Comprehensive identification and characterization of lncRNAs and circRNAs reveal potential brown planthopper-responsive ceRNA networks in rice

Brown planthopper (Nilaparvata lugens Stål, BPH) is one of the most destructive pests of rice. Non-coding RNA plays an important regulatory role in various biological processes. However, comprehensive identification and characterization of long non-coding RNAs (lncRNAs) and circular RNAs (circRNAs) in BPH-infested rice have not been performed. Here, we performed a genome-wide analysis of lncRNAs and circRNAs in BPH6-transgenic (resistant, BPH6G) and Nipponbare (susceptible, NIP) rice plants before and after BPH feeding (early and late stage) via deep RNA-sequencing. A total of 310 lncRNAs and 129 circRNAs were found to be differentially expressed. To reveal the different responses of resistant and susceptible rice to BPH herbivory, the potential functions of these lncRNAs and circRNAs as competitive endogenous RNAs (ceRNAs) were predicted and investigated using Gene Ontology and Kyoto Encyclopedia of Genes and Genomes analyses. Dual-luciferase reporter assays revealed that miR1846c and miR530 were targeted by the lncRNAs XLOC_042442 and XLOC_028297, respectively. In responsive to BPH infestation, 39 lncRNAs and 21 circRNAs were predicted to combine with 133 common miRNAs and compete for miRNA binding sites with 834 mRNAs. These mRNAs predictably participated in cell wall organization or biogenesis, developmental growth, single-organism cellular process, and the response to stress. This study comprehensively identified and characterized lncRNAs and circRNAs, and integrated their potential ceRNA functions, to reveal the rice BPH-resistance network. These results lay a foundation for further study on the functions of lncRNAs and circRNAs in the rice-BPH interaction, and enriched our understanding of the BPH-resistance response in rice

Integrated transcriptomics and metabolomics analysis provide insight into the resistance response of rice against brown planthopper

IntroductionThe brown planthopper (Nilaparvata lugens Stål, BPH) is one of the most economically significant pests of rice. The Bph30 gene has been successfully cloned and conferred rice with broad-spectrum resistance to BPH. However, the molecular mechanisms by which Bph30 enhances resistance to BPH remain poorly understood.MethodsHere, we conducted a transcriptomic and metabolomic analysis of Bph30-transgenic (BPH30T) and BPH-susceptible Nipponbare plants to elucidate the response of Bph30 to BPH infestation.ResultsTranscriptomic analyses revealed that the pathway of plant hormone signal transduction enriched exclusively in Nipponbare, and the greatest number of differentially expressed genes (DEGs) were involved in indole 3-acetic acid (IAA) signal transduction. Analysis of differentially accumulated metabolites (DAMs) revealed that DAMs involved in the amino acids and derivatives category were down-regulated in BPH30T plants following BPH feeding, and the great majority of DAMs in flavonoids category displayed the trend of increasing in BPH30T plants; the opposite pattern was observed in Nipponbare plants. Combined transcriptomics and metabolomics analysis revealed that the pathways of amino acids biosynthesis, plant hormone signal transduction, phenylpropanoid biosynthesis and flavonoid biosynthesis were enriched. The content of IAA significantly decreased in BPH30T plants following BPH feeding, and the content of IAA remained unchanged in Nipponbare. The exogenous application of IAA weakened the BPH resistance conferred by Bph30.DiscussionOur results indicated that Bph30 might coordinate the movement of primary and secondary metabolites and hormones in plants via the shikimate pathway to enhance the resistance of rice to BPH. Our results have important reference significance for the resistance mechanisms analysis and the efficient utilization of major BPH-resistance genes

Single-Cell RNA sequencing of leaf sheath cells reveals the mechanism of rice resistance to brown planthopper (Nilaparvata lugens)

The brown planthopper (BPH) (Nilaparvata lugens) sucks rice sap causing leaves to turn yellow and wither, often leading to reduced or zero yields. Rice co-evolved to resist damage by BPH. However, the molecular mechanisms, including the cells and tissues, involved in the resistance are still rarely reported. Single-cell sequencing technology allows us to analyze different cell types involved in BPH resistance. Here, using single-cell sequencing technology, we compared the response offered by the leaf sheaths of the susceptible (TN1) and resistant (YHY15) rice varieties to BPH (48 hours after infestation). We found that the 14,699 and 16,237 cells (identified via transcriptomics) in TN1 and YHY15 could be annotated using cell-specific marker genes into nine cell-type clusters. The two rice varieties showed significant differences in cell types (such as mestome sheath cells, guard cells, mesophyll cells, xylem cells, bulliform cells, and phloem cells) in the rice resistance mechanism to BPH. Further analysis revealed that although mesophyll, xylem, and phloem cells are involved in the BPH resistance response, the molecular mechanism used by each cell type is different. Mesophyll cell may regulate the expression of genes related to vanillin, capsaicin, and ROS production, phloem cell may regulate the cell wall extension related genes, and xylem cell may be involved in BPH resistance response by controlling the expression of chitin and pectin related genes. Thus, rice resistance to BPH is a complicated process involving multiple insect resistance factors. The results presented here will significantly promote the investigation of the molecular mechanisms underlying the resistance of rice to insects and accelerate the breeding of insect-resistant rice varieties

