return on soil bacterial communities, quantitative PCR and high-throughput sequencing approaches were used to analyze the bacterial abundance and community structures at the depths of 5–25 cm and 25–45 cm in the soils under six-year continuous straw return and removal treatments in Langfang, Hebei, the North China Plain. As a result, straw return had no effects on soil chemical properties, bacterial abundance, richness or diversity at both soil depths. In contrast, vertical distributions of available nitrogen and available potassium were affected. Similarly, straw return also changed the vertical distributions of Proteobacteria and Chloroflexi. Principal coordinate analysis based on weighted UniFrac distance matrix indicated a moderate separation of the bacterial community in the soil treated with straw return from that with straw removal at 5–25 cm depth, but they were not distinctly distinguished at 25–45 cm depth. T-test identified increased abundance of Candidatus Latescibacteria in the soil under straw return treatment at 5–25 cm depth but no differentially abundant phyla at 25–45 cm depth was found. These results suggested a selection effect from the six-year continuous straw return treatment and the soil bacterial communities were moderately changed.

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Section: Discussionsupporting

confidence: 93%

“…Soil pH was measured with a soil to water ratio of 1:2.5 (W/V) using a pH meter [ 16 ]. Soil total carbon (TC) and total nitrogen (TN) contents were determined through dry combustion with ground samples (100 mesh) on vario PYRO cube element analyzer (Elementar Corporation, Hanau, Germany).…”

Section: Methodsmentioning

confidence: 99%

Effects of straw return on bacterial communities in a wheat-maize rotation system in the North China Plain

Wen

et al. 2018

PLoS ONE

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“…The previous study has demonstrated that members of Proteobacteria can utilise reduced sulphur compounds to obtain energy and also through carbon assimilation via the reductive tricarboxylic acid (rTCA) cycle 43 . Interestingly rare taxa <1% belong to Armatimonadetes, AC1, NC10, NKB19, OP8 and GN04 (Table S1) were detected in both the enrichments.…”

Section: Diversity Of Microbial Communitiesmentioning

confidence: 99%

Microbial community profiling of ammonia and nitrite oxidizing bacterial enrichments from brackishwater ecosystems for mitigating nitrogen species

Baskaran

Patil

Antony

et al. 2020

Sci Rep

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Nitrogen species such as ammonia and nitrite are considered as major stressors in modern aquaculture practices. We developed enrichments of ammonia oxidising bacteria (AOB) and nitrite oxidising bacteria (NOB) for effective mitigation of nitrogenous wastes in the shrimp culture operations. The objective of this study was to understand the microbial community composition of AoB and noB enrichments using the V3-V4 region of the 16S rDNA gene by Illumina MiSeq sequencing. The analysis revealed 2948 and 1069 OTUs at 97% similarity index and Shannon alpha diversity index of 7.64 and 4.85 for AOB and NOB enrichments, respectively. Comparative analysis showed that a total of 887 OTUs were common among AOB and NOB enrichments. The AOB and NOB enrichment were dominated by Eubacteria at 96% and 99.7% respectively. Proteobacterial phylum constituted 31.46% (AOB) and 39.75% (NOB) and dominated by α-Proteobacteria (20%) in AOB and γ-Proteobacteria (16%) in NOB. Among the species in AOB enrichment (2,948) two sequences were assigned to ammonia oxidising bacterial group belonging to Nitrosomonas, and Nitrosococcus genera and two belonged to archaeon group comprising Nitrosopumilus and candidatus Nitrososphaeraea genera. The NOB enrichment was predominated by Nitrospiraceae and Thermodesulfovibrionaceae. further, the data revealed the presence of heterotrophic bacteria contributing to the process of nitrification and form microcosm with the AOB and NOB. PICRUSt analysis predicted the presence of 24 different nitrogen cycling genes involved in nitrification, denitrification, ammonia and nitrogen transporter family, nitrate reduction and ammonia assimilation. The study confirms the presence of many lesser known nitrifying bacteria along with well characterised nitrifiers. Aquaculture is an important economic activity supplying quality animal protein, generating employment and providing foreign exchange. Fish and fishery products are the most traded food items in the world, and an estimated 45% of the fish produced enters the international market. In terms of value, shrimp/prawn is the second most traded item next only to salmon in the USD 152 billion global seafood market 1. In the modern-day intensive and semi-intensive shrimp aquaculture, management of accumulating metabolic wastes, especially in zero water exchange systems has been a major challenge. Accumulation of nitrogenous wastes generated by animal excreta and degradation of uneaten feed leads to deterioration of culture environment and stress to farmed animals 2-4. Ammonia is the primary end product of protein metabolism in most aquatic animals 5 and is also produced following microbial decomposition of organic wastes. Increase in the levels of nitrogenous species in the shrimp haemolymph leads to reduced food intake, increased oxygen consumption, increased excretion of nitrogen, and altered protein concentrations cause moderate to high mortality 6. Further, the ammonia (>5 ppm) and nitrite

