Differential ozone sensitivity of rice cultivars as indicated by visible injury and grain yield

Surface ozone pollution may cause reductions in rice ( Oryza sativa L.) yield. Ozone sensitivity in rice cultivars is often evaluated based on visible leaf injury at an early growth stage. However, it is not clear whether reduction in grain yield is related to visible injury. Therefore, visible damage and grain yield reduction were examined in Japanese and Asian rice cultivars exposed to ozone. In experiment 1, 3-week-old rice seedlings were exposed to ozone (min.: 20 nl·l⁻¹, max.:120 nl·l⁻¹) for 12 h in open-top chambers (OTCs). Visible leaf injury was quantified according to a leaf bronzing score. In experiment 2, rice plants were exposed to ozone in OTCs throughout the cropping season until grain harvest. Daily mean ozone concentrations were maintained at 2, 23, 28, 42, and 57 nl·l⁻¹ with a regular diurnal pattern of exposure. After harvest, grain yield was determined. Based on visible injury to the uppermost fully expanded leaf, the indica cultivar 'Kasalath' was most tolerant, and the japonica cultivar 'Kirara 397' was most sensitive to ozone. However, grain yields for both 'Kasalath' and 'Kirara 397' were significantly decreased after ozone exposure. The indica cultivar 'Jothi' suffered severe injury after ozone exposure but had no reduction in grain yield. Therefore, ozone sensitivity of rice cultivars evaluated by visible injury did not coincide with that evaluated by the reductions in grain yield. These results suggest that mechanisms that induce acute leaf injury do not relate to chronic ozone toxicity that reduces yield.     

不同施肥措施臭氧浓度升高对不同水稻品种光合特性的影响

近地层臭氧(O₃)已严重威胁到作物生产,而施肥可以调节土壤的养分平衡,进而促进作物生长。以两个水稻品种(徽两优898和南粳9108)为研究对象,利用开顶式气室,设置2个O₃浓度处理(NF:环境大气为对照;NF40:环境大气+40 nmol/mol O₃),每个O₃处理下嵌套设置3个肥料处理(Ino:施无机肥处理,270 kg N hm^-2 a^-1;Red:减施无机肥30%处理,189 kg N hm^-2 a^-1;Com:有机无机肥配施处理,Red+有机肥鸡粪5000 kg hm^-2 a^-1),通过测定不同生育期水稻光合参数,探究不同肥料处理下O₃对水稻不同生育阶段光合生理的影响。结果表明,NF40对水稻营养生长阶段的饱和光合速率(A_sat)没有显著影响,而显著地降低了水稻灌浆期的A_sat。基于两个水稻品种的A_sat和相对叶绿素含量(SPAD)相对减少量与O₃累积剂量关系的斜率,发现杂交稻徽两优898(A_sat和SPAD的斜率:-1.55和-0.98)比常规稻南粳9108(A_sat和SPAD的斜率:-0.92和0.06)对O₃更敏感。此外,基于不同O₃处理下水稻的气孔导度(g_s)和胞间二氧化碳浓度(C_i),可以看出O₃造成南粳9108光合速率降低的主要是非气孔因素,而徽两优898光合的降低是由气孔因素和非气孔因素共同限制。与Ino处理相比,Red处理主要通过降低叶片SPAD进而显著地抑制两种水稻品种的A_sat,但Ino处理和Com处理间A_sat没有显著差异,说明有机无机肥配施能部分缓解减施无机肥造成水稻光合的降低。O₃和肥料处理对两个水稻的所有光合参数都没有显著的交互影响,表明短期有机无机肥配施并不能有效缓解O₃对作物造成的负面影响。在O₃污染背景下,研究结果可以为通过合理的农田氮肥管理措施减缓O₃造成的作物减产提供理论依据。     

Comparative kinetic analysis of ammonium and nitrate acquisition by tropical lowland rice: implications for rice cultivation and yield potential

Nitrogen limitation compromises the realization of yield potential in cereals more than any other single factor. In rice, the world's most important crop species, the assumption has long been that only ammonium-N is efficiently utilized. Consequently, nitrate utilization has been largely ignored, although fragmentary data have suggested that growth could be substantial on nitrate. Using the short-lived radiotracer ¹³N, we here provide direct comparisons of root transmembrane fluxes and cytoplasmic pool sizes for nitrate- and ammonium-N in a major variety of Indica rice ( Oryza sativa ), and show that nitrate acquisition is not only of high capacity and efficiency but is superior to that of ammonium. We believe our results have implications for rice breeding and molecular genetics as well as the design of water-management and fertilization regimes. Potential strategies to harness this hitherto unexplored N-utilization potential are proposed.     

