scholarly journals Bacterial Number and Genetic Diversity in a Permafrost Peatland (Western Siberia): Testing a Link with Organic Matter Quality and Elementary Composition of a Peat Soil Profile

Diversity ◽  
2021 ◽  
Vol 13 (7) ◽  
pp. 328
Author(s):  
Andrey S. Aksenov ◽  
Liudmila S. Shirokova ◽  
Oksana Ya. Kisil ◽  
Sofiia N. Kolesova ◽  
Artem G. Lim ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Organic Matter ◽  
Chemical Composition ◽  
16S Rrna ◽  
Western Siberia ◽  
Microbial Population ◽  
Peat Soil ◽  
Organic Matter Quality ◽  
Mineral Horizon ◽  
Microbial Number

Permafrost peatlands, containing a sizable amount of soil organic carbon (OC), play a pivotal role in soil (peat) OC transformation into soluble and volatile forms and greatly contribute to overall natural CO2 and CH4 emissions to the atmosphere under ongoing permafrost thaw and soil OC degradation. Peat microorganisms are largely responsible for the processing of this OC, yet coupled studies of chemical and bacterial parameters in permafrost peatlands are rather limited and geographically biased. Towards testing the possible impact of peat and peat pore water chemical composition on microbial population and diversity, here we present results of a preliminary study of the western Siberia permafrost peatland discontinuous permafrost zone. The quantitative evaluation of microorganisms and determination of microbial diversity along a 100 cm thick peat soil column, which included thawed and frozen peat and bottom mineral horizon, was performed by RT-PCR and 16S rRNA gene-based metagenomic analysis, respectively. Bacteria (mainly Proteobacteria, Acidobacteria, Actinobacteria) strongly dominated the microbial diversity (99% sequences), with a negligible proportion of archaea (0.3–0.5%). There was a systematic evolution of main taxa according to depth, with a maximum of 65% (Acidobacteria) encountered in the active layer, or permafrost boundary (50–60 cm). We also measured C, N, nutrients and ~50 major and trace elements in peat (19 samples) as well as its pore water and dispersed ice (10 samples), sampled over the same core, and we analyzed organic matter quality in six organic and one mineral horizon of this core. Using multiparametric statistics (PCA), we tested the links between the total microbial number and 16S rRNA diversity and chemical composition of both the solid and fluid phase harboring the microorganisms. Under climate warming and permafrost thaw, one can expect a downward movement of the layer of maximal genetic diversity following the active layer thickening. Given a one to two orders of magnitude higher microbial number in the upper (thawed) layers compared to bottom (frozen) layers, an additional 50 cm of peat thawing in western Siberia may sizably increase the total microbial population and biodiversity of active cells.

Changes in soil quality following humping/hollowing and flipping of pakihi soils on the West Coast, South Island New Zealand

2007 ◽  
pp. 265-270 ◽  
Author(s):  
S.M. Thomas ◽  
M.H.Beare C.D. Ford ◽  
V. Rietveld
Keyword(s):  
Organic Matter ◽  
Soil Quality ◽  
West Coast ◽  
Land Development ◽  
Hot Water ◽  
Limited Information ◽  
The West ◽  
Organic Matter Quality ◽  
Pasture Production ◽  
Soil C

Humping/hollowing and flipping are land development practices widely used on the West Coast to overcome waterlogging constraints to pasture production. However, there is very limited information about how the resulting "new" soils function and how their properties change over time following these extreme modifications. We hypothesised that soil quality will improve in response to organic matter inputs from plants and excreta, which will in turn increase nutrient availability. We tested this hypothesis by quantifying the soil organic matter and nutrient content of soils at different stages of development after modification. We observed improvements in soil quality with increasing time following soil modification under both land development practices. Total soil C and N values were very low following flipping, but over 8 years these values had increased nearly five-fold. Other indicators of organic matter quality such as hot water extractable C (HWC) and anaerobically mineralisable N (AMN) showed similar increases. With large capital applications of superphosphate fertiliser to flipped soils in the first year and regular applications of maintenance fertiliser, Olsen P levels also increased from values

