Ecological intensification strategies increase abundance of denitrifying functional genes in a greenhouse agricultural soil DOI Creative Commons
Rafael Hernández Maqueda, Isabel Ballesteros,

D.E. Meca

et al.

Applied Soil Ecology, Journal Year: 2024, Volume and Issue: 199, P. 105415 - 105415

Published: April 30, 2024

Understanding the denitrification process in agriculture is key to preventing nitrogen (N) losses and reducing emissions of greenhouse gas nitrous oxide (N2O) atmosphere. Since type fertilization influences this process, study we evaluated comparative effect conventional (CON) versus ecological intensification (EI) soil management under conditions on abundance expression denitrifying functional genes nitrite reductase (nirK, nirS) (nosZ). For purpose, quantitative PCR (qPCR) was performed three phenological stages eggplant (Solanum melongena L var. Telma). The results showed that addition organic amendments tripled copies nirK DNA, doubled nosZ DNA increased nirS, albeit by 2 %, compared conventionally managed soils. mRNA transcripts also for all studied: 15-fold, followed which its expression, nosZ, expression. Ammonium ion (NH4-N) correlated positively with analyzed, total carbon (TOC) pH negatively nosZ. Regardless (CON or EI), a decreasing trend gene observed from initial growth phase crop (t0) until removed residues incorporated into (t2). suggest dynamics composition community varied response stage crop. Further studies based metagenomics transcriptomics, including N2O flux measurements, are needed better understand these

Language: Английский

A state-of-the-art review of CO2 enhanced oil recovery as a promising technology to achieve carbon neutrality in China DOI
Shanxue Jiang, Yuening Li, Fang Wang

et al.

Environmental Research, Journal Year: 2022, Volume and Issue: 210, P. 112986 - 112986

Published: Feb. 19, 2022

Language: Английский

Citations

42
Microbe-driven elemental cycling enables microbial adaptation to deep-sea ferromanganese nodule sediment fields DOI Creative Commons
De-Chao Zhang, Xudong Li, Yue‐Hong Wu

et al.

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

Published: July 25, 2023

Abstract Background Ferromanganese nodule-bearing deep-sea sediments cover vast areas of the ocean floor, representing a distinctive habitat in abyss. These harbor unique conditions characterized by high iron concentration and low degradable nutrient levels, which pose challenges to survival growth most microorganisms. While microbial diversity ferromanganese nodule-associated has been surveyed several times, little is known about functional capacities communities adapted these habitats. Results Seven sediment samples collected adjacent nodules from Clarion–Clipperton Fracture Zone (CCFZ) eastern Pacific Ocean were subjected metagenomic analysis. As result, 179 high-quality metagenome-assembled genomes (MAGs) reconstructed assigned 21 bacterial phyla 1 archaeal phylum, with 88.8% MAGs remaining unclassified at species level. The main mechanisms resistance heavy metals for microorganisms included oxidation (Mn), reduction (Cr Hg), efflux (Pb), synergy (As), (Cu). Iron, had highest content among all metallic elements, may occur mainly as Fe(III) that potentially functioned an electron acceptor. We found diverse array CAZymes did not exhibit higher community abundance. Instead, obtained energy metal (e.g., Mn(II)) sulfur compounds using oxygen or nitrate Chemolithoautotrophic organisms ( Thaumarchaeota Nitrospirota phyla) be potential manganese oxidizers. profile analysis dominant further indicated utilization inorganic nutrients redox reactions (rather than organic metabolism) major adaptive strategy used support their nodule sediments. Conclusions This study provides comprehensive microbes inhabiting metal-rich Our results reveal extensive redundancy across taxa pathways transformation, highly obtain nutrition, participation various element cycles environments.

Language: Английский

Citations

26
Phylogenetics and environmental distribution of nitric oxide forming nitrite reductases reveals their distinct functional and ecological roles DOI Creative Commons
Grace Pold, Germán Bonilla‐Rosso, Aurélien Saghaï

et al.

ISME Communications, Journal Year: 2024, Volume and Issue: unknown

Published: Feb. 2, 2024

Abstract The two evolutionary unrelated nitric oxide-producing nitrite reductases NirK and NirS are best known for their redundant role in denitrification. They also often found organisms that do not perform To assess the functional roles of enzymes to address sequence structural variation within each, we reconstructed robust phylogenies both proteins with sequences recovered from 6973 isolate metagenome-assembled genomes identified 32 well-supported clades structurally distinct protein lineages. We then inferred potential niche each clade by considering other genes carrying them, as well relative abundances nir gene 4082 environmental metagenomes across diverse aquatic, terrestrial, host-associated, engineered biomes. demonstrate Nir recapitulate ecology distinctly corresponding organismal phylogeny. While some reductase were equally prevalent biomes, others had more restricted ranges. Nitrifiers make up a sizeable proportion reducing community, especially marine surface waters dry soils. Furthermore, showed associations involved oxidising compounds, indicating activity may be linked different elemental cycles. Accordingly, abundance diversity vs. varies between Our results show divergent ecological NirS-encoding play environment provide phylogenetic framework distinguish traits associated encoding lineages reductases.

Language: Английский

Citations

10
Effect of Different Synthetic Nitrogen Forms and Levels on Nitrification and Denitrification Key Genes Abundances: Implications for Oligotrophic Forest Soil Management DOI Creative Commons

Muhammad Jamal Ameer,

Yushan Liu, Xiaoting Zhao

et al.

