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| 1 | A deep learning-integrated micro-CT image analysis pipeline for quantifying rice lodging resistance-related traits显示文摘Lodging is a common problemin rice,reducing its yield andmechanical harvesting efficiency.Rice architecture is a key aspect of its domestication and a major factor that limits its high productivity.The ideal rice culm structure,includingmajor_axis_culm,minor axis_culm,andwall thickness_culm,is critical for improving lodging resistance.However,the traditionalmethod ofmeasuring rice culms is destructive,time consuming,and labor intensive.In this study,we used a high-throughput micro-CT-RGB imaging system and deep learning(SegNet)todevelopa high-throughputmicro-CTimageanalysis pipelinethatcanextract 24 riceculmmorphological traits and lodging resistance-related traits.When manual and automatic measurements were compared at themature stage,the mean absolute percentage errors for major_axis_culm,minor_axis_culm,andwall_thickness_culmin 104 indica rice accessionswere 6.03%,5.60%,and 9.85%,respectively,and the R^(2) valueswere 0.799,0.818,and 0.623.We also builtmodels of bending stress using culmtraits at the mature and tillering stages,and the R^(2) values were 0.722 and 0.544,respectively.The modeling results indicated that this method can quantify lodging resistance nondestructively,even at an early growth stage.In addition,we also evaluated the relationships of bending stress toshoot dryweight,culm density,and drought-related traits and found that plants with greater resistance to bending stress had slightly higher biomass,culm density,and culm area but poorer drought resistance.In conclusion,we developed a deep learning-integrated micro-CT image analysis pipeline to accurately quantify the phenotypic traits of rice culms in4.6 min per plant;this pipeline will assist in future high-throughput screening of large rice populations for lodging resistance. | Di Wu Dan Wu Hui Feng Lingfeng Duan Guoxing Dai Xiao Liu Kang Wang Peng Yang Guoxing Chen Alan P.Gay John H.Doonan Zhiyou Niu Lizhong Xiong Wanneng Yang | 2021 | Plant Communications2021，2，2： | 7 |
| 2 | How does contemporary climate versus climate change velocity affect endemic plant species richness in China?显示文摘Climate change is considered a top threat to biodiversity, but the relative roles of contemporary climate versus the rate of climate change in determining spatial patterns of biodiversity are far from clear. China has a very diverse flora and harbors a high percentage of endemic species, but the mechanisms underlying spatial patterns of plant endemism are poorly understood. This study explores the geographical patterns of a representative sample of 555 endemic seed plant species at the scale of 0.5° latitude 9 0.5° longitude. Ordinary least squares and spatial autoregressive models were compared to assess the relationship between richness of endemics and the rate of climate change in the past century, as well as a group of contemporary climate variables. In China, a high level of endemism was associated with high elevation and low rate of climate change. However, contemporary climate had a stronger impact than climate change velocity in the past century on endemic species richness patterns. Specifically,mean annual precipitation and annual range of temperature were important contemporary climatic factors. The rate of change of annual mean temperature, but not that of annual precipitation, also significantly contributed to the spatial pattern of plant endemic species richness. We found no significant relationship between topographic variation and endemic species richness, while temperature variability at multiple time scales was strongly correlated with the species richness pattern. Future work should consider the direction of climate change and incorporate higher-resolution data. | Chunjing Qiu Zehao Shen Peihao Peng Lingfeng Mao Xinshi Zhang | 2014 | Chinese Science Bulletin2014，59，34： | 4 |
