Expression profiles of genes involved in starch synthesis in non-waxy and waxy wheat

Non-waxy and waxy types of wheat were used to study the expression profiles of genes involved in starch synthesis. During grain development, expression profiles and levels of AGPL and AGPS genes were similar to each other. SSI expression remained constant during the late grain development, while expression of SSII and SSIII was higher over the early to middle and middle grain development, and the GBSSI was actively expressed during the entire grain development. SBEIIa was higher expressed during early to middle stage, SBEIIb was active in middle and SBEI during middle to late grain development. During the entire grain development, expression levels of GBSSI and SSIII genes were higher in non-waxy type of wheat, while those of SBEI and SBEIIb were lower in the non-waxy type of wheat. Expression of all genes involved in starch synthesis was stage-specific and tissue-specific. In addition, the expression profiles of genes encoding starch synthase were in agreement with the activity changes of starch synthase during grain development.     

Contribution of mineral nutrients from source to sink organs in rice under different nitrogen fertilization

The pot experiment with three treatments of nitrogen (N) topdressing was performed with the japonica rice cultivar viz. Huaidao 5. Remobilization of nine mineral nutrients including N, phosphorus (P), potassium (K), calcium (Ca), magnesium (Mg), iron (Fe), zinc (Zn), manganese (Mn), and copper (Cu) was measured from the source organs including bracts, leaf, and sheath to sink rice grain. Experimental results showed considerable contribution of bracts to grain for N, Mg, and Zn, with the averages contributions of 5.96, 12.56, and 12.34%, respectively, indicating a positive role of rice bracts in N, Mg, and Zn remobilization during grain filling. By contrast, minor contribution of bracts to grain P, K, and Cu was revealed, with the contribution rate being 0.99, 3.90, and 3.05%, respectively. Further, a net increase in Ca and Fe concentrations of bracts was detected, implying that bracts function as a sink of these mineral nutrients. In addition, grains produced at a moderate level of N topdressing had higher Fe and similar Zn concentration in comparison with those at high N level, suggesting the possibility of N management for maintaining Fe and Zn level under high yielding conditions.     

Genotypic variation in partitioning of dry matter and manganese between source and sink organs of rice under manganese stress

Key message

Genetic variability in dry matter and manganese partitioning between source and sink organs was the key mechanism for Mn efficient rice genotypes to cope with Mn stress.

Abstract

Considerable differences exist among cereal genotypes to cope manganese (Mn) deficiency, but the underlying mechanisms are poorly understood. Minimal information regarding partitioning and/or remobilization of dry matter and Mn between source and sink organs exists in rice genotypes differing in Mn efficiency. The present study was aimed to assess the growth dynamics in terms of dry matter and Mn remobilization in the whole plant (leaves and tillers as source and panicles and grains as sink) during the grain development in diverse rice genotypes. The efficient genotypes accumulated higher dry matter than inefficient genotypes under low Mn level. The translocation index i.e., uptake in grain/total uptake was 0.11 in efficient genotype (PR 116) and 0.04 in inefficient genotypes (PR 111). The efficient genotype had higher grain Mn utilization efficiency of 0.71 in comparison to 0.48 of inefficient genotype indicating that in efficient genotype, Mn in grain produces more dry matter than inefficient genotypes. The efficient genotypes also had higher flag leaf area and nitrate reductase activity. The source of efficient genotypes contributed to a greater extent to developing sink but further mobilization to grain was hindered by panicle. The panicle of inefficient genotypes had higher per cent of Mn uptake than efficient genotypes indicating that Mn was least mobilized from panicle to grain in inefficient genotypes. The lower per cent uptake of Mn in efficient genotypes indicated that Mn was mobilized from panicle to developing grain and this led to higher Mn translocation index in grain of efficient genotypes. The uptake partitioning revealed that source of all genotypes mobilized the Mn towards the sink to almost same extent but it was the panicle where highest per cent uptake per plant was in inefficient genotypes and lowest in efficient genotypes. The lowest per cent uptake in panicle of efficient genotypes revealed that it supported developing grain to have highest translocation index.     

