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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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Developmental changes in transcriptomes of two key transport tissues in maize kernels: The Maternal Transfer Zone (MATZ) and Basal Endosperm Transfer Layer (BETL)

ABSTRACT: Transcriptome profiles of MATZ and BETL tissues are compared across three stages of development. Sugars and other nutrients unloaded from vascular tissues in the MATZ are imported by the BETL for utilization by the developing endosperm. Pronounced changes in gene expression occur in both tissues during kernel development. RNAseq data were obtained from duplicate tissue samples isolated by cryomicrodissection of developing maize kernels at three developmental time points; 8 days post-pollination (DAP), 14 DAP and 20 DAP.

ORGANISM(S): Zea mays

SUBMITTER: Karen Koch

PROVIDER: E-GEOD-67550 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Developmental changes in transcriptomes of two key transport tissues in maize kernels: The Maternal Transfer Zone (MATZ) and Basal Endosperm Transfer Layer (BETL)

Project description:Transcriptome profiles of MATZ and BETL tissues are compared across three stages of development. Sugars and other nutrients unloaded from vascular tissues in the MATZ are imported by the BETL for utilization by the developing endosperm. Pronounced changes in gene expression occur in both tissues during kernel development.

2015-04-03 | GSE67550 | GEO

Transcriptional profiling of Zea mays 10 DAP(days after pollination) kernels : water stress vs well-watered control

Project description:A customized targeted oligoarray was used to monitor the expression levels of 1000 genes, representative of the immature kernel transcriptome. Using this oligoarray we compared transcripts from 10 DAP kernels of two susceptible and two drought tolerant genotypes. These four genotypes were extracted from our RIL population (B73xH99) and grown under water stress and well watered field conditions. Keywords: Stress response Two-condition experiment: water stress field condition vs. well watered field condition. Transcriptional profiling of 10 DAP kernel (two susceptible and two drought tolerant genotypes) in the first condition vs 10 DAP kernel (two susceptible and two drought tolerant genotypes) in the second condition. Hybridization replicates: 4 in dye swap mode. Two probes per gene per array.

2008-12-21 | E-GEOD-11568 | biostudies-arrayexpress

Transcriptional profiling of Zea mays 10 DAP(days after pollination) kernels : water stress vs well-watered control

2008-12-22 | GSE11568 | GEO

Transcriptional profiles uncover Aspergillus flavus induced resistance in mature maize kernels

Project description:Aflatoxin contamination caused by the opportunistic pathogen A. flavus is a major concern in maize production prior to harvest and during storage. Previous studies indicate that both constitutive and induced resistance are involved in maize kernel defense against A. flavus infection, little is known about molecular mechanisms of mature kernels in response to fungal infection. The purpose of this study is to determine gene expression differences in maize kernels between resistant and susceptible lines in response to A. flavus challenge. To avoid the environmental effects in the field inoculation, a laboratory based inoculation technique Kernel Screening Assay (KSA) was used to challenge kernels with A. flavus. After 72 hours incubation of inoculated and noninculated mature kernels, gene expression profiles of two Near Isogenic Lines (NIL) of Eyl25 (A. flavus resistant) and Eyl31 (A. flavus susceptible) were compared using oligonucleotide array.

2010-10-01 | GSE19883 | GEO

Comparative transcriptome analysis reveals mechanisms of folate accumulation in maize grains

Project description:Two maize inbred lines, DAN3130 and JI63, with different patterns of folate accumulation and different total folate contents in mature kernels were used to investigate the transcriptional regulation of folate metabolism during late stages of kernel formation by comparative transcriptome analysis; The fresh kernel samples of each inbred line were collected on DAP 24, DAP 35 days, respectively. Mature kernel samples were harvested after all the plants turned yellow. Three biological replicates of each sample were collected, and total RNA with high quality was pooled and sent for sequencing. Total RNA of high quality was pooled for transcriptome analysis, and raw RNA-seq data of DAP 24, DAP35 and mature kernels for both two inbred lines were obtained. The folate accumulation during DAP 24 to mature kernels could be controlled by circumjacent pathways of folate biosynthesis, such as pyruvate metabolism, glutamate metabolism and serine/glycine metabolism. In addition, the folate variation between these two inbred lines was related to those genes among folate metabolism, such as genes in the pteridine branch, ρ-ABA branch, serine/THF/5-M-THF cycle and the conversion of tetrahydrofolate monoglutamate to tetrahydrofolate polyglutamate; The findings provided insight into folate accumulation mechanisms during maize kernel formation to promote folate biofortification.

