Miracle-dz/UniFAR-FTUs huggingface dataset:
C1q A08 Is a Half-Cryptic Epitope of Anti-C1q A08 Antibodies in Lupus Nephritis and Important for the Activation of Complement Classical Pathway

To investigate the fine epitope(s) of anti-C1q A08 antibodies and their roles in complement activation in lupus nephritis, C1q A08 and related peptides with various amino acid sequences around A08 were synthesized. Anti-C1q A08 antibodies from 10 lupus nephritis patients were purified from plasmapheresis samples, and four monoclonal antibodies against C1q A08 were screened and identified from mouse hybridoma cells, to study the fine epitope(s) of C1q A08 using ELISA and Biolayer Interferometry (BLI). The biofunction of anti-C1q A08 antibodies for complement classical pathway activation was investigated by C3 activation assay. Anti-C1q A08 antibodies and anti-C1q antibodies were also detected in the sera of female BALB/C mice immunized by C1q A08 peptides. None of the anti-C1q A08 antibodies, which were affinity purified from the 10 lupus nephritis patients, could bind intact C1q coated on microtitre plates, neither could the anti-C1q antibodies bind to C1q A08 peptides coupled on resin, indicating that the human anti-C1q antibodies and anti-C1q A08 antibodies may recognize different epitopes of C1q. One of the four C1q A08 mAbs (32-4) bound to the six amino acids of N-terminus of C1q A08, while another C1q A08 mAb (17-9) bound to eight or 10 amino acids of C-terminus of A08. The third and fourth C1q A08 mAb (1A12 and 4B11) bound to the whole sequence of A08. Only 32-4 mAb bound to the intact C1q coating on an ELISA plate, whereas 17-9 mAb, 1A12 mAb, and 4B11 mAb could not. However, using a BLI assay, 17-9 mAb, 1A12 mAb, and 4B11 mAb, but not 32-4 mAb, could bind to intact C1q. Furthermore, 1A12 mAb and 4B11 mAb, but not 32-4 and 17-9 mAb, could inhibit the activation of complement classical pathway. Anti-C1q A08 antibodies were detected in all the female BALB/C mice in the experimental group but not in the control group. Two out of six in the experimental group developed anti-C1q antibodies. C1q A08 is a half-cryptic epitope of C1q involving N-terminal six amino acids of C1q A08, and this is important to the activation of a complement classical pathway, and some anti-C1q A08 antibodies were able to prevent this process. Epitope spreading of C1q occurred in the mice immunized with C1q A08 peptides.
Diverse Virus and Host-Dependent Mechanisms Influence the Systemic and Intrahepatic Immune Responses in the Woodchuck Model of Hepatitis B

Woodchuck infected with woodchuck hepatitis virus (WHV) represents the pathogenically nearest model of hepatitis B and associated hepatocellular carcinoma (HCC). This naturally occurring animal model also is highly valuable for development and preclinical evaluation of new anti-HBV agents and immunotherapies against chronic hepatitis (CH) B and HCC. Studies in this system uncovered a number of molecular and immunological processes which contribute or likely contribute to the immunopathogenesis of liver disease and modulation of the systemic and intrahepatic innate and adaptive immune responses during hepadnaviral infection. Among them, inhibition of presentation of the class I major histocompatibility complex on chronically infected hepatocytes and a role of WHV envelope proteins in this process, as well as augmented hepatocyte cytotoxicity mediated by constitutively expressed components of CD95 (Fas) ligand- and perforin-dependent pathways, capable of eliminating cells brought to contact with hepatocyte surface, including activated T lymphocytes, were uncovered. Other findings pointed to a role of autoimmune response against hepatocyte asialoglycoprotein receptor in augmenting severity of liver damage in hepadnaviral CH. It was also documented that WHV in the first few hours activates intrahepatic innate immunity that transiently decreases hepatic virus load. However, this activation is not translated in a timely manner to induction of virus-specific T cell response which appears to be hindered by defective activation of antigen presenting cells and presentation of viral epitopes to T cells. The early WHV infection also induces generalized polyclonal activation of T cells that precedes emergence of virus-specific T lymphocyte reactivity. The combination of these mechanisms hinder recognition of virus allowing its dissemination in the initial, asymptomatic stages of infection before adaptive cellular response became apparent. This review will highlight a range of diverse mechanisms uncovered in the woodchuck model which affect effectiveness of the anti-viral systemic and intrahepatic immune responses, and modify liver disease outcomes. Further exploration of these and other mechanisms, either already discovered or yet unknown, and their interactions should bring more comprehensive understanding of HBV pathogenesis and help to identify novel targets for therapeutic and preventive interventions. The woodchuck model is uniquely positioned to further contribute to these advances.
Blue Light Improves Vase Life of Carnation Cut Flowers Through Its Effect on the Antioxidant Defense System

