metagenomic analysis
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2022 ◽  
Vol 43 (1) ◽  
pp. 115-122
Author(s):  
S. Vaish ◽  
◽  
N. Garg ◽  
I.Z. Ahmad ◽  
Muthukumar M. ◽  
...  

Aim: Biodynamic farming system involves use of 8 different biodynamic preparations (BD 500-BD 507). Multi functionality of any ecosystem is due to its microbial diversity and community composition of microbes. So the present study was aimed to determine the total fungal population viz. unculturable ones, metagenomic analysis was done. Methodology: In the present study, 18S rDNA sequencing of V3-V4 amplicon regions was performed to identify and characterize fungal diversity, which existed in these preparations. Results: Alpha diversity was found to be maximum in BD506 with 868 OTU (operational taxanomic units) and minimum in BD507 with 254 OTU. At phylum level, the most abundant phylum was Ascomycota as recorded in 7 BD preparations with exception in the BD 500 (Unassigned). At genus level highest percentage of OTU abundance was observed for unassigned genus in all BD preparations, except Mortierella in BD 500 and BD 502; Microascus in BD 501 and BD504; Gymnoascus in BD503, Scedosporium in BD 505, Mucor in BD 506 and Hyphopichia in BD 507. On the basis of species diversity, BD502, 503 and 506 showed high percentage of OTU abundance for Mucor racemosus, while Mortierella oligospora was abundant in BD500, Dipodascus geotrichum in BD 501, Kernia pachypleura in BD504, Petriella setifera in BD505 and Hyphopichia burtonii in BD 507. Interpretation: This indicated a unqiue class of fungus predominating each type of BD preparation. Furthermore, a large proportion of unassigned fungi at phylum and genus level were detected in metagenome analysis which might have specific roles in contributing for their overall effectiveness of each kind of BD preparations.


Water ◽  
2022 ◽  
Vol 14 (2) ◽  
pp. 142
Author(s):  
Ilaria Chicca ◽  
Simone Becarelli ◽  
Giacomo Bernabei ◽  
Giovanna Siracusa ◽  
Simona Di Gregorio

Innovative culturomic approaches were adopted to isolate hydrocarbonoclastic bacteria capable of degrading diesel oil, bitumen and a selection of polycyclic aromatic hydrocarbons (PAH), e.g., pyrene, anthracene, and dibenzothiophene, from a soil historically contaminated by total petroleum hydrocarbons (TPH) (10,347 ± 98 mg TPH/kg). The culturomic approach focussed on the isolation of saprophytic microorganisms and specialist bacteria utilising the contaminants as sole carbon sources. Bacterial isolates belonging to Pseudomonas, Arthrobacter, Achromobacter, Bacillus, Lysinibacillus, Microbacterium sps. were isolated for their capacity to utilise diesel oil, bitumen, pyrene, anthracene, dibenzothiphene, and their mixture as sole carbon sources. Pseudomonas, Arthrobacter, Achromobacter and Microbacterium sps. showed plant growth promoting activity, producing indole-3-acetic acid and expressing 1-aminocyclopropane-1-carboxylic acid (ACC) deaminase activity. In parallel to the culturomic approach, in the microbial community of interest, bacterial community metabarcoding and predictive functional metagenomic analysis were adopted to confirm the potentiality of the isolates in terms of their functional representativeness. The combination of isolation and molecular approaches for the characterisation of a TPH contaminated soil microbial community is proposed as an instrument for the construction of an artificial hydrocarbonoclastic microbiota for environmental restoration.


Author(s):  
Andrey Bogoyavlenskiy ◽  
Madina Alexyuk ◽  
Pavel Alexyuk ◽  
Makhabbat Amanbayeva ◽  
Elmira Anarkulova ◽  
...  

Here, we report a metagenomic analysis of koumiss from Kazakhstan. In this study, shotgun metagenomic sequencing of the RNA and DNA viral community was performed.


2022 ◽  
Vol 151 ◽  
pp. 110849
Author(s):  
Xuejun Zeng ◽  
Yuwei Wang ◽  
Hang Jia ◽  
Zhouli Wang ◽  
Zhenpeng Gao ◽  
...  

2022 ◽  
Vol 23 (2) ◽  
pp. 70-76
Author(s):  
Mahmoud Yosef ◽  
Ali Elrefy ◽  
Fawzi Elfeky

EcoHealth ◽  
2021 ◽  
Author(s):  
Julie Teresa Shapiro ◽  
Sarah Mollerup ◽  
Randi Holm Jensen ◽  
Jill Katharina Olofsson ◽  
Nam-phuong D. Nguyen ◽  
...  

AbstractWe investigated the prevalence of coronaviruses in 44 bats from four families in northeastern Eswatini using high-throughput sequencing of fecal samples. We found evidence of coronaviruses in 18% of the bats. We recovered full or near-full-length genomes from two bat species: Chaerephon pumilus and Afronycteris nana, as well as additional coronavirus genome fragments from C. pumilus, Epomophorus wahlbergi, Mops condylurus, and Scotophilus dinganii. All bats from which we detected coronaviruses were captured leaving buildings or near human settlements, demonstrating the importance of continued surveillance of coronaviruses in bats to better understand the prevalence, diversity, and potential risks for spillover.


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