bluuebunny/crossref_metadata_2025_split huggingface dataset:
Genetic diversity of 30 soybean cultivars based on microsatellite markers
Authors: Puspitasari W , Ahsan M D , Reflinur  
Published: August 2024

Abstract
Increasing soybean production presents a significant challenge within soybean breeding endeavors. The foundation for achieving success in plant breeding lies in comprehensive knowledge of genetic diversity. Thus, this study aimed to assess the genetic diversity among 30 soybean cultivars by employing microsatellite markers. DNA extraction was conducted using a modified version of the Doyle & Doyle method, followed by amplification of each sample with nine pairs of microsatellite primers. Gel visualization of the amplified samples facilitated scoring, distinguishing between polymorphic and monomorphic primers. The analysis unveiled the detection of 59 alleles, varying from 2 to 15 alleles per locus, with an average of 6.6 alleles per marker. The resulting gene diversity averaged at 0.63, with a mean main allele frequency of 0.44. Moreover, the obtained PIC values ranged from 0.18 to 0.92, with an average value of 0.60. Notably, four microsatellite markers exhibited high informativity (PIC > 0.7). Cluster analysis based on genetic similarity coefficients grouped the 30 soybean cultivars into three main clusters, demonstrating the genetic variability within the utilized soybean genetic material.
The stepwise regression analysis method for estimating sorghum production in Karangmojo
Authors: Muazam A , Widyayanti S , Kristamtini  , Daryono B S 
Published: August 2024

Abstract
Sorghum is a multifunctional crop that can be utilized as a source of food, feed, and bioenergy. Sorghum is a plant that can adapt to land with optimal conditions, dry land with minimal nutrients and tolerant to pests and diseases. Sorghum has been widely cultivated in Indonesia, one in Gunungkidul, Yogyakarta. Sorghum production is influenced by several agronomic characteristics. The purpose of the study was to determine agronomic variables that affect sorghum production. The research was conducted in Karangmojo, Gunungkidul, Special Region of Yogyakarta, from October 2022 to March 2023. Sorghum varieties were local varieties as well as national superior varieties which are usually planted by local farmers. A total of 10 variables were analysed for their significance level on sorghum yield. The collected data were then processed using a multiple linear regression model (stepwise) using SPSS 16.0. The results showed that of the 10 agronomic variables observed, two variables contributed to the sorghum production, namely panicle weight and days to harvesting. The regression model from stepwise results is y = 8.884 + 0.036x3 – 0.062x10, with R2 = 0.754. This result indicates that the two independent variables are the main variables in determining sorghum production in Karangmojo.
Fusarium wilt of some shallot local varieties in Yogyakarta alternating-bed (surjan) agroecosystem
Authors: Pustika A B , Purwaningsih H , Rahmawati R , Darini M T 
Published: August 2024

Abstract
Leaf twisted is one of the dominant diseases in shallot that is caused by Fusarium oxysporum f.sp. cepae. Rain intensity and air humidity due to climate change affect the severity of disease and become an essential factor for high yield loss. Alternating-bed system (surjan) is one land arrangement to cultivate multiple commodities in an irrigated rice agroecosystem. It is implemented by farmers in Yogyakarta. However, it relates to climate conditions. Research about tolerant or moderately resistant shallot varieties against leaf twisted disease in alternating-bed systems is very beneficial for farmers to increase yield. This research aims to determine the potential local shallot variety which is moderately resistant and tolerant against leaf twisted and provides high yield. The research was conducted at the alternating-bed system in Kulon Progo District, Yogyakarta Indonesia from August to September 2022. The experiment was designed in randomized blocks with five replications. Shallot varieties such as Siyem, Srikayang, Crok Kuning, and Tajuk were used in this experiment. Results showed that disease severity in Tajuk, Srikayang, Siyem, and Crok Kuning was 7.60%, 9.60%, 19.60%, and 14.00%, respectively. Disease incidence of Tajuk, Srikayang, Siyem, and Crok Kuning were 0.56%, 0.83%, 1.81%, and 1.25%, respectively. The yields of Tajuk, Srikayang, Siyem, and Crok Kuning were 7.34, 6.27, 5.31, and 7.04 tons per ha, respectively. Siyem and Crok Kuning were categorized as moderately resistant, while Srikayang and Tajuk were tolerant. All four varieties are potentially developed at alternating-bed systems in Yogyakarta.
First report of Fusarium solani causing pink root disease on garlic (Allium sativum L.) in Lombok, Indonesia
Authors: Hidayah B N , Simamora A V , Triwiratno A , Wiratno  , Nurmansyah  , Idris H , Warda  , Nasrifah I , Hamsyah M T , Rani M , Nurhaedah  , Suriadi A , Hadiawati L , Fitrahtunnisa  , Mardiana  , Pramudia A 
Published: August 2024

