bluuebunny/crossref_metadata_2025_split huggingface dataset:
Uses of Domestic Water Buffalo Milk in South Sumatra, Indonesia
Authors: Tsuji T , Febriany D S , Widiastuti I , Yazid M 
Published: April 2022

Abstract
This study examines the uses of domestic water buffalo milk in south Sumatra, Indonesia, one of the few areas in not only Indonesia but also the Philippines where the rare practice of milking animals occurs in Southeast Asia. In south Sumatra, both milking domestic water buffalo (Bubalus bubalis) locally known as kerbao pampangan—and making milk products are frequently practiced. The research was thus conducted into the breeding and milking of domestic water buffalo and making of milk products in a Muslim village of the OKI District (Ogan Komering Ilir Regency), south Sumatra, using participant observation, interviews, and questionnaires, to understand the life and culture of the villagers. The findings revealed domestic water buffalo to be the main livestock used for the production and sale of either meat or milk products. Heated milk products, such as candy (gulo puan, sagon puan) and jelly (jerry susu) are produced, probably because fresh milk risks lactose intolerance or milk contaminants, but not yogurt (dadihi), which is produced in north Sumatra. Investigating such unique uses of milk in south Sumatra from an ecological anthropological viewpoint attests to an evident culture of milking domestic water buffalo in south Sumatra, and that arises from the relationship between the people and their livestock. Furthermore, although the murrah (buffalo) is rapidly replacing the domestic water buffalo, due to its higher milk yield, across Southeast Asia, the latter remains predominant in the area.
Ameliorant for Improving the Growth Characters of Garut Indigenous Arabica Coffee
Authors: Supriatna J , Chaidir L , Qodim H , Rismayanti AY 
Published: April 2022

Abstract
One of Garut’s indigenous arabica coffee varieties that have a high and special taste that needs to be developed is known as “Kopi Koneng”. The research was to investigate the ameliorants affected the growth characteristics of two Garut indigenous arabica coffee cutting sections. Research was arranged in Randomized Block Design, consisted of fourteen treatments and three replications. The treatments were mainly several ameliorants compositions were topsoil, chicken manure, and coffee grounds compost. The combination of chicken manure and coffee grounds as a planting media mixture had a substantial effect on plant height and root dry weight, according to the results. Finally, the combination of Yellow Cattura 1 section with a mixture of topsoil media : coffee grounds compost (3:1) provided the best result to increase the growth characters of the arabica coffee seed cuttings.
Host Plant Species Of The New Invasive Pest, Fall Armyworm (Spodoptera Frugiperda) In South Sumatra
Authors: Herlinda S , Simbolon I M P , Hasbi  , Suwandi S , Suparman  
Published: April 2022

Abstract
The new invasive pest, fall armyworm (Spodoptera frugiperda) has been found in West Sumatra since March 2019 and also found in South Sumatera. S. frugiperda has attacked a lot of host plant species. A record of the fall armyworm host plant species is required to comprehend pest’s biology and ecology. The purpose of this study was to identify the host plant species of S. frugiperda. The surveys to collect and to record the host plants have been conducted in South Sumatra consisted of seven districts/cities of Ogan Ilir, Palembang, Lahat, Pagar Alam, Prabumulih, Muara Enim, and Banyuasin. This study has found 28 species of S. frugiperda host plants, such as Zea mays, Elaeis guineensis, Oryza sativa, Lactuca sativa, Brassica oleracea, Amaranthus hybridus, Cucumis sativus, Manihot esculenta, Vigna unguiculata, Arachis hypogaea, Persea americana, Fragaria ananassa, Rosa sp., Ipomoea aquatic, Ipomoea batatas, Solanum melongena. S. frugiperda host plants recorded were 14 plant families, specifically Areceae, Cyperaceae, Poaceae, Musaceae, Asteraceae, Brassicaceae, Amaranthaceae, Cucurbitaceae, Euphorbiaceae, Fabaceae, Lauraceae, Rosaceae, Convolvulaceae, and Solanaceae. There were 13 species of monocot plants and 15 species of dicot plants that can be eaten by S. frugiperda. So, the S. frugiperda has lots of host plant species including monocotyledonous and dicotyledonous plants.
Growth of Sorghum Treated by AMF and OM on Hg Contaminated Soil
Authors: Hidayat C , Rachmawati Y S , Agustina M 
Published: April 2022

