Miracle-dz/UniFAR-FTUs huggingface dataset:
Phenotype and Genetic Analysis of Growth Characteristics of Sabu and Semau Chickens Which are Conserved Ex-Situ

Sabu and Semau chickens are originated from Sabu and Semau islands, East Nusa Tenggara. The aim of this study was to analyze the phenotypic and genetic of growth characteristics of Sabu and Semau chickens which were conserved ex-situ. Four mating groups as treatments and each using 4 males and 24 females, produced 144 chicks as research material. Mating was by artificial insemination. Observations include data on body weight from the age of 0 - 12 weeks. Nested design analysis were used to obtain the variance components used to estimate the heritability. Heritability was estimated based on male, female, and total variance. The results showed that the body weight resulting from the interse mating (SS) was better than other crosses. The estimation of heritability based on male variance (h2S), SS, MM, and SM showed positive values, while MS are more negative, except 8 weeks of age. Likewise based on females (h2D) and the total variance (h2S+D). Heritability estimates of body weight were low to hight (-2.31 to 2.33) due to small data or sample size. It can be concluded that Sabu and Semau chickens can be conserved ex-situ.
Effects of Essential Fatty Acids during In Vitro Maturation of Porcine Oocytes: Hormone Synthesis and Embryonic Developmental Potential

Omega-3 α -linolenic acid and omega-6 linoleic acid are essential fatty acids for health maintenance of human and animals because they are not synthesized in vivo. The purpose of this study was to evaluate the effect of α -linolenic acid and linoleic acid supplementation on in vitro maturation and developmental potential of porcine oocytes. Various concentrations of α -linolenic acid and linoleic acid were added into in vitro maturation medium, and we evaluated the degree of cumulus expansion, oocyte nuclear-maturation rate, blastocyst rate, blastocyst quality, and levels of prostaglandin E 2 , 17 β -estradiol, and progesterone in the spent medium. High doses (100 μ M) of α -linolenic acid and linoleic acid supplementation significantly inhibited cumulus expansion and oocyte nuclear maturation, and prostaglandin E 2 synthesis also significantly decreased compared with other groups (p < 0.05). Supplementation of 50 μ M α -linolenic acid and 10 μ M linoleic acid showed higher quality blastocysts in terms of high cell numbers and low apoptosis when compared with other groups (p < 0.05), and synthesis ratio of 17 β -estradiol / progesterone also significantly increased compared with control group (3.59 ± 0.22 vs. 2.97 ± 0.22, 3.4 ± 0.28 vs. 2.81 ± 0.19, respectively; p < 0.05). Our results indicated that supplementation with appropriate levels of α -linolenic acid and linoleic acid beneficially affects the change of hormone synthesis (in particular, an appropriate increase in the 17 β -estradiol / progesterone synthesis ratio) for controlling oocyte maturation, leading to improved embryo quality. However, high doses of α -linolenic acid and linoleic acid treatment results in detrimental effects.
Soil eutrophication shaped the composition of pollinator assemblages during the past century

Atmospheric nitrogen deposition and other sources of environmental eutrophication have increased substantially over the past century worldwide, notwithstanding the recent declining trends in Europe. Despite the recognized susceptibility of plants to eutrophication, few studies evaluated how impacts propagate to consumers, such as pollinators. Here we aim to test if soil eutrophication contributes to the temporal dynamics of pollinators and their larval resources. We used a temporally and spatially explicit historical dataset with information on species occurrences to test if soil eutrophication, and more specifically nitrogen deposition, contributes to the patterns of change of plant and pollinator richness in the Netherlands over an 80 yr period. We focus on bees and butterflies, two groups for which we have good knowledge of larval resources that allowed us to define groups of species with different nitrogen related diet preferences. For each group we estimated richness changes between different 20-yr periods at local, regional and national scale, using analytical methods developed for analyzing richness changes based on collection data. Our findings suggest that the impacts of soil eutrophication on plant communities propagate to higher trophic levels, but with a time-lag. Pollinators with nitrogen-related diet preferences were particularly affected, in turn potentially impairing the performance of pollinator-dependent plants. Pollinator declines continued even after their focal plants started to recover. In addition, our results suggest that current levels of nitrogen deposition still have a negative impact on most groups here analyzed, constraining richness recoveries and accentuating declines. Our results indicate that the global increase in nitrogen availability plays an important role in the ongoing pollinator decline. Consequently, species tolerances to soil nitrogen levels should be considered across all trophic levels in management plans that aim to halt biodiversity loss and enhance ecosystems services worldwide.
Molecular and cellular mediators in radiation-induced lung injury

