Publications
| Title | Abstract | Year(sorted descending) Filter | PMID Filter |
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| molecular dissection of a rice microtubule-associated ring finger protein and its potential role in salt tolerance in arabidopsis. | although a number of ring e3 ligases in plants have been demonstrated to play key roles in a wide range of abiotic stresses, relatively few studies have detailed how ring e3 ligases exert their cellular actions. we describe oryza sativa ring finger protein with microtubule-targeting domain 1 (osrmt1), a functional ring e3 ligase that is likely involved in a salt tolerance mechanism. functional characterization revealed that osrmt1 undergoes homodimer formation and subsequently autoubiquitination ... | 2015 | 26358044 |
| biallelic and genome wide association mapping of germanium tolerant loci in rice (oryza sativa l.). | rice plants accumulate high concentrations of silicon. silicon has been shown to be involved in plant growth, high yield, and mitigating biotic and abiotic stresses. however, it has been demonstrated that inorganic arsenic is taken up by rice through silicon transporters under anaerobic conditions, thus the ability to efficiently take up silicon may be considered either a positive or a negative trait in rice. germanium is an analogue of silicon that produces brown lesions in shoots and leaves, a ... | 2015 | 26356220 |
| small-scale gene duplications played a major role in the recent evolution of wheat chromosome 3b. | bread wheat is not only an important crop, but its large (17 gb), highly repetitive, and hexaploid genome makes it a good model to study the organization and evolution of complex genomes. recently, we produced a high quality reference sequence of wheat chromosome 3b (774 mb), which provides an excellent opportunity to study the evolutionary dynamics of a large and polyploid genome, specifically the impact of single gene duplications. | 2015 | 26353816 |
| distinct regulatory changes underlying differential expression of teosinte branched1-cycloidea-proliferating cell factor genes associated with petal variations in zygomorphic flowers of petrocosmea spp. of the family gesneriaceae. | cycloidea (cyc)-like genes, belonging to the plant-specific tcp transcription factor family that is named after teosinte branched1 (tb1) from maize (zea mays), cyc from antirrhinum majus, and the proliferating cell factors (pcf) from rice (oryza sativa), have conserved dorsal identity function in patterning floral zygomorphy mainly through specific expression in dorsal petals of a flower. their expression changes are usually related to morphological diversity of zygomorphic flowers. however, it ... | 2015 | 26351309 |
| epigenetic mutation of rav6 affects leaf angle and seed size in rice. | heritable epigenetic variants of genes, termed epialleles, can broaden genetic and phenotypic diversity in eukaryotes. epialleles may also provide a new source of beneficial traits for crop breeding, but very few epialleles related to agricultural traits have been identified in crops. here, we identified epi-rav6, a gain-of-function epiallele of rice (oryza sativa) related to abscisic acid insensitive3 (abi3)/viviparous1 (vp1) 6 (rav6), which encodes a b3 dna-binding domain-containing protein. t ... | 2015 | 26351308 |
| sustained low abscisic acid levels increase seedling vigor under cold stress in rice (oryza sativa l.). | stress-induced abscisic acid (aba) is mainly catabolized by aba 8'-hydroxylase (aba8ox), which also strictly regulates endogenous aba levels. although three members of the aba8ox gene family are conserved in rice, it is not clear which stressors induce expression of these genes. here, we found that osaba8ox1 was induced by cold stress within 24 h and that osaba8ox2 and osaba8ox3 were not. in contrast, osaba8ox2 and osaba8ox3 were aba-inducible, but osaba8ox1 was not. osaba8ox1, osaba8ox2, and os ... | 2015 | 26350634 |
| divergent biochemical and enzymatic properties of oxalate oxidase isoforms encoded by four similar genes in rice. | the biochemical and enzymatic properties of four highly similar rice oxalate oxidase proteins (osoxo1-4) were compared after their purification from the leaves of transgenic plants each overexpressing the respective osoxo1-4 genes. although alignment of their amino acid sequences has revealed divergence mainly in the signal peptides and they catalyze the same enzymic (oxalate oxidase) reaction, divergence in apparent molecular mass, km, optimum ph, stability and responses to inhibitors and activ ... | 2015 | 26347131 |
| expression of drought tolerance genes in tropical upland rice cultivars (oryza sativa). | gene expression related to drought response in the leaf tissues of two brazilian upland cultivars, the drought-tolerant douradão and the drought-sensitive primavera, was analyzed. rna-seq identified 27,618 transcripts in the douradão cultivar, with 24,090 (87.2%) homologous to the rice database, and 27,221 transcripts in the primavera cultivar, with 23,663 (86.9%) homologous to the rice database. gene-expression analysis between control and water-deficient treatments revealed 493 and 1154 differ ... | 2015 | 26345744 |
| tiling assembly: a new tool for reference annotation-independent transcript assembly and novel gene identification by rna-sequencing. | annotation of the rice (oryza sativa) genome has evolved significantly since release of its draft sequence, but it is far from complete. several published transcript assembly programmes were tested on rna-sequencing (rna-seq) data to determine their effectiveness in identifying novel genes to improve the rice genome annotation. cufflinks, a popular assembly software, did not identify all transcripts suggested by the rna-seq data. other assembly software was cpu intensive, lacked documentation, o ... | 2015 | 26341416 |
| differential activation of genes related to aluminium tolerance in two contrasting rice cultivars. | rice (oryza sativa) is a highly al-tolerant crop. among other mechanisms, a higher expression of star1/star2 (sensitive to al rhizotoxicity1/2) genes and of nrat1 (nramp aluminium transporter 1), and als1 (aluminium sensitive 1) can at least in part be responsible for the inducible al tolerance in this species. here we analysed the responses to al in two contrasting rice varieties. all analysed toxicity/tolerance markers (root elongation, evans blue, morin and haematoxylin staining) indicated hi ... | 2015 | 26337117 |
| enlightenment on the aequorin-based platform for screening arabidopsis stress sensory channels related to calcium signaling. | free calcium ions (ca(2+)) are an important signal molecule in response to a large array of external stimuli encountered by plants. using the aequorin-based ca(2+) recording system, tremendous progress has been made in understanding the ca(2+) responses to biotic or abiotic stresses in dicotyledonous arabidopsis. however, due to the lack of a similar detection system, little information has been obtained from the monocotyledonous rice (oryza sativa). recombinant aequorin has been introduced into ... | 2015 | 26336841 |
| a node-localized transporter oszip3 is responsible for the preferential distribution of zn to developing tissues in rice. | developing tissues such as meristem with low transpiration require high zn levels for their active growth, but the molecular mechanisms underlying the preferential distribution to these tissues are poorly understood. we found that a member of the zip (zrt, irt-like protein), oszip3, showed high expression in the nodes of rice (oryza sativa). immunostaining revealed that oszip3 was localized at the xylem intervening parenchyma cells and xylem transfer cells of the enlarged vascular bundle in both ... | 2015 | 26332571 |