Improving marketability and extension of vase life of cut flowers has practical significance for the development of the cut flower industry. Although considerable efforts have been made over many years to improve the vase life of cut flowers through controlling the immediate environment and through post-harvest use of floral preservatives, the impact of lighting environment on vase life has been largely overlooked. In the current study, the effect of three LED light spectra [white (400–730 nm), blue (peak at 460 nm), and red (peak at 660 nm)] at 150 μmol m–2 s–1 on vase life and on physiological and biochemical characteristics of carnation cut flowers was investigated. Exposure to blue light (BL) considerably delayed senescence and improved vase life over that of flowers exposed to red light (RL) and white light (WL). H2O2 and malondialdehyde (MDA) contents in petals gradually increased during vase life; the increase was lowest in BL-exposed flowers. As a consequence, BL-exposed flowers maintained a higher membrane stability index (MSI) compared to RL- and WL-exposed flowers. A higher activity of antioxidant enzymes [superoxide dismutase (SOD), peroxidase (POD), catalase (CAT), and ascorbate peroxidase (APX)] was detected in petals of BL-exposed flowers, compared to their activities in RL- and WL-exposed flowers. In BL-exposed flowers, the decline in petal carotenoid contents was delayed in comparison to RL- and WL-exposed flowers. Maximum quantum efficiency of photosystem II (Fv/Fm) and a higher percentage of open stomata were observed in leaves of BL-exposed flowers. Sucrose and glucose contents accumulated in petals during vase life; sugar concentrations were higher in BL-exposed flowers than in RL- and WL-exposed flowers. It is concluded that BL exposure improves the vase life of carnation cut flowers through its effect on the antioxidant defense system in petals and on photosynthetic performance in the leaves.
Migration and Accumulation of Primordial Germ Cells of Early Embryo in Quail

In this research, we have identified primordial germ cells (PGCs) in quail embryo using Quail Hemangioblastic Lineage (QH1) monoclonal antibody analysis. Quail PGCs originated from the opaca of unincubated blastodisc, and then transferred to the pellucida and the germinal crescent. At 27 hours post-incubation, a few PGCs first appeared in blood vessels of the pellucida, where many PGCs accumulated at 36 hours post-incubation. The PGCs scattered or clustered from head to omphalo mesenteric and mainly settled down in the mesenchymal blood vessels of head at 45 hours post-incubation. The size of PGCs population increased significantly (P<0.05) from stage XII (12.8±4.82 µm) to primitive streak stage (106.7±8.74 µm) and from Head process stage (95.8±19.74 µm) to tenth somite stage (199.4±19.97 µm). It is concluded that the PGCs scattered in the head area before migration to the germinal crescent and distributed randomly in both gland. The number of PGCs varied at different stages with two peaks, primitive streak stage (18 hours post-incubation) and tenth somite (36 hours post-incubation).
Cianamida hidrogenada no raleio químico de flores e frutos de pessegueiros (Prunus persica, L. Batsch) cv. Eldorado

