An Overview of Molecular Basis and Genetic Modification of Floral Organs Genes: Impact of Next-Generation Sequencing

Patil, Reshma V.; Hadawale, Kavita N.; Ramli, Aizi Nor Mazila; Wadkar, Suryakant S; Bhuyar, Prakash

doi:10.1007/s12033-022-00633-7

Cited by 4 publications

(5 citation statements)

References 138 publications

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“…Contig quality was also tested by trimming using a CLCbio workbench. 16 The trimming of the contig results can be seen in Table 1. Then, contigs are annotated with S. lycopersicum.…”

Section: Resultsmentioning

confidence: 99%

“…Statistical analyses were used to estimate the significance of the differences. 16,17 For the analysis of gene expression of GGPS in the vegetative to generative transition of teak, primers of GGPS3 and GGPS6 were designed using Primer3 software.…”

Section: Transcript Assembly and Annotationmentioning

confidence: 99%

“…NGS-transcriptome analysis has made it possible to analyze the expression profiles using short sequences. 15,16 The NGS approach can result in what is called the Differentially Gene Expressed (DEG) of interest gene at each stage. 15 The DEG data can be validated in silico on the target plant tissue by qRT-PCR analysis approach.…”

Section: Introductionmentioning

confidence: 99%

“…15 The DEG data can be validated in silico on the target plant tissue by qRT-PCR analysis approach. 15,16 QRT-PCR analysis can quantify the expression of the gene of interest as a confirmation of the results of DEG analysis. 15,17 The aim of this research is as a first step to identify the GGPS gene in teak plants.…”

Section: Introductionmentioning

confidence: 99%

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Identification of the Geranylgeranyl Pyrophosphate Synthase (GGPS) Gene Family in Teak (Tectona grandis)

2023

TJNPR

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Teak (Tectona grandis, L.f.) plants are known to have the best quality wood in the Lamiaceae family but are also known to contain bioactive compounds that are important for pharmacology, both cosmetics and medicines. One of the phytochemical compounds contained in teak is retinol, which is important in cosmetic technology as an antiaging agent. Retinol is a derivative of carotene and carotene is a derivative of terpenoids. At the gene level, in model plants, the mechanism of terpenoid synthesis is controlled by a family of genes known as Geranylgeranyl Pyrophosphate Synthase (GGPS). The basic science of the GGPS gene is important to develop retinol production in teak. This research aims to identify the GGPS gene family in teak plants and observe the expression profile of two GGPS genes in teak plants, GGPS3 and GGPS6. The approach taken in this study used de novo NGS-transcriptome and qRT-PCR analysis. The results of this research were the results of transcriptome analysis, there were 87,365 contigs and seven GGPS gene sequences were identified. GGPS3 and GGPS6 were tested for expression profiles in young and old leaves using qRT-PCR. There is an up and down-regulation mechanism of the GGPS3 and GGPS6 genes in old and young leaves, indicating a feedback mechanism for these two genes. These results provide a strong basis for engineering terpenoid and retinol synthesis in teak plants.

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“…Contig quality was also tested by trimming using a CLCbio workbench. 16 The trimming of the contig results can be seen in Table 1. Then, contigs are annotated with S. lycopersicum.…”

Section: Resultsmentioning

confidence: 99%

Section: Transcript Assembly and Annotationmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

Identification of the Geranylgeranyl Pyrophosphate Synthase (GGPS) Gene Family in Teak (Tectona grandis)

2023

TJNPR

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“…Based on further studies on flower development, the ABC model [9] was extended to the ABC(D)E quaternary model [10]. During organogenesis, the ABC homeotic gene seems to control the rate and orientation of cell divisions [11]. Different floral organ identities are regulated by various gene combinations, namely, A + E (sepals), A + B + E (petals), B + C + E (stamens), C + E (carpels), and D + E (ovules) [10].…”

Section: Introductionmentioning

confidence: 99%

Comparative transcriptome analysis of dioecious floral development in Trachycarpus fortunei using Illumina and PacBio SMRT sequencing

Xiao,

Zhao,

Wang

et al. 2023

BMC Plant Biol

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Background Trachycarpus fortunei is a plant with significant economic and ornamental value. Both male and female flowers of T. fortunei originate as bisexual flowers, and selective abortion occurs during floral development. However, the regulatory mechanisms underlying this process remain unclear in T. fortunei. In this study, transcriptome sequencing with Illumina and Pacific BioSciences (PacBio) single-molecule real-time (SMRT) platforms were used to investigate gene expression differences between male and female T. fortunei plants. Results A total of 833,137 full-length non-chimeric (FLNC) reads were obtained, and 726,846 high-quality full-length transcripts were identified. A total of 159 genes were differentially expressed between male and female flowers at all development stages. Some of the differentially expressed genes (DEGs) showed male bias, including serine/threonine-protein kinase (STPK), THUMP1 homolog and other genes. Through single-nucleotide polymorphisms(SNPs) identification, 28 genes were considered as potential sex-associated SNPs. Time-Ordered Gene Co-expression Network (TO-GCN) analysis revealed that MADS2 and MADS26 may play important roles in the development of female and male flowers T. fortune plants, respectively. Conclusions These findings provide a genetic basis for flower development and differentiation in T. fortunei, and improve our understanding of the mechanisms underlying sexual differentiation in T. fortunei.

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Exploring the patterns of evolution: Core thoughts and focus on the saltational model

Usai,

Fambrini,

Pugliesi

et al. 2024

BioSystems

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An Overview of Molecular Basis and Genetic Modification of Floral Organs Genes: Impact of Next-Generation Sequencing

Cited by 4 publications

References 138 publications

Identification of the Geranylgeranyl Pyrophosphate Synthase (GGPS) Gene Family in Teak (Tectona grandis)

Identification of the Geranylgeranyl Pyrophosphate Synthase (GGPS) Gene Family in Teak (Tectona grandis)

Comparative transcriptome analysis of dioecious floral development in Trachycarpus fortunei using Illumina and PacBio SMRT sequencing

Exploring the patterns of evolution: Core thoughts and focus on the saltational model

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