Metazoan endoparasite fauna and feeding ecology of commercial fishes from Java, Indonesia.
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ABSTRACT:
SUBMITTER: Koepper S
PROVIDER: S-EPMC8800894 | biostudies-literature |
REPOSITORIES: biostudies-literature
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Project description:BackgroundIn Indonesia, the burden of severe hyperbilirubinemia is higher compared to other countries. Whether this is related to ineffective phototherapy (PT) is unknown. The aim of this study is to investigate the performance of phototherapy devices in hospitals on Java, Indonesia.MethodsIn 17 hospitals we measured 77 combinations of 20 different phototherapy devices, with and without curtains drawn around the incubator/crib. With a model to mimic the silhouette of an infant, we measured the irradiance levels with an Ohmeda BiliBlanket Meter II, recorded the distance between device and model, and compared these to manufacturers' specifications.ResultsIn nine hospitals the irradiance levels were less than required for standard PT: < 10 μW/cm2/nm and in eight hospitals irradiance failed to reach the levels for intensive phototherapy: 30 μW/cm2/nm. Three hospitals provided very high irradiance levels: > 50 μW/cm2/nm. Half of the distances between device and model were greater than recommended. Distance was inversely correlated with irradiance levels (R2 = 0.1838; P < 0.05). The effect of curtains on irradiance levels was highly variable, ranging from - 6.15 to + 15.4 μW/cm2/nm, with a mean difference (SD) of 1.82 (3.81) μW/cm2/nm (P = 0.486).ConclusionsIn half of the hospitals that we studied on Java the levels of irradiance are too low and, in some cases, too high. Given the risks of insufficient phototherapy or adverse effects, we recommend that manufacturers provide radiometers so hospitals can optimize the performance of their phototherapy devices.
| S-EPMC6555918 | biostudies-literature
Project description:The feeding ecology of two reef fishes associated with artificial reefs in the northwest Gulf of Mexico (GoM) was examined using gut contents and natural stable isotopes. Reefs were divided into three regions (east, central, west) across an east to west gradient of increasing reef complexity and salinity. Gray triggerfish (Balistes capriscus) primarily consumed reef-associated prey (xanthid crabs, bivalves, barnacles) and pelagic gastropods, while red snapper (Lutjanus campechanus) diets were mainly comprised of non-reef prey (stomatopods, fishes, portunid crabs). Natural stable isotopes of carbon (?13C), nitrogen (?15N), and sulfur (?34S) were measured in consumer muscle tissue as well as potential primary producers. Gray triggerfish occupied a lower trophic position than red snapper, with lower ?13C and ?15N values across all size classes and regions, and generally higher ?34S values. Red snapper had a smaller range of stable isotope values and corrected standard ellipse areas across all size classes and regions, indicating a smaller isotopic niche. Contribution estimates of particulate organic matter (26 to 54%) and benthic microalgae (BMA, 47 to 74%) for both species were similar, with BMA contributions greater across all three size classes (juveniles, sub-adults, adults) of red snapper and all but the juvenile size class for gray triggerfish. Species gut contents and stable isotopes differed by region, with fishes consuming more crabs in the east region and more gastropods in the central and west regions. ?13C and ?15N values generally decreased from east to west, while ?34S increased across this gradient. Results highlight species-specific feeding differences associated with artificial reefs, where gray triggerfish may be more dependent on the reef structure for foraging opportunities. In addition, results offer further information on the integral role of BMA in primary production at nearshore artificial reefs.
| S-EPMC6168147 | biostudies-literature
Project description:Background and aimInfectious bronchitis (IB) is still a major problem among poultry industry in Indonesia, IB outbreaks continue to happen even in vaccinated flocks. The emergence of new IB virus (IBV) variants might lead to mismatching between vaccine virus strain and circulating virus strain, this may be a reason of vaccination failure. Information about circulating IBV in a region is important to decide which IB vaccine should be used. However, information about recent IBV strains which circulated in Indonesia and their genetic characters were limited; therefore, the aim of our research was to determine the genetic characterization of S1 gene of IBV isolated from commercial poultry flocks in West Java, Indonesia.Materials and methodsA total of 47 viral isolate samples collected from chickens with clinical sign and reduced in egg production. Six IB live vaccines were used as control, the reference vaccines represent IBV strains including H120, H52, 4/91, CR88, 233A, and 1-96. Primers XCe2+ and XCe2- were used to amplify S1 gene partially.ResultsTwenty-six of 47 samples showed positive result to S1 gene of IBV by reverse transcription-polymerase chain reaction. Three IBV isolates, Indonesia/K233A31/18, Indonesia/K4A9/17, and Indonesia/P3/17, were selected for nucleotide sequencing. Phylogenetic analysis of 352 nucleotides of the partial S1 gene shows that isolates Indonesia/K4A9/17 and Indonesia/K233A31/18 have 100% homology with IBV vaccine strain 4/91, while isolate Indonesia/P3/17 has 100% homology with IBV vaccine strain 233A.ConclusionOur result indicates that at least two IBV strains were circulating among poultry in West Java, Indonesia, which is IBV close to vaccine strain 4/91 and 233A. The present study provides updates on the circulating IBV in commercial poultry flocks in West Java, Indonesia, and might use as guidance on selecting a proper IB vaccine strain to improve IB vaccination efficacy in certain region.
