Miracle-dz/UniFAR-FTUs huggingface dataset:
Hematological Study in Three Lines of Quail and Their Crosses

The present study was conducted at poultry laboratories, department of animal production, Agriculture College, Duhok University, Kurdistan region, Iraq, (2016). Three lines of quail (White, light brown and dark brown) and their crosses that resulted from diallel cross design; aged 8 weeks old were used. A total of 54 blood samples by about 5 ml, from both sexes within each genotype aged 8 weeks old, were collected directly after slaughtering and bleeding for 3 second. PVC %, hemoglobin (Hb), Hetrophyl (H), Lymphocyte (L), H/L ratio, total protein, globulin, albumen and cholesterol were studied. The results showed insignificant differences among genotypes and between sexes for both PVC and Hb, while H, L, H/L, total protein, globulin, albumen and cholesterol appeared high significant (p<0.01) differences among the nine studied genotypes. The effect of sex was significant (p<0.05) for H, L and cholesterol. Interaction between genotype and sex was just significant for albumen. There was a significant negative correlation between H/L ratio and globulin (-0.39). Dependence of H/L ratio on globulin, resulted in derives a prediction equation.
Sistema de percepción para un vehículo autónomo submarino

La necesidad de la industria off-shore para compartir información y recursos de energía a través de cables y tuberías submarinas conduce a un creciente despliegue de infraestructuras sumergidas. Esto requiere de un posterior mantenimiento preventivo. Los vehículos autónomos submarinos (AUVs) representan una alternativa para llevar a cabo esta tarea. En base a la percepción, estos vehículos deben estar equipados con distintos dispositivos de sensores como cámaras de vídeo, dispositivo rastreador electromagnético, sonar de barrido lateral, ecosonda muti-haz, como así también dispositivos de ubicación como sistema de posicionamiento global, sistema de navegación inercial, brújula, entre otros. Cada uno de estos dispositivos hay que tratarlos por separado para la captura e interpretación de datos, pero en conjunto para la búsqueda de conocimiento útil que modifique el comportamiento on-line de un AUV. Este documento presenta el diseño y desarrollo de una arquitectura de software de un sistema de percepción para un AUV (PS-AUV). La arquitectura emplea como entrada datos provenientes de dispositivos de sensores interconectados aplicando distintos procesos, y como salida, conocimiento que alimentará al modelo del mundo del robot que se encuentra implementado en forma de un sistema basado en conocimiento.
REGISTRO DE PRIMEIRA OCORRÊNCIA DE Amasonia spruceana MOLDENKE (LAMIACEAE) PARA O MARANHÃO, BRASIL

The first occurrence of Amasonia spruceana for the state of Maranhao, Northeast Brazil. The taxon presentation is followed by a short description based on the specimens collected, taxonomic comments, information on the habitat and geographical distribution. Keywords : Cerrado, Brazilian Northeast, Taxonomy, Geographical Distribution.
Evaluation of the use of alfalfa diets as an alternative to feed deprivation for the induction of molt in commercial laying chickens

Evaluation of the Use of Alfalfa Diets as an Alternative to Feed Deprivation for the Induction of Molt in Commercial Laying Hens. (August 2004) Kristin L. Landers, B.S., Texas A&M University Chair of Advisory Committee: Dr. Steven C. Ricke Induced molting is process used by commercial producers to extend the reproductive life of a laying hen. Typically, producers deprive hens of feed for a period of 7  14 days while reducing the amount of light exposure to the hens. This allows for regression of the reproductive tract and for a second cycle of egg production to occur. However, induced molting by feed deprivation has been shown to increase the hens risk of becoming infected with pathogenic bacteria, such as Salmonella. This increased risk could mean an increase in contaminated eggs or egg products, which causes concerns for public health. This combined with increasing pressure on egg producers from animal welfare organizations has prompted the investigation of diets that would provide available energy for the hens, while still inducing a molt that is economically advantageous to producers. Alfalfa, provided in meal or pelleted form, provides only 1⁄2 the metabolizable energy and 1⁄4 of the calcium required of a laying hen that is reproductively active. Due to the decrease in nutrients, alfalfa was investigated as an alternative to feed deprivation. Studies were conducted to assess egg quality, egg production, consumer acceptance, and hen physiology.
Contribution of newly discovered and emerging viruses to human disease