| strong shift in the diazotrophic endophytic bacterial community inhabiting rice (oryza sativa) plants after flooding. | flooding impacts soil microbial communities, but its effect on endophytic communities has rarely been explored. this work addresses the effect of flooding on the abundance and diversity of endophytic diazotrophic communities on rice plants established in a greenhouse experiment. the nifh gene was significantly more abundant in roots after flooding, whereas the nifh gene copy numbers in leaves were unaffected and remained low. the pca (principal component analysis) of t-rflp (terminal restriction ... | 2015 | 26324852 |
| in vitro assessment of allergenicity features and localization of probable ige binding regions. | rice is cultivated as a staple grain crop in many countries, especially in asia. in the present study, recombinant rice chitinase was expressed, purified and characterized by in silico and immunobiochemical methods. rice chitinase was affinity purified and it resolved at 24 kda on sds-page. purified protein was analyzed for pepsin resistance, heat stability, and ige binding using atopic patients' sera. chitinase was resistant to pepsin digestion and heat treatment at 90 °c for 1 h. it showed sig ... | 2015 | 26321724 |
| rice mel2, the rna recognition motif (rrm) protein, binds in vitro to meiosis-expressed genes containing u-rich rna consensus sequences in the 3'-utr. | post-transcriptional gene regulation by rna recognition motif (rrm) proteins through binding to cis-elements in the 3'-untranslated region (3'-utr) is widely used in eukaryotes to complete various biological processes. rice meiosis arrested at leptotene2 (mel2) is the rrm protein that functions in the transition to meiosis in proper timing. the mel2 rrm preferentially associated with the u-rich rna consensus, uuaguu[u/a][u/g][a/u/g]u, dependently on sequences and proportionally to mel2 protein a ... | 2015 | 26319516 |
| genome-wide association mapping of quantitative trait loci (qtls) for contents of eight elements in brown rice (oryza sativa l.). | an association mapping of quantitative trait loci (qtls) regulating the concentrations of eight elements in brown rice (oryza sativa l.) was performed using usda mini-core subset cultivated in two different environments. in addition, correlation between the grain elemental concentrations was also studied. a total of 60 marker loci associated with 8 grain elemental concentrations were identified, and these loci were clustered into 37 genomic regions. twenty new qtls were found to be associated wi ... | 2015 | 26317332 |
| [influence of sulfur on the formation of fe-mn plaque on root and uptake of cd by rice (oryza sativa l.)]. | a pool culture experiment using exogenous cd-polluted paddy soils was carried out to investigate the influence of different forms of sulfur fertilizers (sulfur and gypsum) on the formation of fe-mn plaque on rice root and the uptake of cd by rice. the results showed that the redox potential ( eh) was about--200-100 mv, the ph was 6.9-7.9 and the pe + ph was 4-10 in different growth periods of rice. the mass fractions of fe and mn plaque on rice root were 5000-13,000 mg · kg(-1) and 170-580 mg · ... | 2015 | 26314143 |
| expansion of the mexican rice borer (lepidoptera: crambidae) into rice and sugarcane in louisiana. | the mexican rice borer, eoreuma loftini (dyar) (lepidoptera: crambidae), is an invasive pest of sugarcane, saccharum spp., rice, oryza sativa l., and other graminaceous crops in the gulf coast region of the united states. traps baited with e. loftini female sex pheromones were used to document establishment and distribution of e. loftini near sugarcane, rice, and noncrop hosts in seven southwest louisiana parishes from 2009 to 2013. additional field surveys documented larval infestations in comm ... | 2015 | 26313982 |
| aquaporin plays an important role in mediating chloroplastic co2 concentration under high-n supply in rice (oryza sativa) plants. | our previous studies demonstrated that chloroplastic co2 concentration (cc) is not sufficient under high-nitrogen (n) supply in rice plants. in this research, we studied how aquaporins- (aqps) mediated cc under different n-supply levels. a hydroponic experiment was conducted in a greenhouse with three different n levels (low n, 0.71 mm; intermediate n, 2.86 mm; and high n, 7.14 mm) in a rice cultivar (oryza sativa cv. shanyou 63) and with an ospip1;1 mutant (oryza sativa cv. nipponbare). the pho ... | 2015 | 26382720 |
| genome-wide cataloging and analysis of alternatively spliced genes in cereal crops. | protein functional diversity at the post-transcriptional level is regulated through spliceosome mediated pre-mrna alternative splicing (as) events and that has been widely demonstrated to be a key player in regulating the functional diversity in plants. identification and analysis of as genes in cereal crop plants are critical for crop improvement and understanding regulatory mechanisms. | 2015 | 26391769 |
| unraveling the light-specific metabolic and regulatory signatures of rice through combined in silico modeling and multiomics analysis. | light quality is an important signaling component upon which plants orchestrate various morphological processes, including seed germination and seedling photomorphogenesis. however, it is still unclear how plants, especially food crops, sense various light qualities and modulate their cellular growth and other developmental processes. therefore, in this work, we initially profiled the transcripts of a model crop, rice (oryza sativa), under four different light treatments (blue, green, red, and w ... | 2015 | 26453433 |
| stable isotope labeling assisted liquid chromatography-electrospray tandem mass spectrometry for quantitative analysis of endogenous gibberellins. | in the current study, we developed a stable isotope labeling strategy for the absolute quantification of gibberellins (gas) by high performance liquid chromatography-electrospray tandem mass spectrometry (hplc-esi-ms/ms). n,n-dimethyl ethylenediamine (dmed) and its deuterated counterpart d(4)-dmed were used to derivatize gas extracted from plant tissue samples and ga standards respectively. the both derivatives of gas were mixed and then subjected to hplc-esi-ms/ms analysis. the absolute quantif ... | 2015 | 26452831 |
| 2d-dige-based proteome expression changes in leaves of rice seedlings exposed to low-level gamma radiation at iitate village, fukushima. | the present study continues our previous research on investigating the biological effects of low-level gamma radiation in rice at the heavily contaminated iitate village in fukushima, by extending the experiments to unraveling the leaf proteome. 14-days-old plants of japonica rice (oryza sativa l. cv. nipponbare) were subjected to gamma radiation level of upto 4 µsv/h, for 72 h. following exposure, leaf samples were taken from the around 190 µsv/3 d exposed seedling and total proteins were extra ... | 2015 | 26451896 |
| divergent dna methylation patterns associated with gene expression in rice cultivars with contrasting drought and salinity stress response. | dna methylation is an epigenetic mechanism that play an important role in gene regulation in response to environmental conditions. the understanding of dna methylation at the whole genome level can provide insights into the regulatory mechanisms underlying abiotic stress response/adaptation. we report dna methylation patterns and their influence on transcription in three rice (oryza sativa) cultivars (ir64, stress-sensitive; nagina 22, drought-tolerant; pokkali, salinity-tolerant) via an integra ... | 2015 | 26449881 |
| genetics and physiology of cell wall polysaccharides in the model c4 grass, setaria viridis spp. | setaria viridis has emerged as a model species for the larger c4 grasses. here the cellulose synthase (cesa) superfamily has been defined, with an emphasis on the amounts and distribution of (1,3;1,4)-β-glucan, a cell wall polysaccharide that is characteristic of the grasses and is of considerable value for human health. | 2015 | 26432387 |