Abstract
Gold mining activities leave tailings containing high pollutants including Hg which can inhibit plant growth. To overcome this problem, the application of AMF and organic matter is carried out. The aim of the reserach was to know the effect of Arbuscullar Mycorhizal Fungi and various organic matter on the growth of Sorghum (Sorghum bicolor (L.) A polybag trial at Agrotechnology research station 768 m above sea level had been carried out using randomized block design two factors with factorial pattern and three replications. The first factor was Arbuscullar Mychorhizal Fungi dosage (without AMF inoculum, 5 g polybag−1 AMF inoculum,10 g polybag−1 AMF inoculum,15 g polybag−1 AMF inoculum). The second factor was the type of organic matter (without organic matter, Thitonia diversivolia weed bokhasi 30 t ha−1, humic acid 7.2 ml dissolved in 1.44 L water, Chromolaena odorata weed bokhasi 30 t ha−1). The result showed there was no interaction effect of AMF and various organic matter on root infection degree, plant height, and leaf area. Application of AMF 15 g polybag−1 and C. odorata weed bokhasi 30 t ha−1, respectively, succeeded in increasing the degree of root infection and growth parameters.
Rhizophora Apiculata on Copper and Lead Heavy Metal Substances and Their Effect on Water Quality in Belawan
Authors: Yunasfi  , Leidonald R , Dalimunthe A , Rakesya N 
Published: April 2022

Abstract
The species of mangroves Rhizophora apiculata, R. stylosa, R. mucronata and Bruguiera gymnorhyza, Avicennia marina, Sonneratia caseolaris are among several species of mangroves found in coastal areas. The existence of these mangrove species is a fortress for the coastal environment. Research on the ability of R. apiculata to accumulate heavy metals copper (Cu) and lead (Pb) and their effect on water quality, was carried out from June to September 2021. This research was conducted in Belawan, in Baristan Medan as a place for heavy metal analysis and a laboratory Department of Forest Cultivation, University of North Sumatra. Various types of mangrove plants found in coastal areas have special strategies to deal with pollution conditions from heavy metals. One of several strategies used by mangroves is to accumulate various types of heavy metals in various parts of the tree. R. apiculata is a type of mangrove that can accumulate heavy metals in roots, stems and leaves. The presence of heavy metals will reduce water quality, which in turn will decrease the overall condition of the ecosystem. How big is the ability of mangrove R. apiculata to absorb copper (Cu) and Lead (Pb) and how the environmental conditions of the waters around the mangroves need to be known. Analysis of the heavy metal content of Cu and Pb in the mangrove R. apiculata showed that the heavy metal content of Cu was higher than the metal content of Pb. In the water found in the growing place of R. apiculata, it was found that the Cu content was greater than Pb. Meanwhile, the mud content where the R. apiculata mangrove grows produces heavy metal content of Cu which is smaller than the content of Pb.
Improvement of Thai Sweet Sausage (Goon Chiang) Properties by Oleogel Made of Rice Bran Wax and Rice Bran Oil: A Textural, Sensorial, and Nutritional Aspect
Authors: Issara U 
Published: April 2022

Abstract
Oleogel (OG) has been emphasized as an alternative fat in several food products nowadays. This study aimed to determine the texture profile, fatty acids composition, and sensorial attributes of sweet sausage (Goon Chiang) as well as the fundamental properties of the final product through the supplementation of a mixture of rice bran wax and rice bran oil-oleogel (RBOG). The sausage sample was divided into 4 groups including i) without RBOG added; control, followed by 25%, 50%, and 75% RBOG substitute animal fat, respectively. All samples were measured the texture (hardness, springiness, chewiness, and cohesiveness), total cholesterol together with fatty acids profile as well as sensory properties. The results found out that the highest ratio of animal fat replacement by RBOG in the sweet sausage sample was softer and promoting the lowest cholesterol level when compared with other treatments (p<0.05). Besides, there is no significant difference was observed with total unsaturated fatty acids (USFA) level between 50% and 75% RBOG adding in meat sample. Overall acceptance of the final product was indexed with 50% RBOG (p<0.05). According to the results, it could be used as the fundamental data for developing and improving sweet sausage as a healthy meat product to meet consumer requirements.
Physicochemical Characterization and Shelf-Life Extension of Banana (Musa sp.) via Tapioca starch (Manihot esculenta)/Premna serratifolia Leaves Extract Coating Formulations
Authors: Soleh M S , Mahmood K , Khairuddin N , Saupi N , Kamilah H 
Published: April 2022