Xuebin Yang: Molecular and Cellular Mediators In Radiation-Induced Lung Injury (Under the direction of Suzanne Kirby, M.D. Ph.D) Radiation-induced lung injury is a common adverse effect in patients receiving thoracic irradiation and for which, there is currently no effective therapy. Using a murine model of thoracic irradiation, we found that mice deficient in either the chemokine CCL3 or one of its receptors, CCR1, are significantly protected from radiation lung injury. This protected phenotype includes improved survival, virtually no pneumonitis or fibrosis, and preserved lung function when compared to wild-type mice. We further showed that a specific CCR1 inhibitor, BX471 provided similar protection. Therefore, CCR1 is a promising target for reducing radiation lung injury. To investigate the mechanisms by which CCL3/CCR1 signalling mediates radiation lung injury, we evaluated their influence on lung inflammation after irradiation. When compared with irradiated WT mice, irradiated CCL3and CCR1-deficient mice had less lung infiltration of CD4 + and CD8 + T cells; however, CD4-deficient mice showed only partial protection, while CD8-deficient mice had slightly worse fibrosis. We further analyzed inflammatory cytokines and different subsets of CD4 + lymphocytes, T H 1, T H 2, T H 17 and Treg cells, in our model. We found no differences in lung Foxp3 + Treg cells between WT and CCR1-deficient mice. Notably however, irradiated CCR1-deficient mice had less mRNA
Causes of Delay and Associated Mortality in Patients Transferred With ST-Segment–Elevation Myocardial Infarction

Background— Regional ST-segment–elevation myocardial infarction systems are being developed to improve timely access to primary percutaneous coronary intervention (PCI). System delays may diminish the mortality benefit achieved with primary PCI in ST-segment–elevation myocardial infarction patients, but the specific reasons for and clinical impact of delays in patients transferred for PCI are unknown. Methods and Results— This was a prospective, observational study of 2034 patients transferred for primary PCI at a single center as part of a regional ST-segment–elevation myocardial infarction system from March 2003 to December 2009. Despite long-distance transfers, 30.4% of patients (n=613) were treated in ⩽90 minutes and 65.7% (n=1324) were treated in ⩽120 minutes. Delays occurred most frequently at the referral hospital (64.0%, n=1298), followed by the PCI center (15.7%, n=317) and transport (12.6%, n=255). For the referral hospital, the most common reasons for delay were awaiting transport (26.4%, n=535) and emergency department delays (14.3%, n=289). Diagnostic dilemmas (median, 95.5 minutes; 25th and 75th percentiles, 72–127 minutes) and nondiagnostic initial ECGs (81 minutes; 64–110.5 minutes) led to delays of the greatest magnitude. Delays caused by cardiac arrest and/or cardiogenic shock had the highest in-hospital mortality (30.6%), in contrast with nondiagnostic initial ECGs, which, despite long treatment delays, did not affect mortality (0%). Significant variation in both the magnitude and clinical impact of delays also occurred during the transport and PCI center segments. Conclusions— Treatment delays occur even in efficient systems for ST-segment–elevation myocardial infarction care. The clinical impact of specific delays in interhospital transfer for PCI varies according to the cause of the delay.
Mycobacterium tuberculosis complex: Detection and patterns of resistance to the first line anti-TB drugs at the King Abdulaziz University Hospital, Saudi Arabia

