Using RNA-seq to Profile Gene Expression of Spikelet Development in Response to Temperature and Nitrogen during Meiosis in Rice (Oryza sativa L.)

Increased panicle nitrogen application improves rice yield by alleviating high-temperature damage during panicle initiation to anther development

The grain yield is closely associated with spikelet fertility in rice (Oryza sativa L.) under high temperatures, and nitrogen (N) plays a crucial role in yield formation. To investigate the effect of panicle N application on yield formation under high temperatures at the panicle initiation stage, two rice varieties [Liangyoupeijiu (LYPJ, heat susceptible) and Shanyou63 (SY63, heat tolerant)] were grown and exposed to high daytime temperature (HT) and control temperature (Control) during the panicle initiation stage. Low (LPN) and high (HPN) panicle N applications were conducted. HT markedly decreased the yields by 87% at LPN and 48% at HPN in LYPJ and 31% at LPN and 36% at HPN in SY63. The decrease in grain yield under HT was primarily attributed to the decline in spikelet fertility, HPN increased spikelet fertility. HT resulted in the abnormal development of anthers, which included disordered, enlarged, and broken anther wall layers, degraded and irregularly shaped microspores, delayed tapetum degradation, less vacuolated microspores per locule, abnormal and aborted pollen grains; however, HPN improved the development of anthers under HT, particularly in LYPJ. A high rate of evapotranspiration resulted in an approximately 1°C decrease in panicle temperatures at HPN compared with that at LPN in both varieties under HT. Overall, these results demonstrate that the increased panicle N application favors normal anther development in LYPJ by decreasing the panicle temperature, which results in high pollen viability and spikelet fertility, and consequently less yield loss under HT.

Differentially expressed platelet activation-related genes in dogs with stage B2 myxomatous mitral valve disease

BACKGROUND

Peripheral blood carries a reservoir of mRNAs that regulate cardiac structure and function potential. Although it is well recognized that the typical symptoms of Myxomatous Mitral Valve Disease (MMVD) stage B2 are long-standing hemodynamic disorder and cardiac structure remodeling caused by mitral regurgitation, the transcriptomic alterations in blood from such dogs are not understood.

RESULTS

In the present study, comparative high-throughput transcriptomic profiling of blood was performed from normal control (NC) and naturally-occurring MMVD stage B2 (MMVD) dogs. Using Weighted Gene Co-expression Network Analyses (WGCNA), Gene Ontology (GO), and Kyoto Encyclopedia of Gene and Genomes (KEGG), we identified that the turquoise module was the most highly correlated with echocardiographic features and found 64 differentially expressed genes (DEGs) that were significantly enriched in platelet activation related pathways. Therefore, from the turquoise module, we selected five DEGs (MDM2, ROCK1, RIPK1, SNAP23, and ARHGAP35) that, according to real-time qPCR, exhibited significant enrichment in platelet activation related pathways for validation. The results showed that the blood transcriptional abundance of MDM2, ROCK1, RIPK1, and SNAP23 differed significantly (P < 0.01) between NC and MMVD dogs. On the other hand, Correlation Analysis revealed that MDM2, ROCK1, RIPK1, and SNAP23 genes negatively regulated the heart structure parameters, and followed the same trend as observed in WGCNA.

CONCLUSION

We screened four platelet activation related genes, MDM2, ROCK1, RIPK1, and SNAP23, which may be considered as the candidate biomarkers for the diagnosis of MMVD stage B2. These findings provided new insights into MMVD pathogenesis.

Transcriptome analysis of sugar and acid metabolism in young tomato fruits under high temperature and nitrogen fertilizer influence

Introduction

Environmental temperature and nitrogen (N) fertilizer are two important factors affecting the sugar and organic acid content of tomato fruit. N is an essential nutrient element for plant growth and development, and plays a key role in regulating plant growth, fruit quality and stress response. However, the comparative effect of different N fertilizer levels on the accumulation of soluble sugar and organic acid in tomato young fruit under high temperature stress and its mechanism are still unknown.

Methods

Three N fertilizer levels (N1, N2, N3) combined with two temperatures (28/18°C, CK; 35/25°C, HT) were used to study the effects of N fertilizer, HT and their interaction on the soluble sugar and organic acid components, content, metabolic enzyme activity and the expression level of key genes in tomato young fruit, revealing how N fertilizer affects the sugar and organic acid metabolism of tomato young fruit under HT at physiological and molecular levels.

Results

The content of soluble sugar and organic acid in tomato young fruit under HT exposure was increased by appropriate N fertilizer (N1) treatment, which was due to the accumulation of glucose, fructose, citric acid and malic acid. High N (N3) and HT exposure had a negative impact on soluble sugar and reduce sugar accumulation. Further studies showed that due to the up-regulation of the expression of sucrose metabolizing enzyme genes (CWINV2, HK2, SPS, PK) and sucrose transporter (SUT1, SUT4, SWEETs) in tomato, N fertilizer increased the accumulation of soluble sugar by improving the sucrose metabolism, absorption intensity and sucrose transport of fruit under HT exposure. Due to the increase of PEPC gene expression, N fertilizer increased the accumulation of citric acid and malic acid by improving the TCA cycle of fruit under HT exposure.

Discussion

Nitrogen fertilizer can improve the heat tolerance of tomato young fruits by improving sugar metabolism under HT exposure. The results can provide theoretical support for the correct application of N fertilizer to improve the quality of tomato fruit under HT exposure.