Abstract
The aim of this study was to extend the banana (Musa sp.) shelf-life via tapioca (Manihot esculenta) starch (TS) coating formulation. The fruit coating was developed from different concentration of tapioca starch (TS) [2, 4, 6 and 8% w/v], supported for improved hydrophobicity by palm oil (PO) [0.5, 1, 1.5 and 2% v/v] and provided antioxidant properties via Premna serratifolia extract (PE) [1, 2, 3% v/v]. The effect of the fruit coating towards the banana colour, firmness, total soluble solids, and weight loss were evaluated till 8 days at room temperature. The 4% w/v TS showed good control over weight loss and acceptable firmness of banana. Similarly, addition of PO in TS coating significantly improved the barrier properties especially 4% w/v TS + 1% v/v PO indicated lower weight loss and better firmness compared to other treatments. The addition of Premna serratifolia extract (PE) in 4% w/v TS coating improved the colour, lower the weight loss especially 4% w/v TS+ 1% v/v PO + 1% v/v PE. Thus, the addition of PO and PE in the starch coatings could extend the shelf life and quality of fruit at ambient temperature.
Cultivation and Breeding Techniques for Increase Silk Productivity in Indonesia
Authors: Fambayun R A , Agustarini R , Andadari L 
Published: April 2022

Abstract
Silk is one of the textile products derived from plant fibres and is a sericulture product. Sericulture activities have a positive impact on the economy and society, as well as environmental sustainability. The many benefits of sericulture have made the Ministry of Environment and Forestry define silk as one of the potential non-timber forest products to be developed. However, there are many obstacles in developing sericulture, especially upstream (moriculture and silkworm rearing), namely low productivity. Forestry Research and Development Center is one of the stakeholders in silk development. This paper reviews the activities carried out by FRDC related to natural silk, both the development of mulberry and silkworms. The three activities carried out include research on cultivation techniques, conservation and breeding of mulberry plants and silkworms. Increased productivity is obtained by crossing or hybridization to get superior seeds. The superior products produced are Suli 01 mulberry seeds, PS 01 silkworm hybrids, and sericulture development techniques with high productivity. The Suli 01 mulberry hybrid had 30% more leaf production than conventional mulberry (M. cathayana), and the PS 01 silkworm hybrid increased cocoon production per box by 40% compared to the commonly used C301 silkworm.
Impact of Palm Oil By-Products Application to Earthworm Populations and Soil Chemical In Oil Palm Plantation
Authors: Edyson  , Murgianto F , Ardiyanto A 
Published: April 2022

Abstract
Palm oil mill has by-products from processing fresh fruit bunch such as empty fruit bunch and fruit fiber that benefits oil palm plantation. The aim of this research was to observe earthworms population and soil chemical properties after the application of palm oil by-products. This research was conducted in Pantai Harapan Estate PT Bumitama Gunajaya Agro, Central Kalimantan from July 2020 - May 2021. The organic matter was used in this study were empty bunch, empty bunch compost, and pressed fruit fiber, applied in an oil palm circle in two different soil types. The earthworms population was observed before and six months using a square sampling size 1 m x 1 m at a depth of 0,15 m. The earthworms population after six months with organic application both in dystrudepts and haplohumods range from 46 to 119 individuals/m2. Earthworms population increased 22,17% and 71,33% after six month, compared to control decrease 48,21% and 68,51% in haplohumods and dystrudepts respectively. Soil chemical properties such as C-organic, total P, and K are significantly different after organic application compared to control both in haplohumods and dystrudepts. Thus, the application of organic matter is able to increase the earthworms population and improve soil chemical properties in oil palm plantations.
Microchannel cooling technique for dissipating high heat flux on W/Cu flat-type mock-up for EAST divertor
Authors: LU Mingxiang , HAN Le , ZHAO Qi , QIU Juncheng , ZHOU Jianhong , HU Dinghua , MOU Nanyu , CHEN Xuemei 
Published: April 2022