The objective of this research was to evaluate the effect of hydrogen cyanamide (CH2N2) on the chemical thinning of peach-tree flowers and fruits of Eldorado cultivar. Six-year plants localized at Agricultural Center of Palma - UFPel were used and conducted in vase with spacing of 6.0 x 4.0m. Treatments with 0, 0.15, 0.3, 0.45 and 0.6% of CH2N2 were sprayed on randomly selected shoots until drip point, when 100% of the flowers were totally blown. Dormex (52% of hydrogen cyanamide) was the commercial chemical used. A completely randomized experimental design was used, with three replications. Percentage of flowers thinned 36 days after chemical application and percentage of thinned fruits, mean fruit weight, color, diameter, flesh firmness and total soluble solids at harvest time were evaluated. It was observed statistical difference among treatments on the thinning of flowers. The use of CH2N2 0.5% showed high intensity of thinning (50,96%). Differences were also observed for the percentage of thinned fruits, however, the highest thinning was reached at 9.53% of CH2N2 0.6%. Fruit weight increased with chemical thinning, however, no changes in total soluble solids, color and fruit flesh firmness were observed.
FACILITATIVE AND INTERFERING EFFECTS OF ARTHROCNEMUM SUBTERMINALE ON WINTER ANNUALS

The relative importance of interspecific interference and facilitation in nat- ural plant communities is controversial, in part due to the difficulty of manipulating these interactions in the field. I investigated the relative intensity of facilitative and interfering effects of Arthrocnemum subterminale, a subshrub common in the upper zones of California salt marshes, on three species of winter annuals by measuring spatial associations, manip- ulating Arthrocnemum canopy cover and root distributions, and comparing aspects of the physical microhabitat under Arthrocnemum to that in the open. The annuals Hutchinsia procumbens and Parapholis incurva were positively associated with Arthrocnemum, and survival and aboveground biomass of these species declined when shrub canopies were removed. Spergularia marina was negatively associated with Arthrocnemum, and survival increased when shrub canopies were removed. Combined effects of facilitation and inter- ference were observed for Parapholis survival and biomass, which were reduced by root interference even though the overall effect of Arthrocnemum on Parapholis was positive. Arthrocnemum canopies elicited direct effects on the winter annuals, but also altered substrate characteristics. Soil was mounded under the shrubs, averaging 3.14 cm higher in elevation than the surrounding open soil. Soil salinity was 27% lower under Arthrocnemum canopies, soil moisture was 13% higher under shrubs, and shrub understories received less light than open marsh soil. Although Arthrocnemum had species-specific interfering and facilitative effects, and interference and facilitation operated simultaneously, my results suggest that facilitative effects of Arthrocnemum were more significant than interference in the transition zone of the upper marsh. Physical conditions in the open reduced overall annual biomass and survival, but were ameliorated by Arthrocnemum, which altered the species composition and productivity of the upper marsh plant community.
Methodological Factors Involved in the Study of Temporal Binding Using the Open Source Software Labclock Web

Temporal binding occurs when an action and an outcome that follows it after a short period of time are judged as occurring closer to each other in time than they actually are. This effect has often been studied using Libet’s clock methodology. Garaizar et al. (2016) presented Labclock Web, a free HTML5 open source software that allows researchers to conduct temporal binding and other experiments using Libet’s clock through the Internet. The purpose of the three experiments presented here was to test how certain methodological modifications in the Labclock Web task could impact the temporal binding effect. In comparison with the original study, we aimed to: (a) reduce the interval between action and outcome in the delayed condition to 100 ms, instead of 500, (b) present the two types of trials, immediate and delayed, in two separate consecutive blocks, instead of intermixed, (c) use a visual, rather than auditory, outcome following the action, and (d) reduce the number of trials. In addition to its potential theoretical implications, the results confirm that Labclock Web is a useful and reliable tool for conducting temporal binding experiments and that it is well suited to measure temporal binding effects in a broad range of situations.
Antibody recognition of the Pneumovirus fusion protein trimer interface

