bluuebunny/crossref_metadata_2025_split huggingface dataset:
Molecular docking analysis of selected natural products from Halymenia sp. and Laurencia sp. seaweeds against plasmepsins as antimalarials
Authors: Tasakka Asmi Citra Malina A.R , Iskandar Israini Wiyulanda , Sulfahri  , Suyono Eko Agus , Dewi Eko Nurcahya , Yuwono Mochammad , Kasmiati  , Zainuddin Elmi Nurhaidah , Achmad Marlina , Djawad Muhammad Iqbal , Alam Jamaluddin Fitrah , Umar Widyastuti , Yusriyyah Andi Alya , Zaenab St. 
Published: December 2022

Abstract
Malaria is one of the most important public health problems worldwide, with nearly half of the global population exposed to the risk of contamination. The disease is found in 91 countries, mostly in the tropics and subtropics of the planet. There are several previous research that identifies Plasmepsins as a potential target to develop novel antimalarial drugs from the malaria parasite Plasmodium that play a role in the breakdown of globin into amino acids. Given the above, it is important to find novel and effective drugs that can decrease this disease, especially from natural products such as medicine. Seaweed is a potential source of bioactive compounds to be used as antimalarials, such as species from the genera Laurencia and Halymenia. This recent study has studied the molecular docking approach to identify the potential of Halymenia sp. and Laurencia sp. against Plasmepsin by using PyRx 0.8 software. It showed that the compounds in Halymenia sp. and Laurencia sp. were able to react and inhibit the action of plasmepsin, seen from the binding affinity value, which was quite small at -4.3, this value is higher than the two bioactive compounds in seaweed, namely Stigmasterol and p-hydroxybenzaldehyde which have binding affinity values of -8.5 and 6.5, respectively. Judging from this, the compounds contained in Laurencia sp and Halymenia sp have potential as candidates for antimalarial drugs.
Determination of fatty acid profiles and bioactive properties of body wall and viscera of Holothuria atra collected from Lombok Island, Indonesia
Authors: Putra Y , Soffa F B , Firdaus M , Pangestuti R , Siahaan E A 
Published: December 2022

Abstract

Holothuria atra is one of the most abundant sea cucumbers found in Indonesia and known to possess various bioactivities. In this study we determined the antioxidant, antibacterial activity, and fatty acids of body wall and viscera of H. atra. Samples were collected from North Lombok. Fatty acid profile of fresh H. atra was examined by gas chromatographic quantification. Four different solvents (ethanol, methanol, ethanol mixed with water, and ethanol mixed with acetone) were used to extract the phenolic content of the viscera and body wall of H. atra. It is found that the fatty acids eicosapentanoic acid (EPA) and docosahexanoic acid (DHA) amount of body wall were higher than viscera of H. atra; The results showed H. atra contained 8.56% EPA and 1.6% DHA in the body wall followed by 0.1% EPA and o.37 DHA in the viscera. The extract of body wall of H. atra using ethanol acetone mixture has low antioxidant activity with value of 16.05±0.78mg/mL and the strong antioxidant activity was found in ethanolic extract of H. atra viscera (2.77±0.88 mg/mL). Antibacterial activity of body wall and viscera of H. atra against gram negative and positive bacteria including Pseudomonas aeruginosa, Bacillus subtilis, Escherichia coli, Staphylococcus aureus were conducted by using agar diffusion method.
Evaluation of seaweed, Ulva lactuca as a fresh diet for nursery stage of golden rabbitfish, Siganus guttatus
Authors: Sulaeman H A , Zainuddin  , Laining A 
Published: December 2022

AbstractUlva lactucais a green seaweed with a high potency to be used as fish diet. The feeding trial aimed to evaluate the use ofU.lactucaas fresh diet for the nursery of golden rabbitfishSiganus guttatus. Five treatments were evaluated, namely 100% fresh Ulva (FU), the combination of fresh Ulva and dry pellet with the ratio of 75:25% (UP1), 50:50% (UP2), 25:75% (UP3), and 100% dry pellet (DP) with three replicates. Golden rabbitfish with a mean initial weight of 6.2 g were stocked into fifteen rearing tanks at a density of 20 fish tank−1. After 90 days, growth responses differed significantly amongst dietary groups. Fish fed DP had similar weight gain (219.86%) to UP3 (232.21%), and its specific growth rate (1.29%/day) was similar to UP2 (1.11%/day) and UP3 (1.33%/day), but significantly different (p<0.05) from FU (SGR -0.25%/day; WG -19.97%). The survival rate of fish fed UP2 (98.33%) was significantly different (p<0.05) from FU (80.00%). The fish body color fed FU had bright yellowish color and high carotenoids (14.69 µg g−1) compared to DP. The combination of fresh Ulva with pellet at the same ratio of 50% and 25:75% similar to the 100% pellet diet can support the fish growth.
Potential utilization of mussel meals as an alternative fish feed raw material for aquaculture
Authors: Rasidi  
Published: December 2022