iii Comparison of detection frequencies of viruses infecting pigs revealed a disease (diarrhoea) association with porcine kobuvirus (PKV) but not EV infections. However, differences in PKV viral loads between diarrhoeic and non-diarrhoeic pigs were not statistically significant (p = 0.22). In addition, the PKV VP1 sequences from the two pig categories were not phylogenetically distinct. EV VP1 sequences obtained from pigs and boars showed high genetic diversity with four previously known types and nine new types (EV-G8 to -G16). Analyses of complete genome sequences of two new EV types provided evidence for inter-type recombination with a putative breakpoint in the 2A coding region. Similarly, study on samples from monkeys showed endemic infection of EV but no overlap with EV variants in humans was observed. The majority of EV detected in monkeys were novel with evidence for chimeric genomes and putative recombination breakpoints in the 2A region. New criteria for the classification of EV were additionally proposed. Characterization by sequencing of VP4/VP2 and VP1 regions or complete genomes of picornaviruses in rats and bamboo rats also showed relatively high genetic diversity. While these viruses can infect different species of rats, they were again genetically different from viruses detected in the studied human populations. In summary, studies in this thesis provide substantial new information on the prevalence, genetic diversity and disease association of picornaviruses in the studied populations. However, picornaviruses detected from animals were consistently separate from those found in humans, consistent with a relatively limited zoonotic potential of members of the virus family.
Synergistic effect of some medicinal plants oils incorporated with silver Nanoparticles against different Gram negative bacteria.

Background and objective: food borne Gram negative bacteria cause many diseases to human and resistant to most antibiotics. This study was undertaken to overcome this pathogenic bacteria with oils of medicinal plants and with silver nano-particles and both of them. Materials and methods: isolation was carried out using classical methods by using selective media and identification of this isolates by using biochemical methods. Extraction of oils from four medical plants was done and analysis of these oils was by GC analysis and the isolates tested against oils and silver nano-particles and both of them with each other. Results: result showed identified isolates were 50 pathogenic bacteria as E. coli, Citrobacter freundi, Enterobacter cloacae, Enterobacter spp. and pseudomonas aeruginosa from different sources of food and showed resistance to oils of medical plants and sensitivity to other oil and silver naoparticles and The highest presented results showed E. coli isolated from Milk resistant to Peppermint/ silver nanoparticles 37 (mm). Conclusion: using silver nanoparticle with oils of medical plants affect positively against Gram negative bacteria isolated from food.
Japanese stilt grass (Microstegium vimineum), a nonnative invasive grass, provides alternative habitat for native frogs in a suburban forest

Japanese stilt grass (Microstegium vimineum) is an invasive grass in the eastern and midwestern United States. It tolerates a wide range of light and moisture conditions and has readily replaced native herbaceous vegetation in many areas. Despite its detrimental effects, Japanese stilt grass does provide some benefit, serving as habitat for ground amphibians such as frogs and toads (anurans) in areas where populations of white-tailed deer (Odocoileus virginianus) have depleted native herbaceous cover. We investigated relative abundances of common anuran species both inside and outside of a stilt grass invasion front in a Northeastern mixed hardwood forest. We used pitfall trap arrays to sample anuran species during the summers of 2006 and 2007 and we captured four species: wood frog (Rana sylvatica); pickerel frog (Lithobates palustris); spring peeper (Pseudacris crucifer); and American toad (Bufo americanus). We captured more individuals from each of these species in stilt grass plots. Too few spring peepers were captured for analysis, so we modeled the captures of the three remaining species—wood frog, pickerel frog, and American toad—with negative binomial regression against stilt grass presence/absence, soil moisture, soil temperature, and relative humidity. We compared models containing these parameters using AIC (Akaike's Information Criterion), a common information criterion used in model selection. All three species selected stilt grass plots, but appeared to do so for different reasons. Pickerel and wood frogs seemed to select primarily areas of high soil moisture, which was consistently greater in stilt grass plots. American toads selected stilt grass areas and areas of high humidity, though humidity did not vary according to stilt grass presence or absence. For all three species, stilt grass seemed to provide habitat value beyond any causal or correlative relationship with microclimate. These results suggest that some invasive species of herbaceous cover provide alternative habitat for native wildlife in degraded communities. Managers need to consider the effect on wildlife when considering removal of invasives, particularly when there is little native habitat and when removal would be destructive.
Biodiversity Information Serving Our Nation (BISON) now with more than 1/3 billion species occurrences