Systems model-guided rice yield improvements based on genes controlling source,sink, and flow

A large number of genes related to source, sink,and flow have been identified after decades of research in plant genetics. Unfortunately, these genes have not been effectively utilized in modern crop breeding. This perspective paper aims to examine the reasons behind such a phenomenon and propose a strategy to resolve this situation. Specifically, we first systematically survey the currently cloned genes related to source, sink, and flow;then we discuss three factors hindering effective application of these identified genes, which include the lack of effective methods to identify limiting or critical steps in a signaling network, the misplacement of emphasis on properties, at the leaf, instead of the whole canopy level,and the non-linear complex interaction between source,sink, and flow. Finally, we propose the development of systems models of source, sink and flow, together with a detailed simulation of interactions between them and their surrounding environments, to guide effective use of the identified elements in modern rice breeding. These systems models will contribute directly to the definition of crop ideotype and also identification of critical features and parameters that limit the yield potential in current cultivars.     

The Rc and Rd genes are involved in proanthocyanidin synthesis in rice pericarp

Different colors, such as purple, brown, red and white, occur in the pericarp of rice. Here, two genes affecting proanthocyanidin synthesis in red- and brown-colored rice were elucidated. Genetic segregation analysis suggested that the Rd and A loci are identical, and both encode dihydroflavonol-4-reductase (DFR). The introduction of the DFR gene into an Rcrd mutant resulted in red-colored rice, which was brown in the original mutant, demonstrating that the Rd locus encodes the DFR protein. Accumulation of proanthocyanidins was observed in the transformants by the introduction of the Rd gene into the rice Rcrd line. Protein blot analysis showed that the DFR gene was translated in seeds with alternative translation initiation. A search for the Rc gene, which encodes a transacting regulatory factor, was conducted using available DNA markers and the Rice Genome Automated Annotation System program. Three candidate genes were identified and cloned from a rice RcRd line and subsequently introduced into a rice rcrd line. Brown-colored seeds were obtained from transgenic plants by the introduction of a gene containing the basic helix-loop-helix (bHLH) motif, demonstrating that the Rc gene encodes a bHLH protein. Comparison of the Rc locus among rice accessions showed that a 14-bp deletion occurred only in the rc locus.     

Sucrose transport from source to sink seeds in rice

In many higher plants, sucrose is loaded as a major carbon photoassimiliate into the phloem apoplastically by sucrose transporters (SUTs) and unloaded in sink tissues, where it serves as a storage material, carbohydrate backbone, and energy source. In sink tissues, a proportion of sucrose molecules are converted by cell wall invertases (CINs) into hexose that is imported into cells by monosaccharide transporters (MSTs). Thus, in developing seeds, co-ordinated regulation of SUTs, CINs, and MSTs is crucial in carbon distribution. Here, we summarize current efforts on the identification of SUTs, CINs, and MSTs in rice.     

Development of SNP-based CAPS and dCAPS markers in eight different genes involved in starch biosynthesis in rice

Single nucleotide polymorphisms (SNPs), which are inexhaustible, highly stable, and simply detectable sequence polymorphisms, can lead to phenotypic variations by affecting protein composition changes. Here, we report development of 25 new cleaved amplified polymorphic sequence or derived cleaved amplified polymorphic sequence markers that have discrete band sizes in relation to the SNP genotypes in eight putative gene regions. The average frequency of DNA polymorphisms was 1 per 175 bp (SNPs, 1 per 217 bp; In/dels, 1 per 906 bp). In primary statistical analysis of each marker on 55 diverse rice accessions, including different ecotypes, the mean value of the major allele frequency was 0.658 (0.509–0.927). The average polymorphism information content was 0.326 (0.126–0.375). The mean value of the inbreeding coefficient (f) was 0.950 and was positive (heterozygote deficiency) at all loci, corresponding to the inbreeding system in rice. In cluster analysis, all rice accessions clustered mainly into three groups according to the ecotypes. The association analysis showed that the SNP of Granule-bound starch synthase I and ADP-glucose pyrophosphorylase small subunit (ADPase-S) genes were highly associated with apparent amylose content variation than the others. These new SNP markers may be useful in genotyping rice germplasm, in marker-assisted selection for improving starch quality and content, and in linkage as well as association studies. Electronic supplementary material  The online version of this article (doi:) contains supplementary material, which is available to authorized users.     

