The cadmium tolerance and bioaccumulation mechanism of sp. P1: insight from transcriptomics analysis.

Cadmium (Cd) has become a severe issue in relatively low concentration and attracts expert attention due to its toxicity, accumulation, and biomagnification in living organisms. Cd does not have a biological role and causes serious health issues. Therefore, Cd pollutants should be reduced and removed from the environment.

Chromosome-scale genome assembly of an acidophilic microalga sp. P1 isolated from a tropical peatland in Malaysia.

sp. P1 shows an acidophilic phenotype which could allow mass-scale monoculture of this green microalga without severe contamination by environmental microorganisms. In this study, we report a chromosome-scale genome assembly for sp.

Identification and characterization of lignin depolymerization enzymes in Bacillus subtilis strain S11Y isolated from a tropical environment in Malaysia.

Biological pretreatment using microbial enzymes appears to be the most promising pre-treatment technology for the breakdown of recalcitrant lignin structure. This research focuses on the identification and characterization of lignin-depolymerizing enzymes in Bacillus subtilis strain S11Y, previously isolated from palm oil wastes in Malaysia. The draft genome sequences of this highly lignin-depolymerizing strain revealed that the genome lacked any of the well-known dye-decolorizing peroxidase or catalase-peroxidase that are commonly reported to be involved in lignin depolymerization by bacteria, indicating that strain S11Y has distinct sets of potential lignin depolymerization genes.

Mechanistic behaviour of Chlorella vulgaris biofilm formation onto waste organic solid support used to treat palm kernel expeller in the recent Anthropocene.

The capacity to maximize the proliferation of microalgal cells by means of topologically textured organic solid surfaces under various pH gave rise to the fundamental biophysical analysis of cell-surface attachment in this study. The substrate used in analysis was palm kernel expeller (PKE) in which the microalgal cells had adhered onto its surface. The findings elucidated the relevance of surface properties in terms of surface wettability and surface energy in relation to the attached microalgal growth with pH as the limiting factor.

Sonochemical synthesis of a copper reduced graphene oxide nanocomposite using honey and evaluation of its antibacterial and cytotoxic activities.

The combination of graphene-based materials and inorganic nanoparticles for the enhancement of the nanomaterial properties is extensively explored nowadays. In the present work, we used a sonochemical method to synthesize a copper/reduced graphene oxide (Cu/RGO) nanocomposite using Australian honey and vitamin C as capping and reducing agents, respectively. The honey-mediated copper/reduced graphene oxide (H/Cu/RGO) nanocomposite was then characterized through UV-visible, XRD, HRTEM, and FTIR analysis.

Draft Genome Sequences of Three Nitrogen-Fixing Strains Isolated from Soil Cooled for Growing Temperate Root Crops in a Tropical Climate.

Nitrogen-fixing bacteria can form a symbiotic relationship with several members of the major plant groups and with fungi. Here, we present the draft genome sequences of three nitrogen-fixing strains isolated from soil cooled for growing temperate root crops in a tropical climate.

Draft Genome Sequences of Multidrug-Resistant Escherichia coli Strains Isolated from River Water in Malaysia.

Antimicrobial resistance has become a primary concern in clinical and public health. Escherichia coli is one of the bacteria that carries and disseminates antimicrobial resistance genes to the community. Here, we report the draft genome sequence of three multidrug-resistant E.

Isolation and characterization of Lignin-derived monomer degraders under acidic conditions from tropical peatland.

Tropical peatlands account for one of the largest carbon stores in the form of organic matter due to the accumulation of plant litter and waterlogged conditions. Recent anthropogenic disturbances, such as forest fires, agricultural conversion and drainage, in tropical peatlands have caused a vast amount of carbon to be released into the atmosphere, and microbial activities are impacted by these changes. A recent study showed that many phenol- and lignin-degrading bacteria prefer alkaline and neutral pH conditions, while tropical peatland conditions are acidic, possibly changing the mechanisms of the utilization of organic matter from peat soil.

Improvement and screening of astaxanthin producing mutants of newly isolated sp. using ethyl methane sulfonate induced mutagenesis technique.

Natural astaxanthin is known to be produced by green microalgae, a potent producer of the most powerful antioxidant. To increase the productivity of astaxanthin in microalgae, random mutagenesis has been extensively used to improve the yield of valuable substances. In the presented work, a newly isolated sp.

Enhancement of astaxanthin accumulation using black light in Coelastrum and Monoraphidium isolated from Malaysia.

Microalgae are important microorganisms which produce potentially valuable compounds. Astaxanthin, a group of xanthophyll carotenoids, is one of the most powerful antioxidants mainly found in microalgae, yeasts, and crustaceans. Environmental stresses such as intense light, drought, high salinity, nutrient depletion, and high temperature can induce the accumulation of astaxanthin.

Draft Genome Sequence of Lignin-Degrading sp. Strain S2, Isolated from a Decaying Oil Palm Empty Fruit Bunch.

We report the draft genome sequence of sp. strain S2, isolated from a decaying oil palm empty fruit bunch (OPEFB) in Negeri Sembilan, Malaysia, which yields potential genes encoding lignin degradation enzymes. This genome of 9,722,071 bp exhibited 58.

Draft Genome Sequences of Three Multidrug-Resistant Staphylococcus spp. Isolated from Hospital Wastewater in Malaysia.

spp. are Gram-positive bacteria that reside within the normal microbiota of humans and animals but pose a health threat as reservoirs of antimicrobial resistance genes. Here, we present the draft genome sequences of three sp.

Isolation and Characterization of Six Lytic Bacteriophages From Seafood Samples.

is a foodborne pathogen that is frequently isolated from a variety of seafood. To control this pathogenic spp., the implementation of bacteriophages in aquaculture and food industries have shown a promising alternative to antibiotics.

