Since whole-genome sequencing of many crops has been achieved,crop functional genomics studies have stepped into the big-data and high-throughput era.However,acquisition of large-scale phenotypic data has become one o...Since whole-genome sequencing of many crops has been achieved,crop functional genomics studies have stepped into the big-data and high-throughput era.However,acquisition of large-scale phenotypic data has become one of the major bottlenecks hindering crop breeding and functional genomics studies.Nevertheless,recent technological advances provide us potential solutions to relieve this bottleneck and to explore advanced methods for large-scale phenotyping data acquisition and processing in the coming years.In this article,we review the major progress on high-throughput phenotyping in controlled environments and field conditions as well as its use for post-harvest yield and quality assessment in the past decades.We then discuss the latest multi-omics research combining high-throughput phenotyping with genetic studies.Finally,we propose some conceptual challenges and provide our perspectives on how to bridge the phenotype-genotype gap.It is no doubt that accurate high-throughput phenotyping will accelerate plant genetic improvements and promote the next green revolution in crop breeding.展开更多
随着泛在电力物联网(ubiquitous power internet of things,UPIoT)的建设,将有亿级海量终端设备接入系统,给基于传统中心化分布式网络结构的电力设备泛在物联网带来巨大的挑战。为此,首先分析了泛在电力物联网在网络结构、信息安全、隐...随着泛在电力物联网(ubiquitous power internet of things,UPIoT)的建设,将有亿级海量终端设备接入系统,给基于传统中心化分布式网络结构的电力设备泛在物联网带来巨大的挑战。为此,首先分析了泛在电力物联网在网络结构、信息安全、隐私保护、通信壁垒和多主体协同中存在的问题。然后利用区块链思维将区块链技术与物联网(internet of things,IoT)相结合,提出了基于区块链的电力设备泛在物联网建设方案,并重点阐述了在物联网区块链应用中的分区并行高通量联盟链、跨链通信、共识算法、智能合约、加密算法和数据压缩等关键技术。最后讨论了区块链与电力设备泛在物联网融合创新的发展趋势。区块链技术的发展势必深刻影响到社会的方方面面,论文的研究成果可为区块链在电力物联网的应用和实践提供参考。展开更多
The cultivation of Panax plants is hindered by replanting problems, which may be caused by plantdriven changes in the soil microbial community. Inoculation with microbial antagonists may efficiently alleviate replanti...The cultivation of Panax plants is hindered by replanting problems, which may be caused by plantdriven changes in the soil microbial community. Inoculation with microbial antagonists may efficiently alleviate replanting issues. Through high-throughput sequencing, this study revealed that bacterial diversity decreased,whereas fungal diversity increased, in the rhizosphere soils of adult ginseng plants at the root growth stage under different ages. Few microbial community, such as Luteolibacter, Cytophagaceae, Luteibacter, Sphingomonas,Sphingomonadaceae, and Zygomycota, were observed; the relative abundance of microorganisms, namely,Brevundimonas, Enterobacteriaceae, Pandoraea, Cantharellales, Dendryphion, Fusarium, and Chytridiomycota,increased in the soils of adult ginseng plants compared with those in the soils of 2-year-old seedlings. Bacillus subtilis 50-1, a microbial antagonist against the pathogenic Fusarium oxysporum, was isolated through a dual culture technique. These bacteria acted with a biocontrol efficacy of 67.8%. The ginseng death rate and Fusarium abundance decreased by 63.3% and 46.1%, respectively, after inoculation with B. subtilis 50-1. Data revealed that microecological degradation could result from ginseng-driven changes in rhizospheric microbial communities;these changes are associated with the different ages and developmental stages of ginseng plants. Biocontrol using microbial antagonists alleviated the replanting problem.展开更多
Brain and the gastrointestinal(GI)tract are intimately con-nected to form a bidirectional neurohumoral communica-tion system.The communication between gut and brain,knows as the gut-brain axis,is so well established t...Brain and the gastrointestinal(GI)tract are intimately con-nected to form a bidirectional neurohumoral communica-tion system.The communication between gut and brain,knows as the gut-brain axis,is so well established that the functional status of gut is always related to the condi-tion of brain.The researches on the gut-brain axis were traditionally focused on the psychological status affecting the function of the GI tract.However,recent evidences showed that gut microbiota communicates with the brain via the gut-brain axis to modulate brain development and behavioral phenotypes.These recent fi ndings on the new role of gut microbiota in the gut-brain axis implicate that gut microbiota could associate with brain functions as well as neurological diseases via the gut-brain axis.To elucidate the role of gut microbiota in the gut-brain axis,precise identification of the composition of microbes constituting gut microbiota is an essential step.However,identifi cation of microbes constituting gut microbiota has been the main technological challenge currently due to massive amount of intestinal microbes and the diffi culties in culture of gut microbes.Current methods for identifi ca-tion of microbes constituting gut microbiota are depend-ent on omics analysis methods by using advanced high tech equipment.Here,we review the association of gut microbiota with the gut-brain axis,including the pros and cons of the current high throughput methods for identi-fi cation of microbes constituting gut microbiota to eluci-date the role of gut microbiota in the gut-brain axis.展开更多
