scholarly journals Glyphosate residues alter the microbiota of a perennial weed with a minimal indirect impact on plant performance

2021 ◽  
Author(s):  
S. Ramula ◽  
S. A. Mathew ◽  
A. Kalske ◽  
R. Nissinen ◽  
K. Saikkonen ◽  
...  
Keyword(s):  
Bacterial Communities ◽  
Soil Phosphorus ◽  
Common Garden ◽  
Plant Performance ◽  
Minor Effect ◽  
Nitrogen Fixing ◽  
Lupinus Polyphyllus ◽  
Perennial Weed ◽  
And Performance ◽  
Bacteria And Fungi

Abstract Purpose In cold climates, glyphosate residues may linger in soils, with effects on plant–microbe interactions and, consequently, plant performance. Here, we explore the influence of glyphosate residues on the endophytic microbiota (bacteria and fungi) and performance of the perennial nitrogen-fixing weed Lupinus polyphyllus. Methods In a common garden, we grew plants from six populations of L. polyphyllus in glyphosate-treated or untreated control soils, with or without additional phosphorus. We sampled plant microbiota (leaves, roots, nodules) and assessed plant performance based on six traits: height, retrogression probability (i.e. shrinkage), biomass, root:shoot ratio, nodule number, and nodule viability. Results The richness of plant endophytic microbial communities was determined by soil phosphorus level rather than by glyphosate treatment. However, for bacteria, the composition of these communities differed between glyphosate-treated and control soils across plant tissue types; no difference was observed for fungi. The plant bacterial communities in both soil types were dominated by potential nitrogen-fixing bacteria belonging to family Bradyrhizobiaceae, and particularly so in glyphosate-treated soils. Overall, though, these changes in plant bacterial communities had a minor effect on plant performance: the only difference we detected was that the probability of retrogression was occasionally higher in glyphosate-treated soils than in control soils. Conclusion Our findings indicate that glyphosate-based herbicides, when applied at the recommended frequency and concentration, may not have critical effects on the growth of short-lived weeds after the safety period has passed; however, the endophytic microbiota of such weeds may experience longer-lasting shifts in community structure.

Can soil phosphorus availability in tropical forest systems be increased by nitrogen-fixing leguminous trees?

2020 ◽  
Vol 712 ◽  
pp. 136405 ◽  
Author(s):  
Seldon Aleixo ◽  
Antonio Carlos Gama-Rodrigues ◽  
Emanuela Forestieri Gama-Rodrigues ◽  
Eduardo Francia Carneiro Campello ◽  
Erika Caitano Silva ◽  
...  
Keyword(s):  
Tropical Forest ◽  
Soil Phosphorus ◽  
Phosphorus Availability ◽  
Nitrogen Fixing ◽  
Leguminous Trees

scholarly journals No Evidence of an Impact on the Rhizosphere Diazotroph Community by the Expression of Bacillus thuringiensis Cry1Ab Toxin by Bt White Spruce

2007 ◽  
Vol 73 (20) ◽  
pp. 6577-6583 ◽  
Author(s):  
Josyanne Lamarche ◽  
Richard C. Hamelin
Keyword(s):  
Bacillus Thuringiensis ◽  
Bacterial Communities ◽  
White Spruce ◽  
Sequencing Analysis ◽  
Nitrogen Fixing ◽  
Cloning And Sequencing ◽  
Insecticidal Toxin ◽  
Soil Bacterial Communities ◽  
Cry1ab Toxin ◽  
Natural Stands

