Although it is possible to recover the complete mitogenome directly from shotgun sequencing data, currently reported methods and pipelines are still relatively time consuming and costly. Using a sample of the Australian freshwater crayfish Engaeus lengana, we demonstrate that it is possible to achieve three-day turnaround time (four hours hands-on time) from tissue sample to NCBI-ready submission file through the integration of MiSeq sequencing platform, Nextera sample preparation protocol, MITObim assembly algorithm and MITOS annotation pipeline.
During several surveys made in the region of the lower Fly River and delta, Papua New Guinea, nine species of oxudercine gobies (Gobiidae: Oxudercinae) were recorded: Boleophthalmus caeruleomaculatus, Oxuderces wirzi, Periophthalmodon freycineti, Periophthalmus darwini, Periophthalmus novaeguineaensis, Periophthalmus takita, Periophthalmus weberi, Scartelaos histophorus and Zappa confluentus. An exploratory multivariate analysis of their habitat conditions discriminated five guilds, differentially distributed in habitats with different quantities of environmental water and three guilds corresponding to different levels of salinity. A partial correspondence between phylogenetic and ecological categories suggested the presence of parallel adaptive radiations within different genera. In particular, the species found in the most terrestrial habitats (P. weberi) was also found in the widest range of conditions, suggesting that colonization of extreme semi-terrestrial and freshwater habitats by this species was facilitated by eurytypy. It is proposed that these findings provide insight into convergent adaptations for the vertebrate eco-evolutionary transition from sea to land.
A total of 1951 species of freshwater and marine fishes belonging to 704 genera and 186 families are recorded in Malaysia. Almost half (48%) are currently threatened to some degree, while nearly one third (27%) mostly from the marine and coral habitats require urgent scientific studies to evaluate their status. Freshwater habitats encompass the highest percentage of threatened fish species (87%) followed by estuarine habitats (66%). Of the 32 species of highly threatened (HT) species, 16 are freshwater and 16 are largely marine-euryhaline species. Fish extinctions in Malaysia are confined to two freshwater species, but both freshwater and marine species are being increasingly threatened by largely habitat loss or modification (76%), overfishing (27%) and by-catch (23%). The most important threat to freshwater fishes is habitat modification and overfishing, while 35 species are threatened due to their endemism. Brackish-water, euryhaline and marine fishes are threatened mainly by overfishing, by-catch and habitat modification. Sedimentation (pollution) additionally threatens coral-reef fishes. The study provides recommendations to governments, fish managers, scientists and stakeholders to address the increasing and unabated extinction risks faced by the Malaysian fish fauna.
Acute and chronic effects of insecticide-endosulfan on the survival and reproduction performance of Moina macrocopa were determined in a laboratory study. Endosulfan concentrations that cause 50% mortality (LC50) after exposure for 24 and 48 h were 3.34 and 0.16 mg L(-1), respectively. Average longevity, initial age of reproduction and intrinsic rate of natural increase were reduced at 0.002 mg L(-1). Fecundity was greatly reduced by about 70% at 0.0004 mg L(-1) and approximately 97% at 0.002 mg L(-1) as compared to control organisms throughout the whole life span of 15 days. If environmental concentration of endosulfan do not exceed 0.0004 mg L(-1), application of this insecticide is unlikely to induce detrimental effects on these cladoceran populations in agro-ecosystem.
Hyalella azteca (Crustacea: Amphipoda), water and sediments from 12 circum-neutral lakes between Sudbury and North Bay in Ontario, Canada were sampled in August 1998 and analyzed for 10 metals including Cu, Zn, Cd, Ni, Pb, Co, Mo, V, Ba and Ti. Statistical analyses showed that concentrations of the metals in H. azteca, water and sediment differed significantly (ANOVA, P<0.05) among lakes (except for Zn and Pb in H. azteca and Mo in water). There was a trend of declining metal concentration, especially for Cu, Ni and Co (in water, Hyalella and sediment), with distance from the smelters indicating the reduced impact of atmospheric pollution. Metal concentrations of lakes (water) in the Sudbury area were found to be lower compared to data from the 1970s and 1980s indicating an improvement in water quality. Metal concentrations in field-collected amphipods compared favorably with those measured in the laboratory in animals exposed to deep-water sediments, provided metal concentrations were not extremely low (e.g., Pb) and that water chemistry differences (e.g., pH) were taken into account for some metals (especially Cd). In general bioaccumulation of metals in H. azteca was predicted better from surface water than from sediment total metal.
