Impacts of fallow conditions, compost and silicate fertilizer on soil nematode community in salt–affected paddy rice fields in acid sulfate and alluvial soils in the Mekong Delta, Vietnam

© 2021 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/)Avoidance of intensive rice cultivation (IRC) and soil amendments are potential practices to enhance soil properties. There is only limited information on the effects of reduced IRC and its mixture with compost or silicate fertilizer (Si) on the soil nematode community in salt–affected soils. This study aimed to assess the shifts of soil nematode community by reducing a rice crop from triple rice system (RRR) to a double rice system and mixed with compost or Si in paddy fields in acid sulfate soil (ASS) and alluvial soil (AL) in the Mekong Delta, Vietnam. Field experiments were designed with four treatments in four replicates, including RRR and a proposed system of double–rice followed by a fallow (FRR) and with 3 Mg ha–1 crop−1 compost or 100 kg ha–1 crop−1 Si. Soils were collected at harvest after the 2 year experiment, reflecting the fifth and third consecutive rice crop in RRR and FRR system, respectively. Results showed that reduced IRC gave a significant reduction in abundance of plant–parasitic nematodes (PPN), dominated by Hirschmanniella and increased abundance bacterivorous nematodes when mixed to compost and silicate fertilizer in ASS. In addition, reduced IRC increased nematode biodiversity Hill’s indices and reduced herbivorous footprint in ASS. Proposed system having compost or Si had strongly increased in bacterivorous and omnivorous footprints. Particularly, reduced IRC mixture with Si increased abundance of Rhabdolaimus, Mesodorylaimus and Aquatides, metabolic footprints (structure footprint, bacterivorous, omnivorous and predator) and diversity Hill’s N1 index in ASS. Our results highlighted that reduced IRC was a beneficial practice for decreasing abundance of PPN in salt-affected soils and increasing abundance of FLN in ASS. IRC mixture with compost or Si had potential in structuring the nematode communities with increasing biodiversity, trophic structure, and metabolic footprintsPeer reviewedFinal Accepted Versio

Three red suns in the sky: A transiting, terrestrial planet in a triple M-dwarf system at 6.9 pc

We present the discovery from Transiting Exoplanet Survey Satellite (TESS) data of LTT 1445Ab. At a distance of 6.9 pc, it is the second nearest transiting exoplanet system found to date, and the closest one known for which the primary is an M dwarf. The host stellar system consists of three mid-to-late M dwarfs in a hierarchical configuration, which are blended in one TESS pixel. We use MEarth data and results from the Science Processing Operations Center data validation report to determine that the planet transits the primary star in the system. The planet has a radius of ${1.38}_{-0.12}^{+0.13}$ ${R}_{\oplus }$, an orbital period of ${5.35882}_{-0.00031}^{+0.00030}$ days, and an equilibrium temperature of ${433}_{-27}^{+28}$ K. With radial velocities from the High Accuracy Radial Velocity Planet Searcher, we place a 3σ upper mass limit of 8.4 ${M}_{\oplus }$ on the planet. LTT 1445Ab provides one of the best opportunities to date for the spectroscopic study of the atmosphere of a terrestrial world. We also present a detailed characterization of the host stellar system. We use high-resolution spectroscopy and imaging to rule out the presence of any other close stellar or brown dwarf companions. Nineteen years of photometric monitoring of A and BC indicate a moderate amount of variability, in agreement with that observed in the TESS light-curve data. We derive a preliminary astrometric orbit for the BC pair that reveals an edge-on and eccentric configuration. The presence of a transiting planet in this system hints that the entire system may be co-planar, implying that the system may have formed from the early fragmentation of an individual protostellar core.Accepted manuscrip

The K2 & TESS Synergy II: Revisiting 26 systems in the TESS Primary Mission

The legacy of NASA's K2 mission has provided hundreds of transiting exoplanets that can be revisited by new and future facilities for further characterization, with a particular focus on studying the atmospheres of these systems. However, the majority of K2-discovered exoplanets have typical uncertainties on future times of transit within the next decade of greater than four hours, making observations less practical for many upcoming facilities. Fortunately, NASA's Transiting exoplanet Survey Satellite (TESS) mission is reobserving most of the sky, providing the opportunity to update the ephemerides for $\sim$300 K2 systems. In the second paper of this series, we reanalyze 26 single-planet, K2-discovered systems that were observed in the TESS primary mission by globally fitting their K2 and TESS lightcurves (including extended mission data where available), along with any archival radial velocity measurements. As a result of the faintness of the K2 sample, 13 systems studied here do not have transits detectable by TESS. In those cases, we re-fit the K2 lightcurve and provide updated system parameters. For the 23 systems with $M_* \gtrsim 0.6 M_\odot$, we determine the host star parameters using a combination of Gaia parallaxes, Spectral Energy Distribution (SED) fits, and MESA Isochrones and Stellar Tracks (MIST) stellar evolution models. Given the expectation of future TESS extended missions, efforts like the K2 & TESS Synergy project will ensure the accessibility of transiting planets for future characterization while leading to a self-consistent catalog of stellar and planetary parameters for future population efforts.Comment: Accepted for publication in ApJ. 29 pages, 9 figures, 12 table

