bluuebunny/crossref_metadata_2025_split huggingface dataset:
Sustainable Spatial Planning Study of Lubok Sukon Village, Aceh
Authors: Nursaniah C , Taqiuddin Z , Qadri L 
Published: January 2024

Abstract
The formation of traditional residential spatial layouts is the result of a complex historical process, and Lubok Sukon Village is still able to maintain the authenticity of its residential spatial layout to this day. This is a potential cultural landscape that needs to be studied and identified for conservation purposes. Furthermore, this important historical landscape can also be developed as an incentive for village economic development, for example for tourism-based sustainable development. This research aims to examine the conservation of cultural heritage landscapes in sustainable spatial planning for Lubok Sukon village, Aceh. This research uses qualitative methods with field measurements through interviews, observation and documentation. The analysis uses four cultural landscape variables from Pajouh. The research findings conclude that the combination of architectural heritage, residents’ routines, and the natural setting of Lubok Sukon Village, provides a unique spatial arrangement where all aspects fulfill the characteristics of a cultural heritage landscape in a sustainable manner. This could be developed into an incentive to attract cultural tourists.
Technology innovation of integrated farming system model in cassava agribusiness development in Aceh Besar regency
Authors: Hakim L , Arida A , Monalisa  , Faradilla C 
Published: January 2024

Abstract
The purpose of this research is to design an integrated farming system model as a technological innovation in the development of cassava agribusiness in Aceh Besar Regency. The study utilizes a system dynamics methodology as a systemic modeling approach, considering feedback loops and delays, to comprehend the complex behavior dynamics within the cassava agribusiness development system in Aceh Besar Regency. Primary data is obtained through interviews with various stakeholders involved in cassava agribusiness activities, including farmers, traders, agro-industrial actors, and cooperatives. Secondary data is collected from relevant institutions. The research results indicate that the designed integrated farming model emphasizes socio-economic aspects, environmentally friendly technologies, and optimizing all available energy sources (zero waste) in cassava agribusiness. In general, the model consists of components that integrate the cassava farming system, livestock farming, and agro-industrial/home industry activities, and cooperatives cohesively. The understanding of causal loop diagrams and flow diagrams reveals that cassava productivity, fertilization costs, and cassava market absorption, are crucial variables that strongly influence and require intervention to achieve improvement. These conditions impact the intensity of farmers’ management practices and affect performance, production, inventory, cassava sales, maintenance costs (fertilizer use), liquidity of farmers’ cash capital, cassava productivity, as well as the interrelation of their activities with other businesses such as livestock farming and agro-industrial activities. Ultimately, this has implications for increasing added value, profitability, and farmers’ benefits.
Technology needs assessment for the development of smart coffee production in Aceh, Indonesia
Authors: Bahri T S , Manyamsari I , Putri R J , Iskandar E 
Published: January 2024

Abstract
This research aimed to analyze the need for smart farming implementation in coffee production. A survey was conducted on 100 farmers in Aceh Tengah and Bener Meriah, the main coffee producers in Aceh Province. Data were collected by questionnaire that identified farmers’ needs and performance of four types of smart farming technologies: drip irrigation, fertilizer detectors, fruit ripeness detectors, and dry houses. The needs of technology were assessed by farmers’ perspectives on smart farming regarding its use to reduce product contamination, farm waste, minimize risk to farmers’ health, strengthen social bonds, and increase product quality and quantity. Technology needs assessment was performed by analyzing the determinant factors of farmers’ needs and computing the gap between technology needs and performance to set the priority of smart farming technology for future development. The results showed that fertilizer detectors were the first priority technology needed and considered important by farmers, followed by drip irrigation, dry houses and fruit ripeness detectors. Farmers’ needs for smart farming were significantly affected by the land size. There is a significant difference between farmers’ needs and performance of smart farming technologies. To fill this gap, an effective public-private partnership is needed for technology interventions based on farmers’ needs.
Evaluation of morpho-physiological characters of gamma rays-irradiated soybean mutant lines under shade stress environment
Authors: Iqbal M , Anisiyah  , Harsanti L , Tarmizi  , Arwin  , Yuliasti  , Erika C , Puspitasari W 
Published: January 2024

