scholarly journals Pseudomonas putida Isolation and Quantification by Real-Time PCR in Agricultural Soil Biodegradable Mulching

Agriculture ◽  
2021 ◽  
Vol 11 (8) ◽  
pp. 782
Author(s):  
Stefania Fontanazza ◽  
Alessia Restuccia ◽  
Giovanni Mauromicale ◽  
Aurelio Scavo ◽  
Cristina Abbate

To reduce the plastic waste problem in agriculture, biodegradable plastic (BP) mulch films have become of key importance thanks to their biodegradability and beneficial effects on crops. However, at present, BPs cannot always replace conventional plastics, because biodegradation is governed by many biotic and abiotic factors under field conditions. This research aimed at isolating and identifying, from soil particles directly attached to the surface of BP samples, the microorganisms responsible of degradation through a combined approach based on biodegradation and molecular tests. For this purpose, a field trial within a Mediterranean apricot orchard was carried out to study the biodegradation of a commercial BP mulch with respect to a no-BP, a conventional apricot management, following the standard agricultural practices, and a subterranean clover cover cropping, either incorporating or leaving its dead mulches on the soil surface. After BP film appeared visibly degraded in field, we isolated from soil particles attached to the polymer surface, a mesophilic bacterium with certain degradative potential assessed by plate and liquid assays, identified by sequencing as Pseudomonas putida. Quantitative real time PCR analysis showed the P. putida was significantly more abundant in PB plots than the other plot treatments. These preliminary results are potentially applicable to accelerate the degradation of BP mulch films and decrease the plastic pollution in agriculture.

2006 ◽  
Vol 4 (s1) ◽  
pp. 82-82
Author(s):  
K. Floros ◽  
H. Thomadaki ◽  
S. Pavlovic ◽  
M. Talieri ◽  
M. Colovic ◽  
...  

2021 ◽  
Vol 70 (9) ◽  
Author(s):  
Berta Fidalgo ◽  
Elisa Rubio ◽  
Victor Pastor ◽  
Marta Parera ◽  
Clara Ballesté-Delpierre ◽  
...  

Introduction. The identification of enteropathogens is critical for the clinical management of patients with suspected gastrointestinal infection. The FLOW multiplex PCR system (FMPS) is a semi-automated platform (FLOW System, Roche) for multiplex real-time PCR analysis. Hypothesis/Gap Statement. FMPS has greater sensitivity for the detection of enteric pathogens than standard methods such as culture, biochemical identification, immunochromatography or microscopic examination. Aim.The diagnostic performance of the FMPS was evaluated and compared to that of traditional microbiological procedures. Methodology. A total of 10 659 samples were collected and analysed over a period of 7 years. From 2013 to 2018 (every July to September), samples were processed using standard microbiological culture methods. In 2019, the FMPS was implemented using real-time PCR to detect the following enteropathogens: Shigella spp., Salmonella spp., Campylobacter spp., Giardia intestinalis, Entamoeba histolytica, Blastocystis hominis, Cryptosporidum spp., Dientamoeba fragilis, adenovirus, norovirus and rotavirus. Standard microbiological culture methods (2013–2018) included stool culture, microscopy and immunochromatography. Results. A total of 1078 stool samples were analysed prospectively using the FMPS from July to September (2019): bacterial, parasitic and viral pathogens were identified in 15.3, 9.71 and 5.29 % of cases, respectively. During the same period of 6 years (2013–2018), the proportion of positive identifications using standard microbiological methods from 2013 to 2018 was significantly lower. A major significant recovery improvement was observed for all bacteria species tested: Shigella spp./enteroinvasive Escherichia coli (EIEC) (P <0.05), Salmonella spp. (P <0.05) and Campylobacter spp. (P <0.05). Marked differences were also observed for the parasites G. intestinalis, Cryptosporidium spp. and D. fragilis. Conclusion. These results support the value of multiplex real-time PCR analysis for the detection of enteric pathogens in laboratory diagnosis with outstanding performance in identifying labile micro-organisms. The identification of unsuspected micro-organisms for less specific clinical presentations may also impact on clinical practice and help optimize patient management.


2003 ◽  
Vol 35 (5) ◽  
pp. 454-459 ◽  
Author(s):  
Hakan Savli ◽  
Sema Sirma ◽  
Balint Nagy ◽  
Melih Aktan ◽  
Guncag Dincol ◽  
...  
Keyword(s):  

2021 ◽  
Vol 8 (1) ◽  
Author(s):  
Kyung Hoon Kim ◽  
MinHo Yang ◽  
Younseong Song ◽  
Chi Hyun Kim ◽  
Young Mee Jung ◽  
...  

AbstractA bacteria-capturing platform is a critical function of accurate, quantitative, and sensitive identification of bacterial pathogens for potential usage in the detection of foodborne diseases. Despite the development of various nanostructures and their surface chemical modification strategies, relative to the principal physical contact propagation of bacterial infections, mechanically robust and nanostructured platforms that are available to capture bacteria remain a significant problem. Here, a three-dimensional (3D) hierarchically structured polyaniline nanoweb film is developed for the efficient capture of bacterial pathogens by hand-touching. This unique nanostructure ensures sufficient mechanical resistance when exposed to compression and shear forces and facilitates the 3D interfacial interactions between bacterial extracellular organelles and polyaniline surfaces. The bacterial pathogens (Escherichia coli O157:H7, Salmonella enteritidis, and Staphylococcus aureus) are efficiently captured through finger-touching, as verified by the polymerase chain reaction (PCR) analysis. Moreover, the real-time PCR results of finger-touched cells on a 3D nanoweb film show a highly sensitive detection of bacteria, which is similar to those of the real-time PCR using cultured cells without the capturing step without any interfering of fluorescence signal and structural deformation during thermal cycling. Graphic Abstract


2013 ◽  
Vol 7 (4) ◽  
pp. 418-421 ◽  
Author(s):  
Mari L. Uchimoto ◽  
Emma Beasley ◽  
Natalie Coult ◽  
Emma J. Omelia ◽  
Damian World ◽  
...  

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