Warm nights disrupt transcriptome rhythms in field-grown rice panicles

In rice, a small increase in nighttime temperature reduces grain yield and quality. How warm nighttime temperatures (WNT) produce these detrimental effects is not well understood, especially in field conditions where the typical day-to-night temperature fluctuation exceeds the mild increase in nighttime temperature. We observed genome-wide disruption of gene expression timing during the reproductive phase in field-grown rice panicles acclimated to 2 to 3 °C WNT. Transcripts previously identified as rhythmically expressed with a 24-h period and circadian-regulated transcripts were more sensitive to WNT than were nonrhythmic transcripts. The system-wide perturbations in transcript levels suggest that WNT disrupt the tight temporal coordination between internal molecular events and the environment, resulting in reduced productivity. We identified transcriptional regulators whose predicted targets are enriched for sensitivity to WNT. The affected transcripts and candidate regulators identified through our network analysis explain molecular mechanisms driving sensitivity to WNT and identify candidates that can be targeted to enhance tolerance to WNT.

The N-terminus of an Ustilaginoidea virens Ser-Thr-rich glycosylphosphatidylinositol-anchored protein elicits plant immunity as a MAMP

Many pathogens infect hosts through specific organs, such as Ustilaginoidea virens, which infects rice panicles. Here, we show that a microbe-associated molecular pattern (MAMP), Ser-Thr-rich Glycosyl-phosphatidyl-inositol-anchored protein (SGP1) from U. virens, induces immune responses in rice leaves but not panicles. SGP1 is widely distributed among fungi and acts as a proteinaceous, thermostable elicitor of BAK1-dependent defense responses in N. benthamiana. Plants specifically recognize a 22 amino acid peptide (SGP1 N terminus peptide 22, SNP22) in its N-terminus that induces cell death, oxidative burst, and defense-related gene expression. Exposure to SNP22 enhances rice immunity signaling and resistance to infection by multiple fungal and bacterial pathogens. Interestingly, while SGP1 can activate immune responses in leaves, SGP1 is required for U. virens infection of rice panicles in vivo, showing it contributes to the virulence of a panicle adapted pathogen.

Automated Counting Grains on the Rice Panicle Based on Deep Learning Method

Grain number per rice panicle, which directly determines grain yield, is an important agronomic trait for rice breeding and yield-related research. However, manually counting grains of rice per panicle is time-consuming, laborious, and error-prone. In this research, a grain detection model was proposed to automatically recognize and count grains on primary branches of a rice panicle. The model used image analysis based on deep learning convolutional neural network (CNN), by integrating the feature pyramid network (FPN) into the faster R-CNN network. The performance of the grain detection model was compared to that of the original faster R-CNN model and the SSD model, and it was found that the grain detection model was more reliable and accurate. The accuracy of the grain detection model was not affected by the lighting condition in which images of rice primary branches were taken. The model worked well for all rice branches with various numbers of grains. Through applying the grain detection model to images of fresh and dry branches, it was found that the model performance was not affected by the grain moisture conditions. The overall accuracy of the grain detection model was 99.4%. Results demonstrated that the model was accurate, reliable, and suitable for detecting grains of rice panicles with various conditions.

ASSESSMENT OF WORK POSTURES ON NON-MECHANICAL RICE HARVESTING (CASE STUDIES IN BANTUL AND SLEMAN DISTRICTS, DIY PROVINCE)

Rice harvesting is a high ergonomic risk due to the working position, an awkward posture, and the repetition activity. Rice harvesting causes body pain in the part of low back, hand, and wrist. This study aims to (1) identify the characteristics of non-mechanical rice harvesting; (2) determine the working posture of rice harvesters using the Ovako Working Assessment System (OWAS) method, Quick Exposure Checklist (QEC), Rapid Entire Body Assessment (REBA), Postural Ergonomics Risk Assessment (PERA); and (3) determine the best method to assess harvesters work posture. An observation was conducted to nine of healthy workers in Bantul and Sleman districts, Daerah Istimewa Yogyakarta (DIY) province. The questionnaire was set to collect respondent demographics data. Data for harvester body posture (neck, trunk, leg, wrist, lifting load, shoulder) repetition, duration and force were collected by observation in the field. A sickle was used to cut rice straw, while a manual gepyok and mobile hand thresher was used to threshing rice panicles. Four methods were applied to assess the work posture, i.e., OWAS, QEC, REBA, PERA methods. Based on observation, five workstations were identified: (1) cutting rice straw, (2) transporting rice straw, (3) threshing of panicles, (4) sorting, and (5) packaging and transporting. REBA and PERA showed a similar trend of the ergonomic risk, high to low risk took place in workstation transporting rice straw, packaging and transporting, cutting, and threshing. The assessment of work posture that is most suitable for non-mechanical harvesting methods was the REBA method with an accuracy of 92.9%.

Susceptibility of Rice to Oebalus pugnax (F.) (Hemiptera: Pentatomidae) Feeding at Different Levels of Grain Maturity and Impacts on Insecticide Termination

The stages of rice, Oryza sativa L. (Poales: Poaceae), grain maturity that are most susceptible to rice stink bug, Oebalus pugnax (F.), damage have been identified; however, the stage at which they are no longer capable of causing appreciable damage during grain maturity is unclear. The objective of this study was to determine the susceptibility of rice to rice stink bug feeding at different levels of grain maturity and determine an insecticide termination timing. Rice stink bug damage was examined using five levels of grain maturity described as percent of kernels reaching mature straw coloration referred to as hard dough (20, 40, 60, 80, and 100%) across a range of infestation levels using single panicle sleeve cages and large cages. Hybrid and conventional cultivar rice panicles at 20, 40, and 60% hard dough were found to be susceptible to indirect yield loss, as two rice stink bugs per panicle resulted in over 7% peck. In large cage trials, 25 rice stink bugs caused 0.7–1% peck to hybrid and conventional rice plots at 20% hard dough. Much less damage was observed once rice reached 60% hard dough, where peck averages only reached 0.4%. Decreased damage at 60% hard dough was validated using uncaged trials where 0.4% additional peck was observed in unsprayed plots. These data indicate that rice in the early stages of hard dough is susceptible to large levels of indirect yield loss, but unless significant densities of rice stink bug are present at 60% hard dough, no more sampling or applications are necessary.