Abstract
Soybean, being one of the primary food sources for the Indonesian population, currently faces insufficient production from domestic harvests. Intercropping cultivation technique offers a potential solution to increase soybean production by expanding planting area, such as the area under plantation stands. However, low productivity persists due to shade stress. This study aims to evaluate the morpho-physiological characters of soybean genotypes under shading stress. The genetic materials used were 13 genotypes consisting of 10 promising mutant lines, resulted from mutant induction and selection from soybean variety Mutiara 1, and 3 check varieties, namely Dena 1, Dena 2, and Mutiara 1. This study employed a split plot arrangement, with shading treatment as the whole plot and soybean genotypes as subplots. ANOVA tests and stress tolerance index analyses revealed a significant increase in plant height and stomatal conductivity among soybean genotypes under shading environments. Conversely, shading treatments exhibited a significant impact on reducing plant branching and leaf chlorophyll content.
Improvement of Ultisol Fertility and Sorghum Yield by Applying Soil Amendments, NPK, and Eco enzymes to Support Food Diversification
Authors: Ichsan C N , Qadri L , Nurahmi E , Jumini  , Kurniawan T , Santi I V 
Published: January 2024

Abstract
The increase in world population must be accompanied by the increase of food production. Diversification of food is also needed to support a healthy and productive world community. Increasing food diversification is conducted by increasing soil fertility. Improvement of soil fertility was carried out by using soil amendments and NPK fertilization, as well as using eco enzymes on sorghum on Ultisol soil. This study was using factorial RBD design split-split plot 3 × 2 × 2 with three replications and 108 pots with 10 kg Ultisol pot-1. The main plot consisted of soil amendments (no amendment, biochar, compost), sub-plots, NPK (600, 900 kg ha-1), split-split plot, eco enzyme (sprayed eco enzyme once week-1 and every two weeks sprayed). The results showed that there were interactions between soil amendments and eco enzymes on soil pH and NPK. There is an interaction between NPK and eco enzymes on soil pH, soil EC, and sorghum leaf chlorophyll. There is an interaction between soil amendments, NPK, and eco enzymes on N, P, and K content and yield potential. The use of soil amendments, NPK, and eco enzymes effectively improves Ultisol fertility and sorghum yields to support food diversification.
Seminal plasma protein profiles based on molecular weight from different bull breeds as a potential ovulatory induction factor
Authors: Azizah N , Kusumaningrum DA , Kostaman T , Muttaqin Z , Hafid A , Adiati U , Saputra F , Pratiwi N , Arrazy AF , Koswara E , Manzila I , Gunawan M , Karja NWK 
Published: January 2024

Abstract
Seminal plasma is a specific biochemical compound that affects fertility. This study attempts to characterize bull breeds’ seminal plasma (SP) proteins with possible ovulatory induction factor (OIF) activity. The breed samples originated from Friesian Holstein (FH), Belgian Blue Cross (BBx), and Ongole Grade (OG). Centrifug the sperm for 30 minutes at 12,000 rpm. The sample was collected, placed in a microtube, and stored at -20°C. The measurement of protein concentration was done using a Nano-Drop 2000 spectrophotometer. Protein separation was performed using 1D-SDS-PAGE to characterize the protein according to its molecular weight (MW). Protein markers were used to identify the MW proteins, and the acrylamide gels were colored with Coomassie Brilliant Blue. Total protein bands were analyzed with Kruskal-Wallis test, and the identification protein was analyzed descriptively. Proteins of 49-41 kDa and 15-11 kDa were significantly different between breeds (p0.05), while the majority of the MW ranges were not (p>0.05). The proteins with MWs of 22–33 kDa were found to be most commonly in all breeds correlated as potential proteins of OIF. In conclusion, seminal plasma protein was quite varied among the bull breeds. Further research needs to be conducted to obtain the protein from OIF.
Cation-crosslinked κ-carrageenan sub-microgel medium for high-quality embedded bioprinting
Authors: Zhang Hua , Luo Yang , Hu Zeming , Chen Mengxi , Chen Shang , Yao Yudong , Yao Jie , Shao Xiaoqi , Wu Kerong , Zhu Yabin , Fu Jun 
Published: January 2024