AbstractIncreasing the target of aquaculture production will increase the need for feed which an increase will follow in the need for fish meal. The constraint in aquaculture fish feed dependence on a fish meal import is known. In efforts to find local raw materials to reduce dependence on fish meals, one source of quality animal protein from marine resources as raw material for feed that needs to be studied and developed is mollusks or mussels. This review summarizes the use of mussel meal in aquaculture feed and is expected to provide a comprehensive overview of the existing studies’ potential on mussels meal used as a feed ingredient in fish feed. Many species of mussel have been tested for raw material in fish feed such as blue mussel (Mytilus galloprovincialis), Freshwater mussels (Anodonta anatina & Unio mancus),Mytilus edulisL and Green mussel (Perna viridis). Mussels contain high levels of nutrients and bio-actives which were utilized in the form of mussel meals for feed ingredients. The constraint mussels have high heavy metals such as Pb, Hg and Pb. The utilization of mussel meals as a source of protein feed could increase the growth of several types of cultured fish. One alternative used organic acid as a feed additive to reduce toxicity of heavy metals in fish. The conclusion is that mussel meals have the potential as raw material and an alternative protein source to reduce dependence on a fish meal in aquaculture fish feed.
Effect of feeding rate on growth and feed conversion ratio in the cultivation recirculation systems of multi tropic model
Authors: Heriansah  , Syamsuddin R , Najamuddin  , Syafiuddin  
Published: December 2022

AbstractThe effects of feeding rate (0.5%, 7.5%, and 10% body weight [BW] per day [BW day−1]) on the growth, survival rate, and feed conversion ratio of rabbit fish,Siganus guttatus, (initial BW of 2.0 ± 0.5 g, density of 16 individuals 80 L−1) were investigated in a water recirculating aquaculture system of Integrated Multi Trophic Aquaculture (IMTA model involving musselPerna viridis, sea urchinDiadema sitosum, and seaweedKappaphycus alvarezii. Triplicate groups of fish were fed an comercial diet (55.4% protein, 14.1% lipid) four meals a day (8 a.m, 12 a.m, 4 p.m, dan 8 p.m) for 12 weeks. Survival rate (SR), body weight gain (BWG, specific growth rate (SGR), and feed conversion ratio (FCR) significantly affected (p<0.05) by feeding rate. Experimental application of the IMTA model shows that although the amount of feed given is higher, it can produce better growth performance.
The effect of vitamin B complex and phosphorus on the RNA/DNA ratio and larval growth of barramundi (Lates calcarifer Bloch, 1790)
Authors: Yani Ahmad , Karim Muh. Yusri , Zainuddin  , Aslamyah Siti 
Published: December 2022

AbstractBarramundi (L. calcarifer) is a valuable fish with aquaculture potential. One of the factors determining the success of barramundi aquaculture is the availability of seeds, however larviculture success is often low. This research examined the effect of supplementation with various combinations of vitamin B complex and phosphorus on the RNA/DNA ratio and growth of captive-bred barramundi larvae. Barramundi larvae aged 2 days were stocked at a density of 25 fish/L and reared for 30 days with natural feed (Chlorella and rotifers) in 40 L containers filled with 30 L water. Commercial vitamin B complex and mineral phosphorus were dissolved in water and added to the larval rearing media. The research used a completely randomized factorial design with 2 factors, 4 levels and 3 replicates, giving 16 treatments and 48 experimental units. The factors were vitamin B complex (0, 75, 150, and 225 mg/L) and phosphorus (0, 0.5, 1.0, and 1.5 mg/L). Analysis of variance showed that the combination of vitamin B complex and phosphorus had a highly significant effect (p<0.01) on the RNA/DNA ratio. Barramundi larval growth was lowest with 0 mg/L of both supplements (control) and highest with 150mg/L vitamin B complex and 1.0 mg/L phosphorus, decreasing with higher levels of either additive.
Biological performance and water quality of Asian redtail catfish, Hemibagrus nemurus cultured using duckweed as a phytoremediation
Authors: Setiadi E , Taufik I , Puspaningsih D 
Published: December 2022

