Miracle-dz/UniFAR-FTUs huggingface dataset:
Stability and similarity of the pediatric connectome as developmental outcomes

Patterns of functional connectivity are unique at the individual level, enabling test-retest matching algorithms to identify a subject from among a group using only their functional connectome. Recent findings show that accuracies of these algorithms in children increase with age. Relatedly, the persistence of functional connectivity (FC) patterns across tasks and rest also increases with age. This study investigated the hypothesis that within-subject stability and between-subject similarity of the whole-brain pediatric connectome are developmentally relevant outcomes. Using data from 210 help-seeking children and adolescents, ages 6-21 years (Healthy Brain Network Biobank), we computed whole-brain FC matrices for each participant during two different movies (MovieDM and MovieTP) and two runs of task-free rest (all from a single scan session) and fed these matrices to a test-retest matching algorithm. We replicated the finding that matching accuracies for children are low (18-44%) relative to previous work in adults and found that cross-state and cross-movie accuracies for children were the lowest. Next, we calculated three measures of connectome stability for each subject: cross-rest (Rest1-Rest2), cross-state (Rest1-MovieDM), and cross-movie (MovieDM-MovieTP), and three measures of within-state between-subject connectome similarity for Rest1, MovieDM, and MovieTP. We show that all six measures of stability and similarity are correlated, but that these measures are not related to age. A principal component analysis of these measures yielded two components that were used to test for brain-behavior correlations with IQ, general psychopathology, and a social skills measure (n=119). The first component was significantly correlated with the social skills measure (r=-0.27, p=0.003) and overall psychiatric scores (r=-0.239, p=0.009). Post hoc correlations showed that cross-rest stability was correlated with both social skills (p=0.0007) and general psychopathology (p=0.001). Connectome similarity during MovieDM was also correlated with social skills (p=0.0026). These findings suggest that the stability and similarity of the whole-brain connectome relate to overall brain development, and in particular, to those regions that support social cognition. We infer that the development of the functional connectome simultaneously achieves patterns of FC that are distinct at the individual subject level, that are shared across individuals, and that are persistent across states and across runs—features which presumably combine to optimize neural processing during development. Future longitudinal work could reveal the developmental trajectories of stability and similarity of the connectome. Highlights - Identification algorithms yielded low accuracies in this developmental sample. - Individual differences in FC were not as persistent across states or movies. - Connectome within-subject stability and between-subject similarity were interrelated. - Stability during rest and similarity during a movie correlate with social skills scores.
Seroprevalence of porcine circovirus type 2 infection in the area of Vojvodina

The aim of this research was to determine seroprevalence of infection caused by PCV2 in different categories of pigs on the territory of Vojvodina. The research was conducted on 6 pig farms placed in different locations on the territory of Vojvodina (two farms from the territory of Backa, Banat and Srem, respectively), with the capacity from 500 to 2,500 sows with intensive management, closed type. Blood samples from brachioce? phalic plexus were collected from 540 pigs in three different categories, in suckling piglets between 3 and 4 weeks of age, in weaned piglets from 8 to 9 weeks of age, and in fattening pigs between 20 and 22 weeks of age. Specific anti-PCV2 antibodies are determined by using indirect ELISA. Based on our results, we conclude that PCV2 infections are widely spread on the territory of Vojvodina, with total seroprevalence of 74.8%. The highest value of seroprevalence is determined in category of fattening pigs 86%, in suckling piglets this was 74.5%, while in weaned piglets seroprevalence was 65.3%.
Specific gyrA gene mutations correlate with high prevalence of discordant levofloxacin resistance in Mycobacterium tuberculosis isolates from Beijing, China