Advances in biological and medical technologies have been providing us explosive vol- umes of biological and physiological data, such as medical images, electroencephalography, geno- mic and protein sequences. Learnin...Advances in biological and medical technologies have been providing us explosive vol- umes of biological and physiological data, such as medical images, electroencephalography, geno- mic and protein sequences. Learning from these data facilitates the understanding of human health and disease. Developed from artificial neural networks, deep learning-based algorithms show great promise in extracting features and learning patterns from complex data. The aim of this paper is to provide an overview of deep learning techniques and some of the state-of-the-art applications in the biomedical field. We first introduce the development of artificial neural network and deep learning. We then describe two main components of deep learning, i.e., deep learning architectures and model optimization. Subsequently, some examples are demonstrated for deep learning展开更多
Long-term monoculture leads to continuous cropping （CC） problems, which complicate agricultural production, both locally and abroad. This study contrasted the different bacterial community compositions, physicochemi...Long-term monoculture leads to continuous cropping （CC） problems, which complicate agricultural production, both locally and abroad. This study contrasted the different bacterial community compositions, physicochemical properties and enzyme activities of strawberry soil subjected to CC, CC rhizosphere （CCR）, non-CC （NCC） and non-CC rhizosphere （NCCR） treatments. The soil physicochemical properties and enzyme activities were significantly reduced after long-term CC. In addition, five variation trends were observed for the 11 major bacterial genera in the soil. Sphingomonas was the only stable group among all treatments. The proportions of Novosphingobium, Rhodoplanes, Povalibacter, Cellvibrio and Stenotrophobacterdecreased after CC. The relative abundances of Pelagibius, Thioprofundum and AIIokutzneria increased only in the CC treatment. Nitrospira were more abundant in rhizosphere soil than in non-rhizosphere soil. The relative abundance of Bacillus increased after CC. Redundancy analysis revealed that Bacillus, Pelagibius and AIIokutzneria had significant negative correlations with the soil physicochemical properties and enzyme activities. Therefore, these genera may be the key bacteria influenced by the physicochemical properties and enzyme activities altered by replanting. These results indicate that long-term CC of strawberry leads to less favourable rhizosphere soil conditions, which can be understood as a stress-induced response of the bacterial community diversity. Further research is needed to determine how the quality of soil is reduced by the shift in the diversity of the soil bacterial community.展开更多
Chinese traditional fermented foods have a very long history dating back thousands of years and have become an indispensable part of Chinese dietary culture. A plethora of research has been conducted to unravel the co...Chinese traditional fermented foods have a very long history dating back thousands of years and have become an indispensable part of Chinese dietary culture. A plethora of research has been conducted to unravel the composition and dynamics of microbial consortia associated with Chinese traditional fermented foods using culture- dependent as well as culture-independent methods, like different high-throughput sequencing （HTS） techniques. These HTS techniques enable us to understand the relationship between a food product and its microbes to a greater extent than ever before. Considering the importance of Chinese traditional fermented products, the objective of this paper is to review the diversity and dynamics of microbiota in Chinese traditional fermented foods revealed by HTS approaches.展开更多
基金the National Key Research and Development Program of China(2016YFD0100101-18,2016YFD0100103)the National Natural Science Foundation of China(31770397,21800305)+2 种基金the Fundamental Research Funds for the Central Universities(2662017PY058,2662017QD044)UK-China grant BBSRC(grant no.BB/R02118X/1)the National Institute of Food and Agriculture,U.S.Department of Agriculture,Hatch project(ALA014-1-16016).
