scholarly journals Soil bacterial community triggered by organic matter inputs supports a high-yielding pear production

2021 ◽  
Author(s):  
Li Wang ◽  
Xiaomei Ye ◽  
Hangwei Hu ◽  
Jing Du ◽  
Yonglan Xi ◽  
...  
Keyword(s):  
Organic Matter ◽  
Soil Organic Matter ◽  
Bacterial Community ◽  
Bacterial Communities ◽  
Structural Equation ◽  
Crop Production ◽  
Bacterial Community Composition ◽  
Soil Microbiome ◽  
High Yield ◽  
Common Features

Abstract. The roles of microorganisms in enhancing crop production have been demonstrated for a range of cropping systems. Most studies to date, however, have been confined to a limited number of locations, making it difficult to identify general soil biotic and abiotic characteristics underpinning the yield-promotion across various locations. This knowledge gap limits our capacity to harness soil microbiome to improve crop production. Here we used high-throughput amplicon sequencing to investigate the common features of bacterial community composition, ecological networks and physicochemical properties in six yield-invigorating and adjacent yield-debilitating orchards. We found that yield-invigorating soils exhibited higher contents of organic matter than yield-debilitating soils and harboured unique bacterial communities. Greater alpha diversity and higher relative abundances of Planctomycetes and Chloroflexi were observed in yield-debilitating soils. Co-occurrence network analysis revealed that yield-invigorating soils displayed a greater number of meta-modules and a higher proportion of negative links to positive links. Chloroflexi was recognized as a keystone taxon in manipulating the interaction of bacterial communities in yield-invigorating soils. Structural equation modelling showed that soil organic matter, beta diversity of bacterial community, and network connector (Chloroflexi) were key factors supporting high-yield pear production. Altogether, we provide evidence that yield-invigorating soils across a range of locations appear to share common features, including accumulation of soil organic matter, higher microbial diversity, enrichment of key taxa like Chloroflexi, and maintaining a competitive network. These findings have implications for science-based guidance for sustainable food production.

scholarly journals Small tropical islands with dense human population: Differences in water quality of near-shore waters are associated with distinct bacterial communities

2018 ◽  
Author(s):  
Hauke Kegler ◽  
Christiane Hassenrueck ◽  
Pia Kegler ◽  
Tim C Jennerjahn ◽  
Muhammad Lukman ◽  
...  
Keyword(s):  
Water Quality ◽  
Organic Matter ◽  
Coral Reef ◽  
Bacterial Community ◽  
Water Column ◽  
Community Composition ◽  
Bacterial Communities ◽  
Bacterial Community Composition ◽  
Back Reef ◽  
Anthropogenic Inputs

Water quality deterioration caused by an enrichment in inorganic and organic matter due to anthropogenic inputs is one of the major local threats to coral reefs in Indonesia. However, even though bacteria are important mediators in coral reef ecosystems, little is known about the response of individual taxa and whole bacterial communities to these anthropogenic inputs. The present study is the first to investigate how bacterial community composition responds to small-scale changes in water quality in several coral reef habitats of the Spermonde Archipelago including the water column, particles and back reef sediments, on a densely populated and an uninhabited island. The main aims were to elucidate if a) water quality indicators and organic matter concentrations differ between the uninhabited and the densely populated island of the archipelago, and b) if there are differences in bacterial community composition in back-reef sediments and in the water column, which are associated with differences in water quality. Several key water quality parameters, such as inorganic nitrate and phosphate, chlorophyll a, and transparent exopolymer particles (TEP) were significantly higher at the inhabited than at the uninhabited island. Bacterial communities in sediments and particle attached communities were significantly different between the two islands with bacterial taxa commonly associated with nutrient and organic matter rich conditions occurring in higher proportions at the inhabited island. Within the individual reef habitats, variations in bacterial community composition between the islands are associated with differences in water quality. We also observed that copiotrophic, opportunistic bacterial taxa were enriched at the inhabited island with its higher chlorophyll a, dissolved organic carbon (DOC) and TEP concentrations. Given the increasing strain on tropical coastal ecosystems, this study suggests that effluents from densely populated islands lacking sewage treatment can alter bacterial communities that may be important for coral reef ecosystem function.

scholarly journals Small tropical islands with dense human population: differences in water quality of near-shore waters are associated with distinct bacterial communities