| 3 | The Genomes of the Allohexaploid Echinochloa crus-galli and Its Progenitors Provide Insights into Polyploidization-Driven Adaptation显示文摘The hexaploid species Echinochloa crus-galli is one of the most detrimental weeds in crop fields,especially in rice paddies.Its evolutionary history is similar to that of bread wheat,arising through polyploidization after hybridization between a tetraploid and a diploid species.In this study,we generated and analyzed high-quality genome sequences of diploid(E.haploclada),tetraploid(E.oryzicola),and hexaploid(E.crus-galli)Echinochloa species.Gene family analysis showed a significant loss of disease-resistance genes such as those encoding NB-ARC domain-containing proteins during Echinochloa polyploidization,contrary to their significant expansionduring wheat polyploidization,suggesting that natural selection might favor reduced investment in resistance in this weed to maximize its growth and reproduction.In contrast to the asymmetric patterns of genome evolution observed in wheat and other crops,no significant differences in selection pressure were detected between the subgenomes in E.oryzicola and E.crus-galli.In addition,distinctive differences in subgenome transcriptome dynamics during hexaploidization were observed between E.crus-galli and bread wheat.Collectively,our study documents genomic mechanisms underlying the adaptation of a major agricultural weed during polyploidization.The genomic and transcriptomic resources of three Echinochloa species and new insights into the polyploidization-driven adaptive evolution would be useful for future breeding cereal crops. | Chu-Yu Ye Dongya Wu Lingfeng Mao Lei Jia Jie Qiu Sangting Lao Meihong Chen Bowen Jiang Wei Tang Qiong Peng Lang Pan Lifeng Wang Xiaoxiao Feng Longbiao Guo Chulong Zhang Elizabeth A.Kellogg Kenneth M.Olsen Lianyang Bai Longjiang Fan | 2020 | Molecular Plant2020，13，9： | 4 |
| 4 | Synthesis and Characterization of Substitutional and Interstitial Nitrogen - doped Titanium Dioxides with Visible Light Photocata- lytic Activity 显示文摘 | Peng Feng Cai LingFeng Yu Hao | 2008 | Journal of Solid State Chemistry2008，181，1： | 1 |
| 5 | Preparation of nitrogen-doped titanium dioxide with visiblelight photocatalytic activity using a facile hydrothermal method显示文摘 | PENG Feng CAI Lingfeng HUANG Lei | 2008 | Journal of Physics and Chemistry of Solids2008，69，7： | 1 |
| 6 | Synthesis and character- ization of substitutional and interstitial nitrogen-doped titanium dioxides with visible light photocatalytic activity显示文摘 | Feng Peng Lingfeng Cat Hao Yu | 2008 | Journal of Solid State Chemistry2008，181，： | 1 |
| 7 | Preparation of nitrogen-doped titanium dioxide with visible-light photocatalytic activity using a facile hydrothermal method显示文摘 | PENG Feng CAI Lingfeng HUANG Lei | 2007 | Journal of Physics and Chemistry of Solids2007，69，7： | 1 |
| 8 | Determination of perchlorate and its distribution in unhusked rice in China显示文摘Perchlorate concentrations in 387 unhusked rice samples from 15 main producing provinces/municipality in China were investigated by high-performance liquid chromatography-tanden mass spectrometry.The results indicated that perchlorate displays a mean level of 17.17μg/kg in un-husked rice samples.Intriguingly,we also found that perchlorate is mainly observed in rice husk among these collected unhusked rice samples,while less observed in rice bran and milled rice.Specifically,the perchlorate levels in rice were found in the husks(73.61%),bran(10.09%),and milled rice(19.52%),respectively.Our results indicated that there is no significantly perchlorate exposure risk in edible milled rice. | Changxin Shen Lian Liu Xiaoyao Yin Fengqin Tu Kejia Wu Qian Wu Lingfeng Peng Min Fang Yongning Wu Zhiyong Gong | 2022 | Food Quality and Safety2022，6，2： | 0 |
| 9 | Using naturalistic driving data to identify driving style based on longitudinal driving operation conditions显示文摘Purpose–An individual’s driving style significantly affects overall traffic safety.However,driving style is difficult to identify due to temporal and spatial differences and scene heterogeneity of driving behavior data.As such,the study of real-time driving-style identification methods is of great significance for formulating personalized driving strategies,improving traffic safety and reducing fuel consumption.This study aims to establish a driving style recognition framework based on longitudinal driving operation conditions(DOCs)using a machine learning model and natural driving data collected by a vehicle equipped with an advanced driving assistance system(ADAS).Design/methodology/approach–Specifically,a driving style recognition framework based on longitudinal DOCs was established.To train the model,a real-world driving experiment was conducted.First,the driving styles of 44 