Tuberculosis (TB) remains a major cause of morbidity and mortality worldwide. Continued surveillance of drug susceptibility help determining treatment regimen by anti-tuberculous drugs. Gene Xpert PCR sensitivity was compared to the liquid culture media by Versa TREK for detecting Mycobacterium tuberculosis complex(MTBC). Rates, patterns and types of anti-tuberculosis drug- resistance atKing Abdulaziz University Hospital (KAUH), Jeddah, KSA were determined from January 2013 to June 2014.A total of 101 tuberculous patients were included, 43 Saudi tuberculous patients and 58 non-Saudi tuberculous patients. All resistances detected were primary resistances. PCR Sensitivities for detection of MTBC were 29.4%, 80%, 87.5%, 77.8% and 100% in AFB-negative samples and AFB +1,+2,+3 and +4 positive samples respectively. MTBC percentage detected by PCR was 88.1% in AFB-positive samples and 29.9% in AFB-negative ones. Versa Trek detection time was 15.01±7.32 days in AFB-positive samples and 26.63±6.7 days in AFB-negative ones. MTBC pyrazinamide resistance was (13.86%), followed by streptomycin (7.9%), rifampicin (3.96%) and isoniazid (3.96%). Mono-resistance percentages to pyrazinamide, rifampicin and isoniazid were 11.88%, 1.98% and 0.99% respectively. MDR-TB were 1.98% and anti-TB resistance percentage was 24.75%. There was no significant difference between Saudi and non-Saudi tuberculous patients regarding anti- tuberculous drugs resistance.
Multivariate analysis and selection criteria for identification of African rice (Oryza glaberrima) for genetic improvement of indica rice cultivars

Abstract Thirty-one accessions of Oryza glaberrima were evaluated to study the genetic variability, correlation, path, principal component analysis (PCA) and D2 analysis. Box plots depicted high estimates of variability for days to 50% flowering and grain yield per plant in Kharif 2016, plant height, productive tillers, panicle length and 1000 seed weight in Kharif 2017. Correlation studies revealed days to 50% flowering, plant height, panicle length, number of productive tillers, spikelets per panicle having a high direct positive association with grain yield, while path analysis identified the number of productive tillers having the maximum direct positive effect on grain yield. Days to 50% flowering via spikelets per panicle, productive tillers and plant height via spikelets per panicle exhibited high positive indirect effects on grain yield per plant. PCA showed that a cumulative variance of 54.752% from yield per plant, days to 50% flowering, spikelets per panicle and panicle length, contributing almost all the variation of traits while D2 analysis identified days to 50% flowering and grain yield per plant contributing maximum to the genetic diversity. Therefore, selection of accessions with more number of productive tillers and early maturity would be most suitable for yield improvement programme. The study has revealed the utility of African rice germplasm and its potential to utilize in the genetic improvement of indica rice varieties.
Partners coordinate territorial defense against simulated intruders in a duetting ovenbird

Abstract Duets in breeding pairs may reflect a situation of conflict, whereby an individual answers its partner's song as a form of unilateral acoustic mate guarding or, alternatively, it may reflect cooperation, when individuals share in territory defense or safeguard the partnership. The degree of coordination between the sexes when responding to solo versus paired intruders may elucidate the function of songs in duets. We examined this issue in a study with rufous horneros (Furnarius rufus), a duetting, socially monogamous Neotropical species with low levels of extrapair paternity. We exposed social pairs during the nonbreeding season to playbacks of duets, male solos, female solos, and control heterospecific songs. Partners approached all conspecific stimuli together and responded by singing quickly, at higher rates and by coordinating ~80% of their songs into duets. For both sexes, most response variables (seven of nine) did not vary across conspecific treatments. These results suggest that partners duet and coordinate behaviors to cooperatively defend common territories. However, females spent more time in territorial vigilance, and partners were highly coordinated (correlated responses) in response to duets and female solos in comparison with male solos. This indicates that female intrusions (paired or solo) might be more threatening than male intrusions in the nonbreeding season, especially for territorial females, and that females are less cooperative with their partners in territory defense against male intruders.
A Genotyping-by-sequencing Single Nucleotide Polymorphism–based Map and Genetic Analysis of Root Traits in an Interspecific Tomato Population

