期刊：
Science (New York, N.Y.),2014年345(6199):950-953 ISSN：0036-8075
通讯作者：
Chalhoub, Boulos
作者机构：
[Vinh Ha Dinh Thi; Mestiri, Imen; Chalabi, Smahane; Jabbari, Kamel; Just, Jeremy; Lu, Yunhai; Arnaud, Dominique; Canaguier, Aurelie; Le Clainche, Isabelle; Chalhoub, Boulos; Chelaifa, Houda; Belcram, Harry] Univ Evry Val dEssone, Inst Natl Rech Agron INRA, Unite Rech Genom Vegetale, UMR1165, F-91057 Evry, France.;[Da Silva, Corinne; Denoeud, France; Bento, Pascal; Wincker, Patrick; Labadie, Karine; Alberti, Adriana; Correa, Margot; Noel, Benjamin; Bernard, Maria; Aury, Jean-Marc; Battail, Christophe] Commissariat Energie Atom CEA, Inst Genom IG, F-91057 Evry, France.;[Denoeud, France; Wincker, Patrick] Univ Evry Val dEssone, UMR 8030, F-91057 Evry, France.;[Denoeud, France; Wincker, Patrick] Ctr Natl Rech Sci CNRS, UMR 8030, Evry, France.;[Hu, Qiong; Wang, Xinfa; Tong, Chaobo; Liu, Shengyi; Hua, Wei] Chinese Acad Agr Sci, Key Lab Biol & Genet Improvement Oil Crops, Minist Agr Peoples Republ China, Oil Crops Res Inst, Wuhan 430062, Peoples R China.
通讯机构：
[Chalhoub, Boulos] Univ Evry Val dEssone, Inst Natl Rech Agron INRA, Unite Rech Genom Vegetale, UMR1165, 2 Rue Gaston Cremieux, F-91057 Evry, France.
摘要：
Oilseed rape (Brassica napus L.) was formed similar to 7500 years ago by hybridization between B. rapa and B. oleracea, followed by chromosome doubling, a process known as allopolyploidy. Together with more ancient polyploidizations, this conferred an aggregate 72x genome multiplication since the origin of angiosperms and high gene content. We examined the B. napus genome and the consequences of its recent duplication. The constituent A(n) and C-n subgenomes are engaged in subtle structural, functional, and epigenetic cross-talk, with abundant homeologous exchanges. Incipient gene loss and expression divergence have begun. Selection in B. napus oilseed types has accelerated the loss of glucosinolate genes, while preserving expansion of oil biosynthesis genes. These processes provide insights into allopolyploid evolution and its relationship with crop domestication and improvement.
作者机构：
[An, Ning; Ma, Lin; Fan, Mingsheng; Wu, Liangquan; Zhang, Fusuo; Wu, Liang; Wang, Guiliang; Chen, Xinping; Cui, Zhenling; Zhang, Weifeng] China Agr Univ, Coll Resources & Environm Sci, Beijing 100193, Peoples R China.;[Vitousek, Peter] Stanford Univ, Dept Biol, Stanford, CA 94305 USA.;[Zhao, Ming; Zhang, Weijian] Chinese Acad Agr Sci, Inst Crop Sci, Beijing 100081, Peoples R China.;[Ma, Wenqi] Agr Univ Hebei, Coll Resources & Environm Sci, Baoding 071001, Peoples R China.;[Zhang, Jiwang; He, Mingrong; Wang, Zhenlin] Shandong Agr Univ, Coll Agron, Tai An 271000, Shandong, Peoples R China.
通讯机构：
[Zhang, Fusuo] China Agr Univ, Coll Resources & Environm Sci, Beijing 100193, Peoples R China.