Abstract
Asian redtail catfish, Hemibagrus nemurus is one of the local species that have an economical values in Southeast Asia including Indonesia. The research aims to obtain the optimal of duckweed biomass as phytoremediation on survival, growth, stress response, and water quality dynamic of Asian redtail catfish culture. The different of duckweed, Lemna sp biomass as a treatments were as followed A) 0 gram (control); B) 20 gram; C) 40 gram; and D) 60 gram. Three replicates were performed for each treatment. 12 fiber thanks with size of 60 x 40 x 40cm were set up where each thank was stocking 50 fishes. The result showed that the Lemna sp biomass affect the survival, growth, biomass, and blood glucose (P<0.05). The absolute biomass of Lemna sp yield were also significantly different (P<0.05). Water quality dynamic during the culture such as nitrite, nitrate, total of ammonia, phosphate concentrations at the control (0 gram) was the highest compared to the others where the dissolved oxygen (DO), pH and temperature were relative constant. The Lemna sp biomass of 40 gram can be recommended as a phytoremediation for culturing seed in order to increasing productivity and keep the water quality in the optimal range.
Epiphyte attachment preference on Eucheuma denticulatum (Rhodophycea) Thallus and Vertical Net
Authors: Haris B A J , Kasim M , Salwiyah  , Balubi A M , Jalil W 
Published: December 2022

Abstract
The attachment of epiphytes on culture equipment and seaweed thalli has proven to be one of the factors preventing Eucheuma denticulatum growth. This research aimed to clarify epiphyte preference for E. denticulatum thallus and culture equipment by using vertical nets. Vertical net is a cultivation technology that protects seaweeds from herbivorous pests (fish and turtles). This research was conducted at Tanjung Tiram Coast, one of seaweed cultivation areas in Southeast Sulawesi Province, Indonesia. This research used vertical nets and E. denticulatum thalli. The study took place at 3 stations, each using 3 tools and 3 replications. The results showed that there were 7 species of epiphyte attaching to the vertical net equipment and 6 species attaching to the thalli of E. denticulatum. The densities of epiphytes attaching to the vertical net equipment and E. denticulatum thalli were 110 ind./cm2 and 250 ind./cm2 on average, respectively. Statistical analysis showed no significant difference in density between the epiphytes attached to the vertical net equipment and those attached to the E. denticulatum thalli. They also showed that the epiphyte density insignificantly influenced the overall seaweed weight. Correlation analysis showed a significant correlation between the abundance of epiphytes attached to the vertical nets and brightness.
The role of the mangrove environment community in Karawang Regency
Authors: Wopa Luthfiyyah Dzakiyyah , Pin Tjiong Giok , Rahatiningtyas Nurul Sri , Yosmaniar  
Published: December 2022

Abstract
Mangrove ecosystems in Karawang regency have a fairly extensive mangrove forest with various ecology functions based on conservation that can be used as ecotourism. This can be utilized as a local natural potential by being managed by the community. The purpose of this study was to analyze community perceptions of potensial mangrove ecotourism in Cilebar District are scattered in Pusakajaya Utara and Mekarpohaci villages, while Tempuran sub-districts are scattered in Tanjungjaya and Sumberjaya villages. Data was collected through field surveys and interviews using questionnaires. The analysis used in this research is spatial and descriptive. The result showed that the community perception was very good in the Pusakajaya Utara and Sumberjaya villages; while the community perception was good in Mekarpohaci and Tanjungjaya villages. The better community perception of mangrove ecotourism can be the basis for community participation to manage the potential of the mangrove ecosystem in the area.
The content of polycyclic aromatic hydrocarbon (PAHs) compound of seawater in Mayalibit Bay, West of Papua
Authors: Edward  , Helfinalis  , Witasari Y 
Published: December 2022

