The aquaculture industry has become increasingly important and is rapidly growing in terms of providing a protein food source for human consumption. With the increase in the global population, demand for aquaculture is high and is estimated to reach 62% of the total global production by 2030. In 2018, it was reported that the demand for aquaculture was 46% of the total production, and with the current positive trends, it may be possible to increase tremendously in the coming years. China is still one of the main players in global aquaculture production. Due to high demand, aquaculture production generates large volumes of effluent, posing a great danger to the environment. Aquaculture effluent comprises solid waste and dissolved constituents, including nutrients and contaminants of emerging concern, thereby bringing detrimental impacts such as eutrophication, chemical toxicity, and food insecurity. Waste can be removed through culture systems, constructed wetlands, biofloc, and other treatment technologies. Some methods have the potential to be applied as zero-waste discharge treatment. Thus, this article analyses the supply and demand for aquaculture products, the best practices adopted in the aquaculture industry, effluent characteristics, current issues, and effluent treatment technology.
Soil ecosystems are home to a diverse range of microorganisms, but they are only partially understood because no single-cell sequencing or whole-community sequencing provides a complete picture of these complex communities. Using one of such metagenomics approaches, we succeeded in monitoring the microbial diversity and stress-response gene in the soil samples. This study aims to test whether known differences in taxonomic diversity and composition are reflected in functional gene profiles by implementing whole gene sequencing (WGS) metagenomic analysis of geographically dispersed soils from two distinct pristine forests. The study was commenced by sequencing three rainforest soil samples and three peat swamp soil samples. Soil richness effects were assessed by exploring the changes in specific functional gene abundances to elucidate physiological constraints acting on different soil systems and identify variance in functional pathways relevant to soil biogeochemical cycling. Proteobacteria shows abundances of microbial diversity for 52.15% in Royal Belum Reserved Forest and 48.28% in Raja Musa; 177 out of 1,391,841 and 449 out of 3,586,577 protein coding represent acidic stress-response genes for Royal Belum and Raja Musa, respectively. Raja Musa indicates pH 2.5, which is extremely acidic. The analysis of the taxonomic community showed that Royal Belum soils are dominated by bacteria (98% in Sungai Kooi (SK), 98% in Sungai Papan (SP), and 98% in Sungai Ruok (SR), Archaea (0.9% in SK, 0.9% in SP, and 1% in SR), and the remaining were classed under Eukaryota and viruses. Likewise, the soils of Raja Muda Musa are also dominated by bacteria (95% in Raja Musa 1 (RM1), 98% in Raja Musa 2 (RM2), and 96% in Raja Musa 3 (RM3)), followed by Archaea (4% in RM1, 1% in RM2, and 3% in RM3), and the remaining were classed under Eukaryota and viruses. This study revealed that RBFR (Royal Belum Foresr Reserve) and RMFR (Raja Musa Forest Reserve) metagenomes contained abundant stress-related genes assigned to various stress-response pathways, many of which did not show any difference among samples from both sites. Our findings indicate that the structure and functional potential of the microbial community will be altered by future environmental potential as the first glimpse of both the taxonomic and functional composition of soil microbial communities.
The objectives of this review are to determine the types of indices to use, to assess the current sediment quality index (SQI) of a mangrove forest and to select the appropriate index to describe the mangrove sediment quality index. Amongst the many indices considered in this review are the enrichment factors (EFs), the geo-accumulation index (Igeo), the pollution load index (PLI), the marine sediment pollution index (MSPI) and sediment quality index (SQI). The different indices give diverse perspectives of the status of mangrove sediment quality. This review also highlights the appropriate parameters that need to be used in assessing sediment quality, such as the physical, chemical and biological properties. As the comparison review, the sediment quality can be utilized for Mangrove quality index (MQI) development like to assess the heavy metal, complete laboratory parameters and a classification following the Interim Sediment Quality Guidelines ISQG, PCA and HACA. For the heavy metal content of sediment, the suggested parameters are Pb, Zn, Cu, Co and Mn. Lastly, for the indices, the enrichment factor (EFs), geo-accumulation index (Igeo), pollution load index (PLI) and marine sediment pollution index (MPSI) are used in develop SQI on mangrove forest.