| c-terminal extension of calmodulin-like 3 protein from oryza sativa l.: interaction with a high mobility group target protein. | a large number of calmodulin-like (cml) proteins are present in plants, but there is little detailed information on the functions of these proteins in rice (oryza sativa l.). here, the cml3 protein from rice (oscml3) and its truncated form lacking the c-terminal extension (oscml3m) were found to exhibit a ca2+-binding property and subsequent conformational change, but the ability to bind the cam kinase ii peptide was only observed for oscml3m. changes in their secondary structure upon ca2+-bindi ... | 2015 | 26423116 |
| seed priming with polyethylene glycol regulating the physiological and molecular mechanism in rice (oryza sativa l.) under nano-zno stress. | the present study was designed to highlight the impact of seed priming with polyethylene glycol on physiological and molecular mechanism of two cultivars of oryza sativa l. under different levels of zinc oxide nanorods (0, 250, 500 and 750 mg l(-1)). plant growth parameters were significantly increased in seed priming with 30% peg under nano-zno stress in both cultivars. whereas, this increase was more prominent in cultivar qian you no. 1 as compared to cultivar zhu liang you 06. significant inc ... | 2015 | 26419216 |
| hygromycin b-induced cell death is partly mediated by reactive oxygen species in rice (oryza sativa l.). | the aminoglycoside antibiotic hygromycin b (hyg) inhibits prokaryotic, chloroplast and mitochondrial protein synthesis. because of the toxic effect of hyg on plant cells, the hpt gene, encoding hygromycin phosphotransferase, has become one of the most widely used selectable markers in plant transformation. yet the mechanism behind hyg-induced cell lethality in plants is not clearly understood. in this study, we aimed to decipher this mechanism. with hyg treatment, rice calli exhibited cell death ... | 2015 | 26415870 |
| exploring the tertiary gene pool of bread wheat: sequence assembly and analysis of chromosome 5m(g) of aegilops geniculata. | next-generation sequencing (ngs) provides a powerful tool for the discovery of important genes and alleles in crop plants and their wild relatives. despite great advances in ngs technologies, whole-genome shotgun sequencing is cost-prohibitive for species with complex genomes. an attractive option is to reduce genome complexity to a single chromosome prior to sequencing. this work describes a strategy for studying the genomes of distant wild relatives of wheat by isolating single chromosomes fro ... | 2015 | 26408103 |
| analysis of population structure and genetic diversity in rice germplasm using ssr markers: an initiative towards association mapping of agronomic traits in oryza sativa. | genetic diversity is the main source of variability in any crop improvement program. it serves as a reservoir for identifying superior alleles controlling key agronomic and quality traits through allele mining/association mapping. association mapping based on ld (linkage dis-equilibrium), non-random associations between causative loci and phenotype in natural population is highly useful in dissecting out genetic basis of complex traits. for any successful association mapping program, understandi ... | 2015 | 26407693 |
| involvement of mir528 in the regulation of arsenite tolerance in rice (oryza sativa l.). | tens of mirnas were previously established as being arsenic (as) stress responsive in rice. however, their functional role in as tolerance remains unclear. this study demonstrates that transgenic plants overexpressing mir528 (ubi::mir528) were more sensitive to arsenite [as(iii)] compared with wild-type (wt) rice. under normal and stress conditions, mir528-5p and -3p were highly up-regulated in both the roots and leaves of transgenic plants, which exhibited a negative correlation with the expres ... | 2015 | 26403656 |
| exploring the rice dispensable genome using a metagenome-like assembly strategy. | the dispensable genome of a species, consisting of the dispensable sequences present only in a subset of individuals, is believed to play important roles in phenotypic variation and genome evolution. however, construction of the dispensable genome is costly and labor-intensive at present, and so the influence of the dispensable genome in genetic and functional genomic studies has not been fully explored. | 2015 | 26403182 |
| mapping quantitative trait loci for nitrogen uptake and utilization efficiency in rice (oryza sativa l.) at different nitrogen fertilizer levels. | genetic improvement is the fundamental basis for improving nitrogen-use efficiency. a better understanding of genetic factors controlling nitrogen uptake and utilization is required for crop genetic improvement. in this study, we identified the quantitative trait loci (qtls) associated with traits of nitrogen uptake and utilization by using the single-sequence repeat marker method and a recombinant inbred line (ril) population derived from a super hybrid xieyou9308. all the traits investigated w ... | 2015 | 26400271 |
| calcium mitigates arsenic toxicity in rice seedlings by reducing arsenic uptake and modulating the antioxidant defense and glyoxalase systems and stress markers. | the effect of exogenous calcium (ca) on hydroponically grown rice seedlings was studied under arsenic (as) stress by investigating the antioxidant and glyoxalase systems. fourteen-day-old rice (oryza sativa l. cv. brri dhan29) seedlings were exposed to 0.5 and 1 mm na2haso4 alone and in combination with 10 mm cacl2 (ca) for 5 days. both levels of as caused growth inhibition, chlorosis, reduced leaf rwc, and increased as accumulation in the rice seedlings. both doses of as in growth medium induce ... | 2015 | 26798635 |
| nitric oxide alleviated arsenic toxicity by modulation of antioxidants and thiol metabolism in rice (oryza sativa l.). | nitric oxide (no) is a gaseous signaling molecule and has a profound impact on plant growth and development. it is reported to serve as pro oxidant as well as antioxidant in plant system. in the present study, we evaluated the protective role of no against arsenate (as(v)) toxicity in rice plants. as(v) exposure has hampered the plant growth, reduced the chlorophyll content, and enhanced the oxidative stress, while the exogenous no supplementation has reverted these symptoms. no supplementation ... | 2015 | 26793232 |
| microbial community structure in the rhizosphere of rice plants. | the microbial community in the rhizosphere environment is critical for the health of land plants and the processing of soil organic matter. the objective of this study was to determine the extent to which rice plants shape the microbial community in rice field soil over the course of a growing season. rice (oryza sativa) was cultivated under greenhouse conditions in rice field soil from vercelli, italy and the microbial community in the rhizosphere of planted soil microcosms was characterized at ... | 2015 | 26793175 |
| emerging importance of helicases in plant stress tolerance: characterization of oryza sativa repair helicase xpb2 promoter and its functional validation in tobacco under multiple stresses. | genetic material always remains at the risk of spontaneous or induced damage which challenges the normal functioning of dna molecule, thus, dna repair is vital to protect the organisms against genetic damage. helicases, the unique molecular motors, are emerged as prospective molecules to engineer stress tolerance in plants and are involved in nucleic acid metabolism including dna repair. the repair helicase, xpb is an evolutionary conserved protein present in different organisms, including plant ... | 2015 | 26734018 |