The green algal genus Cladophora forms conspicuous nearshore populations in marine and freshwaters worldwide, commonly dominating peri-phyton communities. As the result of human activities, including the nutrient pollution of nearshore waters, Cladophora-dominated periphyton can form nuisance blooms. On the other hand, Cladophora has ecological functions that are beneficial, but less well appreciated. For example, Cladophora has previously been characterized as an ecological engineer because its complex structure fosters functional and taxonomic diversity of benthic microfauna. Here, we review classic and recent literature concerning taxonomy, cell biology, morphology, reproductive biology, and ecology of the genus Cladophora, to examine how this alga functions to modify habitats and influence littoral biogeochemistry. We review the evidence that Cladophora supports large, diverse populations of microalgal and bacterial epiphytes that influence the cycling of carbon and other key elements, and that the high production of cellulose and hydrocarbons by Cladophora-dominated periphyton has the potential for diverse technological applications, including wastewater remediation coupled to renewable biofuel production. We postulate that well-known aspects of Cladophora morphology, hydrodynamically stable and perennial holdfasts, distinctively branched architecture, unusually large cell and sporangial size and robust cell wall construction, are major factors contributing to the multiple roles of this organism as an ecological engineer.
The native distribution of the small labyrinth fish species Pseudosphromenus cupanus includes southern India and Sri Lanka. According to literature it has a range including also Pakistan, Bangladesh, Myanmar, Malaysia, and Indonesia (Sumatra) but there are no voucher specimens or reliable observations from those areas. The distribution record of P. cupanus was inflated partly by including P. dayi as a synonym. Pseudosphronemus dayi is native to the Western Ghats in India, but the origin of the aquarium importation in 1907 was reported as both Cochin (=Kochi) and Malacca (=Malaysia), the latter locality obviously in error. The basis for the Sumatra record is an obviously mislabeled sample of P. dayi from Pulau Weh close to Sumatra. The basis for reporting the species from Pakistan, Myanmar or Bangladesh could not be located. Misidentified museum specimens from Myanmar and Pakistan identified as P. cupanus were never published on. Pseudosphromenus cupanus has been considered recently to be extinct in Bangladesh, but in fact it never occurred there.
Freshwaters provide valuable habitat and important ecosystem services but are threatened worldwide by habitat loss and degradation. In Southeast Asia, rainforest streams are particularly threatened by logging and conversion to oil palm, but we lack information on the impacts of this on freshwater environmental conditions, and the relative importance of catchment versus riparian-scale disturbance. We studied 16 streams in Sabah, Borneo, including old-growth forest, logged forest, and oil palm sites. We assessed forest quality in riparian zones and across the whole catchment and compared it with stream environmental conditions including water quality, structural complexity, and organic inputs. We found that streams with the highest riparian forest quality were nearly 4 °C cooler, over 20 cm deeper, had over 40% less sand, greater canopy cover, more stored leaf litter, and wider channels than oil palm streams with the lowest riparian forest quality. Other variables were significantly related to catchment-scale forest quality, with streams in the highest quality forest catchments having 40% more bedrock and 20 times more dead wood, along with higher phosphorus, and lower nitrate-N levels compared to streams with the lowest catchment-scale forest quality. Although riparian buffer strips went some way to protecting waterways, they did not maintain fully forest-like stream conditions. In addition, logged forest streams still showed signs of disturbance 10-15 years after selective logging. Our results suggest that maintenance and restoration of buffer strips can help to protect healthy freshwater ecosystems but logging practices and catchment-scale forest management also need to be considered.