ABSTRACT Nitrogen fixation is one of the most important roles played by soil bacterial communities, as fixation supplies nitrogen to many ecosystems which are often N limited. As impacts on this functional group of bacteria might harm the ecosystem's health and reduce productivity, monitoring that particular group is important. Recently, a field trial with Bt white spruce, which constitutively expresses the Cry1Ab insecticidal toxin of Bacillus thuringiensis, was established. The Bt white spruce was shown to be resistant to spruce budworm. We investigated the possible impact of these genetically modified trees on soil nitrogen-fixing bacterial communities. The trial consisted of untransformed controls, GUS white spruce (transformed with the β-glucuronidase gene), and Bt/GUS white spruce (which constitutively expresses both the Cry1Ab toxin and β-glucuronidase) in a random design. Four years after planting, soil samples from the control and the two treatments from plantation as well as from two natural stands of white spruce were collected. Diazotroph diversity was assessed by extracting soil genomic DNA and amplifying a region of the nitrogenase reductase (nifH) gene, followed by cloning and sequencing. Analysis revealed that nitrogen-fixing communities did not differ significantly among the untransformed control, GUS white spruce, and Bt/GUS white spruce. Nevertheless, differences in diazotroph diversity were observed between white spruce trees from the plantation site and those from two natural stands, one of which grew only a few meters away from the plantation. We therefore conclude, in the absence of evidence that the presence of the B. thuringiensis cry1Ab gene had an effect on diazotroph communities, that either site and/or field preparation prior to planting seems to be more important in determining diazotroph community structure than the presence of Bt white spruce.

scholarly journals Changes in Nitrogen-Fixing and Ammonia-Oxidizing Bacterial Communities in Soil of a Mixed Conifer Forest after Wildfire

2005 ◽  
Vol 71 (5) ◽  
pp. 2713-2722 ◽  
Author(s):  
Chris M. Yeager ◽  
Diana E. Northup ◽  
Christy C. Grow ◽  
Susan M. Barns ◽  
Cheryl R. Kuske
Keyword(s):  
Bacterial Communities ◽  
Fragment Length Polymorphism ◽  
Rflp Analysis ◽  
Ammonia Oxidizing Bacteria ◽  
Nitrogen Fixing ◽  
Conifer Forest ◽  
Mixed Conifer ◽  
Mixed Conifer Forest ◽  
In Fire ◽  
Sequence Types

ABSTRACT This study was undertaken to examine the effects of forest fire on two important groups of N-cycling bacteria in soil, the nitrogen-fixing and ammonia-oxidizing bacteria. Sequence and terminal restriction fragment length polymorphism (T-RFLP) analysis of nifH and amoA PCR amplicons was performed on DNA samples from unburned, moderately burned, and severely burned soils of a mixed conifer forest. PCR results indicated that the soil biomass and proportion of nitrogen-fixing and ammonia-oxidizing species was less in soil from the fire-impacted sites than from the unburned sites. The number of dominant nifH sequence types was greater in fire-impacted soils, and nifH sequences that were most closely related to those from the spore-forming taxa Clostridium and Paenibacillus were more abundant in the burned soils. In T-RFLP patterns of the ammonia-oxidizing community, terminal restriction fragments (TRFs) representing amoA cluster 1, 2, or 4 Nitrosospira spp. were dominant (80 to 90%) in unburned soils, while TRFs representing amoA cluster 3A Nitrosospira spp. dominated (65 to 95%) in fire-impacted soils. The dominance of amoA cluster 3A Nitrosospira spp. sequence types was positively correlated with soil pH (5.6 to 7.5) and NH3-N levels (0.002 to 0.976 ppm), both of which were higher in burned soils. The decreased microbial biomass and shift in nitrogen-fixing and ammonia-oxidizing communities were still evident in fire-impacted soils collected 14 months after the fire.

scholarly journals High diversity of nitrogen-fixing bacteria in the upper reaches of the Heihe River, northwestern China

2013 ◽  
Vol 10 (8) ◽  
pp. 5589-5600 ◽  
Author(s):  
X. S. Tai ◽  
W. L. Mao ◽  
G. X. Liu ◽  
T. Chen ◽  
W. Zhang ◽  
...  
Keyword(s):  
Water Conservation ◽  
Bacterial Communities ◽  
Nifh Gene ◽  
Qilian Mountains ◽  
Northwestern China ◽  
Heihe River ◽  
Meadow Soil ◽  
Nitrogen Fixing ◽  
Nitrogen Fixing Bacteria ◽  
Gene Copies

