Recombination and repeat-induced point mutation landscapes reveal trade-offs between the sexual and asexual cycles of Magnaporthe oryzae.

The fungal disease caused by Magnaporthe oryzae is one of the most devastating diseases that endanger many crops worldwide. Evidence shows that sexual reproduction can be advantageous for fungal diseases as hybridization facilitates host-jumping. However, the pervasive clonal lineages of M. oryzae observed in natural fields contradict this expectation. A better understanding of the roles of recombination and the fungi-specific repeat-induced point mutation (RIP) in shaping its evolutionary trajectory is essential to bridge this knowledge gap. Here we systematically investigate the RIP and recombination landscapes in M. oryzae using a whole genome sequencing data from 252 population samples and 92 cross progenies. Our data reveal that the RIP can robustly capture the population history of M. oryzae, and we provide accurate estimations of the recombination and RIP rates across different M. oryzae clades. Significantly, our results highlight a parent-of-origin bias in both recombination and RIP rates, tightly associating with their sexual potential and variations of effector proteins. This bias suggests a critical trade-off between generating novel allelic combinations in the sexual cycle to facilitate host-jumping and stimulating transposon-associated diversification of effectors in the asexual cycle to facilitate host coevolution. These findings provide unique insights into understanding the evolution of blast fungus.

Frontotemporal network in automatic / pre-attentive detection of abstract change: An event-related optical signal (EROS) study.

The human brain constantly monitors the environment for unexpected changes. Under the prediction violation account, the Inferior Frontal Cortex (IFC) is involved in prediction-related processes for deviance detection processes in the Superior Temporal Cortex (STC). Consistent with this account, previous studies revealed an IFC-to-STC-followed-by-IFC mismatch response pattern to physical changes using event-related optical signals (EROS). However, detecting physical changes can be achieved by direct comparison of physical features between stimuli without making predictions, thus direct evidence supporting the prediction nature of the IFC-STC network in pre-attentive change detection was lacking. To address this issue, this study examined the EROS mismatch responses of the IFC-STC network when detecting the violation of an abstract rule. The rule "the higher the frequency of a tone, the stronger the intensity" established by standards was violated by deviants of 12 deviance levels. When deviants were preceded by a short train of standards, early IFC, STC, and late IFC EROS mismatch responses linearly increased with the deviance levels. When deviants were preceded by a longer train of standards, the STC but not the early or late IFC EROS mismatch responses were elicited by all the deviants without modulation by deviance levels. These results demonstrate a functional role of the IFC in the abstract change detection when insufficient rule-conforming information could be extracted from the preceding standards and are consistent with the predictive violation account of pre-attentive change detection.

Metabolic engineering of Zymomonas moblis for ethylene production from straw hydrolysate.

Biological ethylene production is a promising sustainable alternative approach for fossil-based ethylene production. The high glucose utilization of Z. mobilis makes it as a promising bioethylene producer. In this study, Zymomonas mobilis has been engineered to produce ethylene through the introduction of the synthetic ethylene-forming enzyme (EFE). We also investigated the effect of systematically knocking out the competitive metabolic pathway of pyruvate in an effort to improve the availability of pyruvate for ethylene production in Z. mobilis expressing EFE. Guided by these results, we tested a number of conjectures that could improve the α-ketoglutarate supply. Optimization of these pathways and different substrate supplies resulted in a greater production of ethylene (from 1.36 to 12.83 nmol/OD600/mL), which may guide future engineering work on ethylene production using other organisms. Meanwhile, we achieved an ethylene production of 5.8 nmol/OD600/mL in the ZM532-efe strain using enzymatic straw hydrolysate of corn straw as the sole carbon source. As a preferred host in biorefinery technologies using lignocellulosic biomass as feedstock, heterologous expression of EFE in Z. mobilis converts the non-ethylene producing strain into an ethylene-producing one using a metabolic engineering approach, which is of great significance for the utilization of cellulosic biomass in the future. KEY POINTS: • Heterologous expression of EFE in Z. mobilis successfully converted the non-ethylene producing strain into an ethylene producer (1.36 nmol/OD600/mL). Targeted modifications of the central carbon metabolism can effectively improve ethylene production (peak production: 8.3 nmol/OD600/mL). • The addition of nutrients to the medium can further increase the production of ethylene (peak production: 12.8 nmol/OD600/mL). • The ZM532-efe strain achieved an ethylene production of 5.8 nmol/OD600/mL when enzymatic hydrolysate of corn straw was used as the sole carbon source.