Abstract
Garlic (Allium sativum L.) is one of the important agricultural commodities in Indonesia, with Nusa Tenggara Barat (NTB) Province among the main producing regions. Several incidences of pink root disease symptoms have been reported in garlic plantations in the Sembalun highlands of Eastern Lombok District, NTB Province, Indonesia. This study aimed to isolate and identify the fungal pathogen responsible for pink root disease in garlic plants in this region. Fungal pathogens isolated from diseased garlic plants were morphologically investigated under a microscope and molecularly identified which includes DNA isolation, PCR, sequencing, processing of sequencing data, and NCBI blasts. The symptoms of the diseased plants in the fields were leaf wilting, stunted growth, and shortened roots which first turn light pink, then darken through red and purple, later turn black, and die. The mycelial colour of the pathogen on Potato Dextrose Agar (PDA) media was growth white. Observation of the pathogen under a microscope indicated that the pathogen produced oval micro-conidia and crescent-shaped macro-conidia. Based on the BLAST results which are based on the NCBI database, it can be concluded that the species of Fusarium solani was responsible for invading the garlic plant. This is the first report of pink root disease on Lombok Island in Indonesia.
Ghost People
Authors: Nahme Paul E 
Published: August 2024

Abstract
What does race feel like? That is to say, what does race make people feel? What does it feel like to be told your identity and social destiny are bound up with how others feel about you? And what does it feel like when you are told race no longer applies to you, but others still feel the same way about you? This is a book that traces the haunting feelings that constitute race as a structural, social, and psychic experience in modern European history by focusing on the case of Jewish racialization. Taking a theoretical cue from W. E. B. Du Bois’s question in The Souls of Black Folk, “How does it feel to be a problem?,” Ghost People queries the affective experience of racial formation and explores the ways feeling and emotion have colored the lives of different people in social, political, and psychosocial dimensions. From the nineteenth-century Jewish Question and the racialization of Jews in Europe to the construction of Judaism as a religion and the disavowal of racial categories in liberal secularism, this book asks after the enduring problem of race for Jewish identity and for how Jews have remained haunted by the specter of race in the modern world.
Choreography and Cuts
Authors: Buchman Andrew 
Published: August 2024

Abstract
Chapter 3, “Choreography and Cuts,” provides an overview of Kelly’s cinematically conceived choreography for the film, emphasizing his use of mime, dramatic subtexts, and props. Donen's montages employing camera movements and special effects also receive close attention. A detailed analysis of the “Broadway Ballet” discusses Freudian imagery, other visual motifs, and implied narratives in the number. Negotiations with Hollywood’s in-house censors were mostly benign but resulted in a jump cut still visible in Charisse’s first duet with Kelly in the ballet. A final round of cuts totaling almost twenty minutes eliminated two solo musical numbers, both slow ballads, and streamlined several other scenes, arguably improving the finished film overall.
Crunelle and the morceaux de concours
Authors: Garrison Leonard 
Published: August 2024

Abstract
Gaston Crunelle took an active interest in the morceaux de concours commissioned by the Paris Conservatory for its annual concours and was open to various styles of music. He met with each composer before the pieces were published and made practical suggestions regarding their flute writing. During his tenure, important works by Dutilleux, Sancan, Jolivet, Messiaen, and others were written for the concours. Aside from these well-known pieces, others by Gallois-Montbrun, Chaynes, Rivier, and Keller merit attention. The chapter provides details on every morceaux de concours written during Crunelle’s tenure, which range in style from conservative to serial and atonal.
Life cycle of macrophages in atherosclerotic inflammation progression and resolution: mediators and interventions (narrative review)
Authors: Feng Yuxiao , Wang Qinlan , He Bin , Hou Xumin 
Published: August 2024