Nitrogen, Journal Year: 2025, Volume and Issue: 6(1), P. 4 - 4

Published: Jan. 10, 2025

Climate change and anthropogenic nitrogen addition alter the soil physicochemical properties microbial activity in oligotrophic forest soil. Unbalanced non-selective fertilizer application is lost as gas emissions (N2O, NO) also contributed to eutrophication through NO3− leachate. Similarly, infiltrates contaminated drinking water sources lead human thyroid dysfunction. In order protect depleting timber growth due deficiency increasing ecological concerns from misapplication, we reviewed effects of different synthetic forms levels on biogeochemical process. this review, focused most recent findings research articles, review meta-analyses followed complementary insights agricultural so that may be able highlight how these observations contribute understanding cycle. Firstly, elaborated role nitrification denitrification transformation Secondly, discussed effect functional gene abundances. Thirdly, analyzed possible abundances conversion Finally, revealed not only pathways by substrate availability but shift dominance, thereby modifying properties, such pH. This collectively changes conditions, which are critical for expression potential involved These create a direction sustainable eco-friendly nitrogen-deficient

Language: Английский

Citations

1
Evaluation of nitrogen removal performance and metabolic mechanism of a novel salt-tolerant strain Pseudomonas aeruginosa SH3 DOI Creative Commons

Yueyue Zhou,

Xiaopeng Wang, Zhe Chen

et al.

Bioresource Technology, Journal Year: 2025, Volume and Issue: unknown, P. 132405 - 132405

Published: March 1, 2025

Language: Английский

Citations

1
Response of granular anammox process under mainstream conditions to continuous and transient organic loads DOI
Hyungmin Choi, Jinsu Kim, Jihun Park

et al.

Chemical Engineering Journal, Journal Year: 2023, Volume and Issue: 464, P. 142681 - 142681

Published: March 30, 2023

Language: Английский

Citations

17
Simplification of soil biota communities impairs nutrient recycling and enhances above‐ and belowground nitrogen losses DOI Creative Commons
S. Franz Bender, Stefanie Schulz, Rubén Martínez‐Cuesta

et al.

New Phytologist, Journal Year: 2023, Volume and Issue: 240(5), P. 2020 - 2034

Published: Sept. 12, 2023

Agriculture is a major source of nutrient pollution, posing threat to the earth system functioning. Factors determining use efficiency plant-soil systems need be identified develop strategies reduce losses while ensuring crop productivity. The potential soil biota tighten cycles by improving plant nutrition and reducing still poorly understood. We manipulated communities in outdoor lysimeters, planted maize, continuously collected leachates, measured N2 O- -gas emissions after fertilization pulse test whether differences affected recycling N losses. Lysimeters with strongly simplified showed reduced (-20%) P (-58%) uptake, increased leaching (+65%), gaseous (+97%) O . Soil metagenomic analyses revealed abundance genes responsible for nitrate reduction, denitrification that helped explain observed are drivers cycling reductions diversity or certain groups (e.g. through land-use intensification) can disrupt cycling, agricultural productivity efficiency, exacerbate environmental pollution global warming.

Language: Английский

Citations

17
Low and Moderate Rice-Sodic Soils Affect Bacterial Diversity and Their Functions DOI
Yazhini Gunasekaran,

Subramanium Thiyageshwari,

Manikandan Ariyan

et al.

Journal of soil science and plant nutrition, Journal Year: 2024, Volume and Issue: 24(1), P. 855 - 869

Published: Jan. 5, 2024

Language: Английский

Citations

5
Impact of diversified cropping systems and fertilization strategies on soil microbial abundance and functional potentials for nitrogen cycling DOI Creative Commons
Bei Liu,

Hauke Ahnemann,

Donatienne Arlotti

et al.

The Science of The Total Environment, Journal Year: 2024, Volume and Issue: 932, P. 172954 - 172954

Published: May 7, 2024

Diversified cropping systems and fertilization strategies were proposed to enhance the abundance diversity of soil microbiome, thereby stabilizing their beneficial services for maintaining fertility supporting plant growth. Here, we assessed across three different long-term field experiments in Europe (Netherlands, Belgium, Northern Germany) whether diversified also affect functional gene abundance. Soil DNA was analyzed by quantitative PCR quantifying bacteria, archaea fungi as well genes related nitrogen (N) transformations; including bacterial archaeal nitrification (amoA-bac,arch), steps denitrification process (nirK, nirS nosZ-cladeI,II) N2 assimilation (nifH), respectively. Crop diversification generally enhanced total carbon (C), N microbial abundance, but with variation between sites. Overall effects on much stronger than fungi. The legume-based showed great potential not only stimulating growth N-fixing microorganisms boosting downstream potentials cycling. sorghum-based intercropping system suppressed ammonia oxidizing prokaryotes. reduced nitrifiers denitrifiers except ammonia-oxidizing while application synthetic inhibitor DMPP combined mineral both bacteria archaea. In conclusion, this study demonstrates a strong impact agricultural practices microbiome mediating transformations.

Language: Английский

Citations

5
Microbial community succession and responses to internal environmental drivers throughout the operation of constructed wetlands DOI
Wencan Zhang, Jianfeng Ye, Feng Hu

et al.

Environmental Research, Journal Year: 2024, Volume and Issue: 259, P. 119522 - 119522

Published: July 1, 2024

Language: Английский

Citations

5