Characterisation of microplastic debris in beach sediment of the coastal zone in Vietnam: A preliminary study in Da Nang

Microplastic (MP) pollution has become a global concern and a hot issue in Vietnam, especially along the coastal hydrosphere. The investigation was carried out by collecting the sediment samples from three typical urbanised beaches in Da Nang: My Khe, T20, and Son Thuy. The qualitative identification and quantitative analysis of MP samples were conducted using micro-Fourier-transform-infrared spectroscopy (μFTIR). A tailored analysis based on adaptation procedure of well-known ones was applied including 5 steps: (1) Drying and homogenising sediment sample; (2) Digestion and cleaning sediment sample; (3) MPs separation by the flotation; (4) MPs sample filtration; (5) MPs quantification and identification. The obtained data showed that the abundances of MPs at three beaches of Son Thuy, T20, and My Khe were 1,460±758, 1,799±370, and 29,232±2,577 items/kg dry sediment, respectively. MPs were classified by different sizes, in which the one with sizes being smaller than 150 μm was accounted for the highest proportion of 77.83% at Son Thuy, 87.96% at T20, and 65.91% at My Khe beach. The chemical composition of MPs with various polymers was precisely identified, in which three dominant polymers were determined as PTFE [Polytetrafluoroethylene (Teflon)], EVOH (Ethylene vinyl alcohol), and PA [Polyamide (Nylon)]. Preliminary results of MPs analysis in sediment samples of the three selected beaches in Da Nang can be interpreted as a solid basis for further investigation of MP debris in the shoreline, offshore, and other related samples towards conclusions about the sources of MP pollution in the marine environment in Vietnam’s coastal hydrosphere in future.

Kajian pengaruh kondisi dekomposisi analisis logam tembaga dalam sedimen di pelabuhan ikan Sendang Biru secara SSA

Cu that is absorbed in marine sediments can accumulate in the food chain even in small concentrations. Cu analysis in these sediments can be used to analyze water pollution due to human activities. The purpose of this study was to determine the level of Cu in decomposed sediments with variation of solvent concentration, variation of decomposition time, and variation of solvent volume and then compare the result of Cu analysis decomposed using HNO3 solvent under effective condition with aqua regia solvent. The method of analysis used is decomposition technique of sediment sample by using reflux and then analyzed with AAS.. Cu yang terserap dalam sedimen laut dapat berakumulasi dalam rantai makanan meskipun dalam konsentrasi kecil. Analisis Cu dalam sedimen ini dapat digunakan untuk menganalisis pencemaran perairan akibat aktivitas manusia. Tujuan penelitian ini adalah menentukan kadar Cu dalam sedimen yang didekomposisi dengan variasi konsentrasi pelarut, variasi waktu dekomposisi, dan variasi volume pelarut dan membandingkan hasil analisis Cu yang didekomposisi menggunakan pelarut HNO3 pada kondisi efektif dengan pelarut akuaregia. Metode analisis yang digunakan yaitu teknik dekomposisi sampel sedimen dengan menggunakan refluks dan dianalisis dengan SSA.

Complete Genome Sequence of Methanobacterium electrotrophus Strain YSL, Isolated from Coastal Riverine Sediments

Methanobacterium electrotrophus strain YSL was isolated from enriched microbial aggregates from a coastal riverine sediment sample from Shandong Province, China. The genome of YSL was sequenced with the PacBio Sequel platform and contained three plasmids in addition to the chromosome. A total of 2,521 protein-coding genes and 58 RNA genes were predicted.

Metagenomic analysis of microbial communities in the sediments of a semi-intensive penaeid shrimp culture system

The present study reports metagenomic sequencing and microbial diversity analysis of the sediment samples of a semi-intensive penaeid shrimp culture system. 16S rRNA gene-based high-throughput sequencing revealed distinct and diverse microbial communities in the analyzed sample. Analysis of the results showed a high abundance of Proteobacteria followed by Verrucomicrobia, Bacteroidetes, Planctomycetes, Firmicutes, Cyanobacteria, and Actinobacteria in the metagenome retrieved from the sediment sample. Unclassified bacteria also contributed a significant portion of the metagenome. Two potential shrimp pathogens viz Vibrio harveyi and Acinetobacter lwoffii detected in the sediment sample show the risk associated with the pond. Microbes that play essential roles in nutrient cycling and mineralization of organic compounds such as Bacteroidetes, Planctomycetes, Gammaproteobacteria, Firmicutes, Cyanobacteria, and Actinobacteria could also be identified. The present study provides preliminary data with respect to the microbial community present in the sediments of a shrimp culture system and emphasizes the application of metagenomics in exploring the microbial diversity of aquaculture systems, which might help in the early detection of pathogens within the system and helps to develop pathogen control strategies in semi-intensive aquaculture systems.