Roots impact plants’ capacity to absorb water and nutrients and thus play a vital role in tolerance to drought, salinity, and nutrient stress. In tomato (Solanum lycopersicum) breeding programs, wild tomato species have been commonly used to increase disease resistance and fruit quality and yield. However, tomato has seldom been bred for water/nutrient use efficiency or resilience to abiotic stress. Meanwhile, little knowledge of the genetic control of root traits in tomato is available. In this study, a mapping population consisting of 181 F2 progenies derived from a cross between an advanced breeding line RvT1 (S. lycopersicum) and a wild species Lche4 (Solanum cheesmaniae) was evaluated for root and shoot traits in the greenhouse. Root phenotypes were studied for the early seedling stage. Heritability estimates show that root traits are moderately or highly heritable. Root mass was highly correlated with root size (length, surface area, and volume). Shoot mass and chlorophyll content (SPAD) were moderately correlated with root mass and size. Genotyping-by-sequencing was applied to discover single nucleotide polymorphism (SNP) markers. Seven hundred and forty-two SNPs were successfully mapped, and a medium-dense linkage map was created that covered 1319.47 centimorgans (cM) with an average distance of 1.78 cM between adjacent markers. Using composite interval mapping, multiple quantitative trait loci (QTL) mapping and nonparametric mapping, 29 QTLs were identified for 12 root and shoot traits on eight chromosomes. Those QTLs of major and minor effect were involved in the differences among the F2 population. Two QTL hotspot regions associated with root mass, size, shoot mass and SPAD were identified on chromosomes 1 and 4, which was consistent with the correlation among traits. Five QTLs for shoot length and eight QTLs for SPAD were accounting for 40.01% and 55.53% of the phenotypic variation. Two QTLs were associated with 18.26% of the total variation for specific root length. The wild parent Lche4 has been characterized as a potential genetic donor of higher specific root length and might be a good parent to modify the root system of cultivated tomato.
Control of downy brome (Bromus tectorum) and Japanese brome (Bromus japonicus) using glyphosate and four graminicides: effects of herbicide rate, plant size, species, and accession

Abstract Nonnative annual brome invasion is a major problem in many ecosystems throughout the semiarid Intermountain West, decreasing production and biodiversity. Herbicides are the most widely used control technique but can have negative effects on co-occurring species. Graminicides, or grass-specific herbicides, may be able to control annual bromes without harming forbs and shrubs in restoration settings, but limited studies have addressed this potential. This study focused on evaluating the efficacy of glyphosate and four graminicides to control annual bromes, specifically downy brome and Japanese brome. In a greenhouse, glyphosate and four graminicides (clethodim, sethoxydim, fluazifop-P-butyl, and quizalofop-P-ethyl) were applied at two rates to downy brome plants of different heights (Experiment 1) and to three accessions of downy brome and Japanese brome of one height (Experiment 2). All herbicides reduced downy brome biomass, with most effective control on plants of less than 11 cm and with less than 12 leaves. Overall, quizalofop-P-ethyl and fluazifop-P-butyl treatments were most effective, and glyphosate and sethoxydim treatments least effective. Accessions demonstrated variable response to herbicides: the downy brome accession from the undisturbed site was more susceptible to herbicides than downy brome from the disturbed accession and Japanese brome accessions. These results demonstrate the potential for graminicides to target these annual bromes in ecosystems where they are growing intermixed with desired forbs and shrubs. Nomenclature: Glyphosate; quizalofop-P-ethyl; fluazifop-P-butyl; clethodim; sethoxydim; downy brome, Bromus tectorum L. ; Japanese brome, Bromus japonicus Houtt
Effect of Various Pretreatments on Germination of Turkish Endemic Achillea gypsicola Hub.-Mor. Species under In Vivo and In Vitro Conditions

