IB-CAS中国科学院植物研究所http://ir.ibcas.ac.cn:802024-03-19T07:24:33Z2024-03-19T07:24:33ZCold-induced calreticulin OsCRT3 conformational changes promote OsCIPK7 binding and temperature sensing in riceGuo, XiaoyuZhang, DajianWang, ZhongliangXu, ShujuanBatistic, OliverSteinhorst, LeonieLi, HaoWeng, YuxiangRen, DongtaoKudla, JorgXu, YunyuanChong, Kanghttp://ir.ibcas.ac.cn:80/handle/2S10CLM1/291482024-03-07T02:01:04Z2024-03-07T02:01:04Z题名: Cold-induced calreticulin OsCRT3 conformational changes promote OsCIPK7 binding and temperature sensing in rice
作者: Guo, Xiaoyu; Zhang, Dajian; Wang, Zhongliang; Xu, Shujuan; Batistic, Oliver; Steinhorst, Leonie; Li, Hao; Weng, Yuxiang; Ren, Dongtao; Kudla, Jorg; Xu, Yunyuan; Chong, Kang
摘要: Unusually low temperatures caused by global climate change adversely affect rice production. Sensing cold to trigger signal network is a key base for improvement of chilling tolerance trait. Here, we report that Oryza sativa Calreticulin 3 (OsCRT3) localized at the endoplasmic reticulum (ER) exhibits conformational changes under cold stress, thereby enhancing its interaction with CBL-interacting protein kinase 7 (OsCIPK7) to sense cold. Phenotypic analyses of OsCRT3 knock-out mutants and transgenic overexpression lines demonstrate that OsCRT3 is a positive regulator in chilling tolerance. OsCRT3 localizes at the ER and mediates increases in cytosolic calcium levels under cold stress. Notably, cold stress triggers secondary structural changes of OsCRT3 and enhances its binding affinity with OsCIPK7, which finally boosts its kinase activity. Moreover, Calcineurin B-like protein 7 (OsCBL7) and OsCBL8 interact with OsCIPK7 specifically on the plasma membrane. Taken together, our results thus identify a cold-sensing mechanism that simultaneously conveys cold-induced protein conformational change, enhances kinase activity, and Ca2+ signal generation to facilitate chilling tolerance in rice.2024-03-07T02:01:04ZPrecipitation consistently promotes, but temperature inversely drives, biomass production in temperate vs. alpine grasslandsWu, WenjuanSun, RuojunLiu, LerenLiu, XiaodiYu, HongyingMa, QuanhuiQi, MiaoLi, LangLi, YiboZhou, GuangshengXu, Zhenzhuhttp://ir.ibcas.ac.cn:80/handle/2S10CLM1/291452024-03-07T02:01:03Z2024-03-07T02:01:03Z题名: Precipitation consistently promotes, but temperature inversely drives, biomass production in temperate vs. alpine grasslands
作者: Wu, Wenjuan; Sun, Ruojun; Liu, Leren; Liu, Xiaodi; Yu, Hongying; Ma, Quanhui; Qi, Miao; Li, Lang; Li, Yibo; Zhou, Guangsheng; Xu, Zhenzhu
摘要: Comparisons of vegetation production between temperate and alpine grasslands are not well studied, and the understanding of the underlying mechanisms is still incomplete. To address this issue, we selected the Inner Mongolia and Tibet regions to conduct large-transect surveys for temperate grassland (TG) and alpine grassland (AG), respectively, in China, to reveal the universal and differential mechanisms of above-and belowground biomass production (GB, AGB and BGB) and precipitation use efficiencies (PUE) in the two grasslands. The relative importance of climatic factors on biomass and PUE is greater than that of soil and biological factors. Elevated mean annual precipitation (MAP) consistently increased GB in both TG and AG. Increased mean annual temperature (MAT) reduced GB by weakening the soil nutrient status in TG, whereas it increased GB by improving the soil nutrient status in AG. MAP promoted more AGB than BGB in TG, whereas MAT affected BGB more than AGB in AG. When the multicomponent heterogeneity of other factors in grasslands was eliminated, the effect of MAP on GB remained significant for both TG and AG. After removing the effect of multifactorial het-erogeneity, however, the significant effect of MAP on PUE of the two grasslands was largely enhanced. From these results, we can conclude that climatic factors do not always exert identical effects on different grasslands. In particular, highlighting the divergent mechanisms of