Abstract
As one of the pathological causes of coronary heart disease, atherosclerosis poses a major threat to human health. Macrophages play an important role in regulating atherosclerotic disease progression. Specifically, atherosclerotic inflammation is initiated when low-density lipoproteins infiltrate the subcutaneous area and are phagocytosed by macrophages, leading to foam cell formation. The subsequent inflammation progression or resolution depends on the delicate balance between proinflammatory and anti-inflammatory mediators. In cases where proinflammatory factors dominate, macrophages tend to activate the pyroptosis and necrosis pathways, resulting in the release of intracellular damage-associated molecular patterns and promoting necrotic core formation and plaque progression. Conversely, when anti-inflammatory factors prevail, macrophages engage in autophagy-mediated intracellular lipid metabolism while inhibiting inflammation progression through the efferocytosis of apoptotic cells. The regulatory function of macrophages in atherosclerosis can also be understood from the perspective of their life cycles. Lipid retention within the arterial intima and its subsequent uptake by macrophages are the characteristic pathological hallmarks of atherosclerosis. As pivotal effector cells in this process, macrophages with their distinctive performances decisively determine the progression and resolution of atherosclerotic inflammation. The complete life cycle of macrophages in atherosclerotic plaques encompasses chemotaxis, infiltration, polarization, uptake of lipoproteins for metabolic efflux, foam cell formation, lipid overload, and various forms of programmed necrosis, including autophagy, pyroptosis, apoptosis, necrosis, and efferocytosis, to facilitate the removal of apoptotic macrophages and limit inflammation progression. The behavior of macrophages in atherosclerosis has rarely been comprehensively addressed in previous review articles. This article provides an extensive overview of the entire life cycle of macrophages following their response to atherosclerotic inflammation and the impact of regulatory factors on inflammation progression and resolution. Considering that macrophages play a pivotal role in the inflammatory response associated with atherosclerosis, targeting the regulation of their life cycle holds promise for therapeutic interventions against atherosclerosis-related cardiovascular diseases.
Second Toe-to-thumb Transfer Using Intramedullary Screw Fixation after Traumatic Thumb Amputation
Authors: Ghosh Kanad , Coalson Elam , Unadkat Jignesh 
Published: August 2024

Summary:
Loss of the thumb secondary to trauma leads to significant disability due to the digit contributing 40% of overall hand function. Toe-to-thumb transfer has been a well-studied reconstructive method as a means to restore function after thumb amputation. First described in 1969 by Cobbett and colleagues, toe-to-thumb transfers have undergone several modifications in technique to better improve functional and aesthetic outcomes, including toe wrap-around flaps, trimmed great toe transfer, and second toe transfers. Although these methods have allowed patients to retain use of the thumb, traditional interosseous wire reattachment often leads to significant stiffness and need for prolonged rehabilitation to regain maximal function. Intramedullary screw fixation has been increasingly used in phalanx and metacarpal fractures, but its implementation outside of these contexts is not well reported. Here, we present a case of a patient who presented with traumatic thumb amputation and was treated with second toe-to-thumb transfer with intramedullary screw fixation, a novel mode of interosseous rigid fixation in toe-to-hand surgery. Postoperatively, our patient was able to begin mobilizing the new thumb immediately, which allowed for earlier return to work. We believe our technique can be applied to other cases of second toe, as well as great toe, transfers to improve length of recovery and rehabilitation postoperatively.
An Unusual High Prevalence of Cryptococcus (Naganishia) diffluens Colonization in Neonates Hospitalized in a Referral Neonatal Intensive Care Unit
Authors: Ashrafi Khozani Mahtab , Abastabar Mahdi , Moazeni Maryam , Rezai Mohammad Sadegh , Farhadi Roya , Yazdani Charati Jamshid , Mayahi Sabah , Haghani Iman , Ghazanfari Mona , Tavakoli Mahin , Javidnia Javad , Roilides Emmanuel , Hedayati Mohammad Taghi 
Published: August 2024

Background:
Although the Candida species continue to be the most frequent colonizer of neonatal skin, a clear increase of colonization due to rare yeast-like fungi has been reported. In this study, we report an unusual high prevalence of Cryptococcus diffluens colonization in neonates admitted to the neonatal intensive care unit (NICU) over a 1-month period.