Abstract
Three-dimensional (3D) bioprinting embedded within a microgel bath has emerged as a promising strategy for creating intricate biomimetic scaffolds. However, it remains a great challenge to construct tissue-scale structures with high resolution by using embedded 3D bioprinting due to the large particle size and polydispersity of the microgel medium, as well as its limited cytocompatibility. To address these issues, novel uniform sub-microgels of cell-friendly cationic-crosslinked kappa-carrageenan (κ-Car) are developed through an easy-to-operate mechanical grinding strategy. These κ-Car sub-microgels maintain a uniform submicron size of around 642 nm and display a rapid jamming-unjamming transition within 5 s, along with excellent shear-thinning and self-healing properties, which are critical for the high resolution and fidelity in the construction of tissue architecture via embedded 3D bioprinting. Utilizing this new sub-microgel medium, various intricate 3D tissue and organ structures, including the heart, lungs, trachea, branched vasculature, kidney, auricle, nose, and liver, are successfully fabricated with delicate fine structures and high shape fidelity. Moreover, the bone marrow mesenchymal stem cells encapsulated within the printed constructs exhibit remarkable viability exceeding 92.1% and robust growth. This κ-Car sub-microgel medium offers an innovative avenue for achieving high-quality embedded bioprinting, facilitating the fabrication of functional biological constructs with biomimetic structural organizations.
Differential expression and co-localization of transcriptional factors during callus transition to differentiation for shoot organogenesis in the water fern Ceratopteris richardii
Authors: Xiao Yuan-Le , Li Gui-Sheng 
Published: January 2024

Abstract

Background and Aims
In flowering plants, regeneration can be achieved by a variety of approaches, and different sets of transcriptional factors are involved in these processes. However, regeneration in taxa other than flowering plants remains a mystery. Ceratopteris richardii is a representative fern capable of both direct and indirect organogenesis, and we aimed to investigate the genetics underlying the transition from callus proliferation to differentiation.

Methods
Morphological and histological analyses were used to determine the type of regeneration involved. RNA sequencing and differential gene expression were used to investigate how the callus switches from proliferation to differentiation. Phylogenetic analysis and RNA in situ hybridization were used to understand whether transcriptional factors are involved in this transition.

Key Results
The callus formed on nascent leaves and subsequently developed the shoot pro-meristem and shoot meristem, thus completing indirect de novo shoot organogenesis in C. richardii. Genes were differentially expressed during the callus transition from proliferation to differentiation, indicating a role for photosynthesis, stimulus response and transmembrane signalling in this transition and the involvement of almost all cell layers that make up the callus. Transcriptional factors were either downregulated or upregulated, which were generally in many-to-many orthology with genes known to be involved in callus development in flowering plants, suggesting that the genetics of fern callus development are both conserved and divergent. Among them, an STM-like, a PLT-like and an ethylene- and salt-inducible ERF gene3-like gene were expressed simultaneously in the vasculature but not in the other parts of the callus, indicating that the vasculature played a role in the callus transition from proliferation to differentiation.

Conclusions
Indirect de novo shoot organogenesis could occur in ferns, and the callus transition from proliferation to differentiation required physiological changes, differential expression of transcriptional factors and involvement of the vasculature.
Uterine injury during diestrus leads to placental and embryonic defects in future pregnancies in mice
Authors: Zhang Elisa T , Wells Kristen L , Bergman Abby J , Ryan Emily E , Steinmetz Lars M , Baker Julie C 
Published: January 2024