Draft Genome Sequence of the Prazosin-Degrading sp. Strain PR5, Isolated from a River Receiving Hospital and Urban Wastewater in Malaysia.

We report the complete genome sequence of sp. strain PR5, isolated from a river receiving hospital and urban wastewater in Malaysia, which demonstrated a high capability for degrading prazosin. This genome sequence of 4,525,264 bp exhibited 41.

Limitation of nutrients stimulates musty odor production by Streptomyces sp. isolated from a tropical environment.

Musty odor production by actinomycetes is usually related to the presence of geosmin and 2-methylisoborneol (2-MIB), which are synthesized by enzymes encoded by the geoA and tpc genes, respectively. Streptomyces spp. strain S10, which was isolated from a water reservoir in Malaysia, has the ability to produce geosmin when cultivated in a basal salt (BS) solid medium, but no 2-MIB production occurred during growth in BS medium.

Prevalence and antibiotic resistance patterns of isolated from different types of seafood in Selangor, Malaysia.

is a foodborne bacterial pathogen that may cause gastroenteritis in humans through the consumption of seafood contaminated with this microorganism. The emergence of antimicrobial and multidrug-resistant bacteria is another serious public health threat worldwide. In this study, the prevalence and antibiotic susceptibility test of in blood clams, shrimps, surf clams, and squids were determined.

Enzymatic and genetic characterization of lignin depolymerization by Streptomyces sp. S6 isolated from a tropical environment.

The conversion of lignocellulosic biomass into bioethanol or biochemical products requires a crucial pretreatment process to breakdown the recalcitrant lignin structure. This research focuses on the isolation and characterization of a lignin-degrading bacterial strain from a decaying oil palm empty fruit bunch (OPEFB). The isolated strain, identified as Streptomyces sp.

Removal efficiency of Gram-positive and Gram-negative bacteria using a natural coagulant during coagulation, flocculation, and sedimentation processes.

Staphylococcus sp. as Gram-positive and Escherichia coli as Gram-negative are bacterial pathogens and can cause primary bloodstream infections and food poisoning. Coagulation, flocculation, and sedimentation processes could be a reliable treatment for bacterial removal because suspended, colloidal, and soluble particles can be removed.

Complete Genome Sequence of Lignin-Degrading sp. Strain S6, Isolated from an Oil Palm Plantation in Malaysia.

spp. are bacteria that are responsible for the degradation of aromatic compounds and produce secondary metabolites. Here, we present a complete genome sequence of sp.

Erratum: Publisher Correction: A TonB-dependent receptor constitutes the outer membrane transport system for a lignin-derived aromatic compound.

[This corrects the article DOI: 10.1038/s42003-019-0676-z.].

A TonB-dependent receptor constitutes the outer membrane transport system for a lignin-derived aromatic compound.

TonB-dependent receptors (TBDRs) mediate substrate-specific transport across the outer membrane, utilizing energy derived from the proton motive force transmitted from the TonB-ExbB-ExbD complex located in the inner membrane (TonB system). Although a number of TonB systems involved in the uptake of siderophores, vitamin B12 and saccharides have been identified, their involvement in the uptake and catabolism of aromatic compounds was previously unknown. Here, we show that the outer membrane transport of a biphenyl compound derived from lignin is mediated by the TonB system in a Gram-negative bacterium capable of degrading lignin-derived aromatic compounds, sp.

Elucidation of prazosin biodegradation by isolated Bacillus spp. from the tropical environment.

Prazosin (PRZ), a drug used to treat hypertensive patients, is an emergent contaminant in water systems. PRZ is an alpha-adrenergic receptor blocker used to treat anxiety, and is believed to reach the environment through human excretion, irresponsible disposal of unused medicine, and waste products from manufacturing plants. The purpose of this research was to isolate and characterize potential microbes for PRZ biodegradation and to identify the degradation pathway.

Microbial Diversity in Decaying Oil Palm Empty Fruit Bunches (OPEFB) and Isolation of Lignin-degrading Bacteria from a Tropical Environment.

Oil palm empty fruit bunches (OPEFB) are the most abundant, inexpensive, and environmentally friendly lignocellulosic biomass in Malaysia. Investigations on the microbial diversity of decaying OPEFB may reveal microbes with complex enzymes that have the potential to enhance the conversion of lignocellulose into second-generation biofuels as well as the production of other value-added products. In the present study, fungal and bacterial diversities in decaying OPEFB were identified using Illumina MiSeq sequencing of the V3 region of the 16S rRNA gene and V4 region of the 18S rRNA gene.

Depolymerization of lignocellulose of oil palm empty fruit bunch by thermophilic microorganisms from tropical climate.

Previous studies on screening of lignin-degrading bacteria mainly focused on the ligninolytic ability of the isolated bacteria for the utilization of lignin monomers. In this study, we focused on the depolymerization of alkali lignin to prove the ability of the isolated thermophilic bacterial strains to utilize and depolymerize more than a monomer of alkali lignin within 7 days of incubation. Indigenous thermophilic bacterial isolates from the palm oil plantation were used to evaluate the depolymerization and utilization of alkali lignin.

Whole gene transcriptomic analysis of PCB/biphenyl degrading Rhodococcus jostii RHA1.

This study gives the first picture of whole RNA-Sequencing analysis of a PCB-degrading microbe, Rhodococcus jostii RHA1. Genes that were highly expressed in biphenyl-grown cells, compared with pyruvate-grown cells, were chosen based on the Reads Per Kilobase Million (RPKM) value and were summarized based on the criteria of RPKM ≥100 and fold change ≥2.0.