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Whole genome sequencing of two strains of Philippine local foxtail millet (Setaria italica) accessions

ABSTRACT: The study aims to identify molecular variations across these six lines of foxtail millet.

INSTRUMENT(S): to be provided, Illumina NovaSeq 6000

ORGANISM(S): Setaria italica

SUBMITTER: NELZO EREFUL

PROVIDER: E-MTAB-13027 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Whole genome sequencing of six strains of Philippine local foxtail millet (Setaria italica) accessions

Project description:The study aims to identify molecular variations across these six lines of foxtail millet.

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Transcriptome Analysis of Responses to Saline-Alkali Stress in Two Different Genotypes of foxtail millet (Setaria italica L.)at the Seedling Stage

Project description:We present here a transcriptome dataset of millet seedling leaves based on RNA-seq technology. The purpose of this study was to mine the salt and alkali tolerance genes of millet and further explore the mechanism of salt and alkali tolerance of millet. We selected 18 representative samples and conducted in-depth sequencing using the latest sequencing platform to ensure the accuracy and reliability of the data.

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Setaria italica cultivar:foxtail millet

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Project description:the SiNRX1 of foxtail millet was knocked out by means of the CRISPR/Cas9 technology, and the drought resistance of SiNRX1 was identified at both the germination stage and the seedling stage. Moreover, through transcriptome sequencing and Data-independent acquisition (DIA) quantitative proteomics determination of sinrx1 mutants and wild types (WT) at the seedling stage under drought and control conditions, the molecular mechanism of SiNRX1 regulating drought resistance was preliminarily analyzed.

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The foxtail millet (Setaria italica) terpene synthase gene family.

Project description:Terpenoid metabolism plays vital roles in stress defense and the environmental adaptation of monocot crops. Here, we describe the identification of the terpene synthase (TPS) gene family of the panicoid food and bioenergy model crop foxtail millet (Setaria italica). The diploid S. italica genome contains 32 TPS genes, 17 of which were biochemically characterized in this study. Unlike other thus far investigated grasses, S. italica contains TPSs producing all three ent-, (+)- and syn-copalyl pyrophosphate stereoisomers that naturally occur as central building blocks in the biosynthesis of distinct monocot diterpenoids. Conversion of these intermediates by the promiscuous TPS SiTPS8 yielded different diterpenoid scaffolds. Additionally, a cytochrome P450 monooxygenase (CYP99A17), which genomically clustered with SiTPS8, catalyzes the C19 hydroxylation of SiTPS8 products to generate the corresponding diterpene alcohols. The presence of syntenic orthologs to about 19% of the S. italica TPSs in related grasses supports a common ancestry of selected pathway branches. Among the identified enzyme products, abietadien-19-ol, syn-pimara-7,15-dien-19-ol and germacrene-d-4-ol were detectable in planta, and gene expression analysis of the biosynthetic TPSs showed distinct and, albeit moderately, inducible expression patterns in response to biotic and abiotic stress. In vitro growth-inhibiting activity of abietadien-19-ol and syn-pimara-7,15-dien-19-ol against Fusarium verticillioides and Fusarium subglutinans may indicate pathogen defensive functions, whereas the low antifungal efficacy of tested sesquiterpenoids supports other bioactivities. Together, these findings expand the known chemical space of monocot terpenoid metabolism to enable further investigations of terpenoid-mediated stress resilience in these agriculturally important species.

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Whole genome sequencing of six strains of Philippine local foxtail millet (Setaria italica) accessions

Project description:Whole genome sequencing of six strains of Philippine local foxtail millet (Setaria italica) accessions

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Whole genome sequencing of two strains of Philippine local foxtail millet (Setaria italica) accessions

Project description:Whole genome sequencing of two strains of Philippine local foxtail millet (Setaria italica) accessions

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Transcriptome profiling of foxtail millet (Setaria italica) pollen and anther.

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