摘要：
In an experiment across China to test integrated soil–crop system management for rice, wheat and maize against current practice, improvements in grain yield are equivalent to high-input techniques, but nutrient use, nutrient loss and greenhouse gas emissions are lower than current practice. Integrated soil–crop system management is a technique that aims to maximize yield and minimize environmental impact by adapting cropping systems to local conditions through optimal nutrient application, seasonal timing and the use of the best crop varieties. Fusuo Zhang and colleagues report the results of a China-wide test of this technique for the three main cereal crops — rice, wheat and maize. In comparisons with current practice and high input techniques, the authors find that the integrated system achieves yield improvements equivalent to high input techniques but with lower nutrient use, nutrient loss and greenhouse gas emissions than those found with the current practice. Agriculture faces great challenges to ensure global food security by increasing yields while reducing environmental costs1,2. Here we address this challenge by conducting a total of 153 site-year field experiments covering the main agro-ecological areas for rice, wheat and maize production in China. A set of integrated soil–crop system management practices based on a modern understanding of crop ecophysiology and soil biogeochemistry increases average yields for rice, wheat and maize from 7.2 million grams per hectare (Mg ha−1), 7.2 Mg ha−1 and 10.5 Mg ha−1 to 8.5 Mg ha−1, 8.9 Mg ha−1 and 14.2 Mg ha−1, respectively, without any increase in nitrogen fertilizer. Model simulation and life-cycle assessment3 show that reactive nitrogen losses and greenhouse gas emissions are reduced substantially by integrated soil–crop system management. If farmers in China could achieve average grain yields equivalent to 80% of this treatment by 2030, over the same planting area as in 2012, total production of rice, wheat and maize in China would be more than enough to meet the demand for direct human consumption and a substantially increased demand for animal feed, while decreasing the environmental costs of intensive agriculture.
通讯机构：
[Liu, Shengyi] Chinese Acad Agr Sci, Oil Crops Res Inst, Key Lab Biol & Genet Improvement Oil Crops, Minist Agr PRC, Wuhan 430062, Peoples R China.
摘要：
Polyploidization has provided much genetic variation for plant adaptive evolution, but the mechanisms by which the molecular evolution of polyploid genomes establishes genetic architecture underlying species differentiation are unclear. Brassica is an ideal model to increase knowledge of polyploid evolution. Here we describe a draft genome sequence of Brassica oleracea, comparing it with that of its sister species B. rapa to reveal numerous chromosome rearrangements and asymmetrical gene loss in duplicated genomic blocks, asymmetrical amplification of transposable elements, differential gene co-retention for specific pathways and variation in gene expression, including alternative splicing, among a large number of paralogous and orthologous genes. Genes related to the production of anticancer phytochemicals and morphological variations illustrate consequences of genome duplication and gene divergence, imparting biochemical and morphological variation to B. oleracea. This study provides insights into Brassica genome evolution and will underpin research into the many important crops in this genus.
通讯机构：
[Peng, Shaobing] Int Rice Res Inst, Crop & Environm Sci Div, DAPO Box 7777, Manila, Philippines.
关键词：
site-specific nitrogen management;nitrogen use efficiency;grain yield;nitrogen response;rice;China
摘要：
Excessive nitrogen (N) application to rice (Oryza sativa L.) crop in China causes environmental pollution, increases the cost of rice farming, reduces grain yield and contributes to global warming. Scientists from the International Rice Research Institute have collaborated with partners in China to improve rice N fertilization through site-specific N management (SSNM) in China since 1997. Field experiments and demonstration trials were conducted initially in Zhejiang province and gradually expanded to Guangdong, Hunan, Jiangsu, Hubei and Heilongjiang provinces. On average, SSNM reduced N fertilizer by 32% and increased grain yield by 5% compared with farmers’ N practices. The yield increase was associated with the reduction in insect and disease damage and improved lodging resistance of rice crop under the optimal N inputs. The main reason for poor fertilizer N use efficiency of rice crop in China is that most rice farmers apply too much N fertilizer, especially at the early vegetative stage. We observed about 50% higher indigenous N supply capacity in irrigated rice fields in China than in other major rice-growing countries. Furthermore, yield response of rice crop to N fertilizer application is low in China, around 1.5 t ha− on average. However, these factors were not considered by rice researchers and extension technicians in determining the N fertilizer rate for recommendation to rice farmers in China. After a decade of research on SSNM in China and other Asian rice-growing countries, we believe SSNM is a matured technology for improving both fertilizer N use efficiency and grain yield of rice crop. Our challenges are to further simplify the procedure of SSNM and to convince policy-makers of the effectiveness of this technology in order to facilitate a wider adoption of SSNM among rice farmers in China.
