Identification and Characterization of a Pesticide Degrading Flavobacterium Species EMBS0145 by 16S rRNA Gene Sequencing

Nayarisseri, Anuraj; Suppahia, Anjana; Nadh, Anuroopa G.; Nair, Achuthsankar S.

doi:10.1007/s12539-015-0016-z

Cited by 21 publications

(14 citation statements)

References 18 publications

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“…The sequence thus obtained from Sanger sequencing were used for pairwise local alignment against Genbank16S ribosomal RNA sequence database (Bacteria and Archaea) database using BLASTN 2.8.0 [ 40 , 41 , 42 ]. The HSPs obtained from Blast results found to have less similarity with available Bacillus species.…”

Section: Resultsmentioning

confidence: 99%

Screening, isolation and characterization of biosurfactant producing Bacillus subtilis strain ANSKLAB03

2018

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Biosurfactants are surface-active compounds produced by a wide range of microorganisms. They have both hydrophobic and hydrophilic domains and can decrease the surface tension and the interfacial tension of growth medium. Biosurfactants have different chemical structures like-lipopeptides, glycolipids, neutral lipids and fatty acids. They are biodegradable non-toxic biomolecules that show strong emulsification of hydrophobic compounds. They have the ability to form stable emulsions. The low water-solubility of these compounds restricts their availability to microorganisms. Surfactants secreted by microbes enhance the bioavailability of such hydrophobic compounds for bioremediation. Therefore, biosurfactant-enhanced solubility of pollutants has prospective applications in bioremediation. Biosurfactants are useful in a variety of industrial processes, and are also of vital importance to the microbes in adhesion, emulsification, and bioavailability, desorption and defense strategy. Therefore, it is of interest to identify biosurfuctantproducing strain of bacteria from brackish water. The microbial samples were isolated from the Chilika Lake, odisha, India and were tested for its biosurfactant property by various biochemical methods. 16S rRNA was sequenced using Sanger dideoxy sequencing method to characterize the biosurfuctant producing strain. The new Bacillus subtilis strain ANSKLAB03 isolated from 40 samples was deposited in GenBank with accession number KU523257.

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Section: Resultsmentioning

confidence: 99%

Screening, isolation and characterization of biosurfactant producing Bacillus subtilis strain ANSKLAB03

2018

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“…Flavobacterium (phylum Bacteroidetes) are chemoorgantrophic and so their decreased abundance could also influence the carbon cycle. At least one isolate from this genus has been associated with pesticide degradation (Nayarisseri et al, 2015). The impact on the Geobacter population may influence iron cycling in soils, as a key characteristic of Geobacter is iron reduction (Zacharoff et al, 2016).…”

Section: Phylotypes Negatively Impacted By Carbamazepine Exposurementioning

confidence: 99%

The identification of carbamazepine biodegrading phylotypes and phylotypes sensitive to carbamazepine exposure in two soil microbial communities

Thelusmond

Strathmann

Cupples

2016

Science of The Total Environment

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Carbamazepine (CBZ), an antiepileptic drug, has been introduced into agricultural soils via irrigation with treated wastewater and biosolids application. Such contamination is problematic because CBZ is persistent and the risks to ecosystems or human health are unknown. The current study examined CBZ biodegradation in two agricultural soils (soil 1 and 2) and the effects on the soil microbial communities during CBZ exposure. The experimental design involved three CBZ concentrations (50, 500, 5000ng/g), under aerobic as well as anaerobic conditions. CBZ concentrations were determined using solid phase extraction and LC MS/MS. The effect of CBZ on the soil microbial community was investigated using high throughput sequencing and a computational approach to predict functional composition of the metagenomes (phylogenetic investigation of communities by reconstruction of unobserved states, PICRUSt). The most significant CBZ biodegradation occurred in soil 1 under aerobic conditions. In contrast, CBZ biodegradation was limited under anaerobic conditions in soil 1 and under both conditions in soil 2. For soil 1, several phylotypes were enriched following CBZ degradation compared to the controls, including unclassified Sphingomonadaceae, Xanthomonadaceae and Rhodobacteraceae, as well as Sphingomonas, Aquicella and Microvirga. These phylotypes are considered putative CBZ degraders as they appear to be benefiting from CBZ biodegradation. PICRUSt revealed that soil 1 contained a greater abundance of xenobiotic degrading genes compared to soil 2, and thus, this analysis method offers a potential valuable approach for predicting CBZ attenuation in soils. PICRUSt analysis also implicated Sphingomonadaceae and Xanthomonadaceae in drug metabolism. Interestingly, numerous phylotypes decreased in abundance following CBZ exposure and these varied with soil type, concentration, duration of exposure, and the availability of oxygen. For three phylotypes (Flavobacterium, 3 genus incertae sedis and unclassified Bacteroidetes), the relative abundance was reduced in both soils, indicating a notable sensitivity to CBZ for these microorganisms.

