Miracle-dz/UniFAR-FTUs huggingface dataset:
USING HETEROCHRONY TO DETECT MODULARITY IN THE EVOLUTION OF STEM DIVERSITY IN THE PLANT FAMILY MORINGACEAE

Abstract Organisms are made up of semiautonomous parts or modules, but identifying the limits of modules is not straightforward. Covariation between morphological features across the adults of a clade can identify suites of characters as putative modules. We contrast such an approach for delimiting modules with one that includes inferences of heterochrony, evolutionary change in the timing of developmental events. That two features show differing types of heterochrony is a strong indication that they are ontogenetically dissociated and belong to differing modules even though these features may covary across adults. We focus on xylem vessels (wood water conduits) and phloem fibers (bark support cells) in the stems of the 13 species of the plant genus Moringa (Moringaceae), which vary from massive bottle trees to tiny tuberous shrubs. Across adults, vessel diameter and number of phloem fibers scale positively and significantly with stem size and with respect to one another. This covariation across adults suggests that these features may be members of the same ontogenetic module, a finding that might be expected given that these cells both derive from the same tissue ontogenetically and are tightly functionally integrated in the stem. In contrast, ontogenetic data in the context of a phylogenetic hypothesis suggest that vessel elements and phloem fibers have undergone different types of paedomorphosis, heterochronic alteration to ontogeny producing adults of descendant species that resemble the juveniles of their ancestors. Vessels and phloem fibers would be expected to show differing types of paedomorphosis only if they are not ontogenetically coupled, and therefore it is likely that they are part of different modules; this ontogenetic independence was invisible to inference based only on adult covariation. Finally, we show reasons to implicate paedomorphosis in the diversification in life form of Moringa across the Old World dry tropics.
Prospecting for Bypassed Oil and Gas

In recent years, il has been increasingly difficult to economically explore for hydrocarbons because of geopolitical uncertainties and low oil prices. In many countries the remaining potential prospects are in areas which are difficult to access because of climate, terrain, offshore water depth, and/or environmental constraints. Also, most of the relatively simple geologic basins have been exploited leaving to explore areas of complex geology. In addition, the probability of finding large fields in mature basins is understandably low. It is known that substantial amounts of hydrocarbo ns has been bypassed on a macroscopic and microscopic scale in known fields. This is mainly due to reservoir heterogeneities and complex lithology which result in poor reservoir characterisation. Innovative reservoir management options can reduce the amount of bypassed hydrocarbons. Emerging tecehnologies such as 3-D seismic and horizontal wells facilitate the location of oil and gas which has been bypassed at near virgin saturation. Sufficiently large amounts of such hydrocarbons could be economically produced in the near term by infill drilling. Innovative improved oil recovery methods can revive reservoirs which were considered depleted by conventional standards. These emerging technologies and methods have the potential of adding bypassed oil to the reserves category at a coet per barrel much lower than the cost of new discoveries.
Illusions of Resilience? An Analysis of Community Responses to Change in Northern Norway.

This article contributes to our understanding of community resilience. Community resilience is the ability of a community to cope and adjust to stresses caused by social, political, and environmental change and to engage community resources to overcome adversity and take advantage of opportunities in response to change. Through an analysis of local responses to multiple challenges, six dimensions of community resilience were found in one village in northern Norway. These dimensions; community resources, community networks, institutions and services, people-place connections, active agents, and learning; are activated in processes and activities in the village to respond to current challenges. Although this corroborates findings from other community resilience research, this research suggests that community resilience is both complex and dynamic over time. Although communities may consider themselves resilient to today's challenges, the rate and magnitude of expected systemic global changes, especially climate change, means that future resilience cannot be taken for granted. This work concludes that there is a risk that community resilience may be an illusion, leading to complacency about the need for adaption to multiple factors of change. Hence, the ability of communities to actively engage in reflexive learning processes is of importance for both adaptation and future resilience.
Psychiatric morbidity in general practice and the community

Synopsis The ‘General Health Questionnaire’ was used to assess the psychiatric morbidity among 365 consecutive attenders at a general practice and to compare this with a systematic random sample of 213 patients drawn from the lists of the same practice. Those attending a general practitioner are shown to be more psychiatrically disturbed than a random sample of the practice population, and this difference remains when those attending for psychological symptoms are discounted. Various social and demographic characteristics which distinguish between those who do and those who do not attend a doctor with a given set of psychological symptoms are described.
Terminal 22q deletion syndrome: a newly recognized cause of speech and language disability in the autism spectrum.