DNA methylation-based classification of central nervous system tumours.

Accurate pathological diagnosis is crucial for optimal management of patients with cancer. For the approximately 100 known tumour types of the central nervous system, standardization of the diagnostic process has been shown to be particularly challenging-with substantial inter-observer variability in the histopathological diagnosis of many tumour types. Here we present a comprehensive approach for the DNA methylation-based classification of central nervous system tumours across all entities and age groups, and demonstrate its application in a routine diagnostic setting. We show that the availability of this method may have a substantial impact on diagnostic precision compared to standard methods, resulting in a change of diagnosis in up to 12% of prospective cases. For broader accessibility, we have designed a free online classifier tool, the use of which does not require any additional onsite data processing. Our results provide a blueprint for the generation of machine-learning-based tumour classifiers across other cancer entities, with the potential to fundamentally transform tumour pathology

Genetic and epigenetic characterization of posterior pituitary tumors

Pituicytoma (PITUI), granular cell tumor (GCT), and spindle cell oncocytoma (SCO) are rare tumors of the posterior pituitary. Histologically, they may be challenging to distinguish and have been proposed to represent a histological spectrum of a single entity. We performed targeted next-generation sequencing, DNA methylation profiling, and copy number analysis on 47 tumors (14 PITUI; 12 GCT; 21 SCO) to investigate molecular features and explore possibilities of clinically meaningful tumor subclassification. We detected two main epigenomic subgroups by unsupervised clustering of DNA methylation data, though the overall methylation differences were subtle. The largest group (n = 23) contained most PITUIs and a subset of SCOs and was enriched for pathogenic mutations within genes in the MAPK/PI3K pathways (12/17 [71%] of sequenced tumors: FGFR1 (3), HRAS (3), BRAF (2), NF1 (2), CBL (1), MAP2K2 (1), PTEN (1)) and two with accompanying TERT promoter mutation. The second group (n = 16) contained most GCTs and a subset of SCOs, all of which mostly lacked identifiable genetic drivers. Outcome analysis demonstrated that the presence of chromosomal imbalances was significantly associated with reduced progression-free survival especially within the combined PITUI and SCO group (p = 0.031). In summary, we observed only subtle DNA methylation differences between posterior pituitary tumors, indicating that these tumors may be best classified as subtypes of a single entity. Nevertheless, our data indicate differences in mutation patterns and clinical outcome. For a clinically meaningful subclassification, we propose a combined histo-molecular approach into three subtypes: one subtype is defined by granular cell histology, scarcity of identifiable oncogenic mutations, and favorable outcome. The other two subtypes have either SCO or PITUI histology but are segregated by chromosomal copy number profile into a favorable group (no copy number changes) and a less favorable group (copy number imbalances present). Both of the latter groups have recurrent MAPK/PI3K genetic alterations that represent potential therapeutic targets

Constraints on the χ_(c1) versus χ_(c2) polarizations in proton-proton collisions at √s = 8 TeV

The polarizations of promptly produced χ_(c1) and χ_(c2) mesons are studied using data collected by the CMS experiment at the LHC, in proton-proton collisions at √s=8  TeV. The χ_c states are reconstructed via their radiative decays χ_c → J/ψγ, with the photons being measured through conversions to e⁺e⁻, which allows the two states to be well resolved. The polarizations are measured in the helicity frame, through the analysis of the χ_(c2) to χ_(c1) yield ratio as a function of the polar or azimuthal angle of the positive muon emitted in the J/ψ → μ⁺μ⁻ decay, in three bins of J/ψ transverse momentum. While no differences are seen between the two states in terms of azimuthal decay angle distributions, they are observed to have significantly different polar anisotropies. The measurement favors a scenario where at least one of the two states is strongly polarized along the helicity quantization axis, in agreement with nonrelativistic quantum chromodynamics predictions. This is the first measurement of significantly polarized quarkonia produced at high transverse momentum