作者：
Xu, W.;Luo, X. S.;Pan, Y. P.;Zhang, L.;Tang, A. H.;Shen, J. L.;Zhang, Y.;Li, K. H.;Wu, Q. H.;Yang, D. W.;Zhang, Y. Y.;Xue, J.;Li, W. Q.;Li, Q. Q.;Tang, L.;Lu, S. H.;Liang, T.;Tong, Y. A.;Liu, P.;Zhang, Q.
期刊：
ATMOSPHERIC CHEMISTRY AND PHYSICS,2015年15(21):12345-12360 ISSN：1680-7316
通讯作者：
Liu, X. J.
作者机构：
[Wu, Q. H.; Zhang, Y. Y.; Liu, X. J.; Xu, W.; Tang, A. H.; Li, Q. Q.; Yang, D. W.; Xue, J.; Luo, X. S.; Zhang, F. S.] China Agr Univ, Coll Resources & Environm Sci, Beijing 100193, Peoples R China.;[Luo, X. S.] Henan Acad Agr Sci, Inst Plant Nutr Resources & Environm Sci, Zhengzhou 450002, Peoples R China.;[Pan, Y. P.] Chinese Acad Sci, Inst Atmospher Phys, State Key Lab Atmospher Boundary Layer Phys & Atm, Beijing 100029, Peoples R China.;[Zhang, L.] Peking Univ, Sch Phys, Dept Atmospher & Ocean Sci, Lab Climate & Ocean Atmosphere Studies, Beijing 100871, Peoples R China.;[Shen, J. L.] Chinese Acad Sci, Inst Subtrop Agr, Changsha 4410125, Hunan, Peoples R China.
通讯机构：
[Liu, X. J.] China Agr Univ, Coll Resources & Environm Sci, Beijing 100193, Peoples R China.
摘要：
A Nationwide Nitrogen Deposition Monitoring Network (NNDMN) containing 43 monitoring sites was established in China to measure gaseous NH3, NO2, and HNO3 and particulate NH4+ and NO3- in air and/or precipitation from 2010 to 2014. Wet/bulk deposition fluxes of N-r species were collected by precipitation gauge method and measured by continuous-flow analyzer; dry deposition fluxes were estimated using airborne concentration measurements and inferential models. Our observations reveal large spatial variations of atmospheric N-r concentrations and dry and wet/bulk N-r deposition. On a national basis, the annual average concentrations (1.3-47.0 mu g N m(-3)) and dry plus wet/bulk deposition fluxes (2.9-83.3 kg N ha(-1) yr(-1)) of inorganic Nr species are ranked by land use as urban > rural > background sites and by regions as north China > southeast China > southwest China > northeast China > northwest China > Tibetan Plateau, reflecting the impact of anthropogenic N-r emission. Average dry and wet/bulk N deposition fluxes were 20.6 +/- 11.2 (mean +/- standard deviation) and 19.3 +/- 9.2 kg N ha(-1) yr(-1) across China, with reduced N deposition dominating both dry and wet/bulk deposition. Our results suggest atmospheric dry N deposition is equally important to wet/bulk N deposition at the national scale. Therefore, both deposition forms should be included when considering the impacts of N deposition on environment and ecosystem health.
通讯机构：
[Zhang, Fusuo] China Agr Univ, Coll Resources & Environm Sci, Beijing 100193, Peoples R China.