OBJECTIVE Cryptic subtelomeric chromosome rearrangements account for 6% to 10% of idiopathic mental retardation. As cytogenetic and molecular techniques have become more sophisticated, the number of genetic syndromes attributed to these microdeletions has increased. To date, 64 patients have been described in the literature with a more recently recognized microdeletion syndrome, del 22q13.3. The purpose of this study is to present 11 new cases of this recently described syndrome to delineate further the phenotype and to alert the clinician to another genetic condition that should be considered in the differential diagnosis of early hypotonia, delayed speech acquisition, and autistic behavior. METHODS Eleven patients were evaluated in 3 academic institutions. Clinical features and results of cytogenetic testing were recorded and tabulated. Reasons for referral for genetic evaluation included developmental delay, severe expressive speech and language delay, and dysmorphic features. RESULTS Age of presentation ranged from 5 months to 46 years. There were 10 female patients and 1 male patient. All of the patients exhibited delayed motor development, some degree of hypotonia, and severe expressive speech and language delay. Dysmorphic facial features included epicanthal folds, large cupped ears, underdeveloped philtrum, loss of cupid's bow, and full supraorbital ridges. Six patients exhibited autistic-like behaviors. Microscopically visible chromosome deletions were observed in 6 patients. In the remainder, the deletion was detected with the use of fluorescence in situ hybridization. CONCLUSIONS Hypotonia and developmental delay are nonspecific findings observed in many malformation and genetic syndromes. However, in association with severe speech and language delay and autistic-like behavior, this phenotype may be a significant indication to consider the 22q13 deletion syndrome as a potential cause.
Inter-Observer Variation in the Pathologic Identification of Minimal Extrathyroidal Extension in Papillary Thyroid Carcinoma.

BACKGROUND Extrathyroidal extension (ETE) is a significant prognostic factor in papillary thyroid carcinoma (PTC). Minimal extrathyroidal extension (mETE) is characterized by involvement of the sternothyroid muscle or perithyroid soft tissue, and is generally identified by light microscope examination. Patients with mETE, identified pathologically, are automatically upstaged to pT3. However, the prognostic implications of mETE have been a source of controversy in the literature. Moreover, there is also controversy surrounding the identification of mETE on pathological specimens. The objective of this study was to determine the level of agreement among expert pathologists in the identification of mETE in PTC cases. METHODS Eleven expert pathologists from the United States, Italy, and Canada were asked to perform a review of 69 scanned slides of representative permanent sections of PTC specimens. Each slide was evaluated for the presence of mETE. The pathologists were also asked to list the criteria they use to identify mETE. RESULTS The overall strength of agreement for identifying mETE was slight (κ = 0.14). Inter-pathologist agreement was best for perithyroidal skeletal muscle involvement (κ = 0.46, moderate agreement) and worst for invasion around thick-walled vascular structures (κ = 0.02, slight agreement). In addition, there was disagreement over the constellation of histologic features that are diagnostic for mETE, which affected overall agreement for diagnosing mETE. CONCLUSIONS Overall agreement for the identification of mETE is poor. Disagreement is a result of both variation in individual pathologists' interpretations of specimens and disagreement on the histologic criteria for mETE. Thus, the utility of mETE in staging and treatment of PTC is brought into question. The lack of concordance may explain the apparent lack of agreement regarding the prognostic significance of this pathologic feature.
Histological Analysis of a Cornea Following Experimental Femtosecond Laser Ablation