biomass production and precipitation use efficiency between temperate and alpine grasslands can improve the understanding of the carbon sink and hydraulic sensitivity of various grasslands.2024-03-07T02:01:03ZQuantifying and mapping species threat abatement opportunities to support national target settingMair, LouiseAmorim, EduardoBicalho, MoniraBrooks, Thomas M.Calfo, VincenteCapellao, Renata de T.Clubbe, ColinEvju, MarianneFernandez, Eduardo P.Ferreira, Glaucia C.Hawkins, FrankJimenez, Randall R.Jordao, Lucas S. B.Kyrkjeeide, Magni OlsenMacfarlane, Nicholas B. W.Mattos, Bianca C.de Melo, Pablo H. A.Monteiro, Lara M.Lughadha, Eimear NicPougy, NinaRaimondo, Domitilla C.Setsaas, Trine HayShen, Xiaolide Siqueira, Marinez FerreiraStrassburg, Bernardo B. N.McGowan, Philip J. K.http://ir.ibcas.ac.cn:80/handle/2S10CLM1/291462024-03-07T02:01:03Z2024-03-07T02:01:03Z题名: Quantifying and mapping species threat abatement opportunities to support national target setting
作者: Mair, Louise; Amorim, Eduardo; Bicalho, Monira; Brooks, Thomas M.; Calfo, Vincente; Capellao, Renata de T.; Clubbe, Colin; Evju, Marianne; Fernandez, Eduardo P.; Ferreira, Glaucia C.; Hawkins, Frank; Jimenez, Randall R.; Jordao, Lucas S. B.; Kyrkjeeide, Magni Olsen; Macfarlane, Nicholas B. W.; Mattos, Bianca C.; de Melo, Pablo H. A.; Monteiro, Lara M.; Lughadha, Eimear Nic; Pougy, Nina; Raimondo, Domitilla C.; Setsaas, Trine Hay; Shen, Xiaoli; de Siqueira, Marinez Ferreira; Strassburg, Bernardo B. N.; McGowan, Philip J. K.
摘要: The successful implementation of the Convention on Biological Diversity's post-2020 Global Biodiversity Framework will rely on effective translation of targets from global to national level and increased engagement across diverse sectors of society. Species conservation targets require policy support measures that can be applied to a diversity of taxonomic groups, that link action targets to outcome goals, and that can be applied to both global and national data sets to account for national context, which the species threat abatement and restoration (STAR) metric does. To test the flexibility of STAR, we applied the metric to vascular plants listed on national red lists of Brazil, Norway, and South Africa. The STAR metric uses data on species' extinction risk, distributions, and threats, which we obtained from national red lists to quantify the contribution that threat abatement and habitat restoration activities could make to reducing species' extinction risk. Across all 3 countries, the greatest opportunity for reducing plant species' extinction risk was from abating threats from agricultural activities, which could reduce species' extinction risk by 54% in Norway, 36% in South Africa, and 29% in Brazil. Species extinction risk could be reduced by a further 21% in South Africa by abating threats from invasive species and by 21% in Brazil by abating threats from urban expansion. Even with different approaches to red-listing among countries, the STAR metric yielded informative results that identified where the greatest conservation gains could be made for species through threat-abatement and restoration activities. Quantifiably linking local taxonomic coverage and data collection to global processes with STAR would allow national target setting to align with global targets and enable state and nonstate actors to measure and report on their potential contributions to species conservation.2024-03-07T02:01:03ZNatural lupeol level variation among castor accessions and the upregulation of lupeol synthesis in response to lightLi, DonghaiZaman, WajidLu, JianjunNiu, QingqingZhang, XuanhaoAyaz, AsmaSaqib, SaddamYang, BaimingZhang, JixingZhao, HuayanLu, Shiyouhttp://ir.ibcas.ac.cn:80/handle/2S10CLM1/291472024-03-07T02:01:03Z2024-03-07T02:01:03Z题名: Natural lupeol level variation among castor accessions and the upregulation of lupeol synthesis in response to light
作者: Li, Donghai; Zaman, Wajid; Lu, Jianjun; Niu, Qingqing; Zhang, Xuanhao; Ayaz, Asma; Saqib, Saddam; Yang, Baiming; Zhang, Jixing; Zhao, Huayan; Lu, Shiyou