2022-04-19 | GSE195815 | GEO

Transcriptional changes in Aspergillus flavus-infected maize kernels

Project description:Maize kernels are susceptible to infection by the opportunistic pathogen Aspergillus flavus. Infection results in reduction of grain quality and contamination of kernels with the highly carcinogenic mycotoxin, aflatoxin. To understand host response to infection by the fungus, transcription of approximately 9,000 maize genes were monitored during the host-pathogen interaction with a custom-designed Affymetrix GeneChip® DNA array. More than 1,000 maize genes were found differentially expressed at a fold change of 2 or greater. This included the up regulation of defense-related genes and signaling pathways. Transcriptional changes also were observed in primary metabolism genes. Starch biosynthetic genes were down regulated during infection, while genes encoding maize hydrolytic enzymes, presumably involved in the degradation of host reserves, were up regulated. These data indicate that infection of the maize kernel A. flavus induced metabolic changes in the kernel, including the production of a defense response, as well as a disruption in kernel development.

2014-05-14 | GSE57629 | GEO

Transcriptional changes in Aspergillus flavus-infected maize kernels

Project description:Maize kernels are susceptible to infection by the opportunistic pathogen Aspergillus flavus. Infection results in reduction of grain quality and contamination of kernels with the highly carcinogenic mycotoxin, aflatoxin. To understand host response to infection by the fungus, transcription of approximately 9,000 maize genes were monitored during the host-pathogen interaction with a custom-designed Affymetrix GeneChipÂ® DNA array. More than 1,000 maize genes were found differentially expressed at a fold change of 2 or greater. This included the up regulation of defense-related genes and signaling pathways. Transcriptional changes also were observed in primary metabolism genes. Starch biosynthetic genes were down regulated during infection, while genes encoding maize hydrolytic enzymes, presumably involved in the degradation of host reserves, were up regulated. These data indicate that infection of the maize kernel A. flavus induced metabolic changes in the kernel, including the production of a defense response, as well as a disruption in kernel development. Maize kernels were mock inoculated at the blister (R2) or dough (R4) stage or inoculated with A. flavus at the blister (R2), milk (R3), dough (R4), or dent (R5) stage, and harvested 4 days later. Each treatment consisted of three biological replications. For each biological replication, 8 kernels were ground and RNA was isolated and further processed.

2014-05-14 | E-GEOD-57629 | biostudies-arrayexpress

Next generation sequencing facilitates quantitative analysis of maize 35 mitochondrial genes in dek53-ref and wild-type (WT) kernels

Project description:Analysis of 35 mitochondrial genes expression level in dek53-ref and WT kernels at 15 days after pollination (DAP)

2020-01-01 | GSE141324 | GEO

Transcriptional profiles uncover Aspergillus flavus induced resistance in mature maize kernels

2010-10-01 | E-GEOD-19883 | biostudies-arrayexpress

Peroxidase B6T173 (ZmPrx35) from insect-resistant maize (Zea mays, p84C3) kernels

Project description:Peroxidase (POD) activity was found to be positively correlated with insect resistance in maize kernels. Thus, we purified active PODs from (Zea mays, p84C3) kernels and subjected to LC-MS/MS analyses. To verify the identified putative plant PODs, we produced them by recombinant expression in E. coli. Whereas B4FFK9 did not display in vitro activity, B6T173 (ZmPrx35) was active and also exhibits a heme cofactor. B6T173 accounts for about 80% of the POD activity in the kernel, according to densitometric evaluation.

2015-08-21 | PXD002166 | Pride

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