Human metapneumovirus is a leading cause of viral respiratory infection in children, and can cause severe lower respiratory infection in infants, the elderly, and immunocompromised patients. However, there remain no licensed vaccines or specific treatments for hMPV infection. Although the hMPV fusion (F) protein is the sole target of neutralizing antibodies, the immunological properties of hMPV F are still poorly understood. To further define the humoral immune response to the hMPV F protein, we isolated two new human monoclonal antibodies (mAbs), MPV458 and MPV465. Both mAbs are neutralizing in vitro and target a unique antigenic site harbored within the trimeric interface of the hMPV F protein. We determined both MPV458 and MPV465 have higher affinity for monomeric hMPV F than trimeric hMPV F. MPV458 was co-crystallized with hMPV F, and the mAb primarily interacts with an alpha helix on the F2 region of the hMPV F protein. Surprisingly, the major epitope for MPV458 lies within the trimeric interface of the hMPV F protein, suggesting significant breathing of the hMPV F protein must occur for hMPV F protein recognition of the novel epitope. In addition, significant glycan interactions were observed with a somatically mutated light chain framework residue. The data presented identifies a novel epitope on the hMPV F protein for structure-based vaccine design, and provides a new mechanism for human antibody neutralization of viral glycoproteins.
Use of an individual‐based model to forecast the effect of climate change on the dynamics, abundance and geographical range of the pest slug Deroceras reticulatum in the UK

Slugs are serious agricultural pests and their activity is strongly driven by ambient temperature and soil moisture. The strength of this relationship has been shown through the development of a deterministic model, based upon temperature and soil moisture conditions alone, which accurately describes the population dynamics and abundance of Deroceras reticulatum. Because of this strong climatic dependence, slug abundance and dynamics are likely to be affected by climate change. We used a validated individual‐based model (IbM) of D. reticulatum, to assess the effects of climate change on the abundance of this species in the UK. Climatic scenarios were based on the UKCIP02 predictions and constructed using the LARS‐WG stochastic weather generator. The IbM of slugs predicted population dynamics at three time slices (2020s, 2050s and 2080s), and two scenarios of greenhouse gas emissions. The maximum generation number, the number of population peaks, the number of slug‐days in each season, the percentage of years when the population passes over a threshold for damage and the percentage of years in which populations go extinct were investigated. Currently, the south‐west of the UK has the best conditions for D. reticulatum to thrive, with the north‐east of Scotland having the most adverse. By 2080 under both low‐ and high‐emissions scenarios, the north and west of Scotland will have the most favourable conditions for the survival of this species and the east of the UK and Scotland will have the harshest. By 2080 the climate in the north‐west of Scotland will become more like the current climate in south‐east England, which explains the shift in the pattern of abundance. The north‐west of Scotland will have increased slug damage and south‐west England and west‐Wales will have decreased slug damage with some changes becoming evident by 2020.
CYTOLETHAL DISTENDING TOXIN (CDT): GENETIC DIVERSITY, STRUCTURE AND ROLE IN DIARRHEAL DISEASE

In 1987, cytolethal distending toxin (CDT) was discovered by Johnson and Lior as a new type of protein toxin produced by certain strains of Escherichia coli, which is different from heat-labile enterotoxin (LT) produced by enterotoxigenic E. coli. Although LT causes only cell elongation, CDT causes cell elongation, cell distention, irreversible cell cycle arrest, and consequently, death of the cultured mammalian cells. Recently, CDT was recognized as a new family of bacterial toxin, as a genotoxin, produced by a diverse group of gram-negative bacteria, all of which are related to mucosal infection. Although tremendous efforts have been made to study the structure and mode of action of CDT, its role in bacterial pathogenesis still remains unclear. In this review, we focus mainly on CDT produced by enteric bacteria and describe the history of CDT, their gene and protein structure, structure-function relationship, and its mode of action particularly how CDT contributes to the gastrointestinal infections.
Vein-to-blade ratio is an allometric indicator of climate-induced changes in grapevine leaf size and shape