Tracking mineral and geochemical characteristics of Holocene lake sediments: the case of Hotagen, west-central Sweden

Purpose Intact lake sediments reflect the development of terrestrial ecosystems. This development can be understood by decoding mineral and geochemical information of sedimentary archives. Therefore, we characterized a Holocene lake sediment core and revealed bulk to micro-scale variations via a combination of geochemical techniques and statistical methods. Methods A 2.3 m sediment core was collected from Hotagen, a lake in west-central Sweden; a sediment sample was collected every 5 cm. A part of each sediment sample was kept untreated (named bulk) and another part was size-fractionated into < 4, 4–16, 16–64, and > 64 µm subsamples. Characterization was then made with respect to grain size distribution (GSD), physico-chemical parameters, geochemical properties, organic composition, and mineralogy. The sediments were investigated at bulk, micro-, and elemental scales using powder X-ray diffraction (XRD), diffuse reflectance infrared Fourier transform spectroscopy (DRIFT), and scanning electron microscopy coupled to energy-dispersive X-ray spectroscopy (SEM–EDX). Results The deepest sediment was identified as glacial till dating back to the Late Pleistocene. The bulk sediments showed a clear distinction between 0–195 cm (unit 1, U1) and 200–225 cm (unit 2, U2) depths. Quartz and feldspar minerals decreased and organic matter and clay minerals increased from the till towards the lower limit of U1. The development in the sedimentary properties marked the transformation of the terrestrial ecosystem from glacier-covered land to vegetated areas. This development was also well reflected by the appearance of X-ray amorphous materials and the formation of distinct organo-mineral aggregates; chlorite was the predominant clay mineral in these aggregates. The geochemical variation between U2 and U1 sediments was further established by resolving the DRIFT spectral components through multivariate curve resolution alternating least square (MCR-ALS). The U1 sediments settled over a period of ~ 7500 years and showed comparable mineral, geochemical, and organic composition. However, the size-fractionated sediments, mainly < 4 µm, showed diverse mineral and geochemical composition. Indeed, these sediments were distinct by containing relatively higher amounts of X-ray amorphous materials and clay minerals, the latter had variable Na, Mg, and K contents. Conclusion The combined use of geochemical and statistical approaches used in this study followed the mineral and geochemical development of sediments that had settled during the Late Pleistocene and Early Holocene Epochs. Finally, the U2 sediments marked the terrestrial ecosystem development that occurred during the late glaciation, deglaciation, and post-glaciation periods. Graphical abstract

Grab what you can—an evaluation of spatial replication to decrease heterogeneity in sediment eDNA metabarcoding

Environmental DNA methods such as metabarcoding have been suggested as possible alternatives or complements to the current practice of morphology-based diversity assessment for characterizing benthic communities in marine sediment. However, the source volume used in sediment eDNA studies is several magnitudes lower than that used in morphological identification. Here, we used data from a North Sea benthic sampling station to investigate to what extent metabarcoding data is affected by sampling bias and spatial heterogeneity. Using three grab parallels, we sampled five separate sediment samples from each grab. We then made five DNA extraction replicates from each sediment sample. Each extract was amplified targeting both the 18S SSU rRNA V1–V2 region for total eukaryotic composition, and the cytochrome c oxidase subunit I (COI) gene for metazoans only. In both datasets, extract replicates from the same sediment sample were significantly more similar than different samples from the same grab. Further, samples from different grabs were less similar than those from the same grab for 18S. Interestingly, this was not true for COI metabarcoding, where the differences within the same grab were similar to the differences between grabs. We also investigated how much of the total identified richness could be covered by extract replicates, individual sediment samples and all sediment samples from a single grab, as well as the variability of Shannon diversity and, for COI, macrofaunal biotic indices indicating environmental status. These results were largely consistent with the beta diversity findings, and show that total eukaryotic diversity can be well represented using 18S metabarcoding with a manageable number of biological replicates. Based on these results, we strongly recommend the combination of different parts of the surface of single grabs for eDNA extraction as well as several grab replicates, or alternatively box cores or similar. This will dilute the effects of dominating species and increase the coverage of alpha diversity. COI-based metabarcoding consistency was found to be lower compared to 18S, but COI macrofauna-based indices were more consistent than direct COI alpha diversity measures.