| genetic basis of multiple resistance to the brown planthopper (nilaparvata lugens stål) and the green rice leafhopper (nephotettix cincticeps uhler) in the rice cultivar 'asd7' (oryza sativa l. ssp. indica). | the rice cultivar asd7 (oryza sativa l. ssp. indica) is resistant to the brown planthopper (bph; nilaparvata lugens stål) and the green leafhopper (nephotettix virescens distant). here, we analyzed multiple genetic resistance to bph and the green rice leafhopper (grh; nephotettix cincticeps uhler). using two independent f2 populations derived from a cross between asd7 and taichung 65 (oryza sativa ssp. japonica), we detected two qtls (qbph6 and qbph12) for resistance to bph and one qtl (qgrh5) f ... | 2015 | 26719745 |
| genetic dissection of seed storability using two different populations with a same parent rice cultivar n22. | seed storability in rice (oryza sativa l.) is an important agronomic trait. two segregating populations with n22 (indica) as a common parent, viz. a set of 122 backcross-inbred lines (bils) derived from the backcross nanjing35 (japonica)/n22//nanjing35 and another population comprising 189 recombinant inbred lines (rils) from the cross of ussr5 (japonica) and n22, were studied to detect quantitative trait loci (qtl) controlling seed storability. germination percentage (gp) was used to evaluate s ... | 2015 | 26719744 |
| genome-wide association mapping focusing on a rice population derived from rice breeding programs in a region. | plant breeding programs in local regions may generate genetic variations that are desirable to local populations and shape adaptability during the establishment of local populations. to elucidate genetic bases for this process, we proposed a new approach for identifying the genetic bases for the traits improved during rice breeding programs; association mapping focusing on a local population. in the present study, we performed association mapping focusing on a local rice population, consisting o ... | 2015 | 26719743 |
| overexpression of cold-inducible wheat galactinol synthase confers tolerance to chilling stress in transgenic rice. | galactinol synthase (gols) is considered to be a key regulator of the biosynthesis of raffinose family oligosaccharides (rfos). accumulation of rfos has been reported to play a role in protection against abiotic stresses. we identified two cdnas encoding galactinol synthase from wheat (triticum aestivum l.), which we designated as tagols1 and tagols2. expression of the two tagols genes was induced by cold stress but not by drought, heat stress or aba treatment in wheat. we generated transgenic l ... | 2015 | 26719738 |
| novel and conserved mirnas in the halophyte suaeda maritima identified by deep sequencing and computational predictions using the ests of two mangrove plants. | although mirnas are reportedly involved in the salt stress tolerance of plants, mirna profiling in plants has largely remained restricted to glycophytes, including certain crop species that do not exhibit any tolerance to salinity. hence, this manuscript describes the results from the mirna profiling of the halophyte suaeda maritima, which is used worldwide to study salt tolerance in plants. | 2015 | 26714456 |
| using rna-seq to profile gene expression of spikelet development in response to temperature and nitrogen during meiosis in rice (oryza sativa l.). | rice reproductive development is sensitive to high temperature and soil nitrogen supply, both of which are predicted to be increased threats to rice crop yield. rice spikelet development is a critical process that determines yield, yet little is known about the transcriptional regulation of rice spikelet development in response to the combination of heat stress and low nitrogen availability. here, we profiled gene expression of rice spikelet development during meiosis under heat stress and diffe ... | 2015 | 26714321 |
| genetic variation and association mapping for 12 agronomic traits in indica rice. | increasing rice (oryza sativa l.) yield is a crucial challenge for modern agriculture. the ideal plant architecture is considered to be critical to enhance rice yield. elite plant morphological traits should include compact plant type, short stature, few unproductive tillers, thick and sturdy stems and erect leaves. to reveal the genetic variations of important morphological traits, 523 germplasm accessions were genotyped using the illumina custom-designed array containing 5,291 single nucleotid ... | 2015 | 26673149 |
| rice perception of symbiotic arbuscular mycorrhizal fungi requires the karrikin receptor complex. | in terrestrial ecosystems, plants take up phosphate predominantly via association with arbuscular mycorrhizal fungi (amf). we identified loss of responsiveness to amf in the rice (oryza sativa) mutant hebiba, reflected by the absence of physical contact and of characteristic transcriptional responses to fungal signals. among the 26 genes deleted in hebiba, dwarf 14 like is, the one responsible for loss of symbiosis . it encodes an alpha/beta-fold hydrolase, that is a component of an intracellula ... | 2015 | 26680197 |
| rna-seq analysis of urea nutrition responsive transcriptome of oryza sativa elite indica cultivar rp bio 226. | rice yield is greatly influenced by the nitrogen and rice varieties show variation in yield. for understanding the role of urea nutrition in the yield of elite indica rice cultivar rpbio-226, the urea responsive transcriptome was sequenced and analyzed. the raw reads and the transcriptome shotgun assembly project has been deposited at ddbj/embl/genbank under the accession gdkm00000000. the version described in this paper is the first version, gdkm01000000. | 2015 | 26697348 |
| the making of a genomic parasite - the mothra family sheds light on the evolution of helitrons in plants. | helitrons are class ii transposons which are highly abundant in almost all eukaryotes. however, most helitrons lack protein coding sequence. these non-autonomous elements are thought to hijack recombinase/helicase (rephel) and possibly further enzymes from related, autonomous elements. interestingly, many plant helitrons contain an additional gene encoding a single-strand binding protein homologous to replication factor a (rpa), a highly conserved, single-copy gene found in all eukaryotes. | 2015 | 26688693 |
| association mapping of quantitative trait loci for mineral element contents in whole grain rice (oryza sativa l.). | mineral elements in brown rice grain play an important role in human health. in this study, variations in the content of iron (fe), zinc (zn), selenium (se), cadmium (cd), and lead (pb) in 378 accessions of brown rice were investigated, and association mapping was used to detect the quantitative trait loci (qtls) responsible for the variation. among seven subpopulations, the mean values of zn and cd in the japonica group were significantly higher than in the indica groups. the population structu ... | 2015 | 26641542 |
| application of brown planthopper salivary gland extract to rice plants induces systemic host mrna patterns associated with nutrient remobilization. | insect saliva plays an important role in modulation of plant-insect interactions. although this area of research has generated much attention in recent years, mechanisms of how saliva affects plant responses remain poorly understood. to address this void, the present study investigated the impact of the brown planthopper (nilaparvata lugens, stål; hereafter bph) salivary gland extract (sge) on rice (oryza sativa) systemic responses at the mrna level. differentially expressed rice mrnas were gene ... | 2015 | 26641488 |
