Advancement of Metatranscriptomics towards Productive Agriculture and Sustainable Environment: A Review.

While chemical fertilisers and pesticides indeed enhance agricultural productivity, their excessive usage has been detrimental to environmental health. In addressing this matter, the use of environmental microbiomes has been greatly favoured as a 'greener' alternative to these inorganic chemicals' application. Challenged by a significant proportion of unidentified microbiomes with unknown ecological functions, advanced high throughput metatranscriptomics is prudent to overcome the technological limitations in unfolding the previously undiscovered functional profiles of the beneficial microbiomes. Under this context, this review begins by summarising (1) the evolution of next-generation sequencing and metatranscriptomics in leveraging the microbiome transcriptome profiles through whole gene expression profiling. Next, the current environmental metatranscriptomics studies are reviewed, with the discussion centred on (2) the emerging application of the beneficial microbiomes in developing fertile soils and (3) the development of disease-suppressive soils as greener alternatives against biotic stress. As sustainable agriculture focuses not only on crop productivity but also long-term environmental sustainability, the second half of the review highlights the metatranscriptomics' contribution in (4) revolutionising the pollution monitoring systems via specific bioindicators. Overall, growing knowledge on the complex microbiome functional profiles is imperative to unlock the unlimited potential of agricultural microbiome-based practices, which we believe hold the key to productive agriculture and sustainable environment.

Effect of oil palm biomass cellulosic content on nanopore structure and adsorption capacity of biochar.

The influence of biomass cellulosic content on biochar nanopore structure and adsorption capacity in aqueous phase was scarcely reported. Commercial cellulose (100% cellulose), oil palm frond (39.5% cellulose), and palm kernel shell (20.5% cellulose) were pyrolyzed AT 630 °C, characterized and tested for the adsorption of iodine and organic contaminants. The external surface area and average pore size increased with cellulosic content, where commercial cellulose formed biochar with external surface area of 95.4 m2/g and average pore size of 4.1 nm. The biochar from commercial cellulose had the largest adsorption capacities: 371.40 mg/g for iodine, 86.7 mg/L for tannic acid, 17.89 mg/g for COD and 60.35 mg/g for colour, while biochar from palm kernel shell had the least adsorption capacities. The cellulosic content reflected the differences in biochar nanopore structure and adsorption capacities, signifying the suitability of highly cellulosic biomass for producing biochar to effectively treat wastewater.

Toxicity identification and evaluation of palm oil mill effluent and its effects on the planktonic crustacean Daphnia magna.

Palm oil mill effluent (POME) contains complex and highly biodegradable organic matters so discharging it without appropriate treatment may lead to environmental problems. POME final discharge quality is normally determined based on conventional chemical detection such as by biological oxygen demand (BOD) and chemical oxygen demand (COD). The novelty of the present study is that the toxicity effects of the POME final discharge samples were evaluated based on whole effluent toxicity (WET) and toxicity identification evaluation (TIE) tests using Daphnia magna. The toxicity unit (TU) values were recorded to be in the range from TU = 1.1-11 obtained from WET, and the TIE manipulation tests suggested that a substantial amount of toxic compounds was contained in the POME final discharge. Phenol, 2,6-bis (1,1-dimethylethyl)- and heavy metals such as Cu and Zn were detected in all the effluents and were recognized as being the main toxicants in the POME final discharge. GC/MS analyses also successfully identified cyclic volatile methyl siloxanes; cyclotetrasiloxane, octamethyl- (D4), cyclopentasiloxane, decamethyl- (D5), cyclohexasiloxane, dodecamethyl- (D6). D4 was detected at 0.0148-0.0357 mg/L, which could be potentially toxic. The palm oil industry used only water in the form of steam to process the fruits, and the presence of these compounds might be derived from the detergents and grease used in palm oil mill cleaning and maintenance operations. An appropriate treatment process is thus required to eliminate these toxicants from the POME final discharge. It is recommended that two approaches, chemical-based monitoring as well as biological toxicity-based monitoring, should be utilized for achieving an acceptable quality of POME final discharge in the future.

Identification and characterization of Burkholderia multivorans CCA53.

OBJECTIVE: A lignin-degrading bacterium, Burkholderia sp. CCA53, was previously isolated from leaf soil. The purpose of this study was to determine phenotypic and biochemical features of Burkholderia sp. CCA53. RESULTS: Multilocus sequence typing (MLST) analysis based on fragments of the atpD, gltD, gyrB, lepA, recA and trpB gene sequences was performed to identify Burkholderia sp. CCA53. The MLST analysis revealed that Burkholderia sp. CCA53 was tightly clustered with B. multivorans ATCC BAA-247T. The quinone and cellular fatty acid profiles, carbon source utilization, growth temperature and pH were consistent with the characteristics of B. multivorans species. Burkholderia sp. CCA53 was therefore identified as B. multivorans CCA53.

Draft Genome Sequence of Burkholderia sp. Strain CCA53, Isolated from Leaf Soil.

Burkholderia sp. strain CCA53 was isolated from leaf soil collected in Higashi-Hiroshima City in Hiroshima Prefecture, Japan. Here, we present a draft genome sequence of this strain, which consists of a total of 4 contigs containing 6,647,893 bp, with a G+C content of 67.0% and comprising 9,329 predicted coding sequences.

Influence of pretreated activated sludge for electricity generation in microbial fuel cell application.

Influence of different pretreated sludge for electricity generation in microbial fuel cells (MFCs) was investigated in this study. Pre-treatment has shown significant improvement in MFC electricity productivity especially from microwave treated sludge. Higher COD reduction in the MFC has been revealed from microwave treated sludge with 55% for total and 85% for soluble COD, respectively. Nonetheless, longer ozonation treatment did not give additional advantage compared to the raw sludge. On the other hand, samples from anodes were analyzed using the 16S rRNA gene-based pyrosequencing technique for microbial community analysis. There was substantial difference in community compositions among MFCs fed with different pretreated sludge. Bacteroidetes was the abundant bacterial phylum dominated in anodes of higher productivity MFCs. These results demonstrate that using waste sludge as the substrate in MFCs could achieve both sludge reduction and electricity generation, and proper pre-treatment of sludge could improve the overall process performance.