PeerJ ◽  
2018 ◽  
Vol 6 ◽  
pp. e4555 ◽  
Author(s):  
Hauke F. Kegler ◽  
Christiane Hassenrück ◽  
Pia Kegler ◽  
Tim C. Jennerjahn ◽  
Muhammad Lukman ◽  
...  
Keyword(s):  
Water Quality ◽  
Organic Matter ◽  
Coral Reef ◽  
Bacterial Community ◽  
Water Column ◽  
Community Composition ◽  
Bacterial Communities ◽  
Bacterial Community Composition ◽  
Back Reef ◽  
Anthropogenic Inputs

Water quality deterioration caused by an enrichment in inorganic and organic matter due to anthropogenic inputs is one of the major local threats to coral reefs in Indonesia. However, even though bacteria are important mediators in coral reef ecosystems, little is known about the response of individual taxa and whole bacterial communities to these anthropogenic inputs. The present study is the first to investigate how bacterial community composition responds to small-scale changes in water quality in several coral reef habitats of the Spermonde Archipelago including the water column, particles, and back-reef sediments, on a densely populated and an uninhabited island. The main aims were to elucidate if (a) water quality indicators and organic matter concentrations differ between the uninhabited and the densely populated island of the archipelago, and (b) if there are differences in bacterial community composition in back-reef sediments and in the water column, which are associated with differences in water quality. Several key water quality parameters, such as inorganic nitrate and phosphate, chlorophylla, and transparent exopolymer particles (TEP) were significantly higher at the inhabited than at the uninhabited island. Bacterial communities in sediments and particle-attached communities were significantly different between the two islands with bacterial taxa commonly associated with nutrient and organic matter-rich conditions occurring in higher proportions at the inhabited island. Within the individual reef habitats, variations in bacterial community composition between the islands were associated with differences in water quality. We also observed that copiotrophic, opportunistic bacterial taxa were enriched at the inhabited island with its higher chlorophylla, dissolved organic carbon and TEP concentrations. Given the increasing strain on tropical coastal ecosystems, this study suggests that effluents from densely populated islands lacking sewage treatment can alter bacterial communities that may be important for coral reef ecosystem function.

scholarly journals Complexity of Bacterial Communities in a River-Floodplain System (Danube, Austria)

2005 ◽  
Vol 71 (2) ◽  
pp. 609-620 ◽  
Author(s):  
Katharina Besemer ◽  
Markus M. Moeseneder ◽  
Jesus M. Arrieta ◽  
Gerhard J. Herndl ◽  
Peter Peduzzi
Keyword(s):  
Organic Matter ◽  
Bacterial Community ◽  
Bacterial Communities ◽  
Temporal Dynamics ◽  
Bacterial Community Composition ◽  
Inorganic Nutrients ◽  
Danube River ◽  
Polymorphism Analysis ◽  
Free Living ◽  
River Floodplain

ABSTRACT Natural floodplains play an essential role in the processing and decomposition of organic matter and in the self-purification ability of rivers, largely due to the activity of bacteria. Knowledge about the composition of bacterial communities and its impact on organic-matter cycling is crucial for the understanding of ecological processes in river-floodplain systems. Particle-associated and free-living bacterial assemblages from the Danube River and various floodplain pools with different hydrological characteristics were investigated using terminal restriction fragment length polymorphism analysis. The particle-associated bacterial community exhibited a higher number of operational taxonomic units (OTUs) and was more heterogeneous in time and space than the free-living community. The temporal dynamics of the community structure were generally higher in isolated floodplain pools. The community structures of the river and the various floodplain pools, as well as those of the particle-associated and free-living bacteria, differed significantly. The compositional dynamics of the planktonic bacterial communities were related to changes in the algal biomass, temperature, and concentrations of organic and inorganic nutrients. The OTU richness of the free-living community was correlated with the concentration and origin of organic matter and the concentration of inorganic nutrients, while no correlation with the OTU richness of the particle-associated assemblage was found. Our results demonstrate the importance of the river-floodplain interactions and the influence of damming and regulation on the bacterial-community composition.

scholarly journals Bacterial communities associated with individual transparent exopolymer particles (TEP)

2019 ◽  
Vol 41 (4) ◽  
pp. 561-565 ◽  
Author(s):  
Birthe Zäncker ◽  
Anja Engel ◽  
Michael Cunliffe
Keyword(s):  
Organic Matter ◽  
Bacterial Community ◽  
Dna Sequencing ◽  
Bacterial Communities ◽  
Bacterial Community Composition ◽  
Euphotic Zone ◽  
Carbon Export ◽  
Transparent Exopolymer Particles ◽  
Operational Taxonomic Units ◽  
Insight Into

