A method for obtaining high integrity RNA from developing aleurone cells and starchy endosperm in rice (Oryza sativa L.) by laser microdissection

Ishimaru, Tsutomu; Nakazono, Mikio; Masumura, Takehiro; Abiko, Mafumi; San-oh, Yumiko; Nishizawa, Naoko K.; Kondo, Motohiko

doi:10.1016/j.plantsci.2007.06.004

Cited by 25 publications

(24 citation statements)

References 23 publications

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“…On the electrophoretic fluorescence profile and the virtual gel image obtained with the Agilent 2100 Bioanalyser the high baseline and diffuse 28S rRNA and 18S rRNA bands demonstrate that the quality of the RNA is poor and therefore not suitable for RNA expression analysis. The difficulty in obtaining high quality RNA from paraffin sections has also been reported by other groups ( Perlmutter et al , 2004 ; Ishimaru et al , 2007 ) and a study performed by Cai and Lashbrook (2006) suggest that the mounting of the paraffin sections on a drop of water on the membrane slides and the ensuing drying period is responsible for the observed degradation of RNA. By comparison, the RNA extracted from the frozen cryosections was of higher quality with sharp ribosomal RNA bands and could therefore be subjected to the amplification procedure ( Fig.…”

Section: Discussionsupporting

confidence: 55%

A roadmap for zinc trafficking in the developing barley grain based on laser capture microdissection and gene expression profiling

Tauris

Borg

Gregersen

et al. 2009

Journal of Experimental Botany

124

127

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Nutrients destined for the developing cereal grain encounter several restricting barriers on their path towards their final storage sites in the grain. In order to identify transporters and chelating agents that may be involved in transport and deposition of zinc in the barley grain, expression profiles have been generated of four different tissue types: the transfer cells, the aleurone layer, the endosperm, and the embryo. Cells from these tissues were isolated with the ‘laser capture microdissection’ technology and the extracted RNA was subjected to three rounds of T7-based amplification. The amplified RNA was subsequently hybridized to Affymetrix 22K Barley GeneChips. Due to the short average length of the amplified transcripts and the positioning of numerous probe sets at locations more than 400 base pairs (bp) from the poly(A)-tail, a normalization approach was used where the probe positions were taken into account. On the basis of the expression levels of a number of metal homeostasis genes, a working model is proposed for the translocation of zinc from the phloem to the storage sites in the developing grain.

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Section: Discussionsupporting

confidence: 55%

A roadmap for zinc trafficking in the developing barley grain based on laser capture microdissection and gene expression profiling

Tauris

Borg

Gregersen

et al. 2009

Journal of Experimental Botany

124

127

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“…Transporters or translocators mediate the metabolites and ions residing in different inter‐ and intra‐cellular compartments by specifically and stoichiometrically carrying them into the adjacent compartments. Rice sucrose transporter 1 (SUT1) is specifically located in the aleurone . Antisense inhibition of SUT1 caused impaired grain filling , indicating that the transport of sucrose into the endosperm is an important step for starch synthesis in rice endosperm.…”

Section: Contributions Of Other Factors In Modification Of Starchesmentioning

confidence: 99%

Rice starch biotechnology: Rice endosperm as a model of cereal endosperms

Nakamura

2017

Starch Stärke

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During the last couple of decades, rapid progress has been made in increasing our understanding of the specific contributions of the most important enzymes to starch biosynthesis in cereal endosperms, particularly in rice endosperm. Now, we can basically predict how and to what extent the starch-related phenotypes can be modified in the endosperm in accordance with alterations of activities of single or simultaneously multiple starch biosynthetic isozymes. Thus, starch bioengineering in planta is now a most particularly promising field of plant biotechnology. Here, an overview of the present status of biochemical, molecular, and genetic research is presented, regarding starch biosynthesis and its engineering for the generation of new cultivars with improved cooking or novel functional properties of starch in rice endosperm. A huge number and variety of cultivars have been developed and cultivated mainly in paddy fields of Asian countries because rice is the most important staple food grain there. The availability of such invaluable genetic resources, as well as databases for various types of mutants, complete genome sequences, and omics tools should ensure further progress in the rice starch biotechnology research field.

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“…Recently, the involvement of storage protein biosynthesis in the formation of the chalky phenotype was implied (Sreenivasulu et al, 2015). Laser microdissection-based expression analyses were developed to investigate the gene profile in targeted fine tissues of developing endosperm (Ishimaru et al, 2007(Ishimaru et al, , 2015a, making it possible to understand the gene profile in the endosperm tissues corresponding to the region of WBCG.…”

Section: Fundingmentioning

confidence: 99%

Breeding efforts to mitigate damage by heat stress to spikelet sterility and grain quality

Ishimaru

Hirabayashi

Sasaki

et al. 2016

Plant Production Science

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Global warming is predicted to aggravate the risk of unstable crop production. It is of great concern that damage to rice spikelet sterility and grain quality will increase, resulting in yield and economic losses. To secure the global food supply and farmers' income, the development of rice cultivars with heat resilience is a pressing concern. Regarding spikelet sterility, rice cultivars with heat tolerance at different growth stages have been identified in recent years. The early-morning flowering (EMF) trait is effective in heat escape because it shifts the time of day of flowering to earlier in the morning when it is cooler. Although varietal differences are very small, there are some genetic resources for EMF in wild rice accessions. Regarding heat-induced grain chalkiness, heat-tolerant Japonica-type cultivars for mitigating white-back type of chalky grains (WBCG) were found. Quantitative trait loci for heat tolerance at flowering, EMF, and for WBCG in grain quality have been mapped on the rice chromosomes. Further genetic efforts have been successfully connected to the development of near-isogenic lines for each trait with tagged molecular markers. These breeding materials are quite unique and useful in facilitating marker-assisted breeding toward the development of heat-resilient rice in terms of spikelet sterility and grain quality.

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A method for obtaining high integrity RNA from developing aleurone cells and starchy endosperm in rice (Oryza sativa L.) by laser microdissection

Cited by 25 publications

References 23 publications

A roadmap for zinc trafficking in the developing barley grain based on laser capture microdissection and gene expression profiling

A roadmap for zinc trafficking in the developing barley grain based on laser capture microdissection and gene expression profiling

Rice starch biotechnology: Rice endosperm as a model of cereal endosperms

Breeding efforts to mitigate damage by heat stress to spikelet sterility and grain quality

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