Gene expression profiling in rice young panicle and vegetative organs and identification of panicle-specific genes through known gene functions

In rice, at the stage from pistil and stamen primordia formation to microsporocyte meiosis, the young panicle organs (YPO) make a great contribution to grain productivity. This period corresponds to the onset of meiosis and marks the transition from vegetative to reproductive stages. By comparing gene expression profiling of YPO with that of rice aerial vegetative organs (AVO), it is possible to gain further molecular insight into this period that is developmentally and functionally important. In this report, a total of 92,582 high-quality ESTs from 5′-end sequencing, including 44,247 from YPO and 48,335 from AVO, were obtained and classified. There were 12,884 (29.12%) ESTs from YPO and 16,304 (33.73%) ESTs from AVO matched to known genes, which generated 1,667 and 2,172 known genes, respectively, after integration of these ESTs. From the functions of known homologous genes, we identified some tissue- and developmental-stage-specified genes in YPO. The expression of these genes clearly reflected the unique functional characteristics of YPO. Furthermore, we estimated that there are about 10,000 mRNAs specifically expressed in rice YPO. Jiabin Tang and Hong’ai Xia contributed equally to this work     

Expression study of five genes involved in floral organ development in multiple seeded rice

Rice cultivar Jugal is a unique floral organ mutant from South Bengal and Odisa, the two sister states of Eastern India, carries more than one kernels in most of its spikelet. Most of the mature florets of this line possess more than one carpal which later developed into more than one kernels within a single grain on maturity. In order to study the role of floral organ development genes commonly involved, expression study of five selected floral organ developmental genes (OsMADS3, OsMADS13, OsMADS21, OsMADS58, and DL) were studied through real time based quantitative PCR for three consecutive flower organ developmental stages (Sp5, Sp6, and Sp7) with reference to a normal rice line (IR36). All the studied genes showed differential relative expression in respect to the reference gene both in mutant and normal rice lines for the studied genes and stages and individual distinct pattern except DL gene which was almost similar in both Jugal and IR36 at early stage of floral organ development viz Sp5 and Sp6 stage. However, after Sp6 stage the expression is reduced in the normal rice (IR36) but in case of the mutant rice (Jugal) the expression started to increase and at Sp7 the expression level was much higher in the mutant line. The information resulted from the investigation form the basic idea on regulatory aspects of floral organ development in rice.     

Simultaneous boosting of source and sink capacities doubles tuber starch yield of potato plants

An important goal in biotechnological research is to improve the yield of crop plants. Here, we genetically modified simultaneously source and sink capacities in potato (Solanum tuberosum cv. Desirée) plants to improve starch yield. Source capacity was increased by mesophyll‐specific overexpression of a pyrophosphatase or, alternatively, by antisense expression of the ADP‐glucose pyrophosphorylase in leaves. Both approaches make use of re‐routing photoassimilates to sink organs at the expense of leaf starch accumulation. Simultaneous increase in sink capacity was accomplished by overexpression of two plastidic metabolite translocators, that is, a glucose 6‐phosphate/phosphate translocator and an adenylate translocator in tubers. Employing such a ‘pull’ approach, we have previously shown that potato starch content and yield can be increased when sink strength is elevated. In the current biotechnological approach, we successfully enhanced source and sink capacities by a combination of ‘pull’ and ‘push’ approaches using two different attempts. A doubling in tuber starch yield was achieved. This successful approach might be transferable to other crop plants in the future.     

Activities of enzymes involved in starch synthesis in wheat grains differing in starch content

This work was carried out to characterize starch accumulation and activities of key enzymes during grain filling in two wheat cultivars differing in starch content. The results showed that the starch accumulation rate (SAR) and activities of sucrose synthase, ADP-glucose pyrophosphorylase, soluble starch synthase, granule-bound starch synthase, and starch branching enzyme in the cultivar with a high starch content were significantly higher than those in the cultivar with a low starch content. The simulation with Richards’ equation showed that it was average starch accumulation rate but not active starch accumulation duration that determined starch accumulation. As compared with the cultivar with a low starch content, plants of the cultivar with a high starch content maintained the higher SAR and greater activities of related enzymes during mid and late grain filling stages. Consequently, the cultivar with a high starch content had advantages over that with a low starch content in terms of the amount of starch accumulation at mid and late grain filling stages.