| S-EPMC6460881 | biostudies-literature
Project description:The aim of the present work was to provide an overview of management and feeding practices, and the prevalence of endoparasite infections in captive Swiss reindeer. On two visits to eight farms or zoos, a standardized questionnaire was completed. A total of 67 reindeer were weighed, and fecal samples were collected. The primary management concerns voiced by owners/managers were feeding and successful breeding. All reindeer were fed roughage ad libitum and supplementary feed for reindeer or other browsers, with different compositions in each herd. Males over two years of age weighed from 60 kg up to 127.5 kg, whereas females had a body weight from 53.5 kg to 86.5 kg. The prevalence of gastrointestinal strongyles was 68.6% (46/67), with reindeer in zoos having a lower prevalence (36%; 9/25) than reindeer from private farms (88%; 37/42). Capillaria sp., Strongyloides sp., and Trichuris sp. were detected in lower prevalences (<24%) and were also more frequent in private farms. Intestinal protozoa, as well as fluke and tapeworms, were not detected in any herd. This study provides an overview on husbandry, feeding, and endoparasite prevalence in reindeer in Switzerland and should be of help for breeders and veterinarians dealing with this animal species.
| S-EPMC10177455 | biostudies-literature
Project description:PurposeThe stomachs and spiral valves of sharks and rays were examined for their trypanorhynch (Cestoda) parasite fauna and dietary items to infer feeding ecology. In Indonesia, sharks and rays have been experiencing increasing awareness and conservation in the recent years due to high fisheries activities and to avoid future species extinction.MethodsThe samples were collected in 2009 from two different sampling sites at the southern coasts of Java and Bali in Indonesia. The parasite fauna was studied for 41 elasmobranch fishes. Amongst these, three shark species, Carcharhinus sorrah, Carcharhinus sp. I and Squalus megalops and seven ray species, Brevitrygon heterura, B. cf. heterura, Gymnura zonura, Maculabatis gerrardi, Mobula kuhlii, Neotrygon cauruleopuncatata and Rhinobatos penggali were studied. Four additional specimens, belonging to the shark species Carcharhinus sp. II and Mustelus cf. manazo and the ray species Maculabatis gerrardi were studied from the waters of South Bali.ResultsAnalyses of the feeding ecology of the ray M. gerrardi revealed distinct differences between both sampling sites, indicating the presence of ecological differences between the geographically independent regions. A total of 11 different trypanorhynch species/taxa belonging to the five families Eutetrarhynchidae (5), Gilquiniidae (1), Lacistorhynchidae (1), Pterobothriidae (1) and Tentaculariidae (3) were found. Ten trypanorhynch species from Penyu Bay and four species from South Bali could be identified. Two taxa that might represent new species were collected: Dollfusiella sp. from Brevitrygon heterura and Prochristianella sp. from Maculabatis gerrardi.ConclusionsThe present paper gives insights in using the trypanorhynch cestode community in combination with feeding ecology analyses to support conservation of elasmobranchs in Indonesian waters.
| S-EPMC9705476 | biostudies-literature
Project description:Alien plants are invading protected areas worldwide, but there is little information from tropical Asia. Java has the longest record of human occupation in Asia and today supports 145 m people. Remnants of natural ecosystems survive in 12 small National Parks surrounded by dense human populations, making them highly vulnerable to invasions. We surveyed eight of these, along a rainfall gradient from lowland rainforest with >3000 mm annual rainfall to savanna with <1500 mm, and a 0-3158 m altitudinal gradient, using 403 10 × 5 m plots along trails. We found 67 invasive alien plant species, of which 33 occurred in only one park and two (Chromolaena odorata and Lantana camara) in all. Historical factors relating to plant introduction appeared to be as important as environmental factors in determining which species occurred in which park, while within parks canopy cover and altitude were generally most influential. Spread away from trails was only evident in open habitats, including natural savannas in Baluran National Park, threatened by invasion of Acacia nilotica. Existing control attempts for invasive aliens are reactive, localized, and intermittent, and insufficient resources are currently available for the early detection, prompt action, and continued monitoring that are needed.
