Lateral gene transfer between the <i>Bacteroidetes</i> and <i>Acidobacteria</i>: The case of α‐<scp>l</scp>‐rhamnosidases

Naumoff, D. G.; Dedysh, Svetlana N.

doi:10.1016/j.febslet.2012.09.005

Cited by 50 publications

(19 citation statements)

References 31 publications

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“…Consistent with those of Kolton et al [27] and Xu et al [63], our findings revealed that the relative abundance of Bacteroidetes in biochar-treated soil under R. solanacearum infection (Rs + BC) significantly increased compared with the no biochar treatments ( Figure 5). Bacteroidetes are generally specialized in the degradation of organic matter, promote plant growth, and increase their resistance to environmental stress [64,65]. Our results also indicated that the relative abundances of Chitinophaga, Flavitalea, Adhaeribacter, Pontibacter, Pedobacter, and Ohtaekwangia at the genus level, which are bioremediators of hydrocarbons [49], were significantly increased by biochar amendment (Figure 6).…”

Section: Discussionsupporting

confidence: 53%

Biochar Suppresses Bacterial Wilt of Tomato by Improving Soil Chemical Properties and Shifting Soil Microbial Community

et al. 2019

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The role of biochar amendments in enhancing plant disease resistance has been well documented, but its mechanism is not yet fully understood. In the present study, 2% biochar made from wheat straw was added to the soil of tomato infected by Ralstonia solanacearum to explore the interrelation among biochar, tomato bacterial wilt resistance, soil chemical properties, and soil microbial community and to decipher the disease suppression mechanisms from a soil microbial perspective. Biochar application significantly reduced the disease severity of bacterial wilt, increased soil total organic carbon, total nitrogen, C:N ratio, organic matter, available P, available K, pH, and electrical conductivity. Biochar treatment also increased soil acid phosphatase activity under the non-R.-solanacearum-inoculated condition. High-throughput sequencing of 16S rRNA revealed substantial differences in rhizosphere bacterial community structures between biochar-amended and nonamended treatments. Biochar did not influence soil microbial richness and diversity but significantly increased the relative abundance of Bacteroidetes and Proteobacteria in soil at the phylum level under R. solanacearum inoculation. Furthermore, biochar amendment harbored a higher abundance of Chitinophaga, Flavitalea, Adhaeribacter, Pontibacter, Pedobacter, and Ohtaekwangia at the genus level of Bacteroides and Pseudomonas at the genus level of Proteobacteria under R. solanacearum inoculation. Our findings suggest that a biochar-shifted soil bacterial community structure can favorably contribute to the resistance of tomato plants against bacterial wilt.

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Section: Discussionsupporting

confidence: 53%

Biochar Suppresses Bacterial Wilt of Tomato by Improving Soil Chemical Properties and Shifting Soil Microbial Community

et al. 2019

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“…The extended contig VISS3_113 (VISS3_041 1 VISS3_113; 64.5 kbp) encodes a PUL with two predicted GH106 alpha-rhamnosidase genes (ORFs VISS3_113_01, VISS3_113_16). Alpha-L-rhamnosidases are known to cleave terminal alpha-L-rhamnose from cell wall polysaccharides of plants (in rhamnogalacturonans) and green algae (ulvans, a family of sulfated xylorhamnoglucuronans) (Lahaye and Robic, 2007;Popper et al, 2011;Naumoff and Dedysh, 2012;Martin et al, 2014). This PUL also contains two carbohydrate sulfatase genes (ORFs VISS3_113_14, VISS3_113_17) and a nonclassified GH (ORF VISS3_113_10), which could act in synergy with the GH106 enzymes in the degradation of sulfated rhamnose-containing polysaccharides.…”

Section: Additional Puls From Bplr Stationmentioning

confidence: 99%

Polysaccharide utilisation loci of Bacteroidetes from two contrasting open ocean sites in the North Atlantic