Abstract. Vegetation plays a key role in water conservation in the southern Qilian Mountains (northwestern China), located in the upper reaches of the Heihe River. Nitrogen-fixing bacteria are crucial for the protection of the nitrogen supply for vegetation in the region. In the present study, nifH gene clone libraries were established to determine differences between the nitrogen-fixing bacterial communities of the Potentilla parvifolia shrubland and the Carex alrofusca meadow in the southern Qilian Mountains. All of the identified nitrogen-fixing bacterial clones belonged to the Proteobacteria. At the genus level, Azospirillum was only detected in the shrubland soil, while Thiocapsa, Derxia, Ectothiorhodospira, Mesorhizobium, Klebsiella, Ensifer, Methylocella and Pseudomonas were only detected in the meadow soil. The phylogenetic tree was divided into five lineages: lineages I, II and III mainly contained nifH sequences obtained from the meadow soils, while lineage IV was mainly composed of nifH sequences obtained from the shrubland soils. The Shannon–Wiener index of the nifH genes ranged from 1.5 to 2.8 and was higher in the meadow soils than in the shrubland soils. Based on these analyses of diversity and phylogeny, the plant species were hypothesised to influence N cycling by enhancing the fitness of certain nitrogen-fixing taxa. The number of nifH gene copies and colony-forming units (CFUs) of the cultured nitrogen-fixing bacteria were lower in the meadow soils than in the shrubland soils, ranging from 0.4 × 107 to 6.9 × 107 copies g−1 soil and 0.97 × 106 to 12.78 × 106 g−1 soil, respectively. Redundancy analysis (RDA) revealed that the diversity and number of the nifH gene copies were primarily correlated with aboveground biomass in the shrubland soil. In the meadow soil, nifH gene diversity was most affected by altitude, while copy number was most impacted by soil-available K. These results suggest that the nitrogen-fixing bacterial communities beneath Potentilla were different from those beneath Carex.

Glucose-induced changes in the bacterial communities of mine tailings at different acidification stages

2019 ◽  
Vol 65 (3) ◽  
pp. 201-213
Author(s):  
Yang Li ◽  
Zhaojun Wu ◽  
Xingchen Dong ◽  
Dongmei Wang ◽  
Huizhen Qiu ◽  
...  
Keyword(s):  
Organic Carbon ◽  
Microbial Activity ◽  
Total Nitrogen ◽  
Mine Tailings ◽  
Bacterial Communities ◽  
High Throughput Sequencing ◽  
Nitrogen Fixing ◽  
Maximum Increase ◽  
Glucose Addition ◽  
Community Growth

Ecological restoration technologies applied to tailings can influence the associated bacterial communities. However, it is unknown if the shifts in these bacterial communities are caused by increased organic carbon. Glucose-induced respiration and high-throughput sequencing were used to assess the microbial activity and bacterial communities, respectively. Glucose addition increased the microbial activity, and glucose + ammonium nitrate addition resulted in slightly higher CO2 emission than did glucose addition alone, suggesting that carbon and nitrogen limited microbial community growth. In neutral pH tailings, the bacterial taxa that increased by glucose addition were assigned to the phyla Proteobacteria, Acidobacteria, Actinobacteria, Bacteroidetes, Firmicutes, and Planctomycetes. However, the bacterial taxa that increased by glucose addition in acidic tailings only belonged to the phylum Actinobacteria (maximum increase of 43.78%). In addition, the abundances of the total nitrogen-fixing genera and of the genus Arthrobacter (representing approximately 97.89% of the total nitrogen-fixing genera) increased by glucose addition in acidic tailings (maximum increase of 46.98%). In contrast, the relative abundances of the total iron- and (or) sulfur-oxidizing bacteria decreased (maximum decrease of 10.41%) in response to the addition of glucose. These findings indicate that the addition of organic carbon is beneficial to the development of bacterial communities in mine tailings.