不同秧苗素质和移栽密度条件下臭氧胁迫对水稻光合作用、物质生产和产量的影响

近地层臭氧浓度升高使水稻生长受抑进而使产量下降,但这种影响是否因不同栽培条件而异尚不清楚。2011年依托先进的稻田臭氧FACE(Free Air gas Concentration Enrichment)技术平台,以汕优63为供试材料,臭氧设置大气臭氧浓度(Ambient)和高臭氧浓度(比Ambient高50%),秧苗素质设置弱苗(移栽时无分蘖)和壮苗(移栽时带两个分蘖),移栽密度设置低密度(16穴/m2)、中密度(24穴/m2)和高密度(32穴/m2),研究不同秧苗素质和移栽密度条件下臭氧胁迫对水稻生长和产量的影响。结果表明:高浓度臭氧使水稻结实期叶片SPAD值、净光合速率、气孔导度和蒸腾速率明显下降,但胞间CO2浓度和叶温无显著变化。高浓度臭氧对水稻拔节前物质生产量没有影响,但使拔节至抽穗期、抽穗至成熟期物质生产量平均分别降低13%和29%,进而使成熟期生物产量和籽粒产量均显著下降。方差分析表明,臭氧与秧苗素质间没有互作效应,但臭氧与移栽密度的互作对最终产量的影响达显著水平。以上结果表明,臭氧胁迫使水稻生长后期光合受阻,导致物质生产和产量显著下降;适当增加移栽密度可能会减少臭氧胁迫下水稻产量的损失。     

Duplication and DNA segmental loss in the rice genome: implications for diploidization

* Large-scale duplication events have been recently uncovered in the rice genome, but different interpretations were proposed regarding the extent of the duplications. * Through analysing the 370 Mb genome sequences assembled into 12 chromosomes of Oryza sativa subspecies indica, we detected 10 duplicated blocks on all 12 chromosomes that contained 47% of the total predicted genes. Based on the phylogenetic analysis, we inferred that this was a result of a genome duplication that occurred c. 70 million years ago, supporting the polyploidy origin of the rice genome. In addition, a segmental duplication was also identified involving chromosomes 11 and 12, which occurred c. 5 million years ago. * Following the duplications, there have been large-scale chromosomal rearrangements and deletions. About 30-65% of duplicated genes were lost shortly after the duplications, leading to a rapid diploidization. * Together with other lines of evidence, we propose that polyploidization is still an ongoing process in grasses of polyploidy origins.     

不同水稻品种对虫害胁迫的生理响应

以褐飞虱-水稻为模式,研究虫害胁迫下植物的化学防御生理生态特征,测定了可溶性糖含量、叶绿素含量、光合速率、蒸腾速率、气孔导度以及细胞间隙二氧化碳浓度、防御酶的时间变化特征.结果表明,经虫害诱导,不同品种水稻可溶性糖含量降低;同时,光合速率以及叶绿素含量也相应下降;蒸腾速率、气孔导度和细胞间隙二氧化碳浓度的变化不显著。虫害对水稻叶片多酚氧化酶、过氧化物酶和脂氧合酶均具有诱导作用.这种诱导作用具有时间效应,且不同品种诱导作用不一致.     

Creation of the whole human genome microarray

Several companies have recently announced the availability of products that enable a scientist to probe gene expression from the entire human genome on a single DNA microarray. This review will focus on the underlying technological trends that have made this achievement possible, the particular methodologies which are employed to create such microarrays and the implications of the whole human genome microarray for future biological studies. The single genome array represents an important milestone on the path to unraveling the complexity of the cellular networks that control living processes. The microarrays being designed today may, however, become distant ancestors to the whole human genome arrays of the future as our understanding of the functioning of the human genome increases.     

水稻SBP基因家族的生物信息学分析(英文)

SQUAMOSA PROMOTER BINDING PROTEIN-LIKE(SBP)转录因子家族是植物特有的一类转录因子。本文确定了20水稻基因组上编码的SBP基因。通过分类,染色体定位,保守区确定,亲缘关系,以及水稻SBP家族中的重复基因及该家族成员形成蛋白二聚体的可能性进行分析,其次利用了Affymetrix水稻基因组芯片数据,对所有这些基因的表达谱进行了分析。结果表明,水稻SBP基因在花和种子的发育过程中可能发挥重要作用,而其对环境胁迫却不敏感。这对进一步研究SBP的功能提供了有价值的线索和思路。     

Comparative analysis of panicle proteomes of two upland rice varieties upon hyper-osmotic stress

Drought is a major environmental factor that limits the yield of rice dramatically. Upland rice is now regarded as a promising rice cultivar in water saving agriculture. Two varieties of upland rice Zhonghan 3 and IR29 were used to compare the physiological and proteomic responses to hyper-osmotic stress induced by 15% polyethyleneglycol (PEG) at the reproductive stage. Osmotic stress affected the growth development and caused the loss of production especially the grain yield. IR29 was more tolerant to PEG than Zhonghan 3 as shown by less yield loss under osmotic stress conditions. Comparative proteomic analysis of the panicle suggested that the up-regulation of glycolysis related proteins and defense proteins may contribute to the better osmotic tolerance in IR29.     