Performance evaluation of pilot scale sub-surface constructed wetlands was carried out in treating leachate from Pulau Burung Sanitary Landfill (PBSL). The constructed wetland was planted with Cyperus haspan with sand and gravel used as substrate media. The experiment was operated for three weeks retention time and during the experimentation, the influent and effluent samples were tested for its pH, turbidity, color, total suspended solid (TSS), chemical oxygen demand (COD), biochemical oxygen demand (BOD(5)), ammonia nitrogen (NH(3)-N), Total phosphorus (TP), total nitrogen (TN) and also for heavy metals such as iron (Fe), magnesium (Mg), manganese (Mn) and zinc (Zn) concentrations. The results showed that the constructed wetlands with C. haspan were capable of removing 7.2-12.4% of pH, 39.3-86.6% of turbidity, 63.5-86.6% of color, 59.7-98.8% of TSS, 39.2-91.8% of COD, 60.8-78.7% of BOD(5), 29.8-53.8% of NH(3)-N, 59.8-99.7% of TP, 33.8-67.0% of TN, 34.9-59.0% of Fe, 29.0-75.0% of Mg, 51.2-70.5% of Mn, and 75.9-89.4% of Zn. The significance of removal was manifested in the quality of the effluent obtained at the end of the study. High removal efficiencies in the study proved that leachate could be treated effectively using subsurface constructed wetlands with C. haspan plant.
This study investigated the optimum conditions for total petroleum hydrocarbon (TPH) removal from diesel-contaminated water using phytoremediation treatment with Scirpus grossus. In addition, TPH removal from sand was adopted as a second response. The optimum conditions for maximum TPH removal were determined through a Box-Behnken Design. Three operational variables, i.e. diesel concentration (0.1, 0.175, 0.25% Vdiesel/Vwater), aeration rate (0, 1 and 2 L/min) and retention time (14, 43 and 72 days), were investigated by setting TPH removal and diesel concentration as the maximum, retention time within the given range, and aeration rate as the minimum. The optimum conditions were found to be a diesel concentration of 0.25% (Vdiesel/Vwater), a retention time of 63 days and no aeration with an estimated maximum TPH removal from water and sand of 76.3 and 56.5%, respectively. From a validation test of the optimum conditions, it was found that the maximum TPH removal from contaminated water and sand was 72.5 and 59%, respectively, which was a 5 and 4.4% deviation from the values given by the Box-Behnken Design, providing evidence that S. grossus is a Malaysian native plant that can be used to remediate wastewater containing hydrocarbons.
One of the appropriate development technology options for the treatment of wastewater contaminated with diesel is constructed wetlands (CWs). Throughout 72 days of exposure, sampling was carried out for monitoring of physical parameters, plant growth and the efficiency of total petroleum hydrocarbon (TPH) removal, as an indication for diesel contamination, to assess the pilot-scale performance. Four pilot CWs with a horizontal sub-surface flow system were applied using the bulrush of Scirpus grossus. The CWs were loaded with different diesel concentrations of 0, 0.1, 0.2 and 0.25% (Vdiesel/Vwater). The TPH removal efficiencies were 82, 71, and 67% at the end of 72 days for diesel concentrations of 0.1, 0.2, and 0.25% respectively. In addition, the high removal efficiency of total suspended solids and chemical oxygen demand (COD) were 100 and 75.4% respectively, for a diesel concentration of 0.1%. It was concluded that S. grossus is a potential plant that can be used in a well-operated CW for restoring 0.1% diesel-contaminated water.
The spatial and temporal distributions of trace metals in dissolved forms mainly result from anthropogenic and lithogenic contributions. Surface water samples (∼0.5 m) were collected monthly at respective stations from Setiu Wetland. In this study, the behaviour of trace metals in the dissolved phases along the water column from sampling sites in the Setiu Wetland, Malaysia was investigated. In addition, dissolved organic carbon (DOC) and physical parameters such as salinity, temperature, pH and dissolved oxygen (DO) of the surface water were measured in order to evaluate the relationship between trace metals fractionation with different water quality parameters. Size fractionation study of dissolved trace metals using ultrafiltration technique were also carried out and analysed using inductively coupled plasma mass spectrometry (ICP-MS). Correlation of trace metals with other measured parameters was made to furthermore understand the dynamics of trace metals and its fractionated components in this area. The concentration of dissolved trace metals was in the range of 0.001-0.16 μg/L for Cd, 0.12-2.81 μg/L for Cu, 0.01-1.84 μg/L for Pb, 3-17 μg/L for Fe and 1-34 μg/L for Zn, suggesting the input of anthropogenic sources for trace metals such as municipal, industrial, agricultural and domestic discharge. The periodic monitoring and evaluation of trace metals in wetlands and protected tropical areas is highly recommended.
