Aims: A simple in vitro model system was applied in this study assessing the dynamics of the microbial community associated with the shrimp gut system to understand the changes that influence dietary variables. Methodology and results: The diversity and abundance of microbiome were monitored within two different treatment slurries inoculated with shrimp faecal samples as to mimic the effect of diet manipulation, and 16S rRNA gene of MiSeq Illumina-based sequencing was applied. The different diets tested were a commercial standard diet and a prodigiosin added diet. There was very clear separation between the commercial standard diet and prodigiosin added diet as revealed by the total viable counts (TVC) and sequencing data. It suggested that the microbial community of the shrimp gut system exhibited a dynamic response with the treatments and allochthonous bacterial present. The prodigiosin added diet was clearly separated from the commercial standard diet serving as a potential shrimp feed additive. The sequencing data analysis showed that members of the genera Vibrio, Shigella and Photobacterium became predominant on the commercial standard diet treatment. The prodigiosin-added diet treatments indicated an abundance of members of the genera Micrococcus, Arthrobacter, and Shigella. Conclusion, significance and impact of study In vitro model system-based testing of diets could be a useful method to determine the potential effect of diet manipulation on shrimp gut system microbiome members.

Aims: This study aims to assess the impact of anthropogenic activities on shrimp microbiome in a biodiverse mangrove forest ecosystem, along the Merbok River, Kedah, Malaysia. Methodology and results: To assess the impacts, a microbiome study of wild post larvae shrimps along the river was conducted as a health indicator of the shrimp hosts which in turn would reflect the river conditions. A 16S rRNA gene amplicon sequencing of the wild post larvae shrimp microbiomes sampled across areas of varying human activities was conducted. Samples were obtained from four sites ranging from upstream river habitat to downstream brackish water towards the marine coast. Individuals detected from the sequence were then counted and their relative abundance of bacterial diversity were compared. All abundances are up to 100% and the diversity indices were calculated using proportions of each species. The Operational Taxonomy Unit (OTUs) were obtained by using USEARCH and UPARSE software. Twenty-eight bacterium phyla were detected, dominated by phyla Proteobacteria, Actinobacteria, Firmicutes and Bacteroidetes at each site. Eighteen families were dominant at each site with Streptomycetaceae being the major abundant. At the genus level, the most abundant genera were Streptomyces sp., Mesorhizobium sp., Rhizobium sp., Bacillus sp. and Pseudomonas sp. Conclusion, significance and impact of study In general, the diversity of opportunistic and coliform bacteria was low. Thus, despite being exposed to various levels of human activities, the Merbok River and its mangrove surroundings still serve as a good spawning and nursery sites of shrimps and presumably other inhabitants.
Biodiversity ; Decapoda ; Wetlands

Aims: The purpose of this research was to explore the composition and genomic functions of bacterial community inhabiting the rhizosphere of Mimosa pudica, which were naturally growing on tailing and non-tailing soils of an ex-tin mining area. Methodology and results: DNA were extracted from rhizosphere soils and PCR targeting the hypervariable region V3-V4 was carried out by Illumina 16S metagenomic library. Libraries were sequenced using Illumina MiSeq. The Operational Taxonomic Units (OTUs) were assigned to 23 bacterial phyla, 72 classes, 165 orders, 248 families and 357 genera. The most represented and dominant phylum was Proteobacteria, with an average abundance value of 41.2%. The most represented genera included Paraburkholderia, Bradyrhizobium, Bacillus, Candidatus, Acidothermus, Acidibacter and Nitrospira. Non-tailing soils had more number and richness of species while the tailings had more diversity of species. The metagenomes accommodate suspected genes for heavy metal tolerance of microbes (As, Cr, Co, Zn, Ni, Cu, Cd, Fe and Hg) and microbial plant-growth-promoting traits for hyperaccumulator plants (synthesis of indole acetic acid (IAA), siderophore and 1-aminocyclopropane-1-carboxylic acid (ACC) deaminase; solubilization of phosphate and potassium and nitrogen fixation). Conclusion, significance and impact of study Bacteria and predicted genes discovered could be part of major factors influencing growth of M. pudica in heavy metal-contaminated soils. The study provides the first report and a basis into the bacterial community associated with M. pudica in ex-tin mining soils from the studied geographical location. The findings also provide fundamental knowledge on phytoremediation potential of heavy metal contaminated soils involving indigenous beneficial microbial populations.
Bacteria ; Rhizosphere ; Mimosa ; Plant Growth Regulators

Aims: The antibiofilm activity of endophytic fungus Nigrospora sphaerica CL-OP30 isolated from Swietenia macrophylla King was investigated. Methodology and results: The ability of the fungal endophytic crude extract to impede Streptococcus mutans biofilm formation was preliminarily screened with Congo red agar test. It was proven that S. mutans biofilm formation was hindered on the agar supplemented with the fungal endophytic crude extract. The antibiofilm activity of the fungal endophytic crude extract was evaluated using a microtiter plate method on both initially formed and preformed biofilm. Antibiofilm activity was recorded in a concentration-dependent pattern whereby higher concentrations reduced biofilm formation better than the lower concentrations of extract for both initially formed and preformed biofilm. The architecture of biofilm tested with fungal endophytic crude extract was also observed. Visualization under a light microscope and SEM revealed that the adherence of S. mutans biofilm treated with fungal endophytic crude extract was significantly reduced in both initially formed and preformed biofilm. In addition, observation under SEM showed that the matrices surrounding the bacterial cells were disintegrated and bacterial cells in biofilm completely lost their original shape. The overall data demonstrated that the ethyl acetate N. spaherica CL-OP30 crude extract showed good antibiofilm activity. Conclusion, significance and impact of study The antibiofilm study suggested the potential of N. sphaerica CL-OP30 crude extract against S. mutans biofilm by disrupting the biofilm formation, the disintegration of matrices surrounding the biofilm and responsible for the formation of irregular cell shape. This extract may have a promising potential to be developed as an antibiofilm agent.

Aims: The aquaculture industry has been identified as one of the sources for the emergence of antimicrobial resistant bacteria. This study aimed to determine the level of bacterial contamination from selected catfish pond farming at Jasin, Melaka and its susceptibility to antimicrobial agents. The correlation between the sampling points’ Water Quality Index and the level of bacterial contamination was also determined. Methodology and results : Sampling was carried out at six sampling points of the river as well as selected catfish pond farming. Microbial counts were assessed using the membrane filtration and isolates were further identified by using the polymerase chain reaction (PCR) method. Antimicrobial susceptibility tests were carried out using the disk diffusion method. Results showed that the total bacterial count obtained was not significantly different (P>0.05) between sampling points with an average of 4.47 ± 0.41 log CFU/mL. A total of 27 different bacterial species were identified where 63% were identified as Gram-negative bacteria. A medium negative correlation (r=-6.16, P<0.01) was found between the sampling points’ Water Quality Index and the level of bacterial contamination. Among bacterial species identified, 18 species are pathogenic strains. Conclusion, significance and impact of study Antibiotic susceptibility test indicated that only 4 isolates showed resistance to antimicrobials tested and the study shows the potential cross contamination between fishponds and Kesang River, Melaka. Thus, public health concerns are tangible, and prevention of the cross contamination is crucial for the farm.