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Bioremediation of PAHs and VOCs: Advances in clay mineral-microbial interaction

Biswas B, Sarkar B, Rusmin R, Naidu R

Environ Int, 2015 Dec;85:168-81.
PMID: 26408945 DOI: 10.1016/j.envint.2015.09.017

Bioremediation is an effective strategy for cleaning up organic contaminants, such as polycyclic aromatic hydrocarbons (PAHs) and volatile organic compounds (VOCs). Advanced bioremediation implies that biotic agents are more efficient in degrading the contaminants completely. Bioremediation by microbial degradation is often employed and to make this process efficient, natural and cost-effective materials can serve as supportive matrices. Clay/modified clay minerals are effective adsorbents of PAHs/VOCs, and readily available substrate and habitat for microorganisms in the natural soil and sediment. However, the mechanism underpinning clay-mediated biodegradation of organic compounds is often unclear, and this requires critical investigation. This review describes the role of clay/modified clay minerals in hydrocarbon bioremediation through interaction with microbial agents in specific scenarios. The vision is on a faster, more efficient and cost-effective bioremediation technique using clay-based products. This review also proposes future research directions in the field of clay modulated microbial degradation of hydrocarbons.
Fulltext Scanning the effects of ethyl methanesulfonate on the whole genome of Lotus japonicus using second-generation sequencing analysis

Mohd-Yusoff NF, Ruperao P, Tomoyoshi NE, Edwards D, Gresshoff PM, Biswas B, et al.

G3 (Bethesda), 2015 Apr;5(4):559-67.
PMID: 25660167 DOI: 10.1534/g3.114.014571

Genetic structure can be altered by chemical mutagenesis, which is a common method applied in molecular biology and genetics. Second-generation sequencing provides a platform to reveal base alterations occurring in the whole genome due to mutagenesis. A model legume, Lotus japonicus ecotype Miyakojima, was chemically mutated with alkylating ethyl methanesulfonate (EMS) for the scanning of DNA lesions throughout the genome. Using second-generation sequencing, two individually mutated third-generation progeny (M3, named AM and AS) were sequenced and analyzed to identify single nucleotide polymorphisms and reveal the effects of EMS on nucleotide sequences in these mutant genomes. Single-nucleotide polymorphisms were found in every 208 kb (AS) and 202 kb (AM) with a bias mutation of G/C-to-A/T changes at low percentage. Most mutations were intergenic. The mutation spectrum of the genomes was comparable in their individual chromosomes; however, each mutated genome has unique alterations, which are useful to identify causal mutations for their phenotypic changes. The data obtained demonstrate that whole genomic sequencing is applicable as a high-throughput tool to investigate genomic changes due to mutagenesis. The identification of these single-point mutations will facilitate the identification of phenotypically causative mutations in EMS-mutated germplasm.
Mapping of tide-dominated Hooghly estuary water quality parameters using Sentinel-3 OLCI time-series data

Bar AR, Mondal I, Das S, Biswas B, Samanta S, Jose F, et al.

Environ Monit Assess, 2023 Jul 20;195(8):975.
PMID: 37474709 DOI: 10.1007/s10661-023-11552-8

The study explores the spatio-temporal variation of water quality parameters in the Hooghly estuary, which is considered an ecologically-stressed shallow estuary and a major distributary for the Ganges River. The estimated parameters are chlorophyll-a, total suspended matter (TSM), and chromophoric dissolved organic matter (CDOM). The Sentinel-3 OLCI remote sensing imageries were analyzed for the duration of October 2018 to February 2019. We observed that the water quality of the Hooghly estuaries is comparatively low-oxygenated, mesotrophic, and phosphate-limited. Ongoing channel dredging for maintaining shipping channel depth keeps the TSM in the estuary at an elevated level, with the highest amount of TSM observed during March of 2019 (41.59g m-3) at station A, upstream point. Since the pre-monsoon season, TSM data shows a decreasing trend towards the mouth of the estuary. Chl-a concentration is higher during pre-monsoon than monsoon and post-monsoon periods, with the highest value observed in April at 1.09 mg m-3 in station D during the pre-monsoon period. The CDOM concentration was high in the middle section (January-February) and gradually decreased towards the estuary's head and mouth. The highest CDOM was found in February at locations C and D during the pre-monsoon period. Every station shows a significant correlation among CDOM, TSM, and Chl-a measured parameters. Based on our satellite data analysis, it is recommended that SNAP C2RCC be regionally used for TSM, Chl-a, and CDOM for water quality product retrieval and in various algorithms for the Hooghly estuary monitoring.
Correction to: Prospective observational study on Pazopanib in patients treated for advanced or metastatic renal cell carcinoma in countries in Asia Pacific, North Africa, and Middle East regions: PARACHUTE study

Erman M, Biswas B, Danchaivijitr P, Chen L, Wong YF, Hashem T, et al.

BMC Cancer, 2021 Nov 09;21(1):1191.
PMID: 34753434 DOI: 10.1186/s12885-021-08848-8
Fulltext Prospective observational study on Pazopanib in patients treated for advanced or metastatic renal cell carcinoma in countries in Asia Pacific, North Africa, and Middle East regions: PARACHUTE study

Erman M, Biswas B, Danchaivijitr P, Chen L, Wong YF, Hashem T, et al.

BMC Cancer, 2021 Sep 14;21(1):1021.
PMID: 34521387 DOI: 10.1186/s12885-021-08738-z

BACKGROUND: Clinical effectiveness and safety data of pazopanib in patients with advanced or mRCC in real-world setting from Asia Pacific, North Africa, and Middle East countries are lacking.
METHODS: PARACHUTE is a phase IV, prospective, non-interventional, observational study. Primary endpoint was the proportion of patients remaining progression free at 12 months. Secondary endpoints were ORR, PFS, safety and tolerability, and relative dose intensity (RDI).
RESULTS: Overall, 190 patients with a median age of 61 years (range: 22.0-96.0) were included. Most patients were Asian (70%), clear-cell type RCC was the most common (81%), with a favourable (9%), intermediate (47%), poor (10%), and unknown (34%) MSKCC risk score. At the end of the observational period, 78 patients completed the observational period and 112 discontinued the study; 60% of patients had the starting dose at 800 mg. Median RDI was 82%, with 52% of patients receiving 10%) TEAEs related to pazopanib included diarrhoea (30%), palmar-plantar erythrodysesthesia syndrome (15%), and hypertension (14%).
CONCLUSIONS: Results of the PARACHUTE study support the use of pazopanib in patients with advanced or mRCC who are naive to VEGF-TKI therapy. The safety profile is consistent with that previously reported by pivotal and real-world evidence studies.