Dye is one of the pollutants found in water bodies because of the increased growth of the textile industry. In this study, Scirpus grossus was planted inside a constructed wetland to treat mixed dye (methylene blue and methyl orange)-containing wastewater under batch and continuous modes. The plants were exposed to various concentrations (0, 50, 75, and 100 mg/L) of mixed dye for 72 days (with hydraulic retention time of 7 days for the continuous system). Biological oxygen demand, chemical oxygen demand, total organic carbon, pH, temperature, ionic content, and plant growth parameters were measured. Results showed that S. grossus can withstand all the tested dye concentrations until the end of the treatment period. Color removal efficiencies of 86, 84, and 75% were obtained in batch mode, whereas 90%, 85%, and 79% were obtained in continuous mode for 50, 75, and 100 mg/L dye concentrations, respectively. Fourier-transform infrared analysis confirmed the transformation of dye compounds after treatment and scanning electron microscopy coupled with energy-dispersive X-ray spectroscopy analysis showed that most of the intermediate compounds were not absorbed into plants but adsorbed onto the surface of the root structure.
This article investigated how crabs responded to different culture salinities through ovarian maturation stages using combination of external morphology (ovarian coloration and gonadosomatic index), and histological assessment (oocyte structures and diameter sizes). A total of sixty immature crabs were sampled from coastal water of Setiu Wetlands, Kuala Nerus, Terengganu, Peninsular Malaysia, and were introduced to limb autotomy technique in order to induce molt. Crabs were reared until successfully molted, and leaves prior to hardened shell, before proceed with salinities acclimatization prior to salinity treatments (10, 20 and 30 ppt). Five crabs were randomly selected every 15 days throughout 60-day of culture (Day 15, 30, 45 and 60) for the assessment. The different between each ovarian maturation stages was recorded based on the color appearances, and Kruskal-Wallis analysis were done between gonadosomatic index and oocyte diameter sizes with different salinity treatments. Part of the data is associated with the recent articles [1], [2] and provided here as raw data of Supplementary materials.
Oil palm (Elaeis guineensis) agriculture is rapidly expanding and requires large areas of land in the tropics to meet the global demand for palm oil products. Land cover conversion of peat swamp forest to oil palm (large- and small-scale oil palm production) is likely to have negative impacts on microhabitat conditions. This study assessed the impact of peat swamp forest conversion to oil palm plantation on microclimate conditions and soil characteristics. The measurement of microclimate (air temperature, wind speed, light intensity and relative humidity) and soil characteristics (soil surface temperature, soil pH, soil moisture, and ground cover vegetation temperature) were compared at a peat swamp forest, smallholdings and a large-scale plantation. Results showed that the peat swamp forest was 1.5-2.3 °C cooler with significantly greater relative humidity, lower light intensities and wind speed compared to the smallholdings and large-scale plantations. Soil characteristics were also significantly different between the peat swamp forest and both types of oil palm plantations with lower soil pH, soil and ground cover vegetation surface temperatures and greater soil moisture in the peat swamp forest. These results suggest that peat swamp forests have greater ecosystem benefits compared to oil palm plantations with smallholdings agricultural approach as a promising management practice to improve microhabitat conditions. Our findings also justify the conservation of remaining peat swamp forest as it provides a refuge from harsh microclimatic conditions that characterize large plantations and smallholdings.
