Genome-wide association analysis identifies resistance loci for bacterial blight in a diverse collection of indica rice germplasm

Bacterial blight, which is caused by Xanthomonas oryzae pv. oryzae (Xoo), is one of the most devastating rice diseases worldwide. The development and use of disease-resistant cultivars have been the most effective strategy to control bacterial blight. Identifying the genes mediating bacterial blight resistance is a prerequisite for breeding cultivars with broad-spectrum and durable resistance. We herein describe a genome-wide association study involving 172 diverse Oryza sativa ssp. indica accessions to identify loci influencing the resistance to representative strains of six Xoo races. Twelve resistance loci containing 121 significantly associated signals were identified using 317,894 single nucleotide polymorphisms, which explained 13.3–59.9% of the variability in lesion length caused by Xoo races P1, P6, and P9a. Two hotspot regions (L11 and L12) were located within or nearby two cloned R genes (xa25 and Xa26) and one fine-mapped R gene (Xa4). Our results confirmed the relatively high resolution of genome-wide association studies. Moreover, we detected novel significant associations on chromosomes 2, 3, and 6–10. Haplotype analyses of xa25, the Xa26 paralog (MRKc; LOC_Os11g47290), and a Xa4 candidate gene (LOC_11g46870) revealed differences in bacterial blight resistance among indica subgroups. These differences were responsible for the observed variations in lesion lengths resulting from infections by Xoo races P1 and P9a. Our findings may be relevant for future studies involving bacterial blight resistance gene cloning, and provide insights into the genetic basis for bacterial blight resistance in indica rice, which may be useful for knowledge-based crop improvement. (Résumé d'auteur

Characterization of gut dominant microbiota in obese patients with nonalcoholic fatty liver disease

In obese patients, non-alcoholic fatty liver (NAFLD) is common. However, whether there is a connection between the gut microbiota and the onset of NAFLD in obese people is yet unknown. Using quantitative real-time PCR, the microbiota of feces of the eligible 181 obese individuals was identified to compare the differences in gut microbiota between obesity with NAFLD and simple obesity. According to the findings, the gut dominant microbiota was similar between obesity with NAFLD and simple obesity. Nonetheless, compared to the simple obesity group, the quantity of Faecalibacterium prausnitzii colonies was much lower in the obesity with the NAFLD group. Bacteroides were present in greater than 65% of both groups. Bacteroides, Clostridium leptum, and Clostridium butyricum accounted for more than 80% of the cases in the obesity with NAFLD group, whereas Bacteroides, Clostridium butyricum, and F. prausnitzii accounted for more than 80% of the cases in the simple obesity group. We look for potential contributing variables to obesity-related NAFLD and potential prevention measures for obese people. Based on a multi-factor logistic regression analysis, lymphocytes may be a risk factor for obesity with NAFLD while F. prausnitzii may be a protective factor. Additionally, F. prausnitzii is positively impacted by Bacteroides, Clostridium leptum, Clostridium butyricum, and Eubacterium rectale, yet adversely impacted by Enterobacteriaceae. Notably, lymphocytes and F. prausnitzii may help determine whether obese patients would develop NAFLD

Longitudinal Optogenetic Motor Mapping Revealed Structural and Functional Impairments and Enhanced Corticorubral Projection after Contusive Spinal Cord Injury in Mice