Spatial and Structural Factors Shape Seagrass-Associated Bacterial Communities in Singapore and Peninsular Malaysia

Plant-microbe relationships play critical roles in the functioning and health of terrestrial plants, but little is known about this relationship in marine angiosperms such as seagrasses. Here, we investigated the microbial communities associated with the seagrass Enhalus acoroides throughout Singapore and Peninsular Malaysia. At each sampling location we collected 10 individual and unconnected plants. Each plant was subsequently broken down into leaves, roots, and rhizomes. In addition to living plant parts a sediment sample was taken in close proximity to each. Using high throughput 16S rRNA gene amplicon sequencing we characterised the bacterial communities associated with each plant part and the associated sediment sample. Results indicate geographic structuring of bacterial communities, with a significant pattern of distance decay suggesting dispersal limitation is a contributing factor to the differences we see in bacterial community structure. Bacterial communities can be further differentiated by the function of the collected sample (leaf, root, and rhizome), and we identified a number of microbial indicator species that are associated with each plant part. Further analysis revealed the presence of several microbial taxa that have previously been identified as indicators of “unhealthy” or “stressed” seagrass meadows. This study addresses a current scientific gap related to the characterisation of seagrass microbiomes, and provides a foundation on which future studies can build, particularly those in the Southeast Asian seagrass biodiversity hotspot.

Detection and Identification of Sediment Layer to Discover the Marine Mineral Resources Potential in Aruah Islands

<p>Aruah Islands is located on an international shipping line adjacent to Malaysia. The important aspect in borderline management is the maritime resource potential, one of which is sea minerals. In order to dig the information about marine mineral resources in Aruah Islands, a high-resolution seismic reflection with low frequency was applied, which capable to detect the depth and identify the sedimentary layers clearly and accurately. The depth of water and sediment layers were detected using an echosounder, reason Navi sound type 210 with a tow fish 100 kHz and shallow seismic boomer with a single channel type and wave energy 200 Joules. Gravity core and grab sampler were used to collect the sediment sample. There were three stages on seismic interpretation: sequence analysis, facies analysis, and reflection character identification. Furthermore, sediments containing coarse sand-sized minerals were observed using a microscope. The measurement result of Aruah Islands water depth was ranging from 0-80 m, the deepest part is on the Northern of Batu Mandi island which was 80 m depth. Seismic profiles indicated that the upper layer of tertiary sedimentary as the youngest rocks. Based on sediment thickness, the thickest area was found on the Western (approx. 50 m) and the Northern (approx. 32 m). In line with the island’s Southern part condition, which was plain or shallow sea exposure, the Southeastern island sediment thickness ranged only about 10-18 m. Generally, based on the analyzed sediment sample, quartz was the main mineral found, which was 60-80% of the composition. Other minerals were zircon, tin, hematite, magnetite, limonite, biotite, and dolomite.</p>

Impact of Sedimentation on Water Seepage Capacity in Lake Nakuru, Kenya

Accumulation and deposition of sediments in waterbody affect the seepage capacity that could lead to improper water balance and results in the water level rise. This study analysed the influence of sedimentation on seepage capacity in Lake Nakuru and the impact of sediment characteristics to the water seepage and the flow rate formation at the lake bed level. The study was performed by sampling and analysing the sediment cores from two locations in the lake. The sediment hydraulic properties, i.e., moisture and porosity, particle sizes, and hydraulic conductivity, were determined using the oven-drying method, sieve analysis, hydrometer analysis, and falling head tests, respectively. The results showed that the lake sediment sample from location P1 had an average ratio of 39.38% for silty soil, 34.00% for clayey sediment, and 26.63% for fine-sand sediment particles with the maximum permeability coefficient of 3.37 ∗ 10 − 5 cm/s, while the one from location P2 had an average ratio of 63.17% for sand, 20.17% for fine particles, and 16.67% for gravels with the maximum permeability coefficient of 0.010793 cm/s. The hydraulic conductivity of sediment sample from location P1 and P2 increased along the core depth. This could lead to the rise of water level due to the decreases of water movement induced from the sediment cementation in the top layers under the waterbody. Sedimentation affects Lake Nakuru water volume and water balance; hence, there is a need to control the inflow of sediment resulting from anthropogenic activities in the watershed.