摘要：
Millions of Chinese smallholder farmers were persuaded to adopt enhanced management practices, which led to a greater yield, reduced nitrogen fertilizer use and improved environmental performance throughout China. Two and a half billion smallholder farmers collectively manage 60 per cent of the world's arable land. How these farmers perform determines their own livelihood, but also affects global food security and ecosystem health. Here, Fusuo Zhang and colleagues show how some straightforward interventions have substantially improved the productivity and environmental performance of smallholder farmers across China over the past ten years. The team carried out more than 13,000 field trials across China's main agroecological zones and found that a series of management practices, collectively termed integrated soil–crop system management, increased maize, wheat and rice yields, nitrogen-use efficiency and farmer profitability. Scaling this approach up to 20.9 million smallholder farmer across 452 counties boosted grain yields to 33 million tonnes over the ten-year period, and reduced fertilizer use by 1.2 million tonnes and greenhouse gas emissions by up to 13 per cent. Sustainably feeding a growing population is a grand challenge1,2,3, and one that is particularly difficult in regions that are dominated by smallholder farming. Despite local successes4,5,6,7,8, mobilizing vast smallholder communities with science- and evidence-based management practices to simultaneously address production and pollution problems has been infeasible. Here we report the outcome of concerted efforts in engaging millions of Chinese smallholder farmers to adopt enhanced management practices for greater yield and environmental performance. First, we conducted field trials across China’s major agroecological zones to develop locally applicable recommendations using a comprehensive decision-support program. Engaging farmers to adopt those recommendations involved the collaboration of a core network of 1,152 researchers with numerous extension agents and agribusiness personnel. From 2005 to 2015, about 20.9 million farmers in 452 counties adopted enhanced management practices in fields with a total of 37.7 million cumulative hectares over the years. Average yields (maize, rice and wheat) increased by 10.8–11.5%, generating a net grain output of 33 million tonnes (Mt). At the same time, application of nitrogen decreased by 14.7–18.1%, saving 1.2 Mt of nitrogen fertilizers. The increased grain output and decreased nitrogen fertilizer use were equivalent to US$12.2 billion. Estimated reactive nitrogen losses averaged 4.5–4.7 kg nitrogen per Megagram (Mg) with the intervention compared to 6.0–6.4 kg nitrogen per Mg without. Greenhouse gas emissions were 328 kg, 812 kg and 434 kg CO2 equivalent per Mg of maize, rice and wheat produced, respectively, compared to 422 kg, 941 kg and 549 kg CO2 equivalent per Mg without the intervention. On the basis of a large-scale survey (8.6 million farmer participants) and scenario analyses, we further demonstrate the potential impacts of implementing the enhanced management practices on China’s food security and sustainability outlook.
作者：
Rang, Z. W.;Jagadish, S. V. K.*;Zhou, Q. M.;Craufurd, P. Q.;Heuer, S.
期刊：
Environmental and Experimental Botany,2011年70(1):58-65 ISSN：0098-8472
通讯作者：
Jagadish, S. V. K.
作者机构：
[Heuer, S.; Jagadish, S. V. K.; Rang, Z. W.] Int Rice Res Inst, Manila, Philippines.;[Zhou, Q. M.; Rang, Z. W.] Hunan Agr Univ, Coll Agron, Changsha 410128, Hunan, Peoples R China.;[Craufurd, P. Q.] Int Crops Res Inst Semi Arid Trop, Patancheru 502324, Andhra Pradesh, India.;[Jagadish, S. V. K.] Int Rice Res Inst, DAPO Box 7777, Manila, Philippines.
通讯机构：
[Jagadish, S. V. K.] Int Rice Res Inst, DAPO Box 7777, Manila, Philippines.
摘要：
In future climates, rice could more frequently be subjected to simultaneous high temperature and water stress during sensitive developmental stages such as flowering. In this study, five rice genotypes were exposed to high temperature, water stress and combined high temperature and water stress during flowering to quantify their response through spikelet fertility. Microscopic analyses revealed significant differences in anther dehiscence between treatments and genotypes, with a moderately high association with the number of germinated pollen grains on the stigma. There was a strong relationship between spikelet fertility and the number of germinated pollen on stigmas. Although, all three stress treatments resulted in spikelet sterility, high-temperature stress caused the highest sterility in all five genotypes. A cumulative linear decline in spikelet fertility with increasing duration of independent high-temperature stress and in combination with water stress was quantified. Better anther dehiscence, higher in vivo pollen germination, and higher spikelet fertility were observed in both the N22 accessions compared with IR64, Apo and Moroberekan under high temperature, water stress and combined stress, indicating its ability to tolerate multiple abiotic stresses. (C) 2010 Elsevier B.V. All rights reserved.
摘要：
Rice blast, caused by the fungal pathogen Magnaporthe oryzae, is one of the most destructive diseases of rice worldwide. The rice-M. oryzae pathosystem has become a model in the study of plant-fungal interactions because of its scientific advancement and economic importance. Recent studies have identified a number of new pathogen-associated molecular patterns (PAMPs) and effectors from the blast fungus that trigger rice immune responses upon perception. Interaction analyses between avirulence effectors and their cognate resistance proteins have provided new insights into the molecular basis of plant-fungal interactions. In this review, we summarize the recent research on the characterization of those genes in both M. oryzae and rice that are important for the PAMP- and effector-triggered immunity recognition and signaling processes. We also discuss future directions for research that will further our understanding of this pathosystem.