Abstract Transparent exopolymer particles (TEP) are polysaccharide-rich microgels that are prevalent in the marine environment and have important roles in the aggregation of organic matter and carbon export from the euphotic zone. TEP are readily colonized by bacteria and utilized by specialized taxa, such as Alteromonadaceae. However, bacterial community composition specifically attached to natural TEP remains largely unknown. In this study, we isolated individual TEP from Plymouth Sound (UK) and performed DNA sequencing of the TEP-attached bacterial communities. We also sampled the cognate bulk seawater total bacterial communities for comparison. The bacterial communities associated with individual TEP showed distinct differences compared to the total bulk bacterioplankton communities, with Alteromonadaceae significantly more abundant on TEP. The TEP-associated Alteromonadaceae consisted of two operational taxonomic units that were closely related to Marinobacter and Glaciecola, both previously associated with biogenic aggregates and microgel-rich habitats. This study provides novel insight into marine bacterial–microgel interactions.

scholarly journals Small tropical islands with dense human population: Differences in water quality of near-shore waters are associated with distinct bacterial communities

2018 ◽  
Author(s):  
Hauke Kegler ◽  
Christiane Hassenrueck ◽  
Pia Kegler ◽  
Tim C Jennerjahn ◽  
Muhammad Lukman ◽  
...  
Keyword(s):  
Water Quality ◽  
Organic Matter ◽  
Coral Reef ◽  
Bacterial Community ◽  
Water Column ◽  
Community Composition ◽  
Bacterial Communities ◽  
Bacterial Community Composition ◽  
Back Reef ◽  
Anthropogenic Inputs

Water quality deterioration caused by an enrichment in inorganic and organic matter due to anthropogenic inputs is one of the major local threats to coral reefs in Indonesia. However, even though bacteria are important mediators in coral reef ecosystems, little is known about the response of individual taxa and whole bacterial communities to these anthropogenic inputs. The present study is the first to investigate how bacterial community composition responds to small-scale changes in water quality in several coral reef habitats of the Spermonde Archipelago including the water column, particles and back reef sediments, on a densely populated and an uninhabited island. The main aims were to elucidate if a) water quality indicators and organic matter concentrations differ between the uninhabited and the densely populated island of the archipelago, and b) if there are differences in bacterial community composition in back-reef sediments and in the water column, which are associated with differences in water quality. Several key water quality parameters, such as inorganic nitrate and phosphate, chlorophyll a, and transparent exopolymer particles (TEP) were significantly higher at the inhabited than at the uninhabited island. Bacterial communities in sediments and particle attached communities were significantly different between the two islands with bacterial taxa commonly associated with nutrient and organic matter rich conditions occurring in higher proportions at the inhabited island. Within the individual reef habitats, variations in bacterial community composition between the islands are associated with differences in water quality. We also observed that copiotrophic, opportunistic bacterial taxa were enriched at the inhabited island with its higher chlorophyll a, dissolved organic carbon (DOC) and TEP concentrations. Given the increasing strain on tropical coastal ecosystems, this study suggests that effluents from densely populated islands lacking sewage treatment can alter bacterial communities that may be important for coral reef ecosystem function.

scholarly journals Sustainability of Urban Soil Management: Analysis of Soil Physicochemical Properties and Bacterial Community Structure under Different Green Space Types

2019 ◽  
Vol 11 (5) ◽  
pp. 1395 ◽  
Author(s):  
Junda Zhang ◽  
Suyan Li ◽  
Xiangyang Sun ◽  
Jing Tong ◽  
Zhen Fu ◽  
...  
Keyword(s):  
Organic Matter ◽  
Soil Moisture ◽  
Soil Organic Matter ◽  
Bacterial Community ◽  
Physicochemical Properties ◽  
Total Nitrogen ◽  
Bacterial Communities ◽  
Green Space ◽  
Soil Physicochemical Properties ◽  
Soil Bacterial Communities