| screening of candidate genes and fine mapping of drought tolerance quantitative trait loci on chromosome 4 in rice (oryza sativa l.) under drought stress. | due to severe water resource shortage, genetics of and breeding for dt (drought tolerance) in rice (oryza sativa l.) have become one of the hot research topics. identification of grain yield qtls (quantitative trait loci) directly related to the dt trait of rice can provide useful information for breeding new drought-resistant and water-saving rice varieties via marker-assisted selection. a population of 105 advanced bils (backcross introgression lines) derived from a cross between zhenshan97b a ... | 2015 | 26640678 |
| integrated physiological, biochemical, and molecular analysis identifies important traits and mechanisms associated with differential response of rice genotypes to elevated temperature. | in changing climatic conditions, heat stress caused by high temperature poses a serious threat to rice cultivation. a multiple organizational analysis at physiological, biochemical, and molecular levels is required to fully understand the impact of elevated temperature in rice. this study was aimed at deciphering the elevated temperature response in 11 popular and mega rice cultivars widely grown in india. physiological and biochemical traits specifically membrane thermostability (mts), antioxid ... | 2015 | 26640473 |
| zinc-dependent protection of tobacco and rice cells from aluminum-induced superoxide-mediated cytotoxicity. | al(3+) toxicity in growing plants is considered as one of the major factors limiting the production of crops on acidic soils worldwide. in the last 15 years, it has been proposed that al(3+) toxicity are mediated with distortion of the cellular signaling mechanisms such as calcium signaling pathways, and production of cytotoxic reactive oxygen species (ros) causing oxidative damages. on the other hand, zinc is normally present in plants at high concentrations and its deficiency is one of the mos ... | 2015 | 26648960 |
| rice arbuscular mycorrhiza as a tool to study the molecular mechanisms of fungal symbiosis and a potential target to increase productivity. | rice (oryza sativa l.) is a monocot model crop for cereal molecular biology. following the emergence of molecular genetics of arbuscular mycorrhizal (am) symbiosis in model legumes in the 1990s, studies on rice genetic resources have considerably contributed to our understanding of the molecular mechanisms and evolution of root intracellular symbioses.in this review, we trace the history of these studies and suggest the potential utility of am symbiosis for improvement in rice productivity. | 2015 | 26516078 |
| effect of coated urea on cadmium accumulation in oryza sativa l. grown in contaminated soil. | experiments were conducted to determine the effects of three types of coated urea on the accumulation of cadmium (cd) in rice (oryza sativa l.) grown in contaminated soil. pot-culture experiments were conducted in a greenhouse from july to november 2012 on the rice cultivar "hua hang si miao" in guangzhou (china). the experimental design was completely randomized with four treatments and three replications. the treatments were control (ck) (n 0 mg/kg), prilled urea (pu) (n 200 mg/kg), polymer-co ... | 2015 | 26514799 |
| comparative analysis of n-glycans in the ungerminated and germinated stages of oryza sativa. | all fundamental information such as signal transduction, metabolic control, infection, cell-to-cell signaling, and cell differentiation related to the growth of plants are preserved in germs. in preserving these information, glycans have a key role and are involved in the development and differentiation of organisms. glycans which exist in rice germ are expected to have an important role in germination. in this study, we performed structural and correlation analysis of the n-glycans in rice germ ... | 2015 | 26513758 |
| effect of no-tillage and tillage on the ecology of mite, acarina (oribatida) in two different farming systems of paddy field in cachar district of assam. | the present investigation was carried out in cachar district of assam over a period of one year (january 2011 - december 2011) to understand the seasonal ecology of acarina (oribatida) in rice (oryza sativa l.) cultivated fields. population of oribatida was found to be maximum during august 2011, both in no-tillage (6.32 ± 0.66 no./m2 x 100(2)) and tillage (5.30 ± 0.71 no./m2 x 100(2)) sites in dorgakona area whereas the peak was recorded during august 2011, both in no-tillage (5.38 ± 0.75 no./m ... | 2015 | 26536810 |
| root aeration improves growth and nitrogen accumulation in rice seedlings under low nitrogen. | in wetland soils, changes in oxygen (o2) level in the rhizosphere are believed to influence the behaviour of nutrients and their usage by plants. however, the effect of aeration on nitrogen (n) acquisition under different n supply conditions remains largely unknown. in this study, the rice cultivars yangdao 6 (yd6, with higher root aerenchyma abundance) and nongken 57 (nk57, with lower root aerenchyma abundance) were used to evaluate the effects of aeration on rice growth and n accumulation. our ... | 2015 | 26578743 |
| functional and expression analyses of transcripts based on full-length cdnas of sorghum bicolor. | sorghum bicolor is one of the most important crops for food and bioethanol production. its small diploid genome and resistance to environmental stress make sorghum an attractive model for studying the functional genomics of the saccharinae and other c4 grasses. we analyzed the domain-based functional annotation of the cdnas using the gene ontology (go) categories for molecular function to characterize all the genes cloned in the full-length cdna library of sorghum. the sorghum cdna library succe ... | 2015 | 26546227 |
| significant microsynteny with new evolutionary highlights is detected through comparative genomic sequence analysis of maize ccch ix gene subfamily. | ccch zinc finger proteins, which are characterized by the presence of three cysteine residues and one histidine residue, play important roles in rna processing in plants. subfamily ix ccch proteins were recently shown to function in stress tolerances. in this study, we analyzed ccch ix genes in zea mays, oryza sativa, and sorghum bicolor. these genes, which are almost intronless, were divided into four groups based on phylogenetic analysis. microsynteny analysis revealed microsynteny in regions ... | 2015 | 26539461 |
| draft genome sequence of oryza sativa elite indica cultivar rp bio-226. | 2015 | 26539206 | |
| rna-seq reveals differentially expressed genes of rice (oryza sativa) spikelet in response to temperature interacting with nitrogen at meiosis stage. | rice (oryza sativa) is one of the most important cereal crops, providing food for more than half of the world's population. however, grain yields are challenged by various abiotic stresses such as drought, fertilizer, heat, and their interaction. rice at reproductive stage is much more sensitive to environmental temperatures, and little is known about molecular mechanisms of rice spikelet in response to high temperature interacting with nitrogen (n). | 2015 | 26576634 |
| flux balance analysis of genome-scale metabolic model of rice (oryza sativa): aiming to increase biomass. | due to socio-economic reasons, it is essential to design efficient stress-tolerant, more nutritious, high yielding rice varieties. a systematic understanding of the rice cellular metabolism is essential for this purpose. here, we analyse a genome-scale metabolic model of rice leaf using flux balance analysis to investigate whether it has potential metabolic flexibility to increase the biosynthesis of any of the biomass components. we initially simulate the metabolic responses under an objective ... | 2015 | 26564982 |