摘要：
Cold stress adversely affects rice (Oryza sativa L.) growth and productivity, and has so far determined its geographical distribution. Dissecting cold stress-mediated physiological changes and understanding their genetic causes will facilitate the breeding of rice for cold tolerance. Here, we review recent progress in research on cold stress-mediated physiological traits and metabolites, and indicate their roles in the cold-response network and cold-tolerance evaluation. We also discuss criteria for evaluating cold tolerance and evaluate the scope and shortcomings of each application. Moreover, we summarize research on quantitative trait loci (QTL) related to cold stress at the germination, seedling, and reproductive stages that should provide useful information to accelerate progress in breeding cold-tolerant rice.
摘要：
Flowering time adaptation is a major breeding goal in the allopolyploid species Brassica napus. To investigate the genetic architecture of flowering time, a genome-wide association study (GWAS) of flowering time was conducted with a diversity panel comprising 523 B. napus cultivars and inbred lines grown in eight different environments. Genotyping was performed with a Brassica 60K Illumina Infinium SNP array. A total of 41 single-nucleotide polymorphisms (SNPs) distributed on 14 chromosomes were found to be associated with flowering time, and 12 SNPs located in the confidence intervals of quantitative trait loci (QTL) identified in previous researches based on linkage analyses. Twenty-five candidate genes were orthologous to Arabidopsis thaliana flowering genes. To further our understanding of the genetic factors influencing flowering time in different environments, GWAS was performed on two derived traits, environment sensitivity and temperature sensitivity. The most significant SNPs were found near Bn-scaff_16362_1-p380982, just 13 kb away from BnaC09g41990D, which is orthologous to A. thaliana CONSTANS (CO), an important gene in the photoperiod flowering pathway. These results provide new insights into the genetic control of flowering time in B. napus and indicate that GWAS is an effective method by which to reveal natural variations of complex traits in B. napus.
通讯机构：
[Yan, Mingli] Hunan Univ Sci & Technol, Sch Life Sci, Xiangtan 411201, Hunan, Peoples R China.
关键词：
Microbial community;Molecular ecological networks;Heavy metal contamination;Microbial interactions
摘要：
Due to the persistence of metals in the ecosystem and their threat to all living organisms, effects of heavy metal on soil microbial communities were widely studied. However, little was known about the interactions among microorganisms in heavy metal-contaminated soils. In the present study, microbial communities in Non (CON), moderately (CL) and severely (CH) contaminated soils were investigated through high-throughput Illumina sequencing of 16s rRNA gene amplicons, and networks were constructed to show the interactions among microbes. Results showed that the microbial community composition was significantly, while the microbial diversity was not significantly affected by heavy metal contamination. Bacteria showed various response to heavy metals. Bacteria that positively correlated with Cd, e.g. Acidobacteria_Gp and Proteobacteria_thiobacillus, had more links between nodes and more positive interactions among microbes in CL- and CH-networks, while bacteria that negatively correlated with Cd, e.g. Longilinea, Gp2 and Gp4 had fewer network links and more negative interactions in CL and CH-networks. Unlike bacteria, members of the archaeal domain, i.e. phyla Crenarchaeota and Euryarchaeota, class Thermoprotei and order Thermoplasmatales showed only positive correlation with Cd and had more network interactions in CH-networks. The present study indicated that (i) the microbial community composition, as well as network interactions was shift to strengthen adaptability of microorganisms to heavy metal contamination, (ii) archaea were resistant to heavy metal contamination and may contribute to the adaption to heavy metals. It was proposed that the contribution might be achieved either by improving environment conditions or by cooperative interactions. (C) 2017 Elsevier Ltd. All rights reserved.
通讯机构：
[Wang, Guo-Liang] Chinese Acad Agr Sci, Inst Plant Protect, State Key Lab Biol Plant Dis & Insect Pests, Beijing 100193, Peoples R China.