Genetic diversity and phylogeny of Pseudocardium sachalinense based on COI and 16S rRNA barcoding

2018 ◽  
Vol 25 (4) ◽  
pp. 891
Author(s):  
Mingyuan SUN ◽  
Rui ZHU ◽  
Xiaoqing SUN ◽  
Yan ZHANG ◽  
Shangqi LI ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
16S Rrna

scholarly journals Impacts of long-term plant residue management on soil organic matter quality, Pseudomonas community structure and disease suppressiveness

2019 ◽  
Vol 135 ◽  
pp. 396-406 ◽  
Author(s):  
Bryony E.A. Dignam ◽  
Maureen O'Callaghan ◽  
Leo M. Condron ◽  
Jos M. Raaijmakers ◽  
George A. Kowalchuk ◽  
...  
Keyword(s):  
Organic Matter ◽  
Community Structure ◽  
Soil Organic Matter ◽  
Residue Management ◽  
Plant Residue ◽  
Organic Matter Quality ◽  
Soil Organic Matter Quality

scholarly journals Assessment of Genetic Diversity and Symbiotic Efficiency of Selected Rhizobia Strains Nodulating Lentil (Lens culinaris Medik.)

Plants ◽  
2020 ◽  
Vol 10 (1) ◽  
pp. 15
Author(s):  
Badreddine Sijilmassi ◽  
Abdelkarim Filali-Maltouf ◽  
Hassan Boulahyaoui ◽  
Aymane Kricha ◽  
Kenza Boubekri ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Phylogenetic Analysis ◽  
16S Rrna ◽  
Rhizobium Leguminosarum ◽  
Sequence Similarity ◽  
P Value ◽  
Rrna Gene ◽  
Research Station ◽  
Symbiotic Efficiency ◽  
Rhizobium Strains

A total of 14 Rhizobium strains were isolated from lentil accessions grown at the ICARDA experimental research station at Marchouch in Morocco and used for molecular characterization and symbiotic efficiency assessment. Individual phylogenetic analysis using the 16S rRNA gene, house-keeping genes rpoB, recA, and gyrB, and symbiotic genes nodD and nodA along with Multilocus Sequence Analysis (MLSA) of the concatenated genes (16S rRNA-rpoB-recA-gyrB) was carried out for the identification and clustering of the isolates. The symbiotic efficiency of the strains was assessed on three Moroccan lentil cultivars (Bakria, Chakkouf, and Zaria) based on the number of nodules, plant height, plant dry weight, and total nitrogen content in leaves. The results showed that the individual phylogenetic analysis clustered all the strains into Rhizobium laguerreae and Rhizobium leguminosarum with sequence similarity ranging from 94 to 100%, except one strain which clustered with Mesorhizobium huakuii with sequence similarity of 100%. The MLSA of the concatenated genes and the related percentages of similarity clustered these strains into two groups of Rhizobium species, with one strain as a new genospecies when applying the threshold of 96%. For symbiotic efficiency, the Bakria variety showed the best association with 10 strains compared to its non-inoculated control (p-value ≤ 0.05), followed by Chakkouf and Zaria. The present study concluded that the genetic diversity and the symbiotic efficiency of Rhizobium strains appeared to be mainly under the control of the lentil genotypes.

Chemical composition of cover crops and soil organic matter pools in no‐tillage systems in the Cerrado

2021 ◽  
Author(s):  
Arminda Moreira de Carvalho ◽  
Luana Ramos Passos Ribeiro ◽  
Robélio Leandro Marchão ◽  
Alexsandra Duarte de Oliveira ◽  
Karina Pulrolnik ◽  
...  
Keyword(s):  
Organic Matter ◽  
Chemical Composition ◽  
Soil Organic Matter ◽  
Cover Crops ◽  
No Tillage ◽  
Tillage Systems

scholarly journals Particle export fluxes to the oxygen minimum zone of the eastern tropical North Atlantic