摘要: Lupeol, a plant-derived lupane-type pentacyclic triterpenoid, has many pharmacological activities. Although lupeol is found widely in many fruits, vegetables, and medicinal plants, its low content and difficult extraction limit its current applications. The castor plant (Ricinus communis L.) is a potential candidate plant for producing lupeol because it accumulates at high levels as a dominant wax component in the epidermal surface. The lupeol content varies significantly among castor individuals/cultivars. To identify castor lines for further breeding and uncover the molecular mechanism of lupeol biosynthesis and regulation, several castor varieties with various lupeol levels were identified, including 26 lines with higher lupeol contents and 12 glossy lines with very low lupeol contents. A deletion of the coding sequence of castor lupeol synthase RcLUS-1 was identified in glossy1, which possibly affects the binding ability of the substrate. The role of RcLUS-1 in lupeol production was determined using a virus-induced gene silencing (VIGS) assay. The promoter region of RcLUS-1 was analyzed further to uncover the factors affecting lupeol synthesis. Several potential cis-acting elements responding to light present were enriched in this region. Further study showed that light intensity affects RcLUS-1 expression and lupeol production. Overall, this study evaluated several potential castor resources for future breeding and expanded the knowledge of the lupeol regulation mechanism.2024-03-07T02:01:03ZGWAS-assisted genomic prediction of cadmium accumulation in maize kernel with machine learning and linear statistical methodsYan, HuiliGuo, HanyaoXu, WenxiuDai, ChanghuaKimani, WilsonXie, JianyinZhang, HezifanLi, TingWang, FengYu, YijunMa, MiHao, ZhuanfangHe, Zhenyanhttp://ir.ibcas.ac.cn:80/handle/2S10CLM1/291432024-03-07T02:01:02Z2024-03-07T02:01:02Z题名: GWAS-assisted genomic prediction of cadmium accumulation in maize kernel with machine learning and linear statistical methods
作者: Yan, Huili; Guo, Hanyao; Xu, Wenxiu; Dai, Changhua; Kimani, Wilson; Xie, Jianyin; Zhang, Hezifan; Li, Ting; Wang, Feng; Yu, Yijun; Ma, Mi; Hao, Zhuanfang; He, Zhenyan
摘要: The production and use of many heavy meal contained materials almost inevitably release cadmium (Cd) into environment, generating Cd pollutants with adverse impacts on food and human health. Developing an effective method for Cd concentration evaluation in food crops could be an effective approach for toxicity prediction and pollution control. Here, we exploited the genotype-to-phenotype relationship of maize kernel Cd accumulation at whole-genome level, and developed genome-wide association study (GWAS) assisted genomic-enabled prediction (GP) models using machine learning and linear statistical methods. In benchmark tests, marker density and training populations were key parameters in determining GP baseline precision. With optimized parameters, three statistical methods, including Bayes A, ridge regression-best linear unbiased prediction (rrBLUP) and random forest (RF), showed the highest prediction accuracy (Bayes A, 0.83; rrBLUP, 0.89; RF, 0.75) with 100 iterations of cross-validation. In field trial, GP models with rrBLUP performed better than Bayes A and RF, with a higher GP accuracy (r(MG)) and lower mean absolute error value. Integrating GP with GWAS can be implemented as an effective strategy for accurate evaluation of Cd concentration, which could provide useful guidelines for accelerating the selection and breeding cycle of low-Cd food crops and addressing the environmental Cd contamination problem.2024-03-07T02:01:02ZThe determiner of photosynthetic acclimation induced by biochemical limitation under elevated CO2 in japonica riceYang, KaiHuang, YaoYang, JingruiYu, LingfeiHu, ZhenghuaSun, WenjuanZhang, Qinghttp://ir.ibcas.ac.cn:80/handle/2S10CLM1/291422024-03-07T02:01:02Z2024-03-07T02:01:02Z题名: The determiner of photosynthetic acclimation induced by biochemical limitation under elevated CO2 in japonica rice