drivers were preliminarily identified through natural driving data and video data;drivers were categorized through a subjective evaluation as conservative,moderate or aggressive.Then,based on the ADAS driving data,a criterion for extracting longitudinal DOCs was developed.Third,taking the ADAS data from 47 Kms of the two test expressways as the research object,six DOCs were calibrated and the characteristic data sets of the different DOCs were extracted and constructed.Finally,four machine learning classification(MLC)models were used to classify and predict driving style based on the natural driving data.Findings–The results showed that six longitudinal DOCs were calibrated according to the proposed calibration criterion.Cautious drivers undertook the largest proportion of the free cruise condition(FCC),while aggressive drivers primarily undertook the FCC,following steady condition and relative approximation condition.Compared with cautious and moderate drivers,aggressive drivers adopted a smaller time headway(THW)and distance headway(DHW).THW,time-to-collision(TTC)and DHW showed highly significant differences in driving style identification,while longitudinal acceleration(LA)showed no significant difference in driving style identification.Speed and TTC showed no significant difference between moderate and aggressive drivers.In consideration of the cross-validation results and model prediction results,the overall hierarchical prediction performance ranking of the four studied machine learning models under the current sample data set was extreme gradient boosting>multi-layer perceptron>logistic regression>support vector machine.Originality/value–The contribution of this research is to propose a criterion and solution for using longitudinal driving behavior data to label longitudinal DOCs and rapidly identify driving styles based on those DOCs and MLC models.This study provides a reference for real-time online driving style identification in vehicles equipped with onboard data acquisition equipment,such as ADAS. | Nengchao Lyu Yugang Wang Chaozhong Wu Lingfeng Peng Alieu Freddie Thomas | 2022 | Journal of Intelligent and Connected Vehicles2022，5，1： | 0 |
| 10 | Deciphering the evolution and complexity of wheat germplasm from a genomic perspective显示文摘Bread wheat provides an essential fraction of the daily calorific intake for humanity.Due to its huge and complex genome,progress in studying on the wheat genome is substantially trailed behind those of the other two major crops,rice and maize,for at least a decade.With rapid advances in genome assembling and reduced cost of high-throughput sequencing,emerging de novo genome assemblies of wheat and whole-genome sequencing data are leading to a paradigm shift in wheat research.Here,we review recent progress in dissecting the complex genome and germplasm evolution of wheat since the release of the first high-quality wheat genome.New insights have been gained in the evolution of wheat germplasm during domestication and modern breeding progress,genomic variations at multiple scales contributing to the diversity of wheat germplasm,and complex transcriptional and epigenetic regulations of functional genes in polyploid wheat.Genomics databases and bioinformatics tools meeting the urgent needs of wheat ge-nomics research are also summarized.The ever-increasing omics data,along with advanced tools and well-structured databases,are expected to accelerate deciphering the germplasm and gene resources in wheat for future breeding advances. | Zihao Wang Lingfeng Miao Yongming Chen Huiru Peng Zhongfu Ni Qixin Sun Weilong Guo | 2023 | Journal of Genetics and Genomics2023，50，11： | 0 |
| 11 | Morphological, phenological, and transcriptional analyses provide in sight into the diverse flowering traits of a mutant of the relic woody plant Liriodendron chinense显示文摘Flowering is crucial to plant reproduction and controlled by multiple factors.However,the mechanisms underlying the regulation of flowering in perennial plants are still largely unknown.Here,we first report a super long blooming 1(slbl)mutant of the relict tree Liriodendron chinense possessing a prolonged blooming period of more than 5 months,in contrast to the 1 month blooming period in the wild type(WT).Phenotypic characterization showed that earlier maturation of lateral shoots was caused by accelerated axillary bud fate,leading to the phenotype of