Methods:
From January 2020 to June 2021, the study included all neonates who were admitted to the NICU of Bu Ali Sina Hospital at least 28 days old. Skin swabs from different anatomical areas were collected. Sampling was done 3 times/week. Each sample was inoculated into Sabouraud Dextrose Agar containing chloramphenicol and CHROMagar Candida, separately. The plates were incubated at 30 °C and 35 °C, respectively. Identification of the isolates was molecularly confirmed. In vitro antifungal susceptibility testing of the isolates was performed against different antifungal agents using the Clinical Laboratory Standards Institute protocol.

Results:
Among 1026 samples collected from 78 neonates, 213 yeast isolates were recovered, of which the Candida species were the most common (77.5%), followed by C. diffluens (16.9%). During the study, 55 isolated yeasts were collected from December 26, 2020, to January 26, 2021, of which 65.5% were C. diffluens, while Candida spp. constituted 100% and 98.3% of the isolates before and after this period, respectively. The most frequent sources of C. diffluens were genital regions (27.8%). Of 36 C. diffluens isolates, 13.9%, 22.2%, 52.8%, and 83.3% were non-wild type to fluconazole, amphotericin B, itraconazole and 5-flucytosine, respectively.

Conclusions:
We reported for the first time an unusual high prevalence of C. diffluens colonization in neonates hospitalized in NICU. Our findings also showed the high minimum inhibitory concentration of amphotericin B and 5-flucytosine against C. diffluens.
Activation of GABAergic neurons in the dorsal raphe nucleus alleviates hyperalgesia induced by ovarian hormone withdrawal
Authors: Wu Hui , Xie Linghua , Chen Qing , Xu Fang , Dai Ange , Ma Xiaolin , Xie Shulan , Li Hua , Zhu Fangfang , Jiao Cuicui , Sun Lihong , Xu Qi , Zhou Yudong , Shen Yi , Chen Xinzhong 
Published: August 2024

Abstract
Menopausal and postmenopausal women, characterized by a significant reduction in ovarian hormones, have a high prevalence of chronic pain with great pain intensity. However, the underlying mechanism of hyperalgesia induced by ovarian hormone withdrawal remains poorly understood. Here, we report that decreases in the activity and excitability of GABAergic neurons in the dorsal raphe nucleus (DRN) are associated with hyperalgesia induced by ovariectomy in mice. Supplementation with 17β-estradiol, but not progesterone, is sufficient to increase the mechanical pain threshold in ovariectomized (OVX) mice and the excitability of DRN GABAergic (DRNGABA) neurons. Moreover, activation of the DRNGABA neurons projecting to the lateral parabrachial nucleus was critical for alleviating hyperalgesia in OVX mice. These findings show the essential role of DRNGABA neurons and their modulation by estrogen in regulating hyperalgesia induced by ovarian hormone withdrawal, providing therapeutic basis for the treatment of chronic pain in physiological or surgical menopausal women.
The First Case of 99mTc-FAPI Uptake in Optic Nerve Sheath Meningioma
Authors: Sahafi Pegah , Jafari Zarrin Ghabaei Farid , Aryana Kamran , Aledavood Seyed amir , Aghaee Atena 
Published: August 2024

Abstract
This case study presents the first demonstration of FAPI ligand uptake in a patient with optic nerve sheath meningioma. The patient, a 23-year-old woman who had previously undergone surgery for refractory optic meningioma, was referred to our department for 177Lu-DOTATATE therapy. After 3 cycles of 177Lu-DOTATATE administration, her proptosis significantly decreased. Two months after her last therapeutic cycle, a 99mTc-FAPI scan was performed. The scan revealed a mass with moderately increased uptake in the left retro-orbital region. This study is believed to be the first to demonstrate FAPI ligand uptake in a patient with optic nerve sheath meningioma.
Optic Atrophy From Retrograde Transsynaptic Axonal Degeneration Following Pediatric Brain Injury
Authors: Maran Jack Jonathan , Sharpe Cynthia , Perry David , Danesh-Meyer Helen V. , Hull Sarah 
Published: August 2024

Background:
The patterns of optic atrophy due to retrograde transsynaptic degeneration (RTSD) have not been well characterized in children. This study aimed to characterize optic atrophy in pediatric patients with focal intracerebral lesions.

Methods:
A retrospective review of children with optic atrophy and focal intracerebral lesions was conducted. Ophthalmic data were recorded, including visual acuity, color vision, formal automated visual fields and optical coherence tomography (OCT) of the peripapillary retinal nerve fiber layer (pRNFL) and ganglion cell layer.