Abstract
Polycyclic Aromatic Hydrocarbons (PAHs) are polycyclic aromatic organic compounds that contain several carbon and hydrogen rings, known to be toxic and can be harmful to human life and biota in marine waters. This study aimed to determine the levels of PAHs in seawater in Mayalibit Bay, Papua. Seawater samples were taken using a water sampler at 8 locations in Mayalibit Bay in November 2008. The contaminant content of organic carbon compounds in PAHs was determined by Gas-Chromatography Spectrometry and Mass Spectrometry (GCMS). The results showed a high content of HMW-PAHs and LMW-PAHs and passed the criteria for living status marine organisms by instruction of quality control guidelines by The Environment Ministry of Indonesia. The high molecular weight (HMW-PAHs) type has the highest rate, and LMW-PAH has the widest spread in Mayalibit’s seawaters, higher than Jakarta Bay, Timor Sea and Klabat Bay. The Diagnostic individual ratio analysis shows that the origin of PAHs in Mayalibit’s seawater comes from a pyrogenic source such as: residual petroleum and combustion products of organic matter.
Thermodynamic modeling and computational predictions of NbC precipitation in Fe–Mn–Si-based shape memory alloys by the classical nucleation and growth theories
Authors: Wang Yaomian , Deng Xuyang , Zhang Mengqi , Yang Huanping 
Published: December 2022

Abstract
NbC precipitation in Fe–Mn–Si-based alloys is an effective method to improve the shape memory effect. In this study, the precipitation behavior was investigated using a thermodynamical model to understand the mechanism and optimize the precipitates for a better performance of Fe–Mn–Si-based shape memory alloys. The influence of alloying elements can be considered in the model by introducing interaction parameters. The precipitate size distribution, mean size, precipitate volume faction, and number density of three typical Fe–Mn–Si-based alloys with different NbC addition amounts were calculated. The results indicated that the mean size could be decreased significantly as the NbC addition increased from 0.5% to 1.0%, while the precipitate volume fraction and number density showed obvious increments. The Fe–28Mn–6Si–5Cr alloys exhibited smaller mean sizes and higher number densities than the Fe–14Mn–6Si–9Cr–5Ni and Fe–21Mn–6Si–9Cr–5Ni alloys. It was also found that the precipitate size distribution showed no evident change as the aging time increased from 0.5 h to 2 h except for the Fe–28Mn–6Si–5Cr–0.5NbC alloy in which the precipitates began to coarsen after about 1.25 h.
From multi-omics data to the cancer druggable gene discovery: a novel machine learning-based approach
Authors: Yang Hai , Gan Lipeng , Chen Rui , Li Dongdong , Zhang Jing , Wang Zhe 
Published: December 2022

AbstractThe development of targeted drugs allows precision medicine in cancer treatment and optimal targeted therapies. Accurate identification of cancer druggable genes helps strengthen the understanding of targeted cancer therapy and promotes precise cancer treatment. However, rare cancer-druggable genes have been found due to the multi-omics data’s diversity and complexity. This study proposes deep forest for cancer druggable genes discovery (DF-CAGE), a novel machine learning-based method for cancer-druggable gene discovery. DF-CAGE integrated the somatic mutations, copy number variants, DNA methylation and RNA-Seq data across ˜10 000 TCGA profiles to identify the landscape of the cancer-druggable genes. We found that DF-CAGE discovers the commonalities of currently known cancer-druggable genes from the perspective of multi-omics data and achieved excellent performance on OncoKB, Target and Drugbank data sets. Among the ˜20 000 protein-coding genes, DF-CAGE pinpointed 465 potential cancer-druggable genes. We found that the candidate cancer druggable genes (CDG) are clinically meaningful and divided the CDG into known, reliable and potential gene sets. Finally, we analyzed the omics data’s contribution to identifying druggable genes. We found that DF-CAGE reports druggable genes mainly based on the copy number variations (CNVs) data, the gene rearrangements and the mutation rates in the population. These findings may enlighten the future study and development of new drugs.
RefTM: reference-guided topic modeling of single-cell chromatin accessibility data
Authors: Zhang Zheng , Chen Shengquan , Lin Zhixiang 
Published: December 2022

Abstract
Single-cell analysis is a valuable approach for dissecting the cellular heterogeneity, and single-cell chromatin accessibility sequencing (scCAS) can profile the epigenetic landscapes for thousands of individual cells. It is challenging to analyze scCAS data, because of its high dimensionality and a higher degree of sparsity compared with scRNA-seq data. Topic modeling in single-cell data analysis can lead to robust identification of the cell types and it can provide insight into the regulatory mechanisms. Reference-guided approach may facilitate the analysis of scCAS data by utilizing the information in existing datasets. We present RefTM (Reference-guided Topic Modeling of single-cell chromatin accessibility data), which not only utilizes the information in existing bulk chromatin accessibility and annotated scCAS data, but also takes advantage of topic models for single-cell data analysis. RefTM simultaneously models: (1) the shared biological variation among reference data and the target scCAS data; (2) the unique biological variation in scCAS data; (3) other variations from known covariates in scCAS data.
Radiomic features of gray matter in never-treated first-episode schizophrenia
Authors: Zhu Fei , Xiao Yuan , Tao Bo , Gao Ziyang , Gao Xin , Zhao Qiannan , Zhang Qi , Tang Biqiu , Zhang Xiaodi , Zhao Yu , Bishop Jeffrey R , Sweeney John A , Lui Su 
Published: December 2022