Biodiversity Information Serving Our Nation (BISON) is a web-based resource (https:// bison.usgs.gov) for finding and accessing occurrence records of species found in the United States (US), its Territories and marine Exclusive Economic Zones. BISON serves as a data aggregator that compiles and standardizes species occurrence data from multiple data providers, and now contains more than 1/3 billion species occurrences. BISON uses the Integrated Taxonomic Information System (ITIS) to standardize species names in searches. It is also the US hub of the Global Biodiversity Information Facility (GBIF) and obtains much of its data from that resource. BISON also enables access to numerous federal datasets such as the US Forest Service's Forest Inventory and Analysis and the US Geological Survey's Bird Banding Lab. BISON accepts all US species occurrence datasets that are Darwin Core-compatible, but especially seeks to mobilize pollinator and invasive species occurrence datasets. Data from BISON can also be accessed via various map services, and the US National Parks Service's Species Checklists application is currently available in a development environment as an example of use of BISON web services. ‡ § © Simpson A, Martín E. This is an open access article distributed under the terms of the Creative Commons Attribution License (CC BY 4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
A polymorphism in the 3¢ UTR of IRF4 linked to susceptibility and pathogenesis in chronic lymphocytic leukaemia and Hodgkin lymphoma has limited impact in multiple myeloma

Aminoff, M. , Carter, J.E. , Chadwick, R.B. , Johnson, C. , Grasbeck, R. , Abdelaal, M.A., Broch, H. , Jenner, L.B. , Verroust, P.J., Moestrup, S.K. , de la Chapelle, A. & Krahe, R. (1999) Mutations in CUBN, encoding the intrinsic factor B12 receptor, cubilin, cause hereditary megaloblastic anemia 1. Nature Genetics, 21, 309–313. Birn, H. (2006) The kidney in vitamin B12 and folate homeostasis: characterization of receptors for tubular uptake of vitamins and carrier proteins. American Journal of Physiology Renal Physiology, 291, 22–36. Fyfe, J.C. , Madsen, M. , Hojrup, P., Christensen, E.I. , Tanner, S.M. , de la Chapelle, A. , He, Q. & Moestrup, S.K. (2004) The functional cobalamin (vitamin B12)-intrinsic factor receptor is a novel complex of cubilin and amnionless. Blood, 103, 1573–1579. Grasbeck, R. (2006) Imerslund-Grasbeck syndrome (selective vitamin B(12) absorption with proteinuria. Orphanet Journal of Rare Diseases, 1, 17. Quadros, E.V. (2009) Advances in the understanding of cobalamin assimilation and metabolism. British Journal of Haematology, 148, 195–204. Tanner, S.M. , Aminoff, M. , Wright, F.A. , Liyanarachchi, S. , Kuronen, M. , Saarinen, A. , Massika, O. , Mandel, H. , Broch, H. & de la Chapelle, A. (2003) Amnionless, essential for mouse gastrulation, is mutated in recessive hereditary megaloblastic anemia. Nature Genetics, 33, 426–429. Tanner, S.M. , Zhongyuan, L. , Perko, J.D. , Oner, C. , Cetin, M. , Altay, C. , Yurtsever, Z. , David, K.L. , Faivre, L. , Ismail, E.A. , Grasbeck, R. & Chapelle, A. (2005) Hereditary juvenile cobalamin deficiency caused by mutations in the intrinsic factor gene. Proceedings of the National Academy of Sciences of the United States of America, 102, 4130–4133. Yassin, F. , Rothenberg, S.P., Rao, S. , Gordon, M.M. , Alpers, D.H. & Quadros, E.V. (2004) Identification of a 4-base deletion in the gene in inherited intrinsic factor deficiency. Blood, 103, 1515– 1517. Yetgin, S. , Altay, C. & Laleli, Y. (1978) Familial selective vitamin B12 malabsorption in three families. Turkish Journal of Pediatrics, 20, 44–50.
The Atlas Rib in Archaeopteryx and Its Evolutionary Implications