| germination and extrusion as combined processes for reducing phytates and increasing phenolics content and antioxidant capacity of oryza sativa l. whole grain flours. | whole rice (wr) products with low phytic acid (pa) content and enhanced bio-functional components were obtained by the combination of germination and extrusion processes. germination conditions (24 h - 35 °c), with a previous soaking process (24 h - 20 °c), were chosen according to the remnant pa content and germination rate. specific mechanical energy consumption, expansion, sensorial and mechanical hardness, specific volume, solubility, water absorption, free phenolic content (fpc) and antioxi ... | 2015 | 26560879 |
| oryza sativa chloroplast signal recognition particle 43 (oscpsrp43) is required for chloroplast development and photosynthesis. | a rice chlorophyll-deficient mutant w67 was isolated from an ethyl methane sulfonate (ems)-induced ir64 (oryza sativa l. ssp. indica) mutant bank. the mutant exhibited a distinct yellow-green leaf phenotype in the whole plant growth duration with significantly reduced levels of chlorophyll and carotenoid, impaired chloroplast development and lowered capacity of photosynthesis compared with the wild-type ir64. expression of a number of genes associated with chlorophyll metabolism, chloroplast bio ... | 2015 | 26600124 |
| improving key enzyme activities and quality of rice under various methods of zinc application. | zinc (zn) is an important micronutrient for the physiology of plants. it is poorly available to the plants in soil solution. a pot experiment was conducted to evaluate effectiveness of various zn application methods on key enzyme activities and protein content of two contrasting rice genotypes viz., pd16 (zn efficient) and ndr359 (zn inefficient). the treatments were, control (0 mg zn kg(-1) soil), soil application (5 mg zn kg(-1) soil), foliar application (0.5 % znso4 + 0.25 % lime at 30, 60 an ... | 2015 | 26597356 |
| exogenous spermidine alleviates oxidative damage and reduce yield loss in rice submerged at tillering stage. | to figure out whether spermidine (spd) can alleviate oxidative damage on rice (oryza sativa l.) caused by submergence stress, ningjing 3 was used in this study. the results showed that, spraying spd on rice leaves at a concentration of 0.5 mm promoted the growth recovery of rice after drainage, such as green leaves, tillers, and aboveground dry mass. according to physiological analysis, spd accelerate restored chlorophylls damage by submergence, and decreased the rate of [formula: see text] gene ... | 2015 | 26583021 |
| multiple abiotic stimuli are integrated in the regulation of rice gene expression under field conditions. | plants rely on transcriptional dynamics to respond to multiple climatic fluctuations and contexts in nature. we analyzed the genome-wide gene expression patterns of rice (oryza sativa) growing in rainfed and irrigated fields during two distinct tropical seasons and determined simple linear models that relate transcriptomic variation to climatic fluctuations. these models combine multiple environmental parameters to account for patterns of expression in the field of co-expressed gene clusters. we ... | 2015 | 26609814 |
| digestion property and synergistic effect on biological activity of purple rice (oryza sativa l.) anthocyanins subjected to a simulated gastrointestinal digestion in vitro. | anthocyanins, a group of polyphenolic pigments, have been proved to possess various bioactivities. however, they are unstable in the small intestine and absorbed with low bioavailability. the discrepancy between the low bioavailability of anthocyanins and their good bioactivities has not been illuminated yet. moreover, information about the digested property and stability of purple rice anthocyanins in the alimentary tract is still limited. thus, the present work was designed to study the digest ... | 2015 | 28433272 |
| genomic survey and gene expression analysis of the vdac gene family in rice. | the voltage-dependent anion channel (vdac), also known as a mitochondrial porin, plays an important role in the regulation of metabolic and energetic functions of mitochondria, as well as in mitochondria-mediated apoptosis. cytoplasmic male sterility (cms) is of major economic importance for commercial hybrid production and a research model for the interaction be-tween nuclear and cytoplasmic genomes. recent research has revealed that cms is associated with programmed cell death. here, we used t ... | 2015 | 26634536 |
| cloning and characterization of up-regulated hbsina4 gene induced by drought stress in tibetan hulless barley. | hulless barley is an important crop cereal in tibetan, china. drought is a major abiotic stress in barley production. in this study, we cloned the drought-related hbsina4 gene from the variety 'himalaya 10' and analyzed its expression patterns under different drought and rehydration conditions. the cdna of hbsina4 was 1052 bp long, including an open reading frame of 771 bp that encoded a protein of 256 amino acids. the molecular weight of hbsina4 protein was predicted to be 29.53 kda and the the ... | 2015 | 26634495 |
| assessment of the phytotoxicity of metal oxide nanoparticles on two crop plants, maize (zea mays l.) and rice (oryza sativa l.). | in this study, the phytotoxicity of seven metal oxide nanoparticles(nps)-titanium dioxide (ntio₂), silicon dioxide (nsio₂), cerium dioxide (nceo₂), magnetite (nfe₃o₄), aluminum oxide (nal₂o₃), zinc oxide (nzno) and copper oxide (ncuo)-was assessed on two agriculturally significant crop plants (maize and rice). the results showed that seed germination was not affected by any of the seven metal oxide nps. however, at the concentration of 2000 mg·l(-1), the root elongation was significantly inhibit ... | 2015 | 26633437 |
| autotetraploid rice methylome analysis reveals methylation variation of transposable elements and their effects on gene expression. | polyploidy, or whole-genome duplication (wgd), serves as a key innovation in plant evolution and is an important genomic feature for all eukaryotes. neopolyploids have to overcome difficulties in meiosis, genomic alterations, changes of gene expression, and epigenomic reorganization. however, the underlying mechanisms for these processes are poorly understood. one of the most interesting aspects is that genome doubling events increase the dosage of all genes. unlike allopolyploids entangled by b ... | 2015 | 26621743 |
| the potential for carbon bio-sequestration in china's paddy rice (oryza sativa l.) as impacted by slag-based silicate fertilizer. | rice is a typical silicon-accumulating plant. silicon (si), deposited as phytoliths during plant growth, has been shown to occlude organic carbon, which may prove to have significant effects on the biogeochemical sequestration of atmospheric co2. this study evaluated the effects of silicate fertilization on plant si uptake and carbon bio-sequestration in field trials on china's paddy soils. the results showed (1) increased si concentrations in rice straw with increasing application rates of sili ... | 2015 | 26621377 |
| revisiting the chlorophyll biosynthesis pathway using genome scale metabolic model of oryza sativa japonica. | chlorophyll is one of the most important pigments present in green plants and rice is one of the major food crops consumed worldwide. we curated the existing genome scale metabolic model (gsm) of rice leaf by incorporating new compartment, reactions and transporters. we used this modified gsm to elucidate how the chlorophyll is synthesized in a leaf through a series of bio-chemical reactions spanned over different organelles using inorganic macronutrients and light energy. we predicted the essen ... | 2015 | 26443104 |
| hierarchical additive effects on heterosis in rice (oryza sativa l.). | exploitation of heterosis in crops has contributed greatly to improvement in global food and energy production. in spite of the pervasive importance of heterosis, a complete understanding of its mechanisms has remained elusive. in this study, a small test-crossed rice population was constructed to investigate the formation mechanism of heterosis for 13 traits. the results of the relative mid-parent heterosis and modes of inheritance of all investigated traits demonstrated that additive effects w ... | 2015 | 26442051 |