文摘Since whole-genome sequencing of many crops has been achieved,crop functional genomics studies have stepped into the big-data and high-throughput era.However,acquisition of large-scale phenotypic data has become one of the major bottlenecks hindering crop breeding and functional genomics studies.Nevertheless,recent technological advances provide us potential solutions to relieve this bottleneck and to explore advanced methods for large-scale phenotyping data acquisition and processing in the coming years.In this article,we review the major progress on high-throughput phenotyping in controlled environments and field conditions as well as its use for post-harvest yield and quality assessment in the past decades.We then discuss the latest multi-omics research combining high-throughput phenotyping with genetic studies.Finally,we propose some conceptual challenges and provide our perspectives on how to bridge the phenotype-genotype gap.It is no doubt that accurate high-throughput phenotyping will accelerate plant genetic improvements and promote the next green revolution in crop breeding.
文摘随着泛在电力物联网(ubiquitous power internet of things,UPIoT)的建设,将有亿级海量终端设备接入系统,给基于传统中心化分布式网络结构的电力设备泛在物联网带来巨大的挑战。为此,首先分析了泛在电力物联网在网络结构、信息安全、隐私保护、通信壁垒和多主体协同中存在的问题。然后利用区块链思维将区块链技术与物联网(internet of things,IoT)相结合,提出了基于区块链的电力设备泛在物联网建设方案,并重点阐述了在物联网区块链应用中的分区并行高通量联盟链、跨链通信、共识算法、智能合约、加密算法和数据压缩等关键技术。最后讨论了区块链与电力设备泛在物联网融合创新的发展趋势。区块链技术的发展势必深刻影响到社会的方方面面,论文的研究成果可为区块链在电力物联网的应用和实践提供参考。
基金supported by grants from the National Science Foundation of China(81603238)
文摘The cultivation of Panax plants is hindered by replanting problems, which may be caused by plantdriven changes in the soil microbial community. Inoculation with microbial antagonists may efficiently alleviate replanting issues. Through high-throughput sequencing, this study revealed that bacterial diversity decreased,whereas fungal diversity increased, in the rhizosphere soils of adult ginseng plants at the root growth stage under different ages. Few microbial community, such as Luteolibacter, Cytophagaceae, Luteibacter, Sphingomonas,Sphingomonadaceae, and Zygomycota, were observed; the relative abundance of microorganisms, namely,Brevundimonas, Enterobacteriaceae, Pandoraea, Cantharellales, Dendryphion, Fusarium, and Chytridiomycota,increased in the soils of adult ginseng plants compared with those in the soils of 2-year-old seedlings. Bacillus subtilis 50-1, a microbial antagonist against the pathogenic Fusarium oxysporum, was isolated through a dual culture technique. These bacteria acted with a biocontrol efficacy of 67.8%. The ginseng death rate and Fusarium abundance decreased by 63.3% and 46.1%, respectively, after inoculation with B. subtilis 50-1. Data revealed that microecological degradation could result from ginseng-driven changes in rhizospheric microbial communities;these changes are associated with the different ages and developmental stages of ginseng plants. Biocontrol using microbial antagonists alleviated the replanting problem.