ABSTRACT The presence of the atlas rib in Archaeopteryx is reported for the first time. The morphology and position of this bone in Archaeopteryx generally retain the plesiomorphic conditions for archosaurs. The reduction in robustness of the atlas rib is an evolutionary trend apparent in Theropoda and may be associated with the change in the site of origin of the subvertebral muscle from the atlas rib to the anterior cervical centra. The ansa on the atlas in some extant birds, widely regarded as a remnant of the atlas rib, is morphologically and topologically different from the atlas rib in other archosaurians, including Archaeopteryx, suggesting that the former structure might not be homologous with the atlas rib.
Shelf-Life Extension of Fish Fillets by Spraying with Microbial Transglutaminase

ABSTRACT The effect of spraying microbial transglutaminase (MTGase) at various levels (1, 4, 7, and 10 units/gram) on the quality of mackerel (Scomber scombrus) fillets was investigated during refrigerated storage. The results of pH and the total volatile base nitrogen (TVB-N) revealed that 7 µ/g MTGase treatment met the best results regarding fish quality. The oxidation was hindered by increasing MTGase concentration, and the lowest totox value was recorded in the fillets treated with 10 µ MTGase. The progress in the total free amino acids was suppressed with the addition of MTGase, and the most effective concentration was found to be 7 µ/g MTGase treatment. Moreover, this concentration was the most promising in inhibition of the total mesophilic aerobic bacteria, the total psychrophilic aerobic bacteria, coliform, and yeast-mold. Panelists preferred the samples treated with 7 µ/g MTGase in terms of odor, texture, and appearance. The addition of MTGase straightened the fish muscle and helped preserve its initial texture. It is important to use the proper concentration of MTGase instead of high concentrations.
Aroma relevant metabolic activities of lactobacilli during wheat sourdough fermentation

Intracellular redox homeostasis in sourdough microorganisms influences bread quality: homofermentative strains enhanced lipid oxidation. They accumulated aldehydes causing off flavors, whereas heterofermentative strains reduced these compounds. Heterofermentative lactobacilli like L. sanfranciscensis influenced gluten solubilization by thiol reduction. Genes of L. sanfranciscensis involved in peptide uptake and hydrolysis were identified, and their expression during growth in sourdough was determined. Amino acid conversion by lactobacilli was strain dependent and influenced by co-substrate and peptide availability. In order to develop starter strains, the amino acid metabolism of lactobacilli has to be studied on strain level.
Ninety-nine independent genetic loci influencing general cognitive function include genes associated with brain health and structure (N = 280,360)

General cognitive function is a prominent human trait associated with many important life outcomes1,2, including longevity3. The substantial heritability of general cognitive function is known to be polygenic, but it has had little explication in terms of the contributing genetic variants4,5,6. Here, we combined cognitive and genetic data from the CHARGE and COGENT consortia, and UK Biobank (total N=280,360). We found 9,714 genome-wide significant SNPs (P<5 × 10−8) in 99 independent loci. Most showed clear evidence of functional importance. Among many novel genes associated with general cognitive function were SGCZ, ATXN1, MAPT, AUTS2, and P2RY6. Within the novel genetic loci were variants associated with neurodegenerative disorders, neurodevelopmental disorders, physical and psychiatric illnesses, brain structure, and BMI. Gene-based analyses found 536 genes significantly associated with general cognitive function; many were highly expressed in the brain, and associated with neurogenesis and dendrite gene sets. Genetic association results predicted up to 4% of general cognitive function variance in independent samples. There was significant genetic overlap between general cognitive function and information processing speed, as well as many health variables including longevity.
A Resource of Genome-Wide Single Nucleotide Polymorphisms (Snps) for the Conservation and Management of Golden Eagles