Abstract
As an important component of tokamaks, the divertor is mainly responsible for extracting heat and helium ash, and the targets of the divertor need to withstand high heat flux of 10 MW m−2 for steady-state operation. In this study, we proposed a new strategy, using microchannel cooling technology to remove high heat load on the targets of the divertor. The results demonstrated that the microchannel-based W/Cu flat-type mock-up successfully withstood the thermal fatigue test of 1000 cycles at 10 MW m−2 with cooling water of 26 l min−1, 30 °C (inlet), 0.8 MPa (inlet), 15 s power on and 15 s dwell time; the maximum temperature on the heat-loaded surface (W surface) of the mock-up was 493 °C, which is much lower than the recrystallization temperature of W (1200 °C). Moreover, no occurrence of macrocrack and ‘hot spot’ at the W surface, as well as no detachment of W/Cu tiles were observed during the thermal fatigue testing. These results indicate that microchannel cooling technology is an efficient method for removing the heat load of the divertor at a low flow rate. The present study offers a promising solution to replace the monoblock design for the EAST divertor.
HDIContact: a novel predictor of residue–residue contacts on hetero-dimer interfaces via sequential information and transfer learning strategy
Authors: Zhang Wei , Meng Qiaozhen , Wang Jianxin , Guo Fei 
Published: April 2022

AbstractProteins maintain the functional order of cell in life by interacting with other proteins. Determination of protein complex structural information gives biological insights for the research of diseases and drugs. Recently, a breakthrough has been made in protein monomer structure prediction. However, due to the limited number of the known protein structure and homologous sequences of complexes, the prediction of residue–residue contacts on hetero-dimer interfaces is still a challenge. In this study, we have developed a deep learning framework for inferring inter-protein residue contacts from sequential information, called HDIContact. We utilized transfer learning strategy to produce Multiple Sequence Alignment (MSA) two-dimensional (2D) embedding based on patterns of concatenated MSA, which could reduce the influence of noise on MSA caused by mismatched sequences or less homology. For MSA 2D embedding, HDIContact took advantage of Bi-directional Long Short-Term Memory (BiLSTM) with two-channel to capture 2D context of residue pairs. Our comprehensive assessment on the Escherichia coli (E. coli) test dataset showed that HDIContact outperformed other state-of-the-art methods, with top precision of 65.96%, the Area Under the Receiver Operating Characteristic curve (AUROC) of 83.08% and the Area Under the Precision Recall curve (AUPR) of 25.02%. In addition, we analyzed the potential of HDIContact for human–virus protein–protein complexes, by achieving top five precision of 80% on O75475-P04584 related to Human Immunodeficiency Virus. All experiments indicated that our method was a valuable technical tool for predicting inter-protein residue contacts, which would be helpful for understanding protein–protein interaction mechanisms.
scSGL: kernelized signed graph learning for single-cell gene regulatory network inference
Authors: Karaaslanli Abdullah , Saha Satabdi , Aviyente Selin , Maiti Tapabrata 
Published: April 2022

Abstract

Motivation
Elucidating the topology of gene regulatory networks (GRNs) from large single-cell RNA sequencing datasets, while effectively capturing its inherent cell-cycle heterogeneity and dropouts, is currently one of the most pressing problems in computational systems biology. Recently, graph learning (GL) approaches based on graph signal processing have been developed to infer graph topology from signals defined on graphs. However, existing GL methods are not suitable for learning signed graphs, a characteristic feature of GRNs, which are capable of accounting for both activating and inhibitory relationships in the gene network. They are also incapable of handling high proportion of zero values present in the single cell datasets.

Results
To this end, we propose a novel signed GL approach, scSGL, that learns GRNs based on the assumption of smoothness and non-smoothness of gene expressions over activating and inhibitory edges, respectively. scSGL is then extended with kernels to account for non-linearity of co-expression and for effective handling of highly occurring zero values. The proposed approach is formulated as a non-convex optimization problem and solved using an efficient ADMM framework. Performance assessment using simulated datasets demonstrates the superior performance of kernelized scSGL over existing state of the art methods in GRN recovery. The performance of scSGL is further investigated using human and mouse embryonic datasets.

Availability and implementation
The scSGL code and analysis scripts are available on https://github.com/Single-Cell-Graph-Learning/scSGL.