作者: Yang, Kai; Huang, Yao; Yang, Jingrui; Yu, Lingfei; Hu, Zhenghua; Sun, Wenjuan; Zhang, Qing
摘要: Photosynthetic acclimation to prolonged elevated CO2 could be attributed to the two limited biochemical capacity, ribulose-1,5-bisphosphate carboxylase/oxygenase (Rubisco) carboxylation and ribulose-1,5-bisphosphate (RuBP) regeneration, however, which one is the primary driver is unclear. To quantify photosynthetic acclimation induced by biochemical limitation, we investigated photosynthetic characteristics and leaf nitrogen allocation to photosynthetic apparatus (Rubisco, bioenergetics, and light-harvesting complex) in a japonica rice grown in open-top chambers at ambient CO2 and ambient CO2+200 mu mol mol- 1 (e [CO2]). Results showed that photosynthesis was stimulated under e [CO2], but concomitantly, photosynthetic acclimation obviously occurred across the whole growth stages. The content of leaf nitrogen allocation to Rubisco and biogenetics was reduced by e [CO2], while not in light-harvesting complex. Unlike the content, there was little effects of CO2 enrichment on the percentage of nitrogen allocation to photosynthetic components. Additionally, leaf nitrogen did not reallocate within photosynthetic apparatus until the imbalance of sink-source under e [CO2]. The contribution of biochemical limitations, including Rubisco carboxylation and RuBP regeneration, to photosynthetic acclimation averaged 36.2% and 63.8% over the growing seasons, respectively. This study suggests that acclimation of photosynthesis is mainly driven by RuBP regeneration limitation and highlights the importance of RuBP regeneration relative to Rubisco carboxylation in the future CO2 enrichment.2024-03-07T02:01:02ZHigh-precision early warning system for rice cadmium accumulation risk assessmentYan, HuiliGuo, HanyaoLi, TingZhang, HezifanXu, WenxiuXie, JianyinZhu, XiaoyangYu, YijunChen, JianZhao, ShouqingXu, JunHu, MinjunJiang, YugenZhang, HongliangMa, MiHe, Zhenyanhttp://ir.ibcas.ac.cn:80/handle/2S10CLM1/291442024-03-07T02:01:02Z2024-03-07T02:01:02Z题名: High-precision early warning system for rice cadmium accumulation risk assessment
作者: Yan, Huili; Guo, Hanyao; Li, Ting; Zhang, Hezifan; Xu, Wenxiu; Xie, Jianyin; Zhu, Xiaoyang; Yu, Yijun; Chen, Jian; Zhao, Shouqing; Xu, Jun; Hu, Minjun; Jiang, Yugen; Zhang, Hongliang; Ma, Mi; He, Zhenyan
摘要: Rapid global industrialization has resulted in widespread cadmium contamination in agricultural soils and products. A considerable proportion of rice consumers are exposed to Cd levels above the provisional safe intake limit, raising widespread environmental concerns on risk management. Therefore, a generalized approach is urgently needed to enable correct evaluation and early warning of cadmium contaminants in rice products. Combining big data and computer science together, this study developed a system named SMART Cd Early Warning, which integrated 4 modules including genotype-to-phenotype (G2P) modelling, high-throughput sequencing, G2P prediction and rice Cd contamination risk assessment, for rice cadmium accumulation early warning. This system can rapidly assess the risk of rice cadmium accumulation by genotyping leaves at seeding stage. The parameters including statistical methods, population size, training population-testing population ratio, SNP density were assessed to ensure G2P model exhibited superior performance in terms of prediction precision (up to 0.76 +/- 0.003) and computing efficiency (within 2 h). In field trials of cadmium-contaminated farmlands in Wenling and Fuyang city, Zhejiang Province, SMART Cd Early Warning exhibited superior capability for identification risk rice varieties, suggesting a potential of SMART Cd Early-Warning system in OsGCd risk assessment and early warning in the age of smart.2024-03-07T02:01:02ZSoil organic carbon sourcing variance in the rhizosphere vs. non-rhizosphere of two mycorrhizal tree speciesJia, YufuLiu, ZongguangZhou, LeiLiu, XiaojuanMa, KepingFeng, Xiaojuanhttp://ir.ibcas.ac.cn:80/handle/2S10CLM1/291392024-03-07T02:01:01Z2024-03-07T02:01:01Z题名: Soil organic carbon sourcing variance in the rhizosphere vs. non-rhizosphere of two mycorrhizal tree species