Abstract: Corneal photorefractive surgery is currently performed by ablation of corneal stroma under the stromal flap. A stromal flap is created using a femtosecond (FS) laser or mechanical microkeratome, although the FS laser procedure is considered safer and more accurate. This review assesses and compares the use of FS laser versus mechanical microkeratome ablation for corneal stromal characteristics mainly examined by histology and cellular biological responses. Supporting data from our studies, using corneas of enucleated porcine eye globes, are included in this review. Histological analysis and experimental studies of cellular/tissue responses to FS laser irradiation should be further investigated, and the equipment used to perform these techniques should be improved.
Two new species in the Echinoderes coulli group (Echinoderidae, Cyclorhagida, Kinorhyncha) from the Ryukyu Islands, Japan

Abstract Two new species belonging to the Echinoderes coulli group are described with their external morphologies and sequences of nuclear 18S rRNA and 28S rRNA genes, and mitochondrial COI gene. The first species, Echinoderes komatsui sp. n. , is characterized by absence of acicular spines, and presence of lateroventral tubules on segments 5 and 8, laterodorsal tubules on segment 10, inverted triangle or wide oval shaped large sieve plates, lateral terminal accessory spines in female, and short tips of ventral pectinate fringe on segment 10. The second species, Echinoderes hwiizaa sp. n. , is characterized by absence of acicular spines, and presence of lateroventral tubules on segments 5 and 7–9, midlateral tubules on segment 8, laterodorsal tubules on segment 10, large narrow oval shaped sieve plates on segment 9, and thick, short and blunt lateral terminal spines about 10–15% of trunk length. The diagnostic characters and key to species of E. coulli group are provided as well.
Human Interaction with Levels of Automation and Decision-Aid Fidelity in the Supervisory Control of Multiple Simulated Unmanned Air Vehicles

Remotely operated vehicles (ROVs) are vehicular robotic systems that are teleoperated by a geographically separated user. Advances in computing technology have enabled ROV operators to manage multiple ROVs by means of supervisory control techniques. The challenge of incorporating telepresence in any one vehicle is replaced by the need to keep the human in the loop of the activities of all vehicles. An evaluation was conducted to compare the effects of automation level and decision-aid fidelity on the number of simulated remotely operated vehicles that could be successfully controlled by a single operator during a target acquisition task. The specific ROVs instantiated for the study were unmanned air vehicles (UAVs). Levels of automation (LOAs) included manual control, management-by-consent, and management-by-exception. Levels of decision-aid fidelity (100 correct and 95 correct) were achieved by intentionally injecting error into the decision-aiding capabilities of the simulation. Additionally, the number of UAVs to be controlled varied (one, two, and four vehicles). Twelve participants acted as UAV operators. A mixed-subject design was utilized (with decision-aid fidelity as the between-subjects factor), and participants were not informed of decision-aid fidelity prior to data collection. Dependent variables included mission efficiency, percentage correct detection of incorrect decision aids, workload and situation awareness ratings, and trust in automation ratings. Results indicate that an automation level incorporating management-by-consent had some clear performance advantages over the more autonomous (management-by-exception) and less autonomous (manual control) levels of automation. However, automation level interacted with the other factors for subjective measures of workload, situation awareness, and trust. Additionally, although a 3D perspective view of the mission scene was always available, it was used only during low-workload periods and did not appear to improve the operator's sense of presence. The implications for ROV interface design are discussed, and future research directions are proposed.
In Vivo Destabilization and Functional Defects of the Xeroderma Pigmentosum C Protein Caused by a Pathogenic Missense Mutation

ABSTRACT Xeroderma pigmentosum group C (XPC) protein plays an essential role in DNA damage recognition in mammalian global genome nucleotide excision repair (NER). Here, we analyze the functional basis of NER inactivation caused by a single amino acid substitution (Trp to Ser at position 690) in XPC, previously identified in the XPC patient XP13PV. The Trp690Ser change dramatically affects the in vivo stability of the XPC protein, thereby causing a significant reduction of its steady-state level in XP13PV fibroblasts. Despite normal heterotrimeric complex formation and physical interactions with other NER factors, the mutant XPC protein lacks binding affinity for both undamaged and damaged DNA. Thus, this single amino acid substitution is sufficient to compromise XPC function through both quantitative and qualitative alterations of the protein. Although the mutant XPC fails to recognize damaged DNA, it is still capable of accumulating in a UV-damaged DNA-binding protein (UV-DDB)-dependent manner to UV-damaged subnuclear domains. However, the NER factors transcription factor IIH and XPA failed to colocalize stably with the mutant XPC. As well as highlighting the importance of UV-DDB in recruiting XPC to UV-damaged sites, these findings demonstrate the role of DNA binding by XPC in the assembly of subsequent NER intermediate complexes.
Role of interleukin 15 in colitis induced by dextran sulphate sodium in mice