scholarly journals Agricultural intensification reduces microbial network complexity and the abundance of keystone taxa in roots

2018 ◽  
Author(s):  
Samiran Banerjee ◽  
Florian Walder ◽  
Lucie Büchi ◽  
Marcel Meyer ◽  
Alain Y. Held ◽  
...  
Keyword(s):  
Organic Farming ◽  
Mycorrhizal Fungi ◽  
Agricultural Intensification ◽  
Soil Phosphorus ◽  
Farming Systems ◽  
Wheat Root ◽  
Plant Performance ◽  
No Till ◽  
The Impact ◽  
Root Microbiota

AbstractRoot-associated microbes play a key role in plant performance and productivity, making them important players in agroecosystems. So far, very few studies have assessed the impact of different farming systems on the root microbiota and it is still unclear whether agricultural intensification influences network complexity of microbial communities. We investigated the impact of conventional, no-till and organic farming on wheat root fungal communities usingPacBio SMRT sequencingon samples collected from 60 farmlands in Switzerland. Organic farming harboured a much more complex fungal network than conventional and no-till farming systems. The abundance of keystone taxa was the highest under organic farming where agricultural intensification was the lowest. The occurrence of keystone taxa was best explained by soil phosphorus levels, bulk density, pH and mycorrhizal colonization. The majority of keystone taxa are known to form arbuscular mycorrhizal associations with plants and belong to the ordersGlomerales,Paraglomerales, andDiversisporales. Supporting this, the abundance of mycorrhizal fungi in roots and soils was also significantly higher under organic farming. To our knowledge, this is the first study to report mycorrhizal keystone taxa for agroecosystems, and we demonstrate that agricultural intensification reduces network complexity and the abundance of keystone taxa in the root microbiota.

scholarly journals Topological and Metagenomic Evidence For Intensified Bacterial-Fungal Interactions in Mangrove Root Interior

2021 ◽  
Author(s):  
Zhengyuan Zhou ◽  
Ruiwen Hu ◽  
Yanmei Ni ◽  
Wei Zhuang ◽  
Zhiwen Luo ◽  
...  
Keyword(s):  
Plant Performance ◽  
Sequencing Technologies ◽  
Mangrove Root ◽  
Domain Interactions ◽  
Network Topologies ◽  
Mangrove Roots ◽  
Metagenome Sequencing ◽  
Underlying Mechanisms ◽  
Bacteria And Fungi ◽  
Fungal Interactions

Abstract Background: Plant roots host a repertoire of bacteria and fungi, whose ecological interactions could improve their functions and plant performance. However, potential interactions and underlying mechanisms remain largely unknown in root-associated microbial communities at a continuous fine-scale. Results: We analyzed microbial intra- and inter-domain network topologies, keystone taxa, and interaction-related genes across four compartments (non-rhizosphere, rhizosphere, episphere and endosphere) from a soil-mangrove root continuum, using amplicon and metagenome sequencing technologies. We found that both intra- and inter-domain networks displayed notable differences in the structure and topology across four compartments. Compared to three peripheral compartments, the endosphere was a distinctive compartment with more intensive interactions in bacterial-fungal network than in bacterial or fungal network, which could be related to three bacterial keystone taxa (Vibrio, Anaerolineae and Desulfarculaceae) detected in the endosphere as they are known to intensify inter-domain interactions with fungi and stimulate biofilm formation. Also, high abundances of genes involved in cell-cell communications by quorum sensing (rhlI, lasI, pqsH and lasR) and aerobic cobamide biosynthesis (cobG, cobF and cobA) were detected in the endosphere.Conclusions: Our results reveal intensified inter-domain interactions of endophytes in the mangrove roots, creating a distinct micro-environment to promote a biofilm life-style.