Comparative proteomic analysis of methyl jasmonate‐induced defense responses in different rice cultivars

Jasmonate is an important endogenous chemical signal that plays a role in modulation of plant defense responses. To understand its mechanisms in regulation of rice resistance against the fungal pathogen Magnaporthe oryzae, comparative phenotype and proteomic analyses were undertaken using two near‐isogenic cultivars with different levels of disease resistance. Methyl‐jasmonate (MeJA) treatment significantly enhanced the resistance against M. oryzae in both cultivars but the treated resistant cultivar maintained a higher level of resistance than the same treated susceptible cultivars. Proteomic analysis revealed 26 and 16 MeJA‐modulated proteins in resistant and susceptible cultivars, respectively, and both cultivars shared a common set of 13 proteins. Cumulatively, a total of 29 unique MeJA‐influenced proteins were identified with many of them known to be associated with plant defense response and ROS accumulation. Consistent with the findings of proteomic analysis, MeJA treatment increased ROS accumulation in both cultivars with the resistant cultivar showing higher levels of ROS production and cell membrane damage than the susceptible cultivar. Taken together, our data add a new insight into the mechanisms of overall MeJA‐induced rice defense response and provide a molecular basis of using MeJA to enhance fungal disease resistance in resistant and susceptible rice cultivars.     

拟南芥和水稻金属蛋白酶ftsH基因家族的基因组比较分析

FtsH(Filamentation temperature-sensitive H)是一种广泛存在于原核生物和真核生物中的ATP依赖型金属蛋白酶。同源性分析表明,在拟南芥和水稻基因组中分别有12个和9个ftsH基因。ftsH基因在染色体上的分布有明显的偏爱性,如拟南芥的1、2、5号染色体和水稻的1、5号染色体。亚细胞定位分析表明,所有FtsH蛋白均定位于叶绿体或线粒体中。系统进化分析表明,21个FtsH蛋白成员可分为8个类群,其中AtFtsH12在水稻中没有发现种间同源物。每个类群成员的蛋白序列高度保守,种内同源物显示出大于80%的相似性,而种间同源物的相似性也大于70%。类群内的同源基因并非平行进化产生的,拟南芥基因组中进化出AtftsH1/5、AtftsH2/8、AtftsH3/10和AtftsH7/9共4个同源基因对,而水稻基因组中只有OsftsH3/8和OsftsH4/5两个同源基因对。每一类群中的成员在基因外显子-内含子边界分布上表现出高度保守性,在蛋白功能结构域的可变残基上具有偏爱性,而内含子在碱基组成和序列长度上表现出广泛的变异。拟南芥和水稻ftsH基因家族的比较分析为其他物种ftsH基因的特...     

缺铁水稻根转录本微点阵分析

水稻不仅是非常重要的粮食作物 ,也是用于研究的模式植物之一 .由于水稻基因组测序的完成 ,用功能基因组学的现代方法来研究缺铁相关基因的表达调控是最高效的方法之一。在前期工作的基础上 ,精心设计了缺铁和EDTA鳌合二价铁诱导5天的水稻根实验 ,并进行了转录水平的微点阵 (microarray)分析。但只获得了第 5天的结果。在 10 5 31个水稻cDNA芯片图谱中 ,缺铁和加铁比较发现了 4 5 1个差异点。对缺铁诱导的 4 5 1个差异cDNA逐一地进行NCBI (美国国家生物技术信息中心 )的BLAST(局部定位排列搜索工具 )数据库检索、分析和归类。发现其中缺铁与加铁 ( -Fe/Fe -EDTAratio)之间的相对表达水平(REL)在 2 - 9.175之间的缺铁诱导上调基因为 2 0 3个 ,缺铁诱导的下调基因为 2 4 8个。对每一类上调基因都逐一地进行了NCBI-PubMed的文献检索。利用国际网络数据库进行了功能鉴定。     

不同波长蓝光LED对两个品种水稻秧苗生长的影响

传统的大田育秧方式容易受到自然条件的影响,如在连续的阴雨天容易导致烂秧,而采用人工可控的工厂化育秧则有助于解决此类问题。LED光源具有光质纯、光效高以及低能耗等优势,是一种有望在工厂化育秧中应用的人工光源。该研究以生长特性差异明显的水稻天优998(籼稻)和圣稻14(粳稻)为材料,在光强为(60±5)μmol·m~-2·s~-1、光周期为12 h·d~-1的条件下,以450、470和490 nm 3个波长的蓝光LED照射天优998和圣稻14秧苗,考察了不同波长蓝光对两个品种的三叶期和五叶期水稻秧苗生长的影响。结果表明:蓝光处理下两个品种、不同秧龄幼苗的壮苗指数、根系活力和根数增加,体内碳、氮代谢活性增强,抗氧化物酶活性也会增加。3个波长的蓝光对两个品种、不同秧龄水稻秧苗生长的影响存在差异,450 nm照射下水稻秧苗的各项生长指标较优,生产上育秧可根据秧龄选择450 nm或490 nm作为独立和组合光源。     