Results:
Six patients (83.33% male) were included. The mean visual acuity (VA) of all eyes was 0.30 logMAR (20/40 Snellen), with no significant difference in the mean logMAR VA in the ipsilateral eye to the location of the lesion compared with the contralateral eye (0.30 vs 0.30, P = 1.000). Color vision (available in 5 patients) was normal in 2, mildly reduced in one and markedly reduced in 2. Bitemporal optic disc pallor was observed in 5 out of 6 patients. OCT data revealed that pRNFL thickness was most significantly diminished in the temporal (95% CI: −44.71 to −14.18 µm, P = 0.0021), inferotemporal (95% CI: −75.06 to −5.17 µm, P = 0.0294), and superotemporal (95% CI: −76.82 to −18.51 µm, P = 0.0055) sectors. Average pRNFL thickness was significantly reduced compared with normative data in both the ipsilateral (95% CI: −40.76 to −11.69 µm, P = 0.0003) and the contralateral eye (95% CI: −38.46 to −5.83 µm, P = 0.0063). When only nasal and temporal data were analyzed, mean pRNFL thickness was still diminished compared with normative data (95% CI: −33.01 to −9.77 µm, P = 0.0012).

Conclusions:
Children presenting with optic atrophy, particularly with bitemporal optic atrophy, should have neuroimaging to exclude any underlying serious intracranial pathology.
Low-ABC: a robust demographic inference from low-coverage whole-genome data through ABC
Authors: Vizzari Maria Teresa , Ghirotto Silvia , Agostini Rajiv Boscolo , Delser Pierpaolo Maisano , Cassidy Lara , Manica Andrea , Benazzo Andrea 
Published: August 2024

AbstractThe reconstruction of past demographic histories relies on the pattern of genetic variation shown by the sampled populations; this means that an accurate estimation of genotypes is crucial for a reliable inference of past processes. A commonly adopted approach to reconstruct complex demographic dynamics is the Approximate Bayesian Computation (ABC) framework. It exploits coalescent simulations to generate the expected level of variation under different evolutionary scenarios. Demographic inference is then performed by comparing the simulated data with the genotypes called in the sampled individuals. Low sequencing coverage drastically affects the ability to reliably call genotypes, thus making low-coverage data unsuitable for such powerful inferential approaches.Here, we present Low-ABC, a new ABC approach to infer past population processes using low-coverage whole-genome data. Under this framework, both observed and simulated genetic variation are not directly compared using called genotypes, but rather obtained using genotype likelihoods to consider the uncertainty caused by the low sequencing coverage. We first evaluated the inferential power of this procedure in distinguishing among different demographic models and in inferring model parameters under different experimental conditions, including a wide spectrum of sequencing coverage (1x to 30x), number of individuals, number, and size of genetic loci.We showed that the use of genotype likelihoods integrated into an ABC framework provides a reliable inference of past population dynamics, thus making possible the application of model-based inference also for low-coverage data. We then applied Low-ABC to shed light on the relationship between Mesolithic and Early Neolithic European populations.
mosGraphFlow: a novel integrative graph AI model mining disease targets from multi-omic data
Authors: Zhang Heming , Cao Dekang , Xu Tim , Chen Emily , Li Guangfu , Chen Yixin , Payne Philip , Province Michael , Li Fuhai 
Published: August 2024

AbstractMulti-omic data can better characterize complex cellular signaling pathways from multiple views compared to individual omic data. However, integrative multi-omic data analysis to rank key disease biomarkers and infer core signaling pathways remains an open problem. In this study, our novel contributions are that we developed a novel graph AI model,mosGraphFlow, for analyzing multi-omic signaling graphs (mosGraphs), 2) analyzed multi-omic mosGraph datasets of AD, and 3) identified, visualized and evaluated a set of AD associated signaling biomarkers and network. The comparison results show that the proposed model not only achieves the best classification accuracy but also identifies important AD disease biomarkers and signaling interactions. Moreover, the signaling sources are highlighted at specific omic levels to facilitate the understanding of the pathogenesis of AD. The proposed model can also be applied and expanded for other studies using multi-omic data. Model code is accessible via GitHub:https://github.com/FuhaiLiAiLab/mosGraphFlow