| S-EPMC5570924 | biostudies-literature
Project description:Background: Incidents of SARS-CoV-2 in East Java increased steadily, and it became the second epicenter in Indonesia. The COVID-19 pandemic caused a dire multisectoral crisis all around the world. This study investigates and characterizes local isolates from East Java, Indonesia. Methods: There were 54 patients suspected with SARS-COV-2 infection and 27 patients were COVID-19 positive. Virus isolates were obtained from COVID-19 inpatients' nasopharyngeal swabs at the Dr Soetomo Teaching Hospital, Surabaya. There were only three isolates (#6, #11, #35) with good growth characteristics. Serial blind passage and cytopathic effect observation in the Vero E6 cell line were performed for virus isolation. Confirmation of the SARS-CoV-2 infection was proven by means of reverse transcriptase-polymerase chain reactions using SARS-CoV-2 specific primers, scanning electron microscopy, and scanning transmission electron microscopy examination. Whole genome sequencing was performed using ARTIC protocol. Furthermore, SARS-CoV-2 characterization was identified through a western blot using rabbit serum immunized with inactive SARS-CoV-2 vaccine and human natural COVID-19 infection serum. Results: Spike gene analysis of three samples (#6, #11, #35) found that the D614G mutation was detected in all isolates, although one isolate exhibited the D215Y and E484D mutation. Based on whole genome analysis, those three isolates were included in clade 20A, and two isolates were included in lineage B.1.6 with one isolate belongs to lineage B.1.4.7. Conclusion: Based on molecular characterization and immunogenicity of SARS-CoV-2 East Java, Indonesia showed high titer and it has mutation in some regions.
| S-EPMC8453313 | biostudies-literature
Project description:Conventional studies of petroleum basins associate oil generation with the gradual burial of organic-rich sediments. These classical models rely on the interplay between pressure, temperature, and the time required for organic matter transformation to oil and gas. These processes usually occur over geological timescales, but may be accelerated by rapid reactions when carbon-rich sediments are exposed to migrating magmatic fluids. The spectacular Lusi eruption (north-east Java, Indonesia) is the surface expression of the present-day deep interaction between volcanic and sedimentary domains. Here we report the ongoing generation of large amounts of hydrocarbons induced by a recent magmatic intrusion from the neighbouring Arjuno-Welirang volcanic complex. We have investigated a unique suite of oil and clast samples, and developed a detailed conceptual model for the complex hydrocarbon migration history in this part of the basin by integrating multidisciplinary techniques. Our results show that palynology, organic petrology, and chlorite microthermometry are the most sensitive geothermometers for basins affected by recent magmatic activity. These findings further our understanding of the driving mechanisms fueling the world's largest active mud eruption and provide a unique dataset to investigate modern hydrocarbon generation processes.
| S-EPMC7000390 | biostudies-literature
Project description:West Java Health Laboratory (WJHL) is one of the many institutions in Indonesia that have sequenced SARS-CoV-2 genome. Although having submitted a large number of sequences since September 2020, however, these submitted data lack advanced analyses. Therefore, in this study, we analyze the variant distribution, hotspot mutation, and its impact on protein structure and function of SARS-CoV-2 from the collected samples from WJHL. As many as one hundred sixty-three SARS-CoV-2 genome sequences submitted by West Java Health Laboratory (WJHL), with collection dates between September 2020 and June 2021, were retrieved from GISAID. Subsequently, the frequency and distribution of non-synonymous mutations across different cities and regencies from these samples were analyzed. The effect of the most prevalent mutations from dominant variants on the stability of their corresponding proteins was examined. The samples mostly consisted of people of working-age, and were distributed between female and male equally. All of the sample sequences showed varying levels of diversity, especially samples from West Bandung which carried the highest diversity. Dominant variants are the VOC B.1.617.2 (Delta) variant, B.1.466.2 variant, and B.1.470 variant. The genomic regions with the highest number of mutations are the spike, NSP3, nucleocapsid, NSP12, and ORF3a protein. Mutation analysis showed that mutations in structural protein might increase the stability of the protein. Oppositely, mutations in non-structural protein might lead to a decrease in protein stability. However, further research to study the impact of mutations on the function of SARS-CoV-2 proteins are required.
| S-EPMC8538575 | biostudies-literature
Project description:Background: This study aimed to investigate the abundance of microplastics in the eastern water of Java Sea. The study areas are well known for the high population and high industrial activities that can contribute to the plastic pollution. Methods: Microplastics were sampled from the surface sediments at five different stations representing different local activities: fish landing area (St 1), mangrove forest (St 2), abandoned shrimp pond (St 3), river mouth (St 4) and open sea (St 5). Results: Three types of microplastics were found; the most common was plastic fragments (54.34±6.39%) followed by fibers (41.45±4.59%) and films (4.21±3.90%). The highest abundance of microplastics was observed in the mangrove area (896.96±160.28 particles/kg), dominated with fragments and fibers. Films were found in greatest quantities in the fish landing area, but compared to the other types of microplastics, the abundance was much lower (80.73±37.62 particles/kg). Domestic wastes and fisheries activities were the main causes of the high microplastics in the study areas. Conclusions: The results of this study showed that microplastic pollution is a serious problem that needs to be paid attention not only from the government but also from the local people. Plastics management waste is needed.
| S-EPMC6426082 | biostudies-other