Conventional hydrogeologic framework models used to compute ocean island sustainable yields and aquifer storage neglect the complexity of the nearshore and offshore submarine environment. However, the onshore aquifer at the island of Hawai'i exhibits a notable volumetric discrepancy between high-elevation freshwater recharge and coastal discharge. In this study, we present a novel transport mechanism of freshwater moving from onshore to offshore through a multilayer formation of water-saturated layered basalts with interbedded low-permeability layers of ash/soil. Marine electromagnetic imaging reveals ∼35 km of laterally continuous resistive layers that extend to at least 4 km from west of Hawai'i's coastline, containing about 3.5 km3 of freshened water. We propose that this newly found transport mechanism of fresh groundwater may be the governing mechanism in other volcanic islands. In such a scenario, volcanic islands worldwide can use these renewable offshore reservoirs, considered more resilient to climate change-driven droughts, as new water resources.
The application of microbial techniques in aquaculture has been playing a vital role to increase the production yield by improving the nutritional values of the targeted fish. Phototrophic purple bacteria as single cell protein (SCP) appears to be a promising substitution for protein rich supplement for aquaculture feeds making them a promising growth enhancer in aquaculture industry. Two species of phototrophic purple bacteria, Marichromatium sp. and Rhodopseudomonas sp. were used in the commercial diet to compare the growth, survival rate and feed utilizationon for Tor tambroides juvenile. Purple bacteria were isolated from mangrove sediment and fish tank and mass cultured using 112 synthetic media under anaerobic light condition. Bacterial cells were included in the diets by mixing the fresh biomass with the crushed commercial pellet, re-pelleted and air-dried. The experimental diets were fed to the fingerlings twice per day for 10 weeks to satiation level. The results showed that there were trends of increased growth, better survival rate and improved feed conversion ratio when fed with diet 1 (Marichromatium sp.) compared with other diets. There was significant difference (p<0.05) between the sampling days. The specific growth rate and weight gain of the fish fed with diet 1 were 0.49 % and 4.92 g, respectively, compared to 0.42% and 4.11 g from the control. This study suggested that purple bacteria could be used in feed formulation as a supplement to promote growth and survival of freshwater fishes in Malaysia.
Subcritical water extraction (SCW) was used to extract oil from Chlorella pyrenoidosa. The operational factors such as reaction temperature, reaction time, and biomass loading influence the oil yield during the extraction process. In this study, response surface methodology was employed to identify the desired extraction conditions for maximum oil yield. Experiments were carried out in batch reactors as per central composite design with three independent factors including reaction temperature (170, 220, 270, 320, and 370°C), reaction time (1, 5, 10, 15, and 20 min), and biomass loading (1, 3, 5, 10, and 15%). A maximum oil yield of 12.89 wt.% was obtained at 320°C and 15 min, with 3% biomass loading. Sequential model tests showed the good fit of experimental data to the second-order quadratic model. This study opens the great potential of SCW to extract algal oil for use in algal biofuel production.
Combining feeding appendage morphology and behavioural observation of the motion pattern of the feeding appendages clarified many aspects underlying the feeding processes of the giant freshwater prawn (Macrobrachium rosenbergii) and the marine whiteleg shrimp (Litopenaeus vannamei) in aquaria. The food intake behaviour was video recorded during eating pellet food, and pieces of fresh squid and fish. While M. rosenbergiitook pellet one by one, L. vannamei picked up many pellets at one time and held them at the mouth with the 3rd maxilliped endopods and the 1st walking legs. Both species used the right chelate walking legs rather than the left walking legs to pick up the food. The 3rd walking legs of L. vannameiwere longest and heaviest among the chelate walking legs but their major role was not for feeding but for feeding contests often in the form of aggression. While M. rosenbergii easily crunched pellets by the mandibles, L. vannamei did not crunch pellets due to the softer and not so strong mandibles and frequently spat out them, indicating that the present hard pellets are not suitable for L. vannamei. Both the species kept a piece of elastic fresh squid or fish flesh at the mouth and tore the food into small pieces with the help of repeated pulling down motion of the 3rd maxilliped endopods. However, the mandible teeth of the two spices were not sharp enough to gnaw off the fibrous muscle in one bite. The 2nd and 3rd maxilliped endopods were used for holding food at the mouth and did not contribute to mastication of food. The 2nd and 3rd maxilliped exopods exhibited the horizontal fanning motion, which caused a unidirectional water flow moving backwards in the gill chamber (visualized with milk). The maxilliped exopods were found to contribute not to feeding but ventilation. Based on the results obtained, development of softer pellets was recommended for L. vannamei.