Although molecular diagnostics are highly sensitive in the diagnosis of fluroquinolone (FQ)-resistant tuberculosis (TB), the discordant results with the sequential phenotypic drug susceptibility testing (DST) invariably occur. To investigate the prevalence and the cause of discordant results between molecular and phenotypic DST for levofloxacin (LFX), the cases who were determined to be LFX-susceptible using the phenotypic DST but LFX-resistant using the MeltPro assay were retrospectively reviewed in Beijing, China. We measured LFX minimal inhibitory concentrations (MICs) using Middlebrook 7H9 broth. Sanger sequencing was used to determine genotypic characteristics of discordant isolates. Between January and December 2018, 126 (22.1%) out of 571 smear-positive TB patients were identified as LFX-resistant TB by MeltPro assay. Among the 126 LFX-resistant TB, there were 34 isolates identified as LFX-susceptible TB by phenotypical DST. This result demonstrated a discordance prevalence of 27.0%. LFX MICs were majorly centered around the critical concentration, and 7 (21.2%) and 13 (39.4%) had MICs of 2.0 mg/l and 4.0 mg/l, respectively. The most prevalent mutations conferring discordant LFX resistance were the amino acid substitutions of Ser to Leu in 90 codon (13, 39.4%) and Asp to Ala in 94 codon of gyrA (11, 33.3mg/l belonged to Ala90Val and Asp94Ala group. In conclusion, our data demonstrate that more than one quarter of LFX-resistant isolates by molecular method are susceptible to LFX using the phenotypic DST. The high prevalence of discordant LFX resistance is majorly due to the isolates with specific mutations within gyrA gene conferring proximity of MICs to the critical concentration.
Micro-propagation of Aquatic Plant Brazilian Micro Sword (Lileaopsis brasiliensis)

Lileaopsis brasiliensis is one of the ornamental aquatic plants and yet still being commercialized in Malaysia because of the grassy foreground features. This study is conducted to propagate higher quantity and quality of L. brasiliensis and to determine the optimum concentration of plant growth regulator for the micro-propagation in Murashige and Skoog (MS) (1962) basal media with different concentration of Naphteneacetic acid (NAA) and 6- Benzylaminopurine (BAP) for four weeks period following with subculture procedure. All treatments for 1 L MS media were adjusted to pH 5.7-5.8, adding sucrose and pytagel with 30 g/L and 2.5 g/L, respectively. The explants were sub-cultured at least three times within five months. The results of the quality and quantity of this species within different concentration of NAA and BAP have been determined. For shoot regeneration, the highest number of shoot induced in initial culture (C0), first (C1), second (C2) and the third subculture (C3) were 103, 102, 104 and 137 respectively. There was no significant different of shoot regeneration in different concentration of NAA and BAP combination. However, the high number of shoot regeneration was obtained from the following concentration NAA: BAP: zero concentration in both C0 (103.0±5.3) and C2 (104.0±14.2), 1.5: 0.0 mg/L with 102.0±4.4 and1.5:0.5 mg/L with 137.0±41.2 in C1 and C3, respectively. Based on the results, it can be concluded that shoot regeneration was observed even though in very low concentration of NAA and BAP. Keywords: Aquatic plants, lilaeopsis brasiliensis, micro-propagation, plant growth regulators
Molecular Relationship among Mangifera indica L. (Mango) Varieties Using Simple Sequence Repeat (SSR) Marker

This study established phylogenetic relationships among mango varieties collected from NIHORT, Ogbomosho, Saki, Oyo, Isehin and Ibadan using Simple Sequence Repeat (SSR) markers with a view of determining their polymorphism, gene and allelic diversities. Sweet Mango UI Acc-3 had the highest total genomic DNA of 1379. 00µl, while OYOM ACC-5 had the lowest concentration of 0.9 gl from total genomic DNA of 0.25. The number of alleles ranged from 2 to 4 with an average of 2.50 alleles per locus in which the highest allelic frequency of 0.97 was recorded for EF 592217 and EF 59210 primers. However, Primer SSR20 had the highest information of polymorphic at 57.57% and highest gene diversity of 0.64. The result from the dendrogram showed that out of the three major clusters generated, the second delineated the highest number of 12 varieties in which Ogbomosho Mango Acc-2 (OGBM ACC-2) branched out at a distance of 0.15 from other varieties. Sweet Mango UI 3, Ogbomosho Mango Acc-2 (OGBM ACC-2), Julie Mango are potential future breeding accessions while Primer SSR20 could therefore be considered for further molecular breeding of other mango varieties and other tree crops in the Mangifera family.
Herbal plants for children diseases’ cure in Perambalur, Tamil Nadu, India