Abstract
Alterations of radiomic features (RFs) in gray matter are observed in schizophrenia, of which the results may be limited by small study samples and confounding effects of drug therapies. We tested for RFs alterations of gray matter in never-treated first-episode schizophrenia (NT-FES) patients and examined their associations with known gene expression profiles. RFs were examined in the first sample with 197 NT-FES and 178 healthy controls (HCs) and validated in the second independent sample (90 NT-FES and 74 HCs). One-year follow-up data were available from 87 patients to determine whether RFs were associated with treatment outcomes. Associations between identified RFs in NT-FES and gene expression profiles were evaluated. NT-FES exhibited alterations of 30 RFs, with the greatest involvement of microstructural heterogeneity followed by measures of brain region shape. The identified RFs were mainly located in the central executive network, frontal-temporal network, and limbic system. Two baseline RFs with the involvement of microstructural heterogeneity predicted treatment response with moderate accuracy (78% for the first sample, 70% for the second sample). Exploratory analyses indicated that RF alterations were spatially related to the expression of schizophrenia risk genes. In summary, the present findings link brain abnormalities in schizophrenia with molecular features and treatment response.
Context-independent scaling of neural responses to task difficulty in the multiple-demand network
Authors: Wen Tanya , Egner Tobias 
Published: December 2022

Abstract
The multiple-demand (MD) network is sensitive to many aspects of cognitive demand, showing increased activation with more difficult tasks. However, it is currently unknown whether the MD network is modulated by the context in which task difficulty is experienced. Using functional magnetic resonance imaging, we examined MD network responses to low, medium, and high difficulty arithmetic problems within 2 cued contexts, an easy versus a hard set. The results showed that MD activity varied reliably with the absolute difficulty of a problem, independent of the context in which the problem was presented. Similarly, MD activity during task execution was independent of the difficulty of the previous trial. Representational similarity analysis further supported that representational distances in the MD network were consistent with a context-independent code. Finally, we identified several regions outside the MD network that showed context-dependent coding, including the inferior parietal lobule, paracentral lobule, posterior insula, and large areas of the visual cortex. In sum, a cognitive effort is processed by the MD network in a context-independent manner. We suggest that this absolute coding of cognitive demand in the MD network reflects the limited range of task difficulty that can be supported by the cognitive apparatus.
Tuberculosis and the Risk of Ischemic Heart Disease: A Nationwide Cohort Study
Authors: Lee Han Rim , Yoo Jung Eun , Choi Hayoung , Han Kyungdo , Lim Young-Hyo , Lee Hyun , Shin Dong Wook 
Published: December 2022

Abstract

Background
Little is known about the risk of ischemic heart disease (IHD) in tuberculosis (TB) survivors.

Methods
We performed a population-based retrospective cohort study using the Korean National Health Insurance Service database. TB survivors (n = 60 602) and their 1:1 age- and sex-matched controls (n = 60 602) were enrolled. Eligible participants were followed up from 1 year after their TB diagnosis to the date of an IHD event, date of death, or the end of the study period (31 December 2018), whichever came first. The risk of IHD was estimated using a Cox proportional hazards regression, and stratified analyses were performed for related factors. Among IHD events, we additionally analyzed for myocardial infarction (MI).

Results
During a median of 3.9 years of follow-up, 2.7% of TB survivors (1633/60 602) and 2.0% of the matched controls (1228/60 602) developed IHD, and 0.6% of TB patients (341/60 602) and 0.4% of the matched controls (223/60 602) developed MI. The overall risk of developing IHD and MI was higher in TB patients (adjusted hazard ratio [aHR] 1.21, 95% confidence interval [CI]: 1.12–1.32 for IHD and aHR 1.48, 95% CI: 1.23–1.78 for MI) than in the matched controls. Stratified analyses showed that TB survivors have an increased risk of IHD and MI regardless of income, place of residence, smoking status, alcohol consumption, physical activity, body mass index, and Charlson comorbidity index.

Conclusions
TB survivors have a higher risk of IHD than matched controls. Strategies are needed to reduce the burden of IHD in TB survivors.