Current evaluation of impairment and repair after spinal cord injury (SCI) is largely dependent on behavioral assessment and histological analysis of injured tissue and pathways. Here, we evaluated whether transcranial optogenetic mapping of motor cortex could reflect longitudinal structural and functional damage and recovery after SCI. In Thy1-Channelrhodopsin2 transgenic mice, repeated motor mappings were made by recording optogenetically evoked electromyograms (EMGs) of a hindlimb at baseline and 1 day and 2, 4, and 6 weeks after mild, moderate, and severe spinal cord contusion. Injuries caused initial decreases in EMG amplitude, losses of motor map, and subsequent partial recoveries, all of which corresponded to injury severity. Reductions in map size were positively correlated with motor performance, as measured by Basso Mouse Scale, rota-rod, and grid walk tests, at different time points, as well as with lesion area at spinal cord epicenter at 6 weeks post-SCI. Retrograde tracing with Fluoro-Gold showed decreased numbers of cortico- and rubrospinal neurons, with the latter being negatively correlated with motor map size. Combined retro- and anterograde tracing and immunostaining revealed more neurons activated in red nucleus by cortical stimulation and enhanced corticorubral axons and synapses in red nucleus after SCI. Electrophysiological recordings showed lower threshold and higher amplitude of corticorubral synaptic response after SCI. We conclude that transcranial optogenetic motor mapping is sensitive and efficient for longitudinal evaluation of impairment and plasticity of SCI, and that spinal cord contusion induces stronger anatomical and functional corticorubral connection that may contribute to spontaneous recovery of motor function

Is the late near-infrared bump in short-hard GRB 130603B due to the Li-Paczynski kilonova?

Short-hard gamma-ray bursts (GRBs) are widely believed to be produced by the merger of two binary compact objects, specifically by two neutron stars or by a neutron star orbiting a black hole. According to the Li-Paczynski kilonova model, the merger would launch sub-relativistic ejecta and a near-infrared/optical transient would then occur, lasting up to days, which is powered by the radioactive decay of heavy elements synthesized in the ejecta. The detection of a late bump using the {\em Hubble Space Telescope} ({\em HST}) in the near-infrared afterglow light curve of the short-hard GRB 130603B is indeed consistent with such a model. However, as shown in this Letter, the limited {\em HST} near-infrared lightcurve behavior can also be interpreted as the synchrotron radiation of the external shock driven by a wide mildly relativistic outflow. In such a scenario, the radio emission is expected to peak with a flux of $\sim 100 \mu$Jy, which is detectable for current radio arrays. Hence, the radio afterglow data can provide complementary evidence on the nature of the bump in GRB 130603B. It is worth noting that good spectroscopy during the bump phase in short-hard bursts can test validity of either model above, analogous to spectroscopy of broad-lined Type Ic supernova in long-soft GRBs.Comment: 4 pages, 2 figures, published in ApJ Lette

Cosmological constraints on holographic dark energy models under the energy conditions

We study the holographic and agegraphic dark energy models without interaction using the latest observational Hubble parameter data (OHD), the Union2.1 compilation of type Ia supernovae (SNIa), and the energy conditions. Scenarios of dark energy are distinguished by the cut-off of cosmic age, conformal time, and event horizon. The best-fit value of matter density for the three scenarios almost steadily located at $\Omega_{m0}=0.26$ by the joint constraint. For the agegraphic models, they can be recovered to the standard cosmological model when the constant $c$ which presents the fraction of dark energy approaches to infinity. Absence of upper limit of $c$ by the joint constraint demonstrates the recovery possibility. Using the fitted result, we also reconstruct the current equation of state of dark energy at different scenarios, respectively. Employing the model criteria $\chi^2_{\textrm{min}}/dof$, we find that conformal time model is the worst, but they can not be distinguished clearly. Comparing with the observational constraints, we find that SEC is fulfilled at redshift $0.2 \lesssim z \lesssim 0.3$ with $1\sigma$ confidence level. We also find that NEC gives a meaningful constraint for the event horizon cut-off model, especially compared with OHD only. We note that the energy condition maybe could play an important role in the interacting models because of different degeneracy between $\Omega_m$ and constant $c$.Comment: 8 pages, 4 figures, accepted for publication in PR

Mass Transport Induced by Heat Current in Carbon Nanotubes

Transport of helium atoms in the carbon nanotubes is investigated in the presence of temperature gradients. The heat current flowing along the carbon nanotubes can induce a stable directed transport of helium; it is demonstrated that the heat current density rather than the temperature gradient performs as a fundamental physical factor to the mass transport. We provide an alternative route to control the mass transport by using heat. Our results reported here are also relevant for understanding the transition from thermal energy to mechanical energy