The present study aims at identification and documentation of the medicinal plants which are traditionally used to manage children diseases in Perambalur district of Tamil Nadu, India. Semi-structured interviews were used to collect ethnomedicinal plants during the month of December 2017 and January 2018. Data was statistically analysed using Use value (UV), relative frequency of citations (RFC), utility ratio (UR), relative information (RI) and informant agreement ratio (IAR). Forty three medicinal plants which were identified and documented belong to 30 families. Most of the species belong to Solanaceae and Leguminosae families. Most frequently used plant part and life form are leaves and herbs. Decoction method was used for delivering the oral dose and oral intake was the major route used for administration. Ocimum basilicum had highest UV, RFC, UR, RI and IAR. Maximum plant species were able to cure gastrointestinal diseases followed by fever, liver disorders, respiratory disorders, dermatological problem, ENT problems, etc. The results of this study revealed that Perambalur district has rich plant diversity and people have broad indigenous knowledge of role in curing children diseases. Hence, further phytochemical, pharmacological and toxicological investigation on floras that scored highest RFC and UV values is necessary for discovering new drugs.
Effects of multi-strain probiotic supplementation on intestinal microbiota, tight junctions, and inflammation in young broiler chickens challenged with Salmonella enterica subsp. enterica

Objective This study assessed the effects of probiotics on cecal microbiota, gene expression of intestinal tight junction proteins, and immune response in the cecal tonsil of broiler chickens challenged with Salmonella enterica subsp. enterica. Methods One-day-old broiler chickens (n = 240) were randomly allocated to four treatments: negative control (Cont), multi-strain probiotic-treated group (Pro), Salmonella-infected group (Sal), and multi-strain probiotic-treated and Salmonella-infected group (ProSal). All chickens except those in the Cont and Pro groups were gavaged with 1×108 cfu/mL of S. enterica subsp. enterica 4 days after hatching. Results Our results indicated that body weight, weight gain, and feed conversion ratio of birds were significantly reduced (p<0.05) by Salmonella challenge. Chickens challenged with Salmonella decreased cecal microbial diversity. Chickens in the Sal group exhibited abundant Proteobacteria than those in the Cont, Pro, and ProSal groups. Salmonella infection downregulated gene expression of Occludin, zonula occludens-1 (ZO1), and Mucin 2 in the jejunum and Occludin and Claudin in the ileum. Moreover, the Sal group increased gene expression of interferon-γ (IFN-γ), interleukin-6 (IL-6), IL-1β, and lipopolysaccharide-induced tumor necrosis factor-alpha factor (LITAF) and reduced levels of transforming growth factor-β4 and IL-10 compared with the other groups (p<0.05). However, chickens receiving probiotic diets increased Lactobacillaceae abundance and reduced Enterobacteriaceae abundance in the ceca. Moreover, supplementation with probiotics increased the mRNA expression of Occludin, ZO1, and Mucin 2 in the ileum (p<0.05). In addition, probiotic supplementation downregulated the mRNA levels of IFN-γ (p<0.05) and LITAF (p = 0.075) and upregulated IL-10 (p = 0.084) expression in the cecal tonsil. Conclusion The administration of multi-strain probiotics modulated intestinal microbiota, gene expression of tight junction proteins, and immunomodulatory activity in broiler chickens.
Prevalence and mechanisms of fluoroquinolone-resistant Escherichia coli among sheltered companion animals

To better understand the prevalence of fluoroquinolone-resistant Escherichia coli among sheltered companion animals, we conducted a screening study of 38 dogs and 78 cats and investigated the resistance mechanisms and characteristics of the isolates. Fluoroquinolone-resistant E. coli was detected in 18 dogs (47.4 %) and 14 cats (17.9 %). The isolates carried one to four mutations in the gyrA, parC and parE genes of the quinolone resistance-determining region, and the number of mutations was proportional to the MIC for ciprofloxacin. For plasmid-mediated quinolone resistance, aac-(6′)-Ib-cr was detected in nine isolates, qnrS in five isolates and qnrB in one isolate. A relationship between the presence of these genes and MIC for ciprofloxacin was not apparent. Statistical analysis indicated that fluoroquinolone-resistant E. coli was widely distributed among sheltered companion animals with various attributes. This may relate to the wide dissemination of fluoroquinolone resistance among humans and other animals in Japan.
Supervision in Occupational Therapy, Part 3: Accommodating the Supervisor and the Supervisee