Bacteria of the genus Bartonella have been known as emerging zoonotic pathogens for several human diseases including cat scratch disease, Carrion's disease and trench fever. Numerous species of small mammals have been reported to play a role as a suitable reservoir to many pathogenic Bartonella. These infections are thought to be transmitted through blood-feeding arthropod vectors such as ticks, fleas and lice. The purpose of this study is to detect the presence of Bartonella species from tick samples collected from small mammals in mangrove forests of Peninsular Malaysia. Herein, 38 individual ticks and their small mammals host were evaluated for the presence of Bartonella DNA by conventional PCR targeting the 16S rRNA intergenic spacer region (ITS) and partial sequencing of 460 bp from this locususing Bartonella genus-specific primers. Two tick individuals from Dermacentor auratus and Haemaphysalis hystricis collected from Rattus tiomanicus (host), were PCR-positive for Bartonella DNA amplification. No Bartonella amplification was possible in other tick species (Amblyomma sp.). Phylogenetic analysis of ITS fragments demonstrated that the sequences from ticks were closely related to Bartonella phoceensis, a species that has been reported from black rats (Rattus rattus) in Australia. This is the first report of a Bartonella bacteria detected in ticks from small mammals in Malaysia. Further research should be warranted to investigate the transmission of Bartonella and the potential impact of this zoonotic pathogen in animals and humans as this mangrove ecosystem is significant for local economy and tourism.
The continuous accumulation of microplastics in the environment poses ecological threats and has been an increasing problem worldwide. In this study, eight bacterial strains were isolated from mangrove sediment in Peninsular Malaysia to mitigate the environmental impact of microplastics and develop a clean-up option. The bacterial isolates were screened for their potential to degrade UV-treated microplastics from polyethylene (PE), polyethylene terephthalate (PET), polypropylene (PP), and polystyrene (PS). Only two isolates, namely, Bacillus cereus and Bacillus gottheilii, grew on a synthetic medium containing different microplastic polymers as the sole carbon source. A shake flask experiment was carried out to further evaluate the biodegradability potential of the isolates. Degradation was monitored by recording the weight loss of microplastics and the growth pattern of the isolates in the mineral medium. The biodegradation extent was validated by assessment of the morphological and structural changes through scanning electron microscopy and Fourier transform infrared spectroscopy analyses. The calculated weight loss percentages of the microplastic particles by B. cereus after 40 days were 1.6%, 6.6%, and 7.4% for PE, PET, and PS, respectively. B. gottheilii recorded weight loss percentages of 6.2%, 3.0%, 3.6%, and 5.8% for PE, PET, PP, and PS, respectively. The designated isolates degraded the microplastic material and exhibited potential for remediation of microplastic-contaminated environment. Biodegradation tests must be conducted to characterize the varied responses of microbes toward pollutants, such as microplastics. Hence, a novel approach for biodegradation of microplastics must be developed to help mitigate the environmental impact of plastics and microplastic polymers.
Interest in the biodegradation of microplastics is due to their ubiquitous distribution, availability, high persistence in the environment and deleterious impact on marine biota. The present study evaluates the growth response and mechanism of polypropylene (PP) degradation by Bacillus sp. strain 27 and Rhodococcus sp. strain 36 isolated from mangrove sediments upon exposure to PP microplastics. Both bacteria strains were able to utilise PP microplastic for growth as confirmed by the reduction of the polymer mass. The weight loss was 6.4% by Rhodococcus sp. strain 36 and 4.0% by Bacillus sp. strain 27 after 40days of incubation. PP biodegradation was further confirmed using Fourier-transform infrared spectroscopy and scanning electron microscopy analyses, which revealed structural and morphological changes in the PP microplastics with microbial treatment. These analyses showed that the isolates can colonise, modify and utilise PP microplastics as carbon source.
We report the draft genome sequence of Paenibacillus sp. strain MSt1, which has broad-range antimicrobial activity, isolated from tropical peat swamp soil. Genes involved in antimicrobial biosynthesis are found to be present in this genome.