| understanding salinity responses and adopting 'omics-based' approaches to generate salinity tolerant cultivars of rice. | soil salinity is one of the main constraints affecting production of rice worldwide, by reducing growth, pollen viability as well as yield of the plant. therefore, detailed understanding of the response of rice towards soil salinity at the physiological and molecular level is a prerequisite for its effective management. various approaches have been adopted by molecular biologists or breeders to understand the mechanism for salinity tolerance in plants and to develop salt tolerant rice cultivars. ... | 2015 | 26442026 |
| fine mapping of a palea defective 1 (pd1), a locus associated with palea and stamen development in rice. | key message : pd1, a genetic factor in a 69 kb region between rm11239 and rm11245 on rice chromosome 1, controls stamen number and palea development. spikelets are important organs that store photosynthetic products in rice. spikelet development directly affects grain yield and rice quality. here, we report a palea defective (pd1) mutant identified from selfing progenies of indica cv. 93-11 after (60)co γ ray treatment. pd1 mutant flowers only had four stamens (wild-type has six), but pollen fer ... | 2015 | 26441054 |
| protein repair l-isoaspartyl methyltransferase 1 (pimt1) in rice improves seed longevity by preserving embryo vigor and viability. | damaged proteins containing abnormal isoaspartyl (isoasp) accumulate as seeds age and the abnormality is thought to undermine seed vigor. protein-l-isoaspartyl methyltransferase (pimt) is involved in isoasp-containing protein repair. two pimt genes from rice (oryza sativa l.), designated as ospimt1 and ospimt2, were isolated and investigated for their roles. the results indicated that ospimt2 was mainly present in green tissues, but ospimt1 largely accumulated in embryos. confocal visualization ... | 2015 | 26438231 |
| isolation and characterization of three cadmium-inducible promoters from oryza sativa. | cadmium (cd) is an important soil pollutant. developing genetically engineered crops might be a feasible strategy for cd decontamination and damage prevention. both genes and promoters are critical for the effective construction of genetically modified plants. although many functional genes for cd tolerance and accumulation have been identified, few reports have focused on plant cd-inducible promoters. here, we identified three cd-inducible genes in the rice genome: two tau class glutathione s-t ... | 2015 | 26435218 |
| natural variations in slg7 regulate grain shape in rice. | rice (oryza sativa) grain shape, which is controlled by quantitative trait loci (qtl), has a strong effect on yield production and quality. however, the molecular basis for grain development remains largely unknown. in this study, we identified a novel qtl, slender grain on chromosome 7 (slg7), that is responsible for grain shape, using backcross introgression lines derived from 9311 and azucena. the slg7 allele from azucena produces longer and thinner grains, although it has no influence on gra ... | 2015 | 26434724 |
| from early domesticated rice of the middle yangtze basin to millet, rice and wheat agriculture: archaeobotanical macro-remains from baligang, nanyang basin, central china (6700-500 bc). | baligang is a neolithic site on a northern tributary of the middle yangtze and provides a long archaeobotanical sequence from the seventh millennium bc upto the first millennium bc. it provides evidence for developments in rice and millet agriculture influenced by shifting cultural affiliation with the north (yangshao and longshan) and south (qujialing and shijiahe) between 4300 and 1800 bc. this paper reports on plant macro-remains (seeds), from systematic flotation of 123 samples (1700 litres) ... | 2015 | 26460975 |
| core cell cycle regulatory genes in rice and their expression profiles across the growth zone of the leaf. | rice (oryza sativa l.) as a model and crop plant with a sequenced genome offers an outstanding experimental system for discovering and functionally analyzing the major cell cycle control elements in a cereal species. in this study, we identified the core cell cycle genes in the rice genome through a hidden markov model search and multiple alignments supported with the use of short protein sequence probes. in total we present 55 rice putative cell cycle genes with locus identity, chromosomal loca ... | 2015 | 26459328 |
| alanine aminotransferase 1 (osalaat1) plays an essential role in the regulation of starch storage in rice endosperm. | alteration of storage substances, in particular the major storage form starch, leads to floury endosperm. because floury mutants have physical attributes for milling processes, identification and characterization of those mutants are valuable. in this study we identified a floury endosperm mutant caused by a t-dna insertion in oryza sativa alanine-aminotransferase1 (osalaat1). osalaat1 is localized in the cytosol and has aminotransferase enzyme activity. the osalaat1 mutant has less amylose and ... | 2015 | 26475189 |
| non-canonical structure, function and phylogeny of the bsister mads-box gene osmads30 of rice (oryza sativa). | bsister mads-box genes play key roles in female reproductive organ and seed development throughout seed plants. this view is supported by their high conservation in terms of sequence, expression and function. in grasses, there are three subclades of bsister genes: the osmads29-, the osmads30- and the osmads31-like genes. here, we report on the evolution of the osmads30-like genes. our analyses indicate that these genes evolved under relaxed purifying selection and are rather weakly expressed. os ... | 2015 | 26473514 |
| plastidial disproportionating enzyme participates in starch synthesis in rice endosperm by transferring maltooligosyl groups from amylose and amylopectin to amylopectin. | plastidial disproportionating enzyme1 (dpe1), an α-1,4-d-glucanotransferase, has been thought to be involved in storage starch synthesis in cereal crops. however, the precise function of dpe1 remains to be established. we present here the functional identification of dpe1 in storage starch synthesis in rice (oryza sativa) by endosperm-specific gene overexpression and suppression. dpe1 overexpression decreased amylose content and resulted in small and tightly packed starch granules, whereas dpe1 ... | 2015 | 26471894 |
| efficacy of rice insecticide seed treatments at selected nitrogen rates for control of the rice water weevil (coleoptera: curculionidae). | seed-applied insecticides are the standard control method used in the united states to minimize rice water weevil (lissorhoptrus oryzophilus kuschel) injury to rice (oryza sativa l.) roots, and often results in greater yields than rice that receives no seed-applied insecticide. yield increases from seed-applied insecticides often occur even when insect pressure is low and should not cause yield loss. the research objective was to evaluate the effect of urea-nitrogen rate and seed-applied insecti ... | 2015 | 26470317 |
| effects of pre-harvest chemical application on rice desiccation and seed quality. | pre-harvest desiccation may increase the efficiency of seed production. field studies were conducted to determine the effects of diquat, paraquat, and ethephon applications on grain moisture, grain weight, and seed germination of hybrid rice yanliangyou 88 (oryza sativa ssp. indica) and conventional rice wuyunjing 7 (oryza sativa ssp. japonica). in 2013, we tested 12 treatments applied at four weeks (yanliangyou 88) and six weeks (wuyunjing 7) after heading. results showed that reductions in moi ... | 2015 | 26465129 |