Bennke

Krüger

Kappelmann

et al. 2016

Environmental Microbiology

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Marine Bacteroidetes have pronounced capabilities of degrading high molecular weight organic matter such as proteins and polysaccharides. Previously we reported on 76 Bacteroidetes-affiliated fosmids from the North Atlantic Ocean's boreal polar and oligotrophic subtropical provinces. Here, we report on the analysis of further 174 fosmids from the same libraries. The combined, re-assembled dataset (226 contigs; 8.8 Mbp) suggests that planktonic Bacteroidetes at the oligotrophic southern station use more peptides and bacterial and animal polysaccharides, whereas Bacteroidetes at the polar station (East-Greenland Current) use more algal and plant polysaccharides. The latter agrees with higher abundances of algae and terrigenous organic matter, including plant material, at the polar station. Results were corroborated by in-depth bioinformatic analysis of 14 polysaccharide utilisation loci from both stations, suggesting laminarin-specificity for four and specificity for sulfated xylans for two loci. In addition, one locus from the polar station supported use of non-sulfated xylans and mannans, possibly of plant origin. While peptides likely represent a prime source of carbon for Bacteroidetes in open oceans, our data suggest that as yet unstudied clades of these Bacteroidetes have a surprisingly broad capacity for polysaccharide degradation. In particular, laminarin-specific PULs seem widespread and thus must be regarded as globally important.

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“…Actinobacteria can survive in the soil environment and are thought to be beneficial in the agricultural soils (Marta et al 2014). Acidobacteria also display a functional capability and specialize on degradation of plantderived organic matter (Naumoff and Dedysh 2012). Members of Bacteroidetes, which were often involved in the degradation of bio-macromolecules such as proteins, cellulose, chitin, pectin, agar, starch (Hugenholtz et al 1998), and more recalcitrant compounds (Lipson and Schmidt 2004), increased proportionally in the L-OM treatment.…”

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confidence: 99%

Changes in the abundance and structure of bacterial communities under long-term fertilization treatments in a peanut monocropping system

Liu

Wang

et al. 2015

Plant Soil

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Background and aims Peanut yield and quality are seriously compromised by continuous monoculturing in the red soil region of southern China. Monoculturing can cause soil degradation and an increase in soil-borne diseases. This research aimed to investigate the influence of long-term peanut monocropping and different fertilization treatments on peanut growth, soil physical and chemical properties and soil microbial community. Methods A long-term fertilization experiment established in 1996 was utilized to examine the effect of various fertilization treatments including chemical and organic fertilizers treatments. Deep 16S rRNA gene pyrosequencing highlighted changes in the abundance and structure of bacterial communities, especially of the pathogenic and beneficial bacterial communities in long term chemical fertilizer treatment in comparison to the organic manure treatment. Results Chemical fertilizer treatment causes a shift in bacterial community structure and decrease in diversity under the long-term monocropping in comparison to organic fertilizer. The abundance of the bacterial pathogen Ralstonia solanacearum, a causative agent of peanut wilt, was found to be associated with a loss of community diversity and loss of the peanut yield. Conclusions The organic fertilizers more effectively increase microbial diversity in the soil and changed the community structure. Long-term use of the chemical fertilizer leads to a decrease in microbial diversity of the soil and an increase in R. solanacearum with associated increase of peanut wilt. The potential decrease in diversity and competition between the bacterial community and the pathogen may be a contributing factor to increased disease during long-term chemical fertilizer use.

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Lateral gene transfer between the Bacteroidetes and Acidobacteria: The case of α‐l‐rhamnosidases

Cited by 50 publications

References 31 publications

Biochar Suppresses Bacterial Wilt of Tomato by Improving Soil Chemical Properties and Shifting Soil Microbial Community

Biochar Suppresses Bacterial Wilt of Tomato by Improving Soil Chemical Properties and Shifting Soil Microbial Community

Polysaccharide utilisation loci of Bacteroidetes from two contrasting open ocean sites in the North Atlantic

Changes in the abundance and structure of bacterial communities under long-term fertilization treatments in a peanut monocropping system

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