This paper, the final one in a series of three, aims to draw together the findings of the two reported studies on the experiences of supervisors and supervisees in the discipline of occupational therapy (Sweeney et al 2001a,b) and to distil recommendations for the future practice of supervision within the profession. A paucity of empirical research on the process of supervision within the health care professions has resulted in a confusion concerning the purpose of supervision, its distinctiveness from other activities and the role and function of both supervisors and supervisees, and a lack of clarity regarding the tasks and techniques to be employed within supervision. In keeping with concerns about supervision expressed in the general literature, the findings of these studies (Sweeney et al 2001a,b) suggest that supervision as it is currently practised within occupational therapy is not a comfortable experience for either the supervisor or the supervisee. This paper recommends steps that can be adopted by both supervisors and supervisees to facilitate the development of a more productive relationship within supervision; for example, the use of training, exposure to theories and models of supervision, and the use of agendas, contracts and feedback. Supervisor and supervisee recommendations are discussed within the wider framework of professional, cultural and organisational implications.
Cardiopulmonary exercise testing predicts postoperative outcome in patients undergoing gastric bypass surgery.

BACKGROUND For several types of non-cardiac surgery, the cardiopulmonary exercise testing (CPET)-derived variables anaerobic threshold (AT), peak oxygen consumption (VO2 peak), and ventilatory equivalent for CO(2) (VE/VCO2 ) are predictive of increased postoperative risk: less physically fit patients having a greater risk of adverse outcome. We investigated this relationship in patients undergoing gastric bypass surgery. METHODS All patients (<190 kg) who were referred for CPET and underwent elective gastric bypass surgery at the Whittington Hospital NHS Trust between September 1, 2009, and February 25, 2011, were included in the study (n=121). Fifteen patients did not complete CPET. CPET variables (VO2 peak, AT, and VE/VCO2 ) were derived for 106 patients. The primary outcome variables were day 5 morbidity and hospital length of stay (LOS). The independent t-test and Fisher's exact test were used to test for differences between surgical outcome groups. The predictive capacity of CPET markers was determined using receiver operating characteristic (ROC) curves. RESULTS The AT was lower in patients with postoperative complications than in those without [9.9 (1.5) vs 11.1 (1.7) ml kg(-1) min(-1), P=0.049] and in patients with a LOS>3 days compared with LOS ≤ 3 days [10.4 (1.4) vs 11.3 (1.8) ml kg(-1) min(-1), P=0.023]. ROC curve analysis identified AT as a significant predictor of LOS>3 days (AUC 0.640, P=0.030). The VO2 peak and VE/VCO2 were not associated with postoperative outcome. CONCLUSIONS AT, determined using CPET, predicts LOS after gastric bypass surgery.
Genomic Evidence for Formate Metabolism by Chloroflexi as the Key to Unlocking Deep Carbon in Lost City Microbial Ecosystems

Primitive forms of life may have originated around hydrothermal vents at the bottom of the ancient ocean. The Lost City hydrothermal vent field, fueled by just rock and water, provides an analog for not only primitive ecosystems but also potential extraterrestrial rock-powered ecosystems. The microscopic life covering the towering chimney structures at the Lost City has been previously documented, yet little is known about the carbon cycling in this ecosystem. These results provide a better understanding of how carbon from the deep subsurface can fuel rich microbial ecosystems on the seafloor. ABSTRACT The Lost City hydrothermal field on the Mid-Atlantic Ridge supports dense microbial life on the lofty calcium carbonate chimney structures. The vent field is fueled by chemical reactions between the ultramafic rock under the chimneys and ambient seawater. These serpentinization reactions provide reducing power (as hydrogen gas) and organic compounds that can serve as microbial food; the most abundant of these are methane and formate. Previous studies have characterized the interior of the chimneys as a single-species biofilm inhabited by the Lost City Methanosarcinales, but they also indicated that this methanogen is unable to metabolize formate. The new metagenomic results presented here indicate that carbon cycling in these Lost City chimney biofilms could depend on the metabolism of formate by Chloroflexi populations. Additionally, we present evidence for metabolically diverse, formate-utilizing Sulfurovum populations and new genomic and phylogenetic insights into the unique Lost City Methanosarcinales. IMPORTANCE Primitive forms of life may have originated around hydrothermal vents at the bottom of the ancient ocean. The Lost City hydrothermal vent field, fueled by just rock and water, provides an analog for not only primitive ecosystems but also potential extraterrestrial rock-powered ecosystems. The microscopic life covering the towering chimney structures at the Lost City has been previously documented, yet little is known about the carbon cycling in this ecosystem. These results provide a better understanding of how carbon from the deep subsurface can fuel rich microbial ecosystems on the seafloor.
Computational Analysis of the Sequences of LIPE Gene of Selected Ruminants and Non-ruminants