Emergence of antimicrobial resistance coupled with the slowdown in discovery of new antimicrobial compounds points to serious consequences for human health. Therefore, scientists are looking for new antimicrobial compounds from unique and understudied ecosystems such as tropical peat swamp forests. Over the course of isolating antimicrobial producing bacteria from North Selangor tropical peat swamp forest, Malaysia, a Gram variable, rod shaped, endospore forming, facultative anaerobic novel strain MSt1(T) that exerts potent and broad spectrum antimicrobial activity was isolated. Phylogenetic analysis using 16S rRNA gene sequences showed that strain MSt1(T) belonged to the genus Paenibacillus with the highest similarity to Paenibacillus elgii SD17(T) (99.5%). Whole genome comparison between strain MSt1(T) with its closely related species using average nucleotide identity (ANI) revealed that similarity between strain MSt1(T) with P. elgii B69 (93.45%) and Paenibacillus ehimensis A2 (90.42%) was below the recommended threshold of 95%. Further analysis using in silico pairwise DDH also showed that similarity between strain MSt1(T) with P. elgii B69 (55.4%) and P. ehimensis A2 (43.7%) was below the recommended threshold of 70%. Strain MSt1(T) contained meso-diaminopilemic acid in the cell wall and MK-7 as the major menaquinone. The major fatty acids of strain MSt1(T) were anteiso-C15:0 (48.2%) and C16:0 (29.0%) whereas the polar lipid profile consisted of phosphatidylglycerol, phosphatidylethanolamine, diphosphatidylglycerol, one unknown lipid, two unknown glycolipids, and one unknown phospholipid. Total DNA G+C content of strain MSt1(T) was 51.5 mol%. The extract from strain MSt1(T) exerted strong antimicrobial activity against Escherichia coli ATCC 25922 (MIC = 1.5 μg/mL), MRSA ATCC 700699 (MIC = 25 μg/mL) and Candida albicans IMR (MIC = 12.5 μg/mL). Partially purified active fraction exerted a strong effect against E. coli ATCC 25922 resulting in cell rupture when viewed with SEM. Based on distinctive taxonomic differences between strain MSt1(T) when compared to its closely related type species, we propose that strain MSt1(T) represents a novel species within the genus of Paenibacillus, for which the name Paenibacillus tyrfis sp. nov. (= DSM 100708(T) = MCCC 1K01247(T)) is proposed.
The Bio-ecological Drainage System, or BIOECODS, is an urban drainage system located at the Engineering Campus, Universiti Sains Malaysia. It consists of a constructed wetland as a part of the urban drainage system to carry storm water in a closed system. In this closed system, the constructed wetland was designed particularly for further treatment of storm water. For the purpose of studying the water balance of the constructed wetland, data collection was carried out for two years (2007 and 2009). The results show that the constructed wetland has a consistent volume of water storage compared to the outflow for both years with correlation coefficients (R(2)) of 0.99 in 2007 and 0.86 in 2009.
Benzo[a]pyrene is a high-molecular-weight polycyclic aromatic hydrocarbon highly recalcitrant in nature and thus harms the ecosystem and/or human health. Therefore, its removal from the marine environment is crucial. This research focuses on benzo[a]pyrene degradation by using enriched bacterial isolates in consortium under saline conditions. Bacterial isolates capable of using benzo[a]pyrene as sole source of carbon and energy were isolated from enriched mangrove sediment. These isolates were identified as Ochrobactrum anthropi, Stenotrophomonas acidaminiphila, and Aeromonas salmonicida ss salmonicida. Isolated O. anthropi and S. acidaminiphila degraded 26% and 20%, respectively, of an initial benzo[a]pyrene concentration of 20 mg/L after 8 days of incubation in seawater (28 ppm of NaCl). Meanwhile, the bacterial consortium decomposed 41% of an initial 50 mg/L benzo[a]pyrene concentration after 8 days of incubation in seawater (28 ppm of NaCl). The degradation efficiency of benzo[a]pyrene increased to 54%, when phenanthrene was supplemented as a co-metabolic substrate. The order of biodegradation rate by temperature was 30°C > 25°C > 35°C. Our results suggest that co-metabolism by the consortium could be a promising biodegradation strategy for benzo[a]pyrene in seawater.
Coastal wetlands including salt marshes are among the most productive ecosystems on Earth. They are known for improving the quality of coastal water and provisioning coastal fisheries. However, this ecosystem is under potential threat due to urban coastal land reclamation, limited sediment supply, increased nutrient/eutrophication, and sea level rise. Therefore, restoration efforts to protect the degraded salt marsh habitat are considerably increasing worldwide. In this paper, we present an overview of salt marsh restoration techniques and success indicators. Published scientific literature in English language was collected by searching the most relevant keywords from popular search engines, namely, Google Scholar, Scopus, and Mendeley to get the information about salt marsh restoration techniques and success indicators. This study comprehensively reviewed data from 78 peer-reviewed papers. Results indicated that much of the salt marsh was restored through assisted abiotic strategies (e.g., recovery of tidal exchange, managed realignment, and sediment level amendment). A total of 214 indicators were found, spanning over six major ecological attributes such as structural diversity, ecosystem functions, physical conditions, species composition, external exchange, and absence of threat. Author keywords analysis revealed several hotspots for recent research (e.g., 16 s rRNA, fungi, microbial communities, carbon accumulation, and blue carbon). This paper proposes a model for restoring degraded salt marsh, as well as tracking their success. The information presented here will assist the marine ecosystem restoration practitioners in getting a comprehensive understanding of salt marsh restoration success evaluation.