Population genomics identifies the origin and signatures of selection of Korean weedy rice

Weedy rice is the same biological species as cultivated rice (Oryza sativa); it is also a noxious weed infesting rice fields worldwide. Its formation and population‐selective or ‐adaptive signatures are poorly understood. In this study, we investigated the phylogenetics, population structure and signatures of selection of Korean weedy rice by determining the whole genomes of 30 weedy rice, 30 landrace rice and ten wild rice samples. The phylogenetic tree and results of ancestry inference study clearly showed that the genetic distance of Korean weedy rice was far from the wild rice and near with cultivated rice. Furthermore, 537 genes showed evidence of recent positive or divergent selection, consistent with some adaptive traits. This study indicates that Korean weedy rice originated from hybridization of modern indica/indica or japonica/japonica rather than wild rice. Moreover, weedy rice is not only a notorious weed in rice fields, but also contains many untapped valuable traits or haplotypes that may be a useful genetic resource for improving cultivated rice.     

辽宁省主栽水稻品种抗稻瘟病基因的鉴定及分析

鉴定主栽水稻品种及育种骨干亲本的抗瘟基因型,有助于了解不同抗病基因在品种中的分布,为抗病品种选育及品种布局提供参考。本研究选取辽宁省24份水稻材料,根据7个抗稻瘟病基因的保守区设计引物,扩增各品种的编码区序列,对扩增的序列进行对比分析,鉴定各基因在24个品种中的分布情况。结果表明:辽宁省24个主栽水稻品种均不携带Pi21、Pi36、Pi37或其抗病等位基因,而Pid2、Pid3、Pita和Pik/Piks/Pikm/Pikp在24个品种中以不同突变类型及不同频率出现,其中,在2个品种中检测到Pid2抗病基因及Pid3的抗病等位基因;4个品种检测到Pita的抗病等位基因,Pita的等位基因中新发现的几处碱基突变并未影响抗病基因的功能;所有品种中均无与Pik及其复等位基因完全一致的序列,但利用携带AVR-pik的稻瘟病菌接种鉴定结果表明,辽粳454和沈农265携带的Pik等位基因可能仍具有抗病基因功能。     

大粒香水稻叶绿体基因组特征分析

大粒香作为贵州重要的优质稻资源,推广种植面积大,并且在乡村振兴过程中为社会带来了较高的经济效益。然而,目前对大粒香基因组学的理论研究报道较少。为揭示大粒香水稻叶绿体基因组(cpDNA)特征及系统发育关系,该研究对大粒香叶绿体进行测序,并分析其基因组特征。结果表明:(1)大粒香水稻cpDNA全长134 563 bp,包括1个大单拷贝区(LSC,80 864 bp)、1个小单拷贝区(SSC,12 347 bp)和2个反向重复序列区(IR_s,20 676 bp)。(2)注释到129个基因,可分为蛋白编码、tRNA和rRNA三类基因,数量分别为85个、36个和8个。(3)密码子偏好分析显示,大粒香cpDNA密码子偏好A碱基或U(T)碱基,亮氨酸密码子使用了1 944次,使用次数最多; 半胱氨酸的密码子仅使用198次,使用次数最少。(4)检测到129个SSR,其中有95个单核苷酸重复且大部分SSR序列由A/T碱基组成。(5)系统发育分析结果显示,大粒香与热带粳稻亲缘关系最近,聚为一类。该研究结果揭示了大粒香叶绿体基因组信息,并确定了大粒香系统发育所属分支。     

Microarray and proteomic analysis of brassinosteroid- and gibberellin-regulated gene and protein expression in rice

Brassinosteroid (BR) and gibberellin (GA) are two groups of plant growth regulators essential for normal plant growth and development. To gain insight into the molecular mechanism by which BR and GA regulate the growth and development of plants, especially the monocot plant rice, it is necessary to identify and analyze more genes and proteins that are regulated by them. With the availability of draft sequences of two major types, japonica and indica rice, it has become possible to analyze expression changes of genes and proteins at genome scale. In this review, we summarize rice functional genomic research by using microarray and proteomic approaches and our recent research results focusing on the comparison of cDNA microarray and proteomic analyses of BR- and GA-regulated gene and protein expression in rice. We believe our findings have important implications for understanding the mechanism by which BR and GA regulate the growth and development of rice.