Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1056566 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:Walnuts (Juglans regia L.) are a valuable dietary source of polyphenols and lipids, with increasing worldwide consumption. California is a major producer, with Chandler and Tulare among the cultivars more widely grown. Chandler produces kernels with extra light color at a higher frequency than , gaining consumer preference. Here we performed a deep comparative proteome analysis of kernel pellicle tissue from these two valued genotypes, at three harvest maturities, detecting a total of 4,937 J. regia proteins. Late and early maturity stages were compared for each cultivar, revealing many developmental responses common or specific for each cultivar. Top protein biomarkers for each developmental stage were also selected based on larger fold-change differences and lower variance among replicates. Comparison between the genotypes also revealed the common and specific protein repertoires, totaling 321 pellicle proteins with differential abundance. Additionally, in all maturity stages several allergens were among the most abundant proteins, which is of importance for food safety. The proteomics data provides clues on antioxidant, secondary, and hormonal metabolism that could be involved in the loss of quality in the pellicles during processing for commercialization.
2020-11-20 | MSV000086493 | MassIVE
Project description:Aflatoxin contamination occurring after infection by Aspergillus flavus is a major concern in maize production both pre- and post-harvest. A recent gene expression study of imbibed kernels highlighted induced resistance and gene regulation in kernels. In the present study, stored mRNA was profiled using oligo-nucleotide array. This comparison of stored mRNAs would enhance our understanding of the difference between resistant and susceptible lines at the kernel storage phase. To minimize the effect of different genetic backgrounds on the differential genes between resistant and susceptible lines, two closely related inbred lines were used. Of the two lines, Eyl25 is aflatoxin-resistant (R), and Eyl31 is –susceptible (S). These were derived from a cross between two resistant lines, 1368 and GT-MASK:gk, in the IITA and USDA- ARS collaborative breeding project. Direct comparisons were designed between Eyl25 and Eyl31. Dry kernels from the two lines were selected randomly into four groups to extract total RNA. Four biological replications were performed in the comparison including two dye-swaps.
2012-07-29 | E-GEOD-34434 | biostudies-arrayexpress
Project description:Protein kinases (PKs) are involved in plant growth and stress responses, and constitute one of the largest superfamilies due to numerous gene duplications. However, limited PKs have been functionally described in pecan, an economically important nut tree. Here, the comprehensive identification, annotation and classification of the entire pecan kinome was reported. A total of 967 PK genes were identified from pecan genome, and further classified into 20 different groups and 121 subfamilies using the kinase domain sequences, which were verified by the phylogenetic analysis. The receptor-like kinase (RLK) group contained 565 members, which constituted the largest group. Gene duplication contributed to the expansion of pecan kinome, 169 duplication events including 285 PK genes were found, and Ka/Ks ratio revealed they experienced strong negative selection. GO functional analysis indicated majority PKs involved in molecular functions and biological processes. The RNA-Seq data of PK genes in pecan were further analyzed at subfamily level, and different PK subfamilies performed various expression patterns across different conditions or treatments, suggesting PK genes in pecan involved in multiple biological functions and stress responses. Taken together, this study provided insight into the expansion, evolution and function of pecan PKs. Our findings regarding expansion, expression and co-expression analyses could lay a good foundation for future research to understand the roles of pecan PKs, and find the key candidate genes more efficiently.
2021-07-05 | GSE179336 | GEO
Project description:Comparative analysis of the small RNA transcriptome of four developmental stages of the Citrus red mite (Panonychus citri)
| PRJNA212522 | ENA
Project description:Comparative transcriptome analysis reveals genes regulating myogenesis and adipogenesis in Laiwu pigs over four developmental stages
| PRJNA354523 | ENA
Project description:Aflatoxin contamination occurring after infection by Aspergillus flavus is a major concern in maize production both pre- and post-harvest. A recent gene expression study of imbibed kernels highlighted induced resistance and gene regulation in kernels. In the present study, stored mRNA was profiled using oligo-nucleotide array. This comparison of stored mRNAs would enhance our understanding of the difference between resistant and susceptible lines at the kernel storage phase. To minimize the effect of different genetic backgrounds on the differential genes between resistant and susceptible lines, two closely related inbred lines were used. Of the two lines, Eyl25 is aflatoxin-resistant (R), and Eyl31 is –susceptible (S). These were derived from a cross between two resistant lines, 1368 and GT-MASK:gk, in the IITA and USDA- ARS collaborative breeding project.
2012-07-30 | GSE34434 | GEO