Abstract Elucidating the genetic structure and ascertaining the natal origin of Golden Eagles (Aquila chrysaetos) are challenging for a number of reasons, including the lack of highly reproducible, variant genetic loci. Here, we developed a new high-quality Golden Eagle genome reference to serve as a computational atlas for future genetic investigations. We then generated unique genetic resources for the Golden Eagle by performing low-coverage genomic sequencing for 32 individuals ranging from Alaska to southern New Mexico and California to Nebraska. By aligning the reads from these 32 individuals to our Golden Eagle reference genome, we detected approximately 900,000 population variants in the form of Single Nucleotide Polymorphisms (SNPs). Using linkage disequilibrium and other quality filters, we next derived a set of 30,006 SNPs that were used to cluster our samples into three genetic groups. Although additional work is needed to fully characterize these loci, we provide a high-quality Golden Eagle genome reference and a comprehensive set of genetic markers for the conservation and management of Golden Eagles. Additionally, with a more comprehensive Golden Eagle genome assembly and associated transcriptomes, it is now possible to target specific genes or other biologically relevant regions for evaluating the effects of many anthropogenic stressors on Golden Eagle survival.
Abstract #3822: PDK1-SGK3 signaling in the absence of AKT activation in PIK3CA- mutant cancers

PIK3CA , which encodes the catalytic (p110\#945;, ) subunit of PI3 Kinase, is frequently mutated in a diverse range of human cancers including breast, colon and endometrial cancers. The most common tumor-associated PIK3CA mutations involve either the helical domain (exon 9; e.g., E542K and E545K) or the kinase domain (exon 20; e.g., H1047R) of p110\#945;, . These gain function PIK3CA mutations are thought to promote PI3K-mediated tumorigenesis primarily through downstream activation of the AKT/PKB kinase. However, we have found that many PIK3CA -mutant cancer cell lines and human tumors may transduce an AKT-independent tumor signaling mechanism. Systematic immunoblot studies showed that many PIK3CA -mutant cell lines lack activation of both AKT and its downstream effectors, do not require AKT signaling for anchorage independent growth, and exhibit reduced AKT membrane localization and PI(3,4,5)P3 levels. In contrast, PIK3CA -mutant cell lines and breast tumors exhibited robust activation of and reliance upon PDK1, another oncogenic kinase recruited to the membrane by activated PI3K. Possible mechanisms of PDK1-dependent, AKT -independent growth in PIK3CA-mutant cells were investigated by systematic RNAi screening using a lentiviral shRNA library targeting >1000 kinases, phosphatases and other known cancer genes, with a particular emphasis on 20 known PDK1 substrates. For this, PIK3CA- mutant cell lines were stratified into two groups based on p-AKT levels (high vs low) and analyzed the top 10% of 120 hairpins targeting PDK1 substrates whose effects on viability distinguished these two classes. This analysis found that shRNAs targeting SGK3 (serum/glucocorticoid regulated kinase 3) most strongly suppressed viability in \#8220;low p-AKT\#8221; PIK3CA -mutant cells. Further biochemical and functional studies confirmed that PDK1 activated SGK3, which localized to endosomes in these cells. Thus, PIK3CA -mutant cancer cells with low AKT signaling may exhibit a selective dependency on SGK3 for viability. Altogether, these results indicate that in the absence of AKT activation, PDK1 may transmit an alternative signal that engages the AGC kinase SGK3 in cancer cells that harbor oncogenic PIK3CA mutations. This study thereby nominates both PDK1 and SGK3 in addition to AKT as \#8220;druggable\#8221; oncogenic effectors downstream of activating PIK3CA mutations. Citation Information: In: Proc Am Assoc Cancer Res; 2009 Apr 18-22; Denver, CO. Philadelphia (PA): AACR; 2009. Abstract nr 3822.
Corrigendum and follow-up: Whole genome sequencing of multiple CRISPR-edited mouse lines suggests no excess mutations

Our previous publication suggested CRISPR-Cas9 editing at the zygotic stage might unexpectedly introduce a multitude of subtle but unintended mutations, an interpretation that not surprisingly raised numerous questions. The key issue is that since parental lines were not available, might the reported variants have been inherited? To expand upon the limited available whole genome data on whether CRISPR-edited mice show more genetic variation, whole-genome sequencing was performed on two other mouse lines that had undergone a CRISPR-editing procedure. Again, parents were not available for either the Capn5 nor Fblim1 CRISPR-edited mouse lines, so strain controls were examined. Additionally, we also include verification of variants detected in the initial mouse line. Taken together, these whole-genome-sequencing-level results support the idea that in specific cases, CRISPR-Cas9 editing can precisely edit the genome at the organismal level and may not introduce numerous, unintended, off-target mutations.