High population density and economic development attributing to the changes in water quality in Pa Sak River, Lopburi River, and Mekong River have attracted great attention. This research aimed to determine the pollution of heavy metals in collected clams at three different study sites. Bioaccumulation of heavy metals in Asian clam (Corbicula fluminea) may be likely to cause serious health effects on human beings. The clams sampled from three different rivers (Mekong, Pa Sak, and Lopburi) from Thailand were analyzed for the presence of heavy metals (Zn, Cu, Cd, Cr, Mn, and Pb) with an air-acetylene flame atomic absorption spectrophotometer (AAS). Among the heavy metals studied, Zn was recorded as having the highest concentration (127.33-163.65 μg/g) among the three rivers. The observed mean concentration of Cu was in the range of 84.61-127.15 μg/g followed by Mn (13.96-100.63 μg/g), Cr (5.79-15.00 μg/g), Pb (3.43-8.55 μg/g), and Cd (0.88-1.95 μg/g). Overall, Asian clam from Pa Sak River was found to contain high concentrations of Zn, Cu, Cd, Cr, and Pb compared to Mekong and Lopburi River.
Macrobrachium rosenbergii is well-known as the giant freshwater prawn, and is a commercially significant source of seafood. Its production can be affected by various bacterial contaminations. Among which, the genus Vibrio shows a higher prevalence in aquatic organisms, especially M. rosenbergii, causing food-borne illnesses. Vibrio parahaemolyticus, a species of Vibrio is reported as the main causative of the early mortality syndrome. Vibrio parahaemolyticus infection in M. rosenbergii was studied previously in relation to the prawn's differentially expressed immune genes. In the current review, we will discuss the growth conditions for both V. parahaemolyticus and M. rosenbergii and highlight the role of magnesium in common, which need to be fully understood. Till date, there has not been much research on this aspect of magnesium. We postulate a model that screens a magnesium-dependent pathway which probably might take effect in connection with N-acetylglucosamine binding protein and chitin from V. parahaemolyticus and M. rosenbergii, respectively. Further studies on magnesium as an environment for V. parahaemolyticus and M. rosenbergii interaction studies will provide seafood industry with completely new strategies to employ and to avoid seafood related contaminations.
Vibrio harveyi causes vibriosis in various commercial marine fish species. The infection leads to significant economic losses for aquaculture farms, and vaccination is an alternative approach for the prevention and control of fish diseases for aquaculture sustainability. This study describes the use of formalin-killed Vibrio harveyi (FKVh) strain Vh1 as a vaccine candidate to stimulate innate and adaptive immunities against vibriosis in a marine red hybrid tilapia model. Tilapia are fast growing; cheap; resistant to diseases; and tolerant to adverse environmental conditions of fresh water, brackish water, and marine water and because of these advantages, marine red hybrid tilapia is a suitable candidate as a model to study fish diseases and vaccinations against vibriosis. A total of 180 healthy red hybrid tilapias were gradually adapted to the marine environment before being divided into two groups, with 90 fish in each group and were kept in triplicate with 30 fish per tank. Group 1 was vaccinated intraperitoneally with 100 µL of FKVh on week 0, and a booster dose was similarly administered on week 2. Group 2 was similarly injected with PBS. Skin mucus, serum, and gut lavage were collected weekly for enzyme-linked immunosorbent assay (ELISA) and a lysozyme activity assay from a total of 30 fish of each group. On week 4, the remaining 60 fish of Groups 1 and 2 were challenged with 108 cfu/fish of live Vibrio harveyi. The clinical signs were monitored while the survival rate was recorded for 48 h post-challenge. Vaccination with FKVh resulted in a significantly (p < 0.05) higher rate of survival (87%) compared to the control (20%). The IgM antibody titer and lysozyme activities of Group 1 were significantly (p < 0.05) higher than the unvaccinated Groups 2 in most weeks throughout the experiment. Therefore, the intraperitoneal exposure of marine red hybrid tilapia to killed V. harveyi enhanced the resistance and antibody response of the fish against vibriosis.