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“…They also found that soil depth (related to O 2 content) and sampling site (related to rice rhizosphere) affect Nitrobacter activities in paddy soils. Long-term straw applications selected several lineages II Nitrospira , which were probably affected by the increment of available soil potassium, NH 4 + and NO 3 - , as well as decrements of available phosphorus in paddy-upland soil ( Luo et al, 2017 ). Our previous study also showed that Nitrospira -like NOB community composition is more sensitive than Nitrobacter to land management in acid and straw application soils of a rapeseed-rice rotation field trial, and the abundance of Nitrospira was always greater than Nitrobacter ; Nitrospira was affected by the straw application, while Nitrobacter was not ( Han et al, 2017 ).…”

Section: Introductionmentioning

confidence: 99%

Nitrite-Oxidizing Bacteria Community Composition and Diversity Are Influenced by Fertilizer Regimes, but Are Independent of the Soil Aggregate in Acidic Subtropical Red Soil

Han

Luo

et al. 2018

Front. Microbiol.

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Nitrification is the two-step aerobic oxidation of ammonia to nitrate via nitrite in the nitrogen-cycle on earth. However, very limited information is available on how fertilizer regimes affect the distribution of nitrite oxidizers, which are involved in the second step of nitrification, across aggregate size classes in soil. In this study, the community compositions of nitrite oxidizers (Nitrobacter and Nitrospira) were characterized from a red soil amended with four types of fertilizer regimes over a 26-year fertilization experiment, including control without fertilizer (CK), swine manure (M), chemical fertilization (NPK), and chemical/organic combined fertilization (MNPK). Our results showed that the addition of M and NPK significantly decreased Nitrobacter Shannon and Chao1 index, while M and MNPK remarkably increased Nitrospira Shannon and Chao1 index, and NPK considerably decreased Nitrospira Shannon and Chao1 index, with the greatest diversity achieved in soils amended with MNPK. However, the soil aggregate fractions had no impact on that alpha-diversity of Nitrobacter and Nitrospira under the fertilizer treatment. Soil carbon, nitrogen and phosphorus in the soil had a significant correlation with Nitrospira Shannon and Chao1 diversity index, while total potassium only had a significant correlation with Nitrospira Shannon diversity index. However, all of them had no significant correlation with Nitrobacter Shannon and Chao1 diversity index. The resistance indices for alpha-diversity indexes (Shannon and Chao1) of Nitrobacter were higher than those of Nitrospira in response to the fertilization regimes. Manure fertilizer is important in enhancing the Nitrospira Shannon and Chao1 index resistance. Principal co-ordinate analysis revealed that Nitrobacter- and Nitrospira-like NOB communities under four fertilizer regimes were differentiated from each other, but soil aggregate fractions had less effect on the nitrite oxidizers community. Redundancy analysis and Mantel test indicated that soil nitrogen, carbon, phosphorus, and available potassium content were important environmental attributes that control the Nitrobacter- and Nitrospira-like NOB community structure across different fertilization treatments under aggregate levels in the red soil. In general, nitrite-oxidizing bacteria community composition and alpha-diversity are depending on fertilizer regimes, but independent of the soil aggregate.

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Long‐term straw returning affectsNitrospira‐like nitrite oxidizing bacterial community in a rapeseed‐rice rotation soil

Cited by 29 publications

References 29 publications

Effects of straw return on bacterial communities in a wheat-maize rotation system in the North China Plain

Effects of straw return on bacterial communities in a wheat-maize rotation system in the North China Plain

Microbial community profiling of ammonia and nitrite oxidizing bacterial enrichments from brackishwater ecosystems for mitigating nitrogen species

Nitrite-Oxidizing Bacteria Community Composition and Diversity Are Influenced by Fertilizer Regimes, but Are Independent of the Soil Aggregate in Acidic Subtropical Red Soil

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