作者: Jia, Yufu; Liu, Zongguang; Zhou, Lei; Liu, Xiaojuan; Ma, Keping; Feng, Xiaojuan
摘要: Soil organic carbon (SOC) plays a central role in ecosystem carbon sequestration and climate change mitigation, and its stability and dynamics are related to sourcing from microbial vs. plant residues. However, SOC sourcing and its regulating mechanisms remain poorly understood in soil's most bioactive compartment, the rhizosphere, which may differ from non-rhizosphere and under different mycorrhizal tree species. To fill the knowledge gap, here we collect the rhizosphere and non-rhizosphere soils under an arbuscular mycorrhizal (AM; Castanopsis eyrie) vs. an ectomycorrhizal (ECM) tree species (Pinus massoniana) of varied tree diameters (i.e., ages) in the Gutianshan subtropical forest of China. Plant and microbial residual components are quantified by lignin phenols and amino sugars, respectively. Coupled with the measurements of soil, microbial community and plant litter properties, we assess potential mechanisms (i.e., saprotrophic bacteria competition, microbial necromass recycling/reuse, and substrate quality control) influencing the distribution of plant and microbial residues in the rhizosphere vs. non-rhizosphere. We show that lignin phenols are more concentrated in rhizosphere than nonrhizosphere SOC, especially under the ECM trees showing inhibited saprotrophic decomposition induced by competition between ECM fungi and (saprophytic) bacteria. Amino sugars are also more concentrated in the rhizosphere of ECM trees due to ECM fungal contribution, but not under AM trees exhibiting reduced fungal necromass stability partially reflected by low biomass-normalized necromass accumulation coefficients in the rhizosphere. As a result, ratios of amino sugars to lignin phenols are relatively lower in the rhizosphere than nonrhizosphere under AM tree, challenging the presumed microbial dominance in rhizosphere carbon accumulation. These results highlight differences in and controls on rhizosphere SOC sourcing related to different mycorrhizal tree species, providing new information on the mechanisms regulating soil carbon dynamics in root-soil systems.2024-03-07T02:01:01ZExtensive regulation of pH-responsive transcription factor PacC on secondary metabolism contributes to development and virulence of Botrytis cinereaZhuo, RuilingLi, GuangjinPeng, HuaiminZong, YuanyuanWang, XiaoLu, ShashaChen, YongZhang, ZhanquanTian, ShipingLi, Boqianghttp://ir.ibcas.ac.cn:80/handle/2S10CLM1/291402024-03-07T02:01:01Z2024-03-07T02:01:01Z题名: Extensive regulation of pH-responsive transcription factor PacC on secondary metabolism contributes to development and virulence of Botrytis cinerea
作者: Zhuo, Ruiling; Li, Guangjin; Peng, Huaimin; Zong, Yuanyuan; Wang, Xiao; Lu, Shasha; Chen, Yong; Zhang, Zhanquan; Tian, Shiping; Li, Boqiang
摘要: Botrytis cinerea is one of the most important postharvest pathogens and causes huge economic losses worldwide. Ambient pH is a critical factor influencing virulence of B. cinerea. In this study, BcpacC, a crucial gene encoding a pH-responsive transcription factor, was knocked out in B. cinerea strain B05.10. Deletion of BcpacC resulted in pH-dependent reduction in mycelial growth, sporulation, and virulence in apple and tomato fruit, and romaine lettuce leaves. An iTRAQ based proteomic analysis identified 70 differential proteins involved in various biological processes between wildtype (WT) and Delta BcpacC mutant under pH 6 condition, including 18 proteins related to secondary metabolism. Gene expression analysis indicates that 37 of all the 42 secondary metabolism key enzyme encoding genes were regulated by BcPacC. Further, three PacC-regulated polyketide synthase encoding genes, Bcpks4, Bcpks5 