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“…Flavobacteriaceae, which comprise among others the Flavobacterium genus, it's an ubiquitous family of bacteria, commonly found in agricultural soils which is often associate to positive features such as the ability to degrade pesticides [69,70] and the ability to induce resistance against fungal and bacterial pathogens in several crops [71,72]. Interestingly, in our work we observed an overrepresentation of such family and genus in both the CD and MLD soils, suggesting that also this group of microbes can play important role in protecting plants against pathogens.…”

Section: Discussionmentioning

confidence: 99%

Geological Characteristics of Close Geographical Related Vineyards Influence Microbiomes of Two Soil Depth Profiles With Potential Impacts on Wine Quality

Nerva¹,

Moffa²,

Giudice³

et al. 2020

Preprint

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Background The role of soil microbiomes in agriculture is now becoming more and more important, leading to definition of plants as complex organisms formed by the plant itself plus the microbes inhabiting its tissues, the surface of every organ and the ones living adhered or in proximity of the roots. In this context it is important to define the factors able to influence the composition of such microbial communities. In addition, as already demonstrated, the microbial community associated to a specific soil is able to predetermine the health status of the crops in the future. For this reason, we decided to investigate how the soil geological characteristics can influence the microbial community associated to the close geographical related vineyard.Results We decided to analyse a calcarenitic and a marly-limestone soil which are both typical of the viticulture in the Menfi area (Sicily, Italy). Moreover, since vineyard is a semi-anthropic environment we decided to investigate both the top (10-20 cm) and deep (120 cm) soil layers as anthropic influenced and almost-undisturbed soil respectively. Interestingly we observed that, despite the close geographical proximity, the soil microbiomes were slightly different and that in addition, the soil geological characteristics are able to influence the root distribution and the accumulation of both pathogen- and symbiont-related genera. Furthermore, sensory profiles of the Grillo wines obtained from the two different soils confirmed the tight link between soil origin and wine traits.Conclusions In contrast to what observed in other works we pointed out that the geological characteristics of soils can have an important influence on soil microbial composition and assemblage in close geographical related vineyards, with a potential effect on wine features. Furthermore, defining the microbial composition of agricultural soils it’s a crucial step to achieve a more sustainable agriculture and viticulture. In this optic, the observed link between the geological characteristics and the microbiome profiles need to be taken into account when considering a soil for the successful establishment low chemical input agriculture practices.The SRA accession numbers of the NGS reported in this paper are deposited in NCBI under the BioProject PRJNA655455; BioSample SAMN15735114 and SAMN15735115; SRA accession SRR12436974 and SRR12436973

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Identification and Characterization of a Pesticide Degrading Flavobacterium Species EMBS0145 by 16S rRNA Gene Sequencing

Cited by 21 publications

References 18 publications

Screening, isolation and characterization of biosurfactant producing Bacillus subtilis strain ANSKLAB03

Screening, isolation and characterization of biosurfactant producing Bacillus subtilis strain ANSKLAB03

The identification of carbamazepine biodegrading phylotypes and phylotypes sensitive to carbamazepine exposure in two soil microbial communities

Geological Characteristics of Close Geographical Related Vineyards Influence Microbiomes of Two Soil Depth Profiles With Potential Impacts on Wine Quality

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