Long-Term Mild Heat Causes Post-Mitotic Pollen Abortion Through a Local Effect on Flowers

Crop reproductive success is significantly challenged by heatwaves, which are increasing in frequency and severity globally. Heat-induced male sterility is mainly due to aborted pollen development, but it is not clear whether this is through direct or systemic effects. Here, long-term mild heat (LTMH) treatment, mimicking a heatwave, was applied locally to tomato flowers or whole plants and followed up by cytological, transcriptomic, and biochemical analyses. By analyzing pollen viability, LTMH was shown to act directly on the flowers and not via effects on other plant tissue. The meiosis to early microspore stage of pollen development was the most sensitive to LTMH and 3 days of exposure around this period was sufficient to significantly reduce pollen viability at the flower anthesis stage. Extensive cytological analysis showed that abnormalities in pollen development could first be observed after pollen mitosis I, while no deviations in tapetum development were observed. Transcriptomic and biochemical analyses suggested that pollen development suffered from tapetal ER stress and that there was a limited role for oxidative stress. Our results provide the first evidence that heat acts directly on flowers to induce pollen sterility, and that the molecular-physiological responses of developing anthers to the LTMH are different from those to severe heat shock.

Transcriptomics-Based Study of Differentially Expressed Genes Related to Fat Deposition in Tibetan and Yorkshire Pigs

Fat deposition traits are one of the key factors in pig production and breeding. The fat deposition capacity of pigs mainly affects the quality of pork and pig productivity. The aim of this study was to analyze the differential expression of mRNA levels in dorsal adipose tissue of Tibetan and York pigs at different growth stages using transcriptomic data to estimate key genes that regulate fat deposition in pigs. The results showed that a total of 32,747 positively expressed genes were present in the dorsal adipose tissue of the two breeds. Differentially expressed gene (DEG) screening of multiple combinations between the two breeds yielded 324 DEGS. Gene ontology (GO) biofunctional enrichment and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses showed that these DEGS were mainly involved in lipid metabolic pathways, steroid biosynthetic pathways and lipid biosynthetic processes, sterol biosynthetic processes, brown adipocyte differentiation, and other pathways related to lipid deposition and metabolism. The results showed that ACACA, SLC2A4 and THRSP genes positively regulated the lipid deposition ability and CHPT1 gene negatively regulated the lipid deposition ability in pigs. The results of this experiment suggest a theoretical basis for further studies on the regulatory mechanisms of fat deposition in pigs.

Recent advances in constructing artificial microbial consortia for the production of medium-chain-length polyhydroxyalkanoates

Polyhydroxyalkanoates (PHAs) are a class of high-molecular-weight polyesters made from hydroxy fatty acid monomers. PHAs produced by microorganisms have diverse structures, variable physical properties, and good biodegradability. They exhibit similar physical properties to petroleum-based plastics but are much more environmentally friendly. Medium-chain-length polyhydroxyalkanoates (mcl-PHAs), in particular, have attracted much interest because of their low crystallinity, low glass transition temperature, low tensile strength, high elongation at break, and customizable structure. Nevertheless, high production costs have hindered their practical application. The use of genetically modified organisms can reduce production costs by expanding the scope of substrate utilization, improving the conversion efficiency of substrate to product, and increasing the yield of mcl-PHAs. The yield of mcl-PHAs produced by a pure culture of an engineered microorganism was not high enough because of the limitations of the metabolic capacity of a single microorganism. The construction of artificial microbial consortia and the optimization of microbial co-cultivation have been studied. This type of approach avoids the addition of precursor substances and helps synthesize mcl-PHAs more efficiently. In this paper, we reviewed the design and construction principles and optimized control strategies for artificial microbial consortia that produce mcl-PHAs. We described the metabolic advantages of co-cultivating artificial microbial consortia using low-value substrates and discussed future perspectives on the production of mcl-PHAs using artificial microbial consortia.

Rice starch accumulation at different endosperm regions and physical properties under nitrogen treatment at panicle initiation stage

The quality of rice grain is characterized by the component, structure and physicochemical properties of starch accumulated in endosperm cell. Nitrogen uptake strongly affects rice growth and starch development. In this study, Nangeng 9108 was used to investigated the accumulation of starch in different positions of the endosperm and physical properties of starch under nitrogen treatment of panicle initiation (PI) stage. Compared with the control group (CG), nitrogen treatment group (NTG) featured a higher number of grains per panicle and 1000-grain weight. Nitrogen treatment significantly increased starch accumulation among different regions during endosperm development, which was expressed as central endosperm cells > sub-aleurone cells of abdominal endosperm > sub-aleurone cells of dorsal endosperm. The amyloplast increased by constricting and budding-type division, generated a bead-like structure and derived some vesicles. The particle size of the starch granules obtained from the NTG was smaller and the apparent amylose content was lower than those of the CG, resulting in higher relative crystallinity. Nitrogen treatment promoted double helical components and provided a higher degree of order at short-rang scale for the starch granules. This study indicated that nitrogen significantly affected the accumulation and physicochemical properties of starch in the endosperm.

Signal transduction networks during stress combination

Episodes of heat waves combined with drought can have a devastating impact on agricultural production worldwide. These conditions, as well as many other types of stress combinations, impose unique physiological and developmental demands on plants and require the activation of dedicated pathways. Here, we review recent RNA sequencing studies of stress combination in plants, and conduct a meta-analysis of the transcriptome response of plants to different types of stress combination. Our analysis reveals that each different stress combination is accompanied by its own set of stress combination-specific transcripts, and that the response of different transcription factor families is unique to each stress combination. The alarming rate of increase in global temperatures, coupled with the predicted increase in future episodes of extreme weather, highlight an urgent need to develop crop plants with enhanced tolerance to stress combination. The uniqueness and complexity of the physiological and molecular response of plants to each different stress combination, highlighted here, demonstrate the daunting challenge we face in accomplishing this goal. Dedicated efforts combining field experimentation, omics, and network analyses, coupled with advanced phenotyping and breeding methods, will be needed to address specific crops and particular stress combinations relevant to maintaining our future food chain secured.