Background and aims: Interleukin (IL)-15 is a member of the IL-2 family, stimulating dendritic cells, natural killer (NK) cells, NK T cells and memory CD8+ T cells. IL-15 levels were elevated in the intestinal mucosa of inflammatory bowel diseases. Here we investigated the involvement of IL-15 in the pathogenesis of acute and chronic dextran sulphate sodium (DSS) induced colitis. Methods: IL-15 knockout (KO) mice and control C57BL/6 mice were used to induce colitis with DSS in their drinking water. Survival rate, clinical activity of diseases, extent of tissue damage, leucocyte population, and cytokine production of lamina propria (LP) cells of the large intestines were assessed. Results: IL-15 KO mice exhibited resistance to DSS induced acute colitis, as reflected by lower lethality, weight loss, clinical scores, and histological scores compared with those in control mice (p<0.05). The proportions of CD44high CD8+ T cells and NK cells in LP cells and levels of interferon (IFN)-γ, tumour necrosis factor (TNF)-α, and IL-12p40 in culture supernatants of LP cells were reduced in IL-15 KO mice (p<0.05). In vivo depletion of CD8+ T cells and NK cells decreased levels of IFN-γ, TNF-α, and IL-12p40 in culture supernatants of LP cells in C57BL/6 mice (p<0.01). In chronic colitis, weight loss and clinical scores were improved and levels of IFN-γ, TNF-α, and IL-12p40 in culture supernatants of LP cells were also reduced in IL-15 KO mice (p<0.05). Conclusions: IL-15 plays an important role in the pathogenesis of both acute and chronic colitis induced by DSS in mice.
Lidocaine hydrochloride gel for ocular anesthesia: results of a prospective, randomized study.

BACKGROUND AND OBJECTIVE This study evaluates the effectiveness of Akten (Akorn, Inc., Buffalo Grove, IL), a novel ophthalmic gel anesthetic agent for complete ocular anesthesia. PATIENTS AND METHODS This study was conducted as a prospective, randomized, double-blinded, multicenter Phase III clinical trial to evaluate Akten gel. The study had four cohorts of subjects who received sham gel, Akten 1.5%, Akten 2.5%, and Akten 3.5%, respectively. Subjects were assessed for achievement of anesthesia at defined time intervals and questioned for "pain" or "no pain" following pinching of the conjunctiva with 0.3-mm forceps at predetermined intervals. RESULTS A total of 209 subjects were entered into the study. The percentages of patients achieving the primary endpoint (ie, anesthesia within 5 minutes) were as follows: 22% for sham, 88% for Akten 1.5%, 89% for Akten 2.5%, and 92% for Akten 3.5%, respectively. Safety measures including corneal staining, conjunctival hyperemia, and eye pain with administra-tion were low and comparable in all cohorts. CONCLUSION Akten gel appears to be an effective and safe ocular anesthetic. All doses were well tolerated and no dose-related corneal toxicity was observed.
Immunohistochemical distribution of tachykinins in the CNS of the lamprey Petromyzon marinus