Abstract
Uterine injury from procedures such as Cesarean sections (C-sections) often have severe consequences on subsequent pregnancy outcomes, leading to disorders such as placenta previa, placenta accreta, and infertility. With rates of C-section at ~30% of deliveries in the USA and projected to continue to climb, a deeper understanding of the mechanisms by which these pregnancy disorders arise and opportunities for intervention are needed. Here we describe a rodent model of uterine injury on subsequent in utero outcomes. We observed three distinct phenotypes: increased rates of resorption and death, embryo spacing defects, and placenta accreta-like features of reduced decidua and expansion of invasive trophoblasts. We show that the appearance of embryo spacing defects depends entirely on the phase of estrous cycle at the time of injury. Using RNA-seq, we identified perturbations in the expression of components of the COX/prostaglandin pathway after recovery from injury, a pathway that has previously been demonstrated to play an important role in embryo spacing. Therefore, we demonstrate that uterine damage in this mouse model causes morphological and molecular changes that ultimately lead to placental and embryonic developmental defects.
Chimeric PRMT6 protein produced by an endogenous retrovirus promoter regulates cell fate decision in mouse preimplantation embryos
Authors: Honda Shinnosuke , Hatamura Maho , Kunimoto Yuri , Ikeda Shuntaro , Minami Naojiro 
Published: January 2024

Abstract
Murine endogenous retrovirus with leucine tRNA primer, also known as MERVL, is expressed during zygotic genome activation in mammalian embryos. Here we show that protein arginine N-methyltransferase 6 (Prmt6) forms a chimeric transcript with MT2B2, one of the long terminal repeat sequences of murine endogenous retrovirus with leucine tRNA primer, and is translated into an elongated chimeric protein (PRMT6MT2B2) whose function differs from that of the canonical PRMT6 protein (PRMT6CAN) in mouse preimplantation embryos. Overexpression of PRMT6CAN in fibroblast cells increased asymmetric dimethylation of the third arginine residue of both histone H2A (H2AR3me2a) and histone H4 (H4R3me2a), while overexpression of PRMT6MT2B2 increased only H2AR3me2a. In addition, overexpression of PRMT6MT2B2 in one blastomere of mouse two-cell embryos promoted cell proliferation and differentiation of the blastomere into epiblast cells at the blastocyst stage, while overexpression of PRMT6CAN repressed cell proliferation. This is the first report of the translation of a chimeric protein (PRMT6MT2B2) in mouse preimplantation embryos. Our results suggest that analyzing chimeric transcripts with murine endogenous retrovirus with leucine tRNA primer will provide insight into the relationship between zygotic genome activation and subsequent intra- and extra-cellular lineage determination.
Sodium thiosulfate does not protect ovarian reserve from cisplatin-induced gonadotoxicity
Authors: So Wonmi , Abazarikia Amirhossein , Zelinski Mary B , Kim So-Youn 
Published: January 2024

Abstract
Cisplatin, a platinum-containing alkylating agent, is used in the treatment of various tumors owing to its potent antitumor activity. However, it causes permanent and adverse effects, particularly hearing loss and depletion of ovarian reserve. Until recently, there were no clinically available protective agents to mitigate the adverse side effects of cisplatin-induced cytotoxicity. In 2022, sodium thiosulfate (STS) was approved by the Food and Drug Administration for mitigating hearing loss in children and adolescents undergoing cisplatin treatment. Consequently, our investigation aimed to determine if STS could protect ovarian reserve against cisplatin-induced gonadotoxicity. In an ex vivo culture, the cisplatin-only group exhibited a loss of primordial follicles, while post-STS administration after cisplatin exposure effectively protected primordial follicles. However, when post-STS was administrated either 6 or 4 h after cisplatin exposure, it did not confer protection against cisplatin-induced gonadotoxicity in postnatal day 7 or adolescent mouse models. Immunofluorescence assays using γH2AX and cPARP revealed that oocytes within primordial follicles exhibited DNA damage after cisplatin exposure, irrespective of post-STS administration. This underscores the rapid and heightened sensitivity of oocytes to gonadotoxicity. In addition, oocytes demonstrated an increased expression of pCHK2 rather than pERK, suggesting that the pathway leading to oocyte death differs from the pathway observed in the inner ear cell death following cisplatin exposure. These results imply that while the administration of STS after cisplatin is highly beneficial in preventing hearing loss, it does not confer a protective effect on the ovaries in mouse models.
Hybrid peripheral nerve sheath tumours: MRI features with pathological correlation in 24 cases
Authors: Singh Saurabh , Choong Paul , Ali Mohamed , Lindsay Daniel , Saifuddin Asif 
Published: January 2024

Abstract

Objectives
To describe the MRI features of histologically proven hybrid peripheral nerve sheath tumours (HPNST).