and Bcpks11, were knocked out and first proved to contribute to sporulation and virulence in B. cinerea. Our results revealed that the extensive regulation of BcPacC on secondary metabolism might play crucial roles in development and pathogenicity of B. cinerea during adaption to ambient pH.2024-03-07T02:01:01ZMapping Chinese annual gross primary productivity with eddy covariance measurements and machine learningZhu, Xian-JinYu, Gui-RuiChen, ZhiZhang, Wei-KangHan, LangWang, Qiu-FengChen, Shi-PingLiu, Shao-MinYan, Jun-HuaZhang, Fa -WeiZhao, Feng-HuaLi, Ying-NianZhang, Yi-PingShi, Pei -LiZhu, Jiao-JunWu, Jia-BingZhao, Zhong-HuiHao, Yan-BinSha, Li-QingZhang, Yu-CuiJiang, Shi-ChengGu, Feng-XueWu, Zhi-XiangWang, Hui-MinTan, Jun-LeiZhang, Yang-JianZhou, LiTang, Ya-KunJia, Bing-RuiLi, Yu-QiangSong, Qing-HaiDong, GangGao, Yan-HongJiang, Zheng-DeSun, DanWang, Jian-LinHe, Qi-HuaLi, Xin-HuWang, FeiWei, Wen-XueDeng, Zheng-MiaoHao, Xiang-XiangLi, YanLiu, Xiao-LiZhang, Xi-FengZhu, Zhi-Linhttp://ir.ibcas.ac.cn:80/handle/2S10CLM1/291412024-03-07T02:01:01Z2024-03-07T02:01:01Z题名: Mapping Chinese annual gross primary productivity with eddy covariance measurements and machine learning
作者: Zhu, Xian-Jin; Yu, Gui-Rui; Chen, Zhi; Zhang, Wei-Kang; Han, Lang; Wang, Qiu-Feng; Chen, Shi-Ping; Liu, Shao-Min; Yan, Jun-Hua; Zhang, Fa -Wei; Zhao, Feng-Hua; Li, Ying-Nian; Zhang, Yi-Ping; Shi, Pei -Li; Zhu, Jiao-Jun; Wu, Jia-Bing; Zhao, Zhong-Hui; Hao, Yan-Bin; Sha, Li-Qing; Zhang, Yu-Cui; Jiang, Shi-Cheng; Gu, Feng-Xue; Wu, Zhi-Xiang; Wang, Hui-Min; Tan, Jun-Lei; Zhang, Yang-Jian; Zhou, Li; Tang, Ya-Kun; Jia, Bing-Rui; Li, Yu-Qiang; Song, Qing-Hai; Dong, Gang; Gao, Yan-Hong; Jiang, Zheng-De; Sun, Dan; Wang, Jian-Lin; He, Qi-Hua; Li, Xin-Hu; Wang, Fei; Wei, Wen-Xue; Deng, Zheng-Miao; Hao, Xiang-Xiang; Li, Yan; Liu, Xiao-Li; Zhang, Xi-Feng; Zhu, Zhi-Lin
摘要: Annual gross primary productivity (AGPP) is the basis for grain production and terrestrial carbon sequestration. Map-ping regional AGPP from site measurements provides methodological support for analysing AGPP spatiotemporal var-iations thereby ensures regional food security and mitigates climate change. Based on 641 site-year eddy covariance measuring AGPP from China, we built an AGPP mapping scheme based on its formation and selected the optimal map-ping way, which was conducted through analysing the predicting performances of divergent mapping tools, variable combinations, and mapping approaches in predicting observed AGPP variations. The reasonability of the selected op-timal scheme was confirmed by assessing the consistency between its generating AGPP and previous products in spa-tiotemporal variations and total amount. Random forest regression tree explained 85 % of observed AGPP variations, outperforming other machine learning algorithms and classical statistical methods. Variable combinations containing climate, soil, and biological factors showed superior performance to other variable combinations. Mapping AGPP through predicting AGPP per leaf area (PAGPP) explained 86 % of AGPP variations, which was superior to other ap-proaches. The optimal scheme was thus using a random forest regression tree, combining climate, soil, and biological variables, and predicting PAGPP. The optimal scheme generating AGPP of Chinese terrestrial ecosystems decreased from southeast to northwest, which was highly consistent with previous products. The interannual trend and interan-nual variation of our generating AGPP showed a decreasing trend from east to west and from southeast to northwest, respectively, which was consistent with data-oriented products. The mean total amount of generated AGPP was 7.03 +/- 0.45 PgC yr-1 falling into the range of previous works. Considering the consistency between the generated AGPP and previous products, our optimal mapping way was suitable for mapping AGPP from site measurements. Our results provided a methodological support for mapping regional AGPP and other fluxes.2024-03-07T02:01:01Z