continuous flowering in slbl mutants.The transcriptional activity of genes related to hormone signaling(auxin,cytokinin,and strigolactone),nutrient availability,and oxidative stress relief further indicated active outgrowth of lateral buds in slbl mutants.Interestingly,we discovered a unique FT splicing variant with intron retention specific to slbl mutants,representing a potential causal mutation in the slbl mutants.Surprisingly,most slbl inbred offspring flowered precociously with shorter juvenility(~4 months)than that(usually 8-10 years)required in WT plants,indicating heritable variation underlying continuous flowering in slbl mutants.This study reports an example of a perennial tree mutant that flowers continuously,providing a rare resource for both breeding and genetic research. | Yu Sheng Zhaodong Hao Ye Peng Siqin Liu Lingfeng Hu Yongbao Shen Jisen Shi Jinhui Chen | 2021 | Horticulture Research2021，8，1： | 0 |
| 12 | Trophic gauntlet effects on fisheries recovery:a case study in Sansha Bay,China显示文摘Low biological productivity causes ecosystem energy deficiency.Sansha Bay is an important spawning and nursery ground for migratory fish in the East China Sea(ECS).There is significant mariculture in this area,but stock enhancement programs and seasonal fishery closures have failed to recover populations of the commercially important species,Larimichthys crocea.We want to figure out the potential reason of unsuccessful L.crocea resource in recent 30 years.In this study,the trophic status of L.crocea,the food source proportions of L.crocea and zooplankton,and the food web structure and functioning of Sansha Bay was analyzed.A high nutrient low chlorophyll phenomenon was observed:this prevented harmful algal blooms,and phytoplankton growth was restrained by intensive macroalgal culture,resulting in a low abundance of zooplankton in Sansha Bay.Phytoplankton was the most important food source of zooplankton,and zooplankton was the greatest food source of juvenile L.crocea.Analyzed L.crocea suffered from starvation.Crucially,most of the phytoplankton was not used efficiently in the Sansha Bay ecosystem.This study suggests that trophic bottleneck,caused by food limitation,is a potential reason for unsuccessful fishery recovery in enclosed bay with macroalgal culture. | Bin Xie Cheng Huang Ya Wang Xijie Zhou Guogan Peng Yancheng Tao Jiaju Huang Xiaoqing Lin Lingfeng Huang | 2021 | Ecosystem Health and Sustainability2021，7，1： | 0 |
| 13 | Countermeasures for China's Ecological Environment Construction in Land Reclamation显示文摘Basic situation of the current ecological environment construction in land consolidation and rehabilitation of China is introduced. The related advanced experience abroad is summarized from mainly four aspects, namely policy, system as well as subject development, planning guidance, design method of project planning and engineering study, and practical countermeasures to China's ecological environment construction in land reclamation are proposed. In terms of policy, system and subject, relevant regulations, policies and system construction should be strengthened and the framework of policy, system and subject development in ecological landscape construction of China's land reclamation should be proposed, integrating ecological environment construction into land reclamation. At the level of strategic planning, the spatial layout and construction key points of green infrastructure in land reclamation of 'urban multi-functional developing region, eastern economic developed region, central modern agricultural region and northwestern ecological fragile region' should be achieved. At the level of project planning design, ecological principles, sustainable landscape design principles and vernacular landscape design methods are to be integrated into the planning procedure to form operable technique regulations or introductions. At the level of engineering design, engineering technique system, standards and regulations of ditches, roads, forests and channels with local distinctions should be formulated according to the characters and strategic demands of urbanization, industrialization, agriculture modernization and ecological environment preservation in different regions. | Chen LI Xinfeng LIU Zhe PENG Tao SI Lingfeng KONG | 2013 | Asian Agricultural Research2013，5，2： | 0 |
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