Examination of 35 barramundi (Lates calcarifer) from aquaculture cages in Setiu Wetland, Malaysia, revealed a single fish infected with three Henneguya spp. (Cnidaria: Myxosporea). Characterization of the infections using tissue tropism, myxospore morphology and morphometry and 18S rDNA sequencing supported description of three new species: Henneguya setiuensis n. sp., Henneguya voronini n. sp. and H. calcarifer n. sp. Myxospores of all three species had typical Henneguya morphology, with two polar capsules in the plane of the suture, an oval spore body, smooth valve cell surfaces, and two caudal appendages. Spores were morphometrically similar, and many dimensions overlapped, but H. voronini n. sp. had shorter caudal appendages compared with H. calcarifer n. sp. and H. setiuensis n. sp. Gross tissue tropism distinguished the muscle parasite H. calcarifer n. sp. from gill parasites H. setiuensis n. sp. and H. voronini n. sp.; and these latter two species were further separable by fine-scale location of developing plasmodia, which were intra-lamellar for H. setiuensis n. sp. and basal to the filaments for H. voronini n. sp. small subunit ribosomal DNA sequences distinguished all three species: the two gill species H. setiuensis n. sp. and H voronini n. sp. were only 88% similar (over 1708 bp), whereas the muscle species H. calcarifer n. sp. was most similar to H. voronini n. sp. (98% over 1696 bp). None of the three novel species was more than 90% similar to any known myxosporean sequence in GenBank. Low infection prevalence of these myxosporeans and lack of obvious tissue pathology from developing plasmodia suggested none of these parasites are currently a problem for barramundi culture in Setiu Wetland; however additional surveys of fish, particularly at different times of the year, would be informative for better risk assessment.
Tropical peatlands are important carbon stores that are vulnerable to drainage and conversion to agriculture. Protection and restoration of peatlands are increasingly recognised as key nature based solutions that can be implemented as part of climate change mitigation. Identification of peatland areas that are important for protection and restauration with regards to the state of their carbon stocks, are therefore vital for policy makers. In this paper we combined organic geochemical analysis by Rock-Eval (6) pyrolysis of peat collected from sites with different land management history and optical remote sensing products to assess if remotely sensed data could be used to predict peat conditions and carbon storage. The study used the North Selangor Peat Swamp forest, Malaysia, as the model system. Across the sampling sites the carbon stocks in the below ground peat was ca 12 times higher than the forest (median carbon stock held in ground vegetation 114.70 Mg ha-1 and peat soil 1401.51 Mg ha-1). Peat core sub-samples and litter collected from Fire Affected, Disturbed Forest, and Managed Recovery locations (i.e. disturbed sites) had different decomposition profiles than Central Forest sites. The Rock-Eval pyrolysis of the upper peat profiles showed that surface peat layers at Fire Affected, Disturbed Forest, and Managed Recovery locations had lower immature organic matter index (I-index) values (average I-index range in upper section 0.15 to -0.06) and higher refractory organic matter index (R -index) (average R-index range in upper section 0.51 to 0.65) compared to Central Forest sites indicating enhanced decomposition of the surface peat. In the top 50 cm section of the peat profile, carbon stocks were negatively related to the normalised burns ratio (NBR) (a satellite derived parameter) (Spearman's rho = -0.664, S = 366, p-value = <0.05) while there was a positive relationship between the hydrogen index and the normalised burns ratio profile (Spearman's rho = 0.7, S = 66, p-value = <0.05) suggesting that this remotely sensed product is able to detect degradation of peat in the upper peat profile. We conclude that the NBR can be used to identify degraded peatland areas and to support identification of areas for conversation and restoration.