The presence of tachykinins in the CNS of vertebrates has been known for many decades, and numerous studies have described their distribution in mammals. Tachykinins were also reported in the CNS of lampreys using immunohistochemistry, chromatography, and radioimmunoassay methods, but the use of substance P (SP)‐specific antibodies to reveal those tachykinins could have led to an underestimation of their number in this genus. Therefore, we carried out a new immunohistochemical study on Petromyzon marinus using a commercial polyclonal antibody that binds not only to mammalian SP, but also to other neurokinins. This antibody labeled all previously described lamprey tachykinin‐containing neuronal populations, but more important, labeled new populations in several parts of the brain. These include the dorsal gray of the rostral spinal cord, the dorsal column nuclei, the octavolateral area, the nucleus of the solitary tract, the medial rhombencephalic reticular formation, the lateral tegmentum of the rostral rhombencephalon, the torus semicircularis, the optic tectum, the habenula, the mammillary area, the dorsal thalamic area, the lateral hypothalamus, and the septum area. Preabsorption experiments confirmed the binding of the antibody to neurokinins and allowed us to propose that the CNS of P. marinus contains at least two different tachykinins. J. Comp. Neurol. 479:328–346, 2004. © 2004 Wiley‐Liss, Inc.
Acrocentric cryptic translocation associated with nondisjunction of chromosome 21

Down syndrome is the most frequent autosome aneuploidy in live newborns. It was recently proposed that pericentromeric cryptic translocations might be a cause of chromosome nondisjunction. We describe here a phenotypically normal subject with a cryptic translocation involving the short arms of chromosomes 13 or 21 and 22, who had a son with Down syndrome. Fluorescent in situ hybridization (FISH) on paternal metaphase chromosomes showed a chromosome 22 centromere positive for both 13/21 and 14/22 centromeric probes. The same probes hybridized on different and contiguous sites of chromatin fibers, eliminating cross‐hybridization artifacts. This confirmed the presence of a cryptic translocation generating a dicentric chromosome 22: fib ish dic(21;22)(21pter → 21q10::22q10 → 22qter)(D13/21Z1+;D14/22Z1+). Microsatellite STR segregation analysis confirmed the paternal origin of the additional chromosome 21 in the Down syndrome patient. To determine whether the father showed a higher‐than‐normal frequency of chromosome 21 nondisjunction, FISH analysis of spermatozoa was performed using a sequence specific probe (21q22.13–q22.2). The frequency of disomy 21 spermatozoa was twofold higher in the cryptic translocation carrier as compared to normal subjects (P < 0.014), suggesting that the rearrangement favored the nondisjunction of chromosome 21. This is the first report associating a pericentromeric cryptic translocation of acrocentric chromosomes with the generation of aneuploidy, supporting the hypothesis that this type of rearrangement may contribute to abnormal chromosomal segregation. © 2007 Wiley‐Liss, Inc.
Antibodies are involved in the protective immunity induced in mice by Schistosoma mansoni schistosomula tegument (Smteg) immunization

The Schistosoma mansoni schistosomula tegument (Smteg) plays an important role in triggering the host immune response and mice immunization with Smteg formulated with Freund's adjuvant or alum + CpG induce partial protection against S. mansoni infection associated with an increased antibody production. In this study, we investigated the role of these antibodies in parasite killing both in vitro and in vivo. We demonstrated that these antibodies were able to bind to the surface of S. mansoni recently transformed schistosomula and that these antibodies significantly increase the percentage of schistosomula killed in vitro by complement activation. Passive transference of immune sera decreased the parasite burden and the number of eggs trapped in the organs of mice that received sera containing anti‐Smteg antibodies. These results demonstrate that antibodies specific to surface tegumental antigens are involved in parasite elimination in mice immunized with Smteg.
A perspective on iron deficiency anaemia.

Patients with suspected iron deficiency anaemia account for some four per cent of the patients referred to our gastroenterology clinic. The first step in the investigation of these patients is to confirm the presence of iron deficiency. The next is to find out if the deficiency is a result of gastrointestinal blood loss or malabsorption. Menorrhagia is the major non-gastrointestinal cause of blood loss while dietary deficiency may be the sole cause or a contributing factor to the anaemia. Microcytosis is also seen in patients with anaemia of chronic disease, the thalassaemia syndromes and, rarely, sideroblastic anaemia. A low serum ferritin or low serum iron with raised total iron binding capacity is usually sufficient to confirm iron deficiency. ' Occasionally these may be misleading. For example, inflammatory conditions such as inflammatory bowel disease or rheumatoid arthritis may lead to a spuriously high ferritin or low total iron binding capacity even in the presence of iron deficiency. In cases of doubt a bone marrow aspirate, which is the best guide to body iron stores, should be examined. '