Supplementary information
Supplementary data are available at Bioinformatics online.
XePhIR: the zebrafish xenograft phenotype interactive repository
Authors: Groenewoud A , Forn-Cuní G , Engel F B , Snaar-Jagalska B E 
Published: April 2022

Abstract
Zebrafish xenografts are an established model in cancer biology, with a steadily rising number of models and users. However, as of yet, there is no platform dedicated to standardizing protocols and sharing data regarding zebrafish xenograft phenotypes. Here, we present the Xenograft Phenotype Interactive Repository (XePhIR, https://www.xephir.org) as an independent data-sharing platform to deposit, share and repurpose zebrafish xenograft data. Deposition of data and publication with XePhIR will be done after the acceptation of the original publication. This will enhance the reach of the original research article, enhance visibility and do not interfere with the publication or copyrights of the original article. With XePhIR, we strive to fulfill these objectives and reason that this resource will enhance reproducibility and showcase the appeal and applicability of the zebrafish xenograft model.
Database URL: https://www.xephir.org
Association between β-blocker dose and quality of life after myocardial infarction: a real-world Swedish register-linked study
Authors: Humphries Sophia , Wallert John , Mars Katarina , Held Claes , Hofmann Robin , Olsson Erik M G 
Published: April 2022

Abstract

Background
β-blockers are routinely administered to patients following myocardial infarction (MI), yet their potential effect on health-related quality of life (HRQoL) is not entirely understood. We investigated the relationship between two different doses of β-blockers with HRQoL following MI.

Methods and results
This nationwide observational study used Swedish national registries to collate sociodemographic, clinical, medication, and HRQoL {the latter operationalized using EuroQol [European Quality of Life Five Dimensions Questionnaire (EQ-5D)]}. Estimates at 6–10 weeks and 12–14 months post-MI follow-up from pooled linear and logistic models were calculated after multiple imputation. We identified 35 612 patients with first-time MI, discharged with β-blockers, and enrolled in cardiac rehabilitation between 2006 and 2015. Upon discharge, patients were either dispensed &lt;50% [24 082 (67.6%)] or ≥50% [11 530 (32.4%)] of the target dosage, as defined in previous trials. After adjusting for pre-defined covariates, neither the EQ-5D Index nor the Emotional Distress items were statistically different between groups. The EQ-VAS score was significantly lower in patients treated with ≥50% target β-blocker dose than those treated with &lt;50% of the target dose [−0.87 [−1.23, −0.46], P &lt; .001]. Results were similar at the 12-month follow-up and across sub-groups separated by sex and age.

Conclusion
No difference in HRQoL was found among patients taking &lt;50% vs. ≥50% of the target β-blocker dose, except for the EQ-VAS in which higher scores were reported in those taking a lower dose. The clinical meaningfulness of this statistical significance is likely low.
Mechanical versus bioprosthetic valve for aortic valve replacement: systematic review and meta-analysis of reconstructed individual participant data
Authors: Tasoudis Panagiotis T , Varvoglis Dimitrios N , Vitkos Evangelos , Mylonas Konstantinos S , Sá Michel Pompeu , Ikonomidis John S , Caranasos Thomas G , Athanasiou Thanos 
Published: April 2022

Abstract

OBJECTIVES
The aim of this study was to compare biological versus mechanical aortic valve replacement.

METHODS
We searched MEDLINE, Scopus and Cochrane Library databases for randomized clinical trials and propensity score-matched studies published by 14 October 2021 according to the Preferred Reporting Items for Systematic Reviews and Meta-analyses statement. Individual patient data on overall survival were extracted. One- and two-stage survival analyses and random-effects meta-analyses were conducted.

RESULTS
A total of 25 studies were identified, incorporating 8721 bioprosthetic and 8962 mechanical valves. In the one-stage meta-analysis, mechanical valves cumulatively demonstrated decreased hazard for mortality [hazard ratio (HR): 0.79, 95% confidence interval (CI): 0.74–0.84, P &lt; 0.0001]. Overall survival was similar between the compared arms for patients &lt;50 years old (HR: 0.88, 95% CI: 0.71–1.1, P = 0.216), increased in the mechanical valve arm for patients 50–70 years old (HR: 0.76, 95% CI: 0.70–0.83, P &lt; 0.0001) and increased in the bioprosthetic arm for patients &gt;70 years old (HR: 1.35, 95% CI: 1.17–1.57, P &lt; 0.0001). Meta-regression analysis revealed that the survival in the 50–70 year-old group was not influenced by the publication year of the individual studies. No statistically significant difference was observed regarding in-hospital mortality, postoperative strokes and postoperative reoperation. All-cause mortality was found decreased in the mechanical group, cardiac mortality was comparable between the 2 groups, major bleeding rates were increased in the mechanical valve group and reoperation rates were increased in the bioprosthetic valve group.

CONCLUSIONS
Survival rates seem to not be influenced by the type of prosthesis in patients &lt;50 years old. The survival advantage in favour of mechanical valves is observed in patients 50–70 years old, while in patients &gt;70 years old bioprosthetic valves offer better survival outcomes.