scholarly journals Yield and performance of sugarcane in on-farm interface with rubber in Brazil

2006 ◽  
Vol 41 (2) ◽  
pp. 251-255
Author(s):  
Luís Fernando Guedes Pinto ◽  
Marcos Silveira Bernardes ◽  
Antônio Roberto Pereira
Keyword(s):  
Crop Yield ◽  
Dry Matter ◽  
Field Experiments ◽  
Management Strategies ◽  
Saccharum Officinarum ◽  
Agroforestry Systems ◽  
Plant Performance ◽  
Matter Production ◽  
And Performance ◽  
On Farm

Agroforestry systems are indicated as an alternative for sugarcane (Saccharum officinarum) cultivation in Piracicaba, SP, Brazil, however there are not many field experiments on plant performance under these conditions in the world. The objective of this work was to assess crop yield and partitioning in a sugarcane-rubber (Hevea brasiliensis) interface in on-farm conditions. The availability of irradiance for the crop along the interface was simulated and its effe ct over sugarcane dry matter production was tested. Crop yield was negatively affected by distance of the trees, but development and sucrose were not affected. Above ground dry matter increased from 16.6 to 51.5 t ha-1 from trees. Partitioning did not have a defined standard, as harvest index increased from 0.85 to 0.93, but specific leaf area was not significant along the transect, ranging from 13.48 to 15.73 m² kg-1. Light is the main factor of competition between the trees and the crop, but the relative importance of below ground interactions increases closer to the trees. Feasibility of the system depends on maturity of the trees and management strategies.

Decadal-scale decoupling of soil phosphorus and molybdenum cycles by temperate nitrogen-fixing trees

2020 ◽  
Vol 149 (3) ◽  
pp. 355-371
Author(s):  
Katherine A. Dynarski ◽  
Julie C. Pett-Ridge ◽  
Steven S. Perakis
Keyword(s):  
Soil Phosphorus ◽  
Nitrogen Fixing ◽  
Decadal Scale ◽  
Nitrogen Fixing Trees

scholarly journals Nitrogen-Fixing Bacteria Associated with Peltigera Cyanolichens and Cladonia Chlorolichens

Molecules ◽  
2018 ◽  
Vol 23 (12) ◽  
pp. 3077 ◽  
Author(s):  
Katerin Almendras ◽  
Jaime García ◽  
Margarita Carú ◽  
Julieta Orlando
Keyword(s):  
Bacterial Communities ◽  
Fragment Length Polymorphism ◽  
Multivariate Analyses ◽  
Nifh Gene ◽  
Shannon Index ◽  
Nitrogen Fixing ◽  
Nitrogen Fixing Bacteria ◽  
Symbiotic Interaction ◽  
Different Types ◽  
Terricolous Lichens

Lichens have been extensively studied and described; however, recent evidence suggests that members of the bacterial community associated with them could contribute new functions to the symbiotic interaction. In this work, we compare the nitrogen-fixing guild associated with bipartite terricolous lichens with different types of photobiont: Peltigera cyanolichens and Cladonia chlorolichens. Since cyanobacteria contribute nitrogen to the symbiosis, we propose that chlorolichens have more diverse bacteria with the ability to fix nitrogen compared to cyanolichens. In addition, since part of these bacteria could be recruited from the substrate where lichens grow, we propose that thalli and substrates share some bacteria in common. The structure of the nitrogen-fixing guild in the lichen and substrate bacterial communities of both lichens was determined by terminal restriction fragment length polymorphism (TRFLP) of the nifH gene. Multivariate analyses showed that the nitrogen-fixing bacteria associated with both types of lichen were distinguishable from those present in their substrates. Likewise, the structure of the nitrogen-fixing bacteria present in the cyanolichens was different from that of chlorolichens. Finally, the diversity of this bacterial guild calculated using the Shannon index confirms the hypothesis that chlorolichens have a higher diversity of nitrogen-fixing bacteria than cyanolichens.

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