ArticlePhysiology and molecular biology of plants : an international journal of functional plant biology2017
Genome-wide transcriptome profiling of
Article in Physiology and molecular biology of plants : an international journal of functional plant biology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed, 52 citations in OpenAlex.
- Multi-omics analysis reveals the positive impact of differential chloroplast activity during in vitro regeneration of barley.Plant molecular biology · 2024Article
- Integration analysis of transcriptome and proteome profiles brings new insights of somatic embryogenesis of two eucalyptus species.BMC plant biology · 2024Article
- Editing of SlWRKY29 by CRISPR-activation promotes somatic embryogenesis in Solanum lycopersicum cv. Micro-Tom.PloS one · 2024Article
- Article
- Comparative transcriptome analysis of high- and low-embryogenic Hevea brasiliensis genotypes reveals involvement of phytohormones in somatic embryogenesis.BMC plant biology · 2023Article
- Proteome profiles during early stage of somatic embryogenesis of two Eucalyptus species.BMC plant biology · 2022Article
- Transcriptomic and Metabolomic Analysis of Korean Pine Cell Lines with Different Somatic Embryogenic Potential.International journal of molecular sciences · 2022Article
- Establishment ofFrontiers in plant science · 2022Article
- Transcriptomes analysis reveals novel insight into the molecular mechanisms of somatic embryogenesis in Hevea brasiliensis.BMC genomics · 2021Article
- Discovery of SNPs and InDels in papaya genotypes and its potential for marker assisted selection of fruit quality traits.Scientific reports · 2021Article
- Global Transcriptome and Coexpression Network Analyses Reveal New Insights Into Somatic Embryogenesis in Hybrid Sweetgum (Frontiers in plant science · 2021Article
- Functional characterization of a WRKY family gene involved in somatic embryogenesis in Panax ginseng.Protoplasma · 2020Article
- Global scale transcriptome analysis reveals differentially expressed genes involve in early somatic embryogenesis in Dimocarpus longan Lour.BMC genomics · 2020Article
- Transcriptome-wide effect of DE-ETIOLATED1 (DET1) suppression in embryogenic callus of Carica papaya.Journal of plant research · 2019Article
- Article
- Transcriptomics and co-expression networks reveal tissue-specific responses and regulatory hubs under mild and severe drought in papaya (Carica papaya L.).Scientific reports · 2018Article
- Transcriptome analysis ofPhysiology and molecular biology of plants : an international journal of functional plant biology · 2018Article
- Advanced Proteomic Approaches to Elucidate Somatic Embryogenesis.Frontiers in plant science · 2018Review
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Genome-wide transcriptome profiling is a powerful tool to study global gene expression patterns in plant development. We report the first transcriptome profile analysis of papaya embryogenic callus to improve our understanding on genes associated with somatic embryogenesis. By using 3' mRNA-sequencing, we generated 6,190,687 processed reads and 47.0% were aligned to papaya genome reference, in which 21,170 (75.4%) of 27,082 annotated genes were found to be expressed but only 41% was expressed at functionally high levels. The top 10% of genes with high transcript abundance were significantly enriched in biological processes related to cell proliferation, stress response, and metabolism. Genes functioning in somatic embryogenesis such as SERK and LEA, hormone-related genes, stress-related genes, and genes involved in secondary metabolite biosynthesis pathways were highly expressed. Transcription factors such as NAC, WRKY, MYB, WUSCHEL, Agamous-like MADS-box protein and bHLH important in somatic embryos of other plants species were found to be expressed in papaya embryogenic callus. Abundant expression of enolase and ADH is consistent with proteome study of papaya somatic embryo. Our study highlights that some genes related to secondary metabolite biosynthesis, especially phenylpropanoid biosynthesis, were highly expressed in papaya embryogenic callus, which might have implication for cell factory applications. The discovery of all genes expressed in papaya embryogenic callus provides an important information into early biological processes during the induction of embryogenesis and useful for future research in other plant species.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.