A high bituminous shale horizon from the Gurha mine in the Bikaner sub-basin of the Rajasthan District, NW India, was studied using a collection of geochemical and petrological techniques. This study investigated the nature and environmental conditions of the organic matter and its relation to the unconventional oil-shale resources of the bituminous shale. The analyzed shales have high total organic carbon and total sulfur contents, suggesting that these shale sediments were deposited in a paralic environment under reducing conditions. The dominant presence of organic matter derived from phytoplankton algae suggests warm climatic marine environment, with little connection to freshwater enhancing the growth of algae and other microorganisms. The analyzed bituminous shales have high aquatic-derived alginite organic matters, with low Pr/Ph, Pr/n-C17, and Ph/n-C18 ratios. It is classified as Type II oil-prone kerogen, consistent with high hydrogen index value. Considering the maturity indicators of geochemical Tmax (
The present study is aimed to evaluate the effects of sub-acute toxicity testing of copper sulphate (CuSO4), on behavioural, histological and biochemical changes of the Oreochromis mossambicus (black tilapia) blood tissues. The effects were assessed according to the previous results on sub-acute toxicity test after exposing fish to several concentrations (0.0, 2.5, 5.0, and 10.0 mg/L). The observations of scanning electron microscope, and transmission electron microscope studies revealed severe histopathological changes on the surface and the cellular changes in blood tissues, respectively. The morphological alterations in blood involved irregular structure of red blood cell and blood clot formation. CuSO4 affected the biochemical alteration of the blood cholinesterase also known as serum cholinesterase (ChE). Blood ChE inhibited up to 80% of activity when exposed to 10.0 mg/L CuSO4. The findings from this study can further improve the quality standards of aquaculture industry and the fundamental basis in selecting suitable strains among freshwater fish species to be used as bioindicator.
Although nutrient removal and recovery from municipal wastewater are desirable to protect phosphorus resource and water-bodies from eutrophication, it is unclear how much environmental and economic benefits and burdens it might cause. This study evaluated the environmental and economic life cycle performance of three different upgraded Processes A, B and C with commercially available technologies for nutrient removal and phosphorus recovery based on an existing Malaysian wastewater treatment plant with a sequencing batch reactor technology and diluted municipal wastewater. It is found that the integration of nutrient removal, phosphorus recovery and electricity generation in all upgraded processes reduced eutrophication potential by 62-76%, and global warming potential by 7-22%, which, however, were gained at the cost of increases in human toxicity, acidification, abiotic depletion (fossil fuel) and freshwater ecotoxicity potentials by an average of 23%. New technologies for nutrient removal and phosphorus recovery are thus needed to achieve holistic rather than some environmental benefits at the expense of others. In addition, the study on two different functional units (FU), i.e. per m3 treated wastewater and per kg struvite recovered, shows that FU affected environmental assessment results, but the upgraded Process C had the least overall environmental burden with either of FUs, suggesting the necessity to use different functional units when comparing and selecting different technologies with two functions such as wastewater treatment and struvite production to confirm the best process configuration. The total life cycle costs of Processes A, B and C were 10.7%, 29.8% and 28.1%, respectively, higher than the existing process due to increased capital and operating costs. Therefore, a trade-off between environmental benefits and cost has to be balanced for technology selection or new integrated technologies have to be developed to achieve environmentally sustainable wastewater treatment economically.
Dengue fever and its fatal complications have made a comeback since its control in the 1990’s. The Flavivirus has evolved into 4 serotypes DEN 1,2,3,4 which can be passed on by the mosquitoes for 7 generations for each serotype. This communicable disease is predominantly confined to urban areas. Quick control of the spread of the disease will prevent it from becoming an epidemic. The two species mosquitoes involved have different behaviours. The Aedes aegypti is an indoor vector which breeds in clean, clear and calm freshwater. The Aedes albopictus is an outdoor breeding mosquito which breeds in stagnant waters. Surveillance of the areas prone to outbreaks is vital. One of the roles of the entomologist is to monitor the vector for resistance to the insecticides. Localities that have been subjected to recurrent outbreaks will have vector which develop resistance to the insecticides used.