Role of brassinosteroids in rice spikelet differentiation and degeneration under soil-drying during panicle development

Background Brassinosteroids (BRs) are a new group of plant hormones and play important roles in plant growth and development. However, little information is available if BRs could regulate spikelet development in rice (Oryza sativa L.) especially under soil-drying conditions. This study investigated whether and how BRs mediate the effect of soil-drying on spikelet differentiation and degeneration in rice. A rice cultivar was field-grown and exposed to three soil moisture treatments during panicle development, that is, well-watered (WW), moderate soil-drying (MD) and severe soil-drying (SD). Results Compared with the WW treatment, the MD treatment enhanced BRs biosynthesis in young panicles, increased spikelet differentiation and reduced spikelet degeneration. The SD treatment had the opposite effects. Changes in expression levels of key rice inflorescence development genes (OsAPO2 and OsTAW1), ascorbic acid (AsA) content, and activities of enzymes involved AsA synthesis and recycle, and amount of nonstructural carbohydrates (NSC) in young panicles were consistent with those in BRs levels, whereas hydrogen peroxide (H2O2) content showed opposite trend. Knockdown of the BRs synthesis gene OsD11 or application of a BRs biosynthesis inhibitor to young panicles markedly decreased OsAPO2 and OsTAW1 expression levels, BRs and AsA contents, activities of enzymes involved AsA synthesis and recycle, NSC amount in rice panicles and spikelet differentiation but increased the H2O2 content and spikelet degeneration compared to the control (the wide type or application of water). The opposite effects were observed when exogenous BRs were applied. Conclusions The results suggest that BRs mediate the effect of soil-drying on spikelet differentiation and degeneration, and elevated BRs levels in rice panicles promote spikelet development under MD by enhancing inflorescence meristem activity, AsA recycle and NSC partitioning to the growing panicles.

Determination of the most susceptible phenological stage of rice panicles to infection by species of Fusarium graminearum

ABSTRACT Occurrence of rice seeds infected by Fusarium graminearum has shown the importance of identifying the most favorable phenological stage of panicles to grain infection. The experiments were conducted in two crop seasons under greenhouse conditions, using the rice hybrid INOV CL. The phenological stages during inoculation were complete booting, full heading and flowering. All plots were inoculated using two isolates of Fusarium graminearium species complex 15A (F. graminearium - 15-ADON) and FmNiv (F. meridionale - Nivalenol). Disease severity was estimated at weekly intervals and was used to calculate the area under the disease progress curve (AUDPC), while panicles were collected to determine the percentage of spotted grains and Fusarium incidence. Percentage of spotted grains and incidence of F. graminearum and F. meridionale were greater when inoculation was made during flowering stage, significantly differing from heading and booting stages. Rice flowering stage is more susceptible to infection by F. graminearum and F. meridionale, inducing higher disease severity and incidence of spotted grains, as well as presence of fungi in the grains. Flowering was the most susceptible stage in the two crop seasons for both isolates, and the complete booting stage presented the lowest values of AUDPC.

Estimating Leaf Area Index with a New Vegetation Index Considering the Influence of Rice Panicles

The emergence of rice panicle substantially changes the spectral reflectance of rice canopy and, as a result, decreases the accuracy of leaf area index (LAI) that was derived from vegetation indices (VIs). From a four-year field experiment with using rice varieties, nitrogen (N) rates, and planting densities, the spectral reflectance characteristics of panicles and the changes in canopy reflectance after panicle removal were investigated. A rice “panicle line”—graphical relationship between red-edge and near-infrared bands was constructed by using the near-infrared and red-edge spectral reflectance of rice panicles. Subsequently, a panicle-adjusted renormalized difference vegetation index (PRDVI) that was based on the “panicle line” and the renormalized difference vegetation index (RDVI) was developed to reduce the effects of rice panicles and background. The results showed that the effects of rice panicles on canopy reflectance were concentrated in the visible region and the near-infrared region. The red band (670 nm) was the most affected by panicles, while the red-edge bands (720–740 nm) were less affected. In addition, a combination of near-infrared and red-edge bands was for the one that best predicted LAI, and the difference vegetation index (DI) (976, 733) performed the best, although it had relatively low estimation accuracy (R2 = 0.60, RMSE = 1.41 m2/m2). From these findings, correcting the near-infrared band in the RDVI by the panicle adjustment factor (θ) developed the PRDVI, which was obtained while using the “panicle line”, and the less-affected red-edge band replaced the red band. Verification data from an unmanned aerial vehicle (UAV) showed that the PRDVI could minimize the panicle and background influence and was more sensitive to LAI (R2 = 0.77; RMSE = 1.01 m2/m2) than other VIs during the post-heading stage. Moreover, of all the assessed VIs, the PRDVI yielded the highest R2 (0.71) over the entire growth period, with an RMSE of 1.31 (m2/m2). These results suggest that the PRDVI is an efficient and suitable LAI estimation index.