2017 ◽  
Vol 14 (7) ◽  
pp. 1825-1838 ◽  
Author(s):  
Anja Engel ◽  
Hannes Wagner ◽  
Frédéric A. C. Le Moigne ◽  
Samuel T. Wilson
Keyword(s):  
Organic Matter ◽  
North Atlantic ◽  
Organic Phosphorus ◽  
Euphotic Zone ◽  
Carbon Export ◽  
Organic Matter Quality ◽  
B Values ◽  
Chl A ◽  
Tropical North Atlantic ◽  
Particle Export

Abstract. In the ocean, sinking of particulate organic matter (POM) drives carbon export from the euphotic zone and supplies nutrition to mesopelagic communities, the feeding and degradation activities of which in turn lead to export flux attenuation. Oxygen (O2) minimum zones (OMZs) with suboxic water layers (< 5 µmol O2 kg−1) show a lower carbon flux attenuation compared to well-oxygenated waters (> 100 µmol O2 kg−1), supposedly due to reduced heterotrophic activity. This study focuses on sinking particle fluxes through hypoxic mesopelagic waters (< 60 µmol O2 kg−1); these represent  ∼  100 times more ocean volume globally compared to suboxic waters, but they have less been studied. Particle export fluxes and attenuation coefficients were determined in the eastern tropical North Atlantic (ETNA) using two surface-tethered drifting sediment trap arrays with seven trapping depths located between 100 and 600 m. Data on particulate matter fluxes were fitted to the normalized power function Fz =  F100 (z∕100)−b, with F100 being the flux at a depth (z) of 100 m and b being the attenuation coefficient. Higher b values suggest stronger flux attenuation and are influenced by factors such as faster degradation at higher temperatures. In this study, b values of organic carbon fluxes varied between 0.74 and 0.80 and were in the intermediate range of previous reports, but lower than expected from seawater temperatures within the upper 500 m. During this study, highest b values were determined for fluxes of particulate hydrolyzable amino acids (PHAA), followed by particulate organic phosphorus (POP), nitrogen (PN), carbon (POC), chlorophyll a (Chl a) and transparent exopolymer particles (TEP), pointing to a sequential degradation of organic matter components during sinking. Our study suggests that in addition to O2 concentration, organic matter composition co-determines transfer efficiency through the mesopelagic. The magnitude of future carbon export fluxes may therefore also depend on how organic matter quality in the surface ocean changes under influence of warming, acidification and enhanced stratification.

scholarly journals Clonal analysis of the serogroup B meningococci causing New Zealand's epidemic

2005 ◽  
Vol 134 (2) ◽  
pp. 377-383 ◽  
Author(s):  
K. H. DYET ◽  
D. R. MARTIN
Keyword(s):  
Genetic Diversity ◽  
New Zealand ◽  
16S Rrna ◽  
Meningococcal Disease ◽  
Common Ancestor ◽  
Clonal Complex ◽  
Clonal Analysis ◽  
The Other ◽  
Disease Rates ◽  
Sequence Types

An epidemic of meningococcal disease caused by serogroup B meningococci expressing the P1.7-2,4 PorA protein began in New Zealand in 1991. The PorA type has remained stable. Different porB have been found in association with the P1.7-2,4 PorA, although type 4 has been most common. The clonal origins of B:P1.7-2,4 meningococci isolated from cases during 1990 to the end of 2003 were analysed. In 1990, the year immediately preceding the recognized increase in disease rates, all three subclones (ST-41, ST-42, and ST-154) of the ST-41/44 clonal complex occurred among the five isolates of B:P1.7-2,4. The two sequence types, ST-42 and ST-154, continued to cause most disease throughout New Zealand. Isolates belonging to subclone ST-41 were mostly identified early in the epidemic and in the South Island. 16S rRNA typing indicated that isolates belonging to the subclones ST-41 and ST-154 share a common ancestor, with those typing as ST-42 more distantly related with some genetically ambiguous. It is possible that ST-41 and ST-154 may have evolved one from the other but evolution to ST-42 is more difficult to explain. It is possible that one or more of the ST types could have been introduced into New Zealand prior to the first detection of clinical cases in 1990. Genetic diversity may have occurred during carriage in the community.

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