Application and Development of Bt Insect Resistance Genes in Rice Breeding

As pests are an important factor in reducing crop yields, pest control is an important measure in preventing reductions in crop yields. With the aim of ending the use of chemical pesticides, biological control and genetically modified methods are now considered more reasonable pest control strategies. The bacterium Bacillus thuringiensis (Bt) can produce crystal proteins that have specific toxicity to lepidopteran insects, and so it has been applied as a microbial insecticide in the control of crop pests for several decades. With the development of plant genetic engineering, Bt genes encoding insecticidal crystal protein have been introduced into many crop species for pest control. This article indicates that, after years of experiments and research, Bt transgenic rice is close to becoming a commercial insect-resistant rice, and many studies have shown that transgenic rice has pronounced abilities in the control of pests such as yellow stem borers (Scirpophaga incertulas, YSB), striped stem borers (Chilo suppressalis, SSB), and rice leaf rollers (Cnaphalocrocis medinalis, RLR); moreover, it does not obviously differ from non-transgenic rice in terms of safety. This paper suggests that transgenic Bt rice has application potential and commercial value

Multicell multiuser massive MIMO channel estimation and MPSK signal block detection applying two-dimensional compressed sensing

Abstract For the uplink multicell massive multiple-input multiple-output (MIMO) block fading systems, a two-dimensional smoothed l 0 channel estimation method (2D-SL0-CE) with the aid of virtual channel representation is firstly exploited in this paper, which can jointly estimate the desired multiuser channels of the target cell and the interference links from neighbor cells without inducing pilot contamination. Then, a 2D-SL0 signal detection method (2D-SL0-SD) with the aid of sparse decomposing and the modified 2D s l 0 recovery algorithm is proposed, which can jointly decode M-ary phase-shift keying (MPSK) signal block for whole desired users. Moreover, an improved 2D-SL0-SD is also proposed to remove multiuser interference of neighbor cells in high SNR scenario. Simulation results show that the 2D-SL0-CE method can remove performance floor induced by pilot contamination and need less pilot overhead than the conventional least square (LS) method. When detecting QPSK signal blocks at 12 dB SNR, the 2D-SL0-SD method with perfect channel state information (CSI) can obtain 10−2 BER. Moreover, in the case of 8PSK signals, the 2D-SL0-SD joining with the 2D-SL0-CE can obtain 10−2 BER at 20 dB SNR

Characteristics of High Quality Rice Xiang 5 and the Supporting Cultivation Techniques

The high quality rice, Xiang 5, is a new strain bred by Institute of Food Crops of Hubei Academy of Agricultural Sciences which first hybridizes Chinese scented rice with 9311, and then re-crosses it with Ezhong 5 for continuous generations. The strain has good quality, high yield, suitable maturity period, strong scent, strong combining ability and other features. This paper summarizes the appearance characteristics of Xiang 5 and main points of the supporting cultivation techniques, aimed at providing technical support and theoretical reference for its field production

Use Efficiency of Rice Nutrient in the Marginal Areas of Jianghan Plain

By the field experiment, we research the rice nutrient use efficiency. And the results show that the formulated fertilization can improve the fertilizer nutrient use rate, and N, P2O5, and K2O are improved by 121%, 38%, and 64%, respectively; soil nitrogen level and application rate of nitrogen are the key factors affecting the rice yield

A Systematic Bibliometric Review of Low Impact Development Research Articles

The concept of low impact development (LID) plays a crucial role in rainstorm management and non-point source pollution prevention and control. Sorting and summarizing related research through the knowledge map can objectively present the disciplinary structure, research focus, and research hotspots of the LID research. Based on 2103 LID pieces of literature in Chinese and English included in the web of science (WOS) database and China’s integrated knowledge resources system (CNKI) database from 2004 to 2021, this paper aims to perform statistical analysis from three aspects: bibliometrics, keyword hotspot co-occurrence and clustering, and literature co-citation clustering. The obtained results reveal that research on LID-based issues maintains a high degree of enthusiasm in China and abroad, but their corresponding focuses are dissimilar. Foreign research essentially focuses on the environmental field with frequent interdisciplinary phenomena, combining the triple goals of water quality improvement, runoff reduction, and multi-functional expansion, and is committed to solving the impact of uncertain factors on urban stormwater management in extreme climates. Chinese research is mostly aimed at unlocking practical engineering problems, which also leads to the majority of research works in the field of building science and engineering. This is mainly due to a series of water-related problems caused by the change in land use types in China. The researchers have determined the type, quantity, location, and combination of the optimal LID measures by establishing appropriate models, using optimization algorithms, and developing multi-level analysis methods. Although the multi-dimensional results of LID in recent years have greatly expanded the framework paradigm, most of the conducted research works are still biased towards the micro-scale. The present hotspot research considers how to make a macroscopic overall layout and efficiently cooperate with the pipelines network, rivers, and lakes systems to unlock the problems pertinent to urban rainwater and non-point source pollution

Overexpression of OsRRK1 Changes Leaf Morphology and Defense to Insect in Rice

It has been reported that the receptor-like cytoplasmic kinases (RLCKs) regulate many biological processes in plants, but only a few members have been functionally characterized. Here, we isolated a rice gene encoding AtRRK1 homology protein kinase, OsRRK1, which belongs to the RLCK VI subfamily. OsRRK1 transcript accumulated in many tissues at low to moderate levels and at high levels in leaves. Overexpression of OsRRK1 (OE-OsRRK1) caused adaxial rolling and erect morphology of rice leaves. In the rolled leaves of OE-OsRRK1 plants, both the number and the size of the bulliform cells are decreased compared to the wild-type (WT) plants. Moreover, the height, tiller number, and seed setting rate were reduced in OE-OsRRK1 plants. In addition, the brown planthopper (BPH), a devastating pest of rice, preferred to settle on WT plants than on the OE-OsRRK1 plants in a two-host choice test, indicating that OE-OsRRK1 conferred an antixenosis resistance to BPH. The analysis of transcriptome sequencing demonstrated that several receptor kinases and transcription factors were differentially expressed in OE-OsRRK1 plants and WT plants. These results indicated that OsRRK1 may play multiple roles in the development and defense of rice, which may facilitate the breeding of novel rice varieties