There has been an increasing interest to overcome seed dormancy in medicinal and aromatic plants using various pretreatments. This study was carried out to determine effect of several pretreatments on germination of Turkish endemic Achillea gypsicola Hub. -Mor. species under in vivo and in vitro conditions. The seeds were subjected to three pretreatments as various concentrations of GA3 and KNO3 and 91day cold stratification, with a seven-day interval. In vivo germination test produced no germination in the seeds pre-treated with cold stratification and various concentrations of GA3, whereas KNO3 treatments both in vivo and in vitro explicitly increased germination percentage. Cold stratification showed no inciting effect on germination both in vitro and in vivo conditions. In vitro combined application of KNO3 and GA3 produced higher germination percentages than single applications. The stimulating effect of KNO3 and GA3 on germination percentage increased as the duration of seed immersing in KNO3 increased. The seeds hold in 200 μM KNO3 for 48 hours and planted on MS medium supplemented with 2 mg L-1 GA3 showed 100% germination. In conclusion, this study suggested that combined pre-treatment of KNO3 with GA3 had a great potential in breaking seed dormancy and increasing germination of Turkish endemic Achillea gypsicola Hub. -Mor. species.
Ischemic Preconditioning in the Animal Kidney, a Systematic Review and Meta-Analysis

Ischemic preconditioning (IPC) is a potent renoprotective strategy which has not yet been translated successfully into clinical practice, in spite of promising results in animal studies. We performed a unique systematic review and meta-analysis of animal studies to identify factors modifying IPC efficacy in renal ischemia/reperfusion injury (IRI), in order to enhance the design of future (clinical) studies. An electronic literature search for animal studies on IPC in renal IRI yielded fifty-eight studies which met our inclusion criteria. We extracted data for serum creatinine, blood urea nitrogen and histological renal damage, as well as study quality indicators. Meta-analysis showed that IPC reduces serum creatinine (SMD 1.54 [95%CI 1.16, 1.93]), blood urea nitrogen (SMD 1.42 [95% CI 0.97, 1.87]) and histological renal damage (SMD 1.12 [95% CI 0.89, 1.35]) after IRI as compared to controls. Factors influencing IPC efficacy were the window of protection (<24 h = early vs. ≥24 h = late) and animal species (rat vs. mouse). No difference in efficacy between local and remote IPC was observed. In conclusion, our findings show that IPC effectively reduces renal damage after IRI, with higher efficacy in the late window of protection. However, there is a large gap in study data concerning the optimal window of protection, and IPC efficacy may differ per animal species. Moreover, current clinical trials on RIPC may not be optimally designed, and our findings identify a need for further standardization of animal experiments.
Integrating economic dynamics into ecological networks: The case of fishery sustainability

Integrating economic drivers into ecological networks reveals nonlinear drivers of sustainability in fisheries. Understanding anthropogenic impacts on ecosystems requires investigating feedback processes between ecological and economic dynamics. While network ecology has advanced our understanding of large-scale communities, it has not robustly coupled economic drivers of anthropogenic impact to ecological outcomes. Leveraging allometric trophic network models, we study such integrated economic-ecological dynamics in the case of fishery sustainability. We incorporate economic drivers of fishing effort into food-web network models, evaluating the dynamics of thousands of single-species fisheries across hundreds of simulated food webs under fixed-effort and open-access management strategies. Analyzing simulation results reveals that harvesting species with high population biomass can initially support fishery persistence but threatens long-term economic and ecological sustainability by indirectly inducing extinction cascades in non-harvested species. This dynamic is exacerbated in open-access fisheries where profit-driven growth in fishing effort increases perturbation strength. Our results demonstrate how network theory provides necessary ecological context when considering the sustainability of economically dynamic fishing effort.
Treatment of Knee Osteoarthritis With Autologous Mesenchymal Stem Cells: Two-Year Follow-up Results

enough room for graft implantation or during closing the incision when one improper stitch can tear the peritoneum leading to a defect. Careful dissection should be performed in all cases, and if a peritoneal defect is found, it should be closed regardless of its size to avoid the occurrence of a PH. All in all, PH is a relatively uncommon but potentially fatal complication after renal transplantation, and its nonspecific symptoms may lead to misdiagnosis. Physician awareness, prompt diagnosis, and early surgical intervention are crucial. Additionally, meticulous surgical technique during transplantation may help avoid this complication. Demetrios Moris, MD Spiridon Vernadakis, MD, PhD, MSc, FEBS 1 1st Department of Surgery Athens University School of Medicine ‘‘Laikon’’, General Hospital Athens, Greece 2 Department of General, Visceral and Transplantation Surgery University Hospital Essen, Germany