Tropically adapted farm animals are characterized by low meat and milk productivity. Traditionally, mass selection has been widely employed in breeding for improved animal performance. However, improving animal productivity using mass selection is laborious and usually less effective. Advances in molecular techniques such as DNA sequencing analysis provide the opportunity to characterize meat and milk influencing genes, which can lead to faster genetic improvement but often unaffordable and expensive particularly in developing countries. Unlike the wet laboratory analysis, computational molecular analyses is comparatively cheaper in pre-screening of the functional impacts of nonsynonymous single-nucleotide variants of some performance traits-related genes such as hormone-sensitive lipase (LIPE). A total of fifteen (15) LIPE nucleotide sequences comprising pig (3), cattle (3), water buffalo (2), camel (2), goat (2) and sheep (3) were retrieved from the Genbank. Also, twenty (20) functionally associated genes with the LIPE gene including perilipin 1, 2 & 5 protein kinase cAMP-activated catalytic subunit alpha, protein kinase X-linked were determined using the GeneMANIA. Functional analysis of non-synonymous single nucleotide polymorphism using PROVEAN showed that ten amino acid substitutions (S216C, P107del, Q28_P29insRATHVA, S41_S44dup, A640M, S940A, L660I, D86delinsWA, S1000F) in water buffalo and pig (X678E, V789K, G987del, T218K, Q2234del, L278H, Q321del, L1023delinsPKL, P1452V, H1267delinsRFT), nine in sheep (F67_P68delinsVQ, R24G, A247_R248dup, L122L, L144P, S149K, S125S, S224H, G148M) and goats (A450Y, P480H, G490delinsPHQ, L500R, R550del, S100_S101dup, E600S, A700Q, P754delinsQAW) and five in camel (A320A, S210S, L130L, T400T, L440I) were found neutral indicating their beneficial effect while only T110A out of the fifteen amino acid substitutions was found deleterious in cattle. The obtained phylogenetic trees from the nucleotide sequences showed a closer relationship among the members of the Bovidae family particularly the sheep and cattle. This information may aid future research that aims at the selection of the studied animals for improved meat and milk quality traits.
Brief communication: Long-term absence of Langerhans cells alters the gene expression profile of keratinocytes and dendritic epidermal T cells

Tissue-resident and infiltrating immune cells are continuously exposed to molecules derived from the niche cells that often come in form of secreted factors, such as cytokines. These factors are known to impact the immune cells’ biology. However, very little is known about whether the tissue resident immune cells in return also affect the local environment. In this study, with the help of RNA-sequencing, we show for the first time that long-term absence of epidermal resident Langerhans cells (LCs) led to significant gene expression changes in the local keratinocytes and resident dendritic epidermal T cells. Thus, immune cells might play an active role in maintaining tissue homeostasis, which should be taken in consideration at data interpretation.
Quality of Meat from Female Fallow Deer (Dama Dama) and Roe Deer (Capreolus Capreolus) Hunted in Serbia

Abstract Deer meat is a high quality and valuable food for human consumption. It has high nutritive value because of its high protein and heme iron content, and low levels of fats and saturated fatty acids. The aim of this study was to examine the quality parameters of meat from fallow deer and roe deer that were hunted in Serbia. Parameters studied were live weight, carcass weight, chemical composition of meat, color, fatty acid content of meat, volatile compounds, and sensory characteristics. The results obtained show no significant difference in the chemical composition of these two species of deer meat, but there were differences regarding fatty acid content, volatile compounds, color and sensory properties of meat. The ratios of polyunsaturated to saturated fatty acids in the deer meat ranged from 0.387 to 0.556. The results suggest that deer species has a significant impact on the fatty acid profile and content of volatile compounds of deer meat.