Soil bacterial communities play a key role in nutrient cycling and ecosystem functioning. This study aims to reveal how green space type impacts soil quality and the bacterial community, which finally contributes to suggesting strategies for managing sustainable environments in urban areas. For this purpose, urban green space soils in this study are divided into four different types; park green space (PARK), street green space (STREET), attached green space (ATTACH) and residential green space (RESID). Results showed that significant differences were observed for soil physicochemical properties. Soil organic matter, total nitrogen, soil moisture content and available nitrogen in the ATTACH and PARK soils were significantly higher than in the STREET and RESID soils. Across the four green space types, the structure of bacterial communities was dominated by Proteobacteria, Actinobacteria and Chloroflexi at the phylum level. The diversity and richness of bacteria were significantly higher in the PARK and ATTACH soils than in the RESID and STREET soils. Results of principal component analysis (PCoA) showed that soil bacterial communities could be clustered into four different groups according to different green space types. In addition, analysis of similarities (ANOSIM) also implied that soil samples differed significantly from others. Redundancy analysis (RDA) and Spearman correlation analysis both showed that the contents of soil organic matter, total nitrogen, soil moisture and pH had great influence on the structures of bacterial communities. In summary, these results suggest that soil physicochemical properties and bacterial communities can be strongly affected by green space types, and thus, objective assessment of a particular measure can be provided to land managers and policy makers for informed decision-making in urban development and sustainability.

scholarly journals Compost as an Option for Sustainable Crop Production at Low Stocking Rates in Organic Farming

Agronomy ◽  
2021 ◽  
Vol 11 (6) ◽  
pp. 1078
Author(s):  
Christopher Brock ◽  
Meike Oltmanns ◽  
Christoph Matthes ◽  
Ben Schmehe ◽  
Harald Schaaf ◽  
...  
Keyword(s):  
Organic Matter ◽  
Soil Organic Matter ◽  
Organic Farming ◽  
Crop Production ◽  
Potassium Sulfate ◽  
Control Treatment ◽  
Stocking Rate ◽  
Internal Resources ◽  
Compost Application ◽  
Stocking Rates

Mixed-crop-livestock farms offer the best conditions for sustainable nutrient management in organic farming. However, if stocking rates are too low, sustainability might be threatened. Therefore, we studied the development of soil organic matter and nutrients as well as crop yields over the first course of a new long-term field experiment with a mimicked cattle stocking rate of 0.6 LU ha−1, which is the actual average stocking rate for organic farms in Germany. In the experiment, we tested the effects of additional compost application to improve organic matter supply to soils, and further, potassium sulfate fertilization for an improved nutrition of fodder legumes. Compost was made from internal resources of the farm (woody material from hedge-cutting). Soil organic matter and nutrient stocks decreased in the control treatment, even though yield levels, and thus nutrient exports, were comparably low. With compost application, soil organic matter and nutrient exports could be compensated for. At the same time, the yields increased but stayed at a moderate level. Potassium sulfate fertilization further improved N yields. We conclude that compost from internal resources is a viable solution to facilitate sustainable organic crop production at low stocking rates. However, we are aware that this option does not solve the basic problem of open nutrient cycles on the farm gate level.

scholarly journals Pyrosequencing-Based Assessment of Soil pH as a Predictor of Soil Bacterial Community Structure at the Continental Scale

2009 ◽  
Vol 75 (15) ◽  
pp. 5111-5120 ◽  
Author(s):  
Christian L. Lauber ◽  
Micah Hamady ◽  
Rob Knight ◽  
Noah Fierer
Keyword(s):  
Bacterial Community ◽  
Soil Ph ◽  
Bacterial Communities ◽  
Bacterial Community Structure ◽  
Spatial Scales ◽  
Bacterial Community Composition ◽  
Phylogenetic Structure ◽  
Soil Bacterial Communities ◽  
Soil Bacterial Community Structure ◽  
Soil Bacterial

ABSTRACT Soils harbor enormously diverse bacterial populations, and soil bacterial communities can vary greatly in composition across space. However, our understanding of the specific changes in soil bacterial community structure that occur across larger spatial scales is limited because most previous work has focused on either surveying a relatively small number of soils in detail or analyzing a larger number of soils with techniques that provide little detail about the phylogenetic structure of the bacterial communities. Here we used a bar-coded pyrosequencing technique to characterize bacterial communities in 88 soils from across North and South America, obtaining an average of 1,501 sequences per soil. We found that overall bacterial community composition, as measured by pairwise UniFrac distances, was significantly correlated with differences in soil pH (r = 0.79), largely driven by changes in the relative abundances of Acidobacteria, Actinobacteria, and Bacteroidetes across the range of soil pHs. In addition, soil pH explains a significant portion of the variability associated with observed changes in the phylogenetic structure within each dominant lineage. The overall phylogenetic diversity of the bacterial communities was also correlated with soil pH (R2 = 0.50), with peak diversity in soils with near-neutral pHs. Together, these results suggest that the structure of soil bacterial communities is predictable, to some degree, across larger spatial scales, and the effect of soil pH on bacterial community composition is evident at even relatively coarse levels of taxonomic resolution.

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