文摘Brain and the gastrointestinal(GI)tract are intimately con-nected to form a bidirectional neurohumoral communica-tion system.The communication between gut and brain,knows as the gut-brain axis,is so well established that the functional status of gut is always related to the condi-tion of brain.The researches on the gut-brain axis were traditionally focused on the psychological status affecting the function of the GI tract.However,recent evidences showed that gut microbiota communicates with the brain via the gut-brain axis to modulate brain development and behavioral phenotypes.These recent fi ndings on the new role of gut microbiota in the gut-brain axis implicate that gut microbiota could associate with brain functions as well as neurological diseases via the gut-brain axis.To elucidate the role of gut microbiota in the gut-brain axis,precise identification of the composition of microbes constituting gut microbiota is an essential step.However,identifi cation of microbes constituting gut microbiota has been the main technological challenge currently due to massive amount of intestinal microbes and the diffi culties in culture of gut microbes.Current methods for identifi ca-tion of microbes constituting gut microbiota are depend-ent on omics analysis methods by using advanced high tech equipment.Here,we review the association of gut microbiota with the gut-brain axis,including the pros and cons of the current high throughput methods for identi-fi cation of microbes constituting gut microbiota to eluci-date the role of gut microbiota in the gut-brain axis.
基金supported by the Center for Precision Medicine, Sun Yat-sen University and the National High-tech R&D Program (863 Program Grant No. 2015AA020110) of China awarded to YZ
文摘Advances in biological and medical technologies have been providing us explosive vol- umes of biological and physiological data, such as medical images, electroencephalography, geno- mic and protein sequences. Learning from these data facilitates the understanding of human health and disease. Developed from artificial neural networks, deep learning-based algorithms show great promise in extracting features and learning patterns from complex data. The aim of this paper is to provide an overview of deep learning techniques and some of the state-of-the-art applications in the biomedical field. We first introduce the development of artificial neural network and deep learning. We then describe two main components of deep learning, i.e., deep learning architectures and model optimization. Subsequently, some examples are demonstrated for deep learning
基金supported by the National Science and Technology Support Program (2014BAD16B07)the support of Beijing Academy of Forestry and Pomology Sciences
文摘Long-term monoculture leads to continuous cropping （CC） problems, which complicate agricultural production, both locally and abroad. This study contrasted the different bacterial community compositions, physicochemical properties and enzyme activities of strawberry soil subjected to CC, CC rhizosphere （CCR）, non-CC （NCC） and non-CC rhizosphere （NCCR） treatments. The soil physicochemical properties and enzyme activities were significantly reduced after long-term CC. In addition, five variation trends were observed for the 11 major bacterial genera in the soil. Sphingomonas was the only stable group among all treatments. The proportions of Novosphingobium, Rhodoplanes, Povalibacter, Cellvibrio and Stenotrophobacterdecreased after CC. The relative abundances of Pelagibius, Thioprofundum and AIIokutzneria increased only in the CC treatment. Nitrospira were more abundant in rhizosphere soil than in non-rhizosphere soil. The relative abundance of Bacillus increased after CC. Redundancy analysis revealed that Bacillus, Pelagibius and AIIokutzneria had significant negative correlations with the soil physicochemical properties and enzyme activities. Therefore, these genera may be the key bacteria influenced by the physicochemical properties and enzyme activities altered by replanting. These results indicate that long-term CC of strawberry leads to less favourable rhizosphere soil conditions, which can be understood as a stress-induced response of the bacterial community diversity. Further research is needed to determine how the quality of soil is reduced by the shift in the diversity of the soil bacterial community.
基金supported by the National Natural Science Foundation of China(Nos.31371826 and 31571808)the China Postdoctoral Science Foundation Funded Project(No.2016M592002)
文摘Chinese traditional fermented foods have a very long history dating back thousands of years and have become an indispensable part of Chinese dietary culture. A plethora of research has been conducted to unravel the composition and dynamics of microbial consortia associated with Chinese traditional fermented foods using culture- dependent as well as culture-independent methods, like different high-throughput sequencing （HTS） techniques. These HTS techniques enable us to understand the relationship between a food product and its microbes to a greater extent than ever before. Considering the importance of Chinese traditional fermented products, the objective of this paper is to review the diversity and dynamics of microbiota in Chinese traditional fermented foods revealed by HTS approaches.