Methods
A retrospective analysis of the MRI features of 24 histologically proven cases of HPNST over 7 years. Demographic data obtained from clinical records included age, gender, and date of diagnosis. Two readers independently assessed MRI studies and assessed the following features: involvement of a major nerve, intramuscular location, lesion morphology, entering nerve sign, exiting nerve sign, target sign, fascicular sign, split fat sign, and ancient change (cystic change). Inter-observer agreement was assessed with Cohen’s kappa coefficient. Histological diagnosis was based on either image-guided needle biopsy or resection histology.

Results
The study included 9 males and 15 females with mean age 50 years (range: 24-78 years). Nine tumours (35%) involved a major nerve including spinal roots (5), radial (1), median (1), tibial (1), and axillary (1), while 5 (21%) tumours were intramuscular. The mean tumour size was 4.2 cm (standard deviation of 2.4 cm). The frequency of MRI features was as follows: lobular contour (71%; 17/24), ancient change (38%; 9/24), fascicular sign (17%; 4/24), entering nerve sign (21%; 5/24), exiting nerve sign (13%; 3/24), target sign (13%; 3/24), and split fat sign (8%; 2/24). Inter-observer agreement was high, ranging from 0.7 to 0.83.

Conclusions
HPNST infrequently demonstrate the classical MRI signs of benign peripheral nerve sheath tumours, but commonly have a lobular morphology and can show ancient/cystic change.

Advances in knowledge
This is the first study in the literature analysing the MRI features of histologically proven HPNST. HPNST infrequently shows the classical MRI signs that would be expected with benign peripheral nerve sheath tumours although commonly have a lobular morphology and show cystic change.
Modified MR scoring system for assessment of sonographically indeterminate ovarian and adnexal masses in the absence of dynamic contrast-enhanced
Authors: Moradi Behnaz , Rahmani Maryam , Aghasi Maryam , Yarandi Fariba , Malek Mahrooz , Hosseini Ashrafsadat , Ghafouri Kimia , Hasan Zadeh Tabatabaei Mahgol Sadat , Shirali Elham , Riahi Samani Payam , Firouznia Sina 
Published: January 2024

Abstract

Objectives
Dynamic contrast-enhanced (DCE) MRI is not available in all imaging centres to investigate adnexal masses. We proposed modified magnetic resonance (MR) scoring system based on an assessment of the enhancement of the solid tissue on early phase postcontrast series and diffusion-weighted imaging (DWI) with apparent diffusion coefficient (ADC) map and investigated the validity of this protocols in the current study.

Materials and Methods
In this cross-sectional retrospective study, pelvic MRI of a total of 245 patients with 340 adnexal masses were studied based on the proposed modified scoring system and ADNEX MR scoring system.

Results
Modified scoring system with the sensitivity of 87.3% and specificity of 94.6% has an accuracy of 92.1%. Sensitivity, specificity, and accuracy of ADNEX MR scoring system is 96.6%, 91%, and 92.9%, respectively. The area under the receiver operating characteristic curve for the modified scoring system and ADNEX MR scoring system is 0.909 (with 0.870-0.938 95% confidence interval [CI]) and 0.938 (with 0.907-0.961 95% CI), respectively. Pairwise comparison of these area under the curves showed no significant difference (P = .053).

Conclusions
Modified scoring system is less sensitive than the ADNEX MR scoring system and more specific but the accuracy is not significantly different.

Advances in knowledge
According to our study, MR scoring system based on subjective assessment of the enhancement of the solid tissue on early phase postcontrast series and DWI with ADC map could be applicable in imaging centres that DCE is not available.