Premise As a leaf expands, its shape dynamically changes. Previously, we documented an allometric relationship between vein and blade area in grapevine leaves. Larger leaves have a smaller ratio of primary and secondary vein area relative to blade area compared to smaller leaves. We sought to use allometry as an indicator of leaf size to measure the environmental effects of climate on grapevine leaf morphology. Methods We measure the ratio of vein-to-blade area in 8,412 leaves from the same 208 vines across four growing seasons (2013, 2015, 2016, and 2017) using 21 homologous landmarks. Matching leaves by vine and node, we correlate size and shape of grapevine leaves with climate variables. Key results Vein-to-blade ratio varies strongly between years in ways that blade or vein area do not. Maximum daily temperature and to a lesser degree precipitation are the most strongly correlated climate variables with vein-to-blade ratio, indicating that smaller leaves are associated with heat waves and drought. Leaf count and overall leaf area of shoots and the vineyard population studied also diminish with heat and drought. Grapevine leaf primordia initiate in buds the year prior to when they emerge, and we find that climate during the previous growing season exerts the largest statistical effects over these relationships. Conclusions Our results demonstrate the profound effects of heat and drought on the vegetative morphology of grapevines and show that vein-to-blade ratio is a strong allometric indicator of the effects of climate on grapevine leaf morphology.
Revision of methods for separating species of Protopalythoa (Hexacorallia : Zoanthidea) in the tropical West Pacific

The genus Protopalythoa Verrill, 1900 (family Sphenopidae) is defined and its status discussed. As with other zoanthid genera, species are difficult to separate by traditional methods. We have developed a rigorous approach to quantitative data derived from measurements and meristic characters. In support of genetic evidence, we have utilised the relationship between number of septa and polyp column diameter, and the capsule length of nematocysts (holotrichs and p-mastigophores), together with the presence or absence of basitrichs in the cnidom. Using this approach, the species Pr. mutuki (Haddon & Shackleton, 1891b) and Pr. heliodiscus, sp. nov. are separated, described and illustrated. Protopalythoa mutuki is interpreted as a normal micro-carnivore with autotrophic capability, while Pr. heliodiscus sp. nov. is an obligate autotroph with little ability to capture prey. The latter is the only zoanthid known to have vertical transmission of zooxanthellae.
Multimodal and multisensory coding in the Drosophila larval peripheral gustatory center

The ability to evaluate food palatability is innate in all animals, ensuring their survival. The external taste organ in Drosophila larvae is composed of only few sensory neurons but enables discrimination between a wide range of chemicals and displays high complexity in receptor gene expression and physiological response profile. It remains largely unknown how the discrepancy between a small neuronal number and the perception of a large sensory space is genetically and physiologically resolved. We tackled dissection of taste sensory coding at organ level with cellular resolution in the fruit fly larva by combining whole-organ calcium imaging and single-cell transcriptomics to map physiological properties and molecular features of individual neurons. About one third of gustatory sense neurons responded to multiple tastants, showing a rather large degree of multimodality within the taste organ. Further supporting the notion of signal integration at the periphery, we observed neuronal deactivation events within simultaneous neighboring responses, suggesting inter-cellular communication through electrical coupling and thus providing an additional level in how neurons may encode taste sensing. Interestingly, we identified neurons responding to both mechanical and taste stimulation, indicating potential multisensory integration. On a molecular level, chemosensory cells show heterogeneity in neuromodulator expression. In addition to a broad cholinergic profile, markers on dopaminergic, glutamatergic or neuropeptidergic pathways are present either in distinct cell populations or are seemingly co-expressed. Our data further extend the sensory capacity of the larval taste system pointing towards an unanticipated degree of multimodal and multisensory coding principles.