关键词：
effectors;necrotrophic fungi;innate immunity;defense response;PRR and epigenetic modification
摘要：
Fungal diseases pose constant threats to the global economy and food safety. As the largest group of plant fungal pathogens, necrotrophic fungi cause heavy crop losses worldwide. The molecular mechanisms of the interaction between necrotrophic fungi and plants are complex and involve sophisticated recognition and signaling networks. Here, we review recent findings on the roles of phytotoxin and proteinaceous effectors, pathogen-associated molecular patterns (PAMPs), and small RNAs from necrotrophic fungi. We also consider the functions of damage-associated molecular patterns (DAMPs), the receptor-like protein kinase BIK1, and epigenetic regulation in plant immunity to necrotrophic fungi.
摘要：
Allotetraploid oilseed rape (Brassica napus L.) is an agriculturally important crop. Cultivation and breeding of B. napus by humans has resulted in numerous genetically diverse morphotypes with optimized agronomic traits and ecophysiological adaptation. To further understand the genetic basis of diversification and adaptation, we report a draft genome of an Asian semi-winter oilseed rape cultivar 'ZS11' and its comprehensive genomic comparison with the genomes of the winter-type cultivar 'Darmor-bzh' as well as two progenitors. The integrated BAC-to-BAC and whole-genome shotgun sequencing strategies were effective in the assembly of repetitive regions (especially young long terminal repeats) and resulted in a high-quality genome assembly of B. napus 'ZS11'. Within a short evolutionary period (similar to 6700years ago), semi-winter-type 'ZS11' and the winter-type 'Darmor-bzh' maintained highly genomic collinearity. Even so, certain genetic differences were also detected in two morphotypes. Relative to Darmor-bzh', both two subgenomes of 'ZS11' are closely related to its progenitors, and the 'ZS11' genome harbored several specific segmental homoeologous exchanges (HEs). Furthermore, the semi-winter-type 'ZS11' underwent potential genomic introgressions with B. rapa (A(r)). Some of these genetic differences were associated with key agronomic traits. A key gene of A03.FLC3 regulating vernalization-responsive flowering time in 'ZS11' was first experienced HE, and then underwent genomic introgression event with A(r), which potentially has led to genetic differences in controlling vernalization in the semi-winter types. Our observations improved our understanding of the genetic diversity of different B. napus morphotypes and the cultivation history of semi-winter oilseed rape in Asia. Significance Statement We generated a high-quality reference genome sequence of semi-winter Brassica napus. Our BAC-to-BAC strategy was effective in the assembly of repetitive regions. The main phenotypic difference between semi-winter and winter B. napus morphotypes is the vernalization requirement. Here, we found that a key gene controlling the vernalization-responsive flowering time was altered in the semi-winter type ZS11' through both homoeologous exchanges and genomic introgression with B. rapa.
关键词：
super hybrid rice;yield;panicle number;panicle size
摘要：
Chinese super hybrid rice breeding project has developed many new varieties with great yield potential. It is controversial which yield component should be emphasized in super hybrid rice production. The present study was conducted to compare super hybrid rice with common hybrid and super inbred rice and analyze contributions of yield components to grain yield of super hybrid rice under experimental conditions, and evaluate relationships between grain yield and yield components of super hybrid rice in farmer's paddy fields. Field experiments were done in Changsha, Guidong, and Nanxian, Hunan Province, China, from 2007 to 2009. Eight super hybrid varieties, one common hybrid variety, and one super inbred variety were grown in each location and year. Rice production investigation was undertaken in high-yielding (Guidong), moderate-yielding (Nanxian), and low-yielding (Ningxiang) regions of Hunan Province, China, in 2009. Grain yield and yield components were measured in both the field experiments and rice production investigation. Super hybrid rice varieties outyielded common hybrid and super inbred varieties across three locations and years. Yield potential has been increased by 11.4% in super hybrid rice varieties compared with common and super inbred varieties. The higher yield of super hybrid varieties was attributed to improvement in panicle size. Panicles per m2 had the highest positive contribution to grain yield with the exception under yield level of 10.0 to 12.0 t ha-1, and was positively related to grain yield in farmer“s field at all of the high-, moderate-, and low-yielding regions. Our study suggests that panicle per m2 ought to be emphasized in super hybrid rice production.