A sample implementation for parallelizing Divide-and-Conquer algorithms on the GPU.

The strategy of Divide-and-Conquer (D&C) is one of the frequently used programming patterns to design efficient algorithms in computer science, which has been parallelized on shared memory systems and distributed memory systems. Tzeng and Owens specifically developed a generic paradigm for parallelizing D&C algorithms on modern Graphics Processing Units (GPUs). In this paper, by following the generic paradigm proposed by Tzeng and Owens, we provide a new and publicly available GPU implementation of the famous D&C algorithm, QuickHull, to give a sample and guide for parallelizing D&C algorithms on the GPU. The experimental results demonstrate the practicality of our sample GPU implementation. Our research objective in this paper is to present a sample GPU implementation of a classical D&C algorithm to help interested readers to develop their own efficient GPU implementations with fewer efforts.

Detecting violation in abstract pitch patterns with mismatch negativity.

The human brain automatically extracts regularities embedded in environmental auditory events. This study investigated the extraction of abstract patterns by measuring mismatch negativity (MMN). Participants watched a silent subtitled movie and ignored a sequence of auditory events comprising frequent standards and rare deviants presented in the background. Tone triplets with varying pitch (first-order property) served as the auditory events. The pitch intervals (interval 1 and interval 2) between the tones in a triplet and the ratio of interval 1 and 2 were considered second- and third-order properties, respectively. Both second- and third-order properties of the standards were kept constant in the mixed patterns block, while only the third-order property was kept constant in the ratio pattern block. Four sets of tone triplets violating the interval and ratio patterns with different deviance levels were presented as deviants in both blocks, and subtracted with physically identical stimuli in a control block to isolate the MMNs. Interval and ratio pattern deviants elicited MMNs in the mixed patterns block while only ratio pattern deviants elicited MMNs in the ratio pattern block. Larger MMNs were elicited by large deviants as compared to small deviants. These results suggest that the change detection system is sensitive to the violation of both second- and third-order abstract patterns. In addition to regularities in the abstract properties of auditory events, regularities in the relationships between abstract properties can also be extracted. This ability plays an important role in music and language perception.

Predicting the distribution of ground fissures and water-conducted fissures induced by coal mining: a case study.

INTRODUCTION: The use of Top Coal Caving for exploiting the thick coal seam with shallow buried depth most likely has a strong negative impact on the stability. CASE DESCRIPTION: Anjialing No. 1 Underground Mine is located in Shuozhou City, Shanxi Province of China. The 4# Coal Seam of this coal mine is the thick coal seam with shallow buried depth, which has the thickness of 12 m and the depth of 180 m in average. This paper focuses on predicting the distribution of ground fissures and water-conducted fissures induced by the exploiting of the 4# Coal Seam. DISCUSSION AND EVALUATION: We first create a 3D computational model, and then use FLAC[Formula: see text] software to simulate the mining of coal seam. We then calculate the displacements and tensile strain of the ground surface and strata, and predict the distribution of the ground fissures and water-conducted fissures. Finally, we further analyze the possibility of the perviousness and air leakage of the coal mine on the basis of the predicted distribution of fissures. CONCLUSIONS: The prediction results indicate that: (1) the water-conducted fissures are strongly developed and go through the Neogene aquifuge in some region; thus, it may lead to potential perviousness of coal mine; (2) part of these water-conducted fissures connect with the ground fissures; and this behavior may cause the risk of air leakage.