| transcriptome-wide investigation of circular rnas in rice. | various stable circular rnas (circrnas) are newly identified to be the abundance of noncoding rnas in archaea, caenorhabditis elegans, mice, and humans through high-throughput deep sequencing coupled with analysis of massive transcriptional data. circrnas play important roles in mirna function and transcriptional controlling by acting as competing endogenous rnas or positive regulators on their parent coding genes. however, little is known regarding circrnas in plants. here, we report 2354 rice ... | 2015 | 26464523 |
| vln2 regulates plant architecture by affecting microfilament dynamics and polar auxin transport in rice. | as a fundamental and dynamic cytoskeleton network, microfilaments (mfs) are regulated by diverse actin binding proteins (abps). villins are one type of abps belonging to the villin/gelsolin superfamily, and their function is poorly understood in monocotyledonous plants. here, we report the isolation and characterization of a rice (oryza sativa) mutant defective in villin2 (vln2), which exhibits malformed organs, including twisted roots and shoots at the seedling stage. cellular examination revea ... | 2015 | 26486445 |
| correction: genetic diversity and population structure in aromatic and quality rice (oryza sativa l.) landraces from north-eastern india. | 2015 | 26484662 | |
| molecular and phylogenetic characterization of the homoeologous epsp synthase genes of allohexaploid wheat, triticum aestivum (l.). | 5-enolpyruvylshikimate-3-phosphate synthase (epsps) is the sixth and penultimate enzyme in the shikimate biosynthesis pathway, and is the target of the herbicide glyphosate. the epsps genes of allohexaploid wheat (triticum aestivum, aabbdd) have not been well characterized. herein, the three homoeologous copies of the allohexaploid wheat epsps gene were cloned and characterized. | 2015 | 26492960 |
| aba regulates subcellular redistribution of osabi-like2, a negative regulator in aba signaling, to control root architecture and drought resistance in oryza sativa. | the phytohormone aba is a key stress signal in plants. although the identification of aba receptors led to significant progress in understanding the arabidopsis aba signaling pathway, there are still many unsolved mysteries regarding aba signaling in monocots, such as rice. here, we report that a rice ortholog of atabi1 and atabi2, named osabi-like2 (osabil2), plays a negative role in rice aba signaling. overexpression of osabil2 not only led to aba insensitivity, but also significantly altered ... | 2015 | 26491145 |
| polyploidy enhances f1 pollen sterility loci interactions that increase meiosis abnormalities and pollen sterility in autotetraploid rice. | intersubspecific autotetraploid rice (oryza sativa ssp. indica × japonica) hybrids have greater biological and yield potentials than diploid rice. however, the low fertility of intersubspecific autotetraploid hybrids, which is largely caused by high pollen abortion rates, limits their commercial utility. to decipher the cytological and molecular mechanisms underlying allelic interactions in autotetraploid rice, we developed an autotetraploid rice hybrid that was heterozygous (s(i)s(j)) at f1 pol ... | 2015 | 26511913 |
| analysis of a rice fickle spikelet1 mutant that displays an increase in flower and spikelet organ number with inconstant expressivity. | in rice (oryza sativa), floral organs develop in the spikelet, an inflorescence unit unique to grass species. the floral organs, such as carpels, stamens and lodicules, are enclosed by two spikelet organs, the palea and lemma. the number of floral organs is genetically regulated. mutations in the floral organ number (fon) genes cause an increase in the number of carpels and stamens due to an enlargement of the floral meristem. the spikelet organs, such as lemma and palea, are less affected in th ... | 2015 | 26510573 |
| gene expression profiles in rice developing ovules provided evidence for the role of sporophytic tissue in female gametophyte development. | the development of ovule in rice (oryza sativa) is vital during its life cycle. to gain more understanding of the molecular events associated with the ovule development, we used rna sequencing approach to perform transcriptome-profiling analysis of the leaf and ovules at four developmental stages. in total, 25,401, 23,343, 23,647 and 23,806 genes were identified from the four developmental stages of the ovule, respectively. we identified a number of differently expressed genes (degs) from three ... | 2015 | 26506227 |
| diterpenoid phytoalexin factor, a bhlh transcription factor, plays a central role in the biosynthesis of diterpenoid phytoalexins in rice. | rice (oryza sativa) produces diterpenoid phytoalexins (dps), momilactones and phytocassanes as major phytoalexins. accumulation of dps is induced in rice by blast fungus infection, copper chloride or uv light. here, we describe a rice transcription factor named diterpenoid phytoalexin factor (dpf), which is a basic helix-loop-helix (bhlh) transcription factor. the gene encoding dpf is expressed mainly in roots and panicles, and is inducible in leaves by blast infection, copper chloride or uv. ex ... | 2015 | 26506081 |
| breeding of a target genotype variety based on identified chalkiness marker-qtl associations in rice (oryza sativa l.). | the aim of this study was to breed a target genotype variety based on the identified chalkiness marker-qtl (quantitative trait locus) associations in rice. first, a permanent mapping population of rice that consisted of 525 recombinant inbred lines (rils), which were derived from zhenshan 97/minghui 63, was used to identify qtls with additive effects for rice quantitative traits and percentage of grain chalkiness (pgc). subsequently, based on the identified qtls in rice, the molecular marker 689 ... | 2015 | 26505442 |
| characterization of ospm19l1 encoding an awpm-19-like family protein that is dramatically induced by osmotic stress in rice. | the plant-specific awpm-19-domain proteins play important roles in plant development and stress responses. in the current study, ospm19l1 encoding oryza sativa awpm-19-like protein 1 was isolated from rice. tissue-specific gene expression analysis revealed that ospm19l1 was highly expressed in the leaf sheath of rice. interestingly, expression of ospm19l1 was high at the early stage of panicle development and decreased thereafter. qrt-pcr analysis indicated that ospm19l1 was dramatically induced ... | 2015 | 26505346 |
| the isolation of early nuclear endosperm of oryza sativa to facilitate gene expression analysis and screening imprinted genes. | since the quality and yield of rice production depends on endosperm development, previous studies have focused on the molecular mechanism that regulates this developmental process. recently, how this process is epigenetically regulated has become an important topic. however, the gene expression analysis and screening imprinted genes during early endosperm development remain challenging since the isolation of early endosperm has not been possible. here, we report a procedure for the isolation of ... | 2015 | 26500689 |
| overexpression of osdof12 affects plant architecture in rice (oryza sativa l.). | dof (dna binding with one finger) proteins, a class of plant-specific transcription factors, are involved in plant growth and developmental processes and stress responses. however, their biological functions remain to be elucidated, especially in rice (oryza sativa l.). previously, we have reported that osdof12 can promote rice flowering under long-day conditions. here, we further investigated the other important agronomical traits of the transgenic plants overexpressing osdof12 and found that o ... | 2015 | 26500670 |