ArticleBMC genomics2013
Transcriptional profiling of sweetpotato (Ipomoea batatas) roots indicates down-regulation of lignin biosynthesis and up-regulation of starch biosynthesis at an early stage of storage root formation.
Article in BMC genomics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 88 papers, 1 of them a synthesis that pooled it.
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Who cites it
88 citing papers in PubMed, 1 synthesis or guideline pooled it, 186 citations in OpenAlex.
- First systematic review of the last 30 years of research on sweetpotato: elucidating the frontiers and hotspots.Frontiers in plant science · 2024Pooled it
- Reducing nitrogen with dense planting increase sweetpotato storage roots quantity via favoring starch synthesis over lignification.iScience · 2026Article
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- Study on dynamic expansion and β-carotene accumulation in storage root of orange-fleshed sweetpotato, and screening of germplasm resources with high rate of medium-sized storage roots.Frontiers in plant science · 2026Article
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- Genome-Wide Identification and Analysis of DNA Methyltransferase and Demethylase Gene Families in Sweet Potato and Its Diploid Relative.Plants (Basel, Switzerland) · 2025Article
- Comprehensive review of sweetpotato flavor compounds: Opportunities for developing consumer-preferred varieties.Comprehensive reviews in food science and food safety · 2025Review
- The Adaptive Mechanism of Ginseng Rhizomes in Response to Habitat Changes.Current issues in molecular biology · 2024Article
- Article
- Transcriptional landscape of sweetpotato root tip development at the single-cell level.BMC plant biology · 2024Article
- Genome-Wide Identification and Analysis ofInternational journal of molecular sciences · 2024Article
- A Small Auxin-Up RNA Gene,Genes · 2024Article
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- Integrated metabolomic and transcriptomic analyses provide insights into regulation mechanisms during bulbous stem development in the Chinese medicinal herb plant, Stephania kwangsiensis.BMC plant biology · 2024Article
- Regulation of root development in nitrogen-susceptible and nitrogen-tolerant sweet potato cultivars under different nitrogen and soil moisture conditions.BMC plant biology · 2023Article
- Article
- Deciphering the hormone regulatory mechanisms of storage root initiation in sweet potato: challenges and future prospects.AoB PLANTS · 2023Review
- Influence of Planting Density on Sweet Potato Storage Root Formation by Regulating Carbohydrate and Lignin Metabolism.Plants (Basel, Switzerland) · 2023Article
- Characterization of a novel mutant with inhibition of storage root formation in sweet potato.Breeding science · 2023Article
- Combining Metabolomics and Transcriptomics to Reveal the Regulatory Mechanism of Taproot Enlargement inInternational journal of molecular sciences · 2023Article
28 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
11 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundThe number of fibrous roots that develop into storage roots determines sweetpotato yield. The aim of the present study was to identify the molecular mechanisms involved in the initiation of storage root formation, by performing a detailed transcriptomic analysis of initiating storage roots using next-generation sequencing platforms. A two-step approach was undertaken: (1) generating a database for the sweetpotato root transcriptome using 454-Roche sequencing of a cDNA library created from pooled samples of two root types: fibrous and initiating storage roots; (2) comparing the expression profiles of initiating storage roots and fibrous roots, using the Illumina Genome Analyzer to sequence cDNA libraries of the two root types and map the data onto the root transcriptome database.
resultsUse of the 454-Roche platform generated a total of 524,607 reads, 85.6% of which were clustered into 55,296 contigs that matched 40,278 known genes. The reads, generated by the Illumina Genome Analyzer, were found to map to 31,284 contigs out of the 55,296 contigs serving as the database. A total of 8,353 contigs were found to exhibit differential expression between the two root types (at least 2.5-fold change). The Illumina-based differential expression results were validated for nine putative genes using quantitative real-time PCR. The differential expression profiles indicated down-regulation of classical root functions, such as transport, as well as down-regulation of lignin biosynthesis in initiating storage roots, and up-regulation of carbohydrate metabolism and starch biosynthesis. In addition, data indicated delicate control of regulators of meristematic tissue identity and maintenance, associated with the initiation of storage root formation.
conclusionsThis study adds a valuable resource of sweetpotato root transcript sequences to available data, facilitating the identification of genes of interest. This resource enabled us to identify genes that are involved in the earliest stage of storage root formation, highlighting the reduction in carbon flow toward phenylpropanoid biosynthesis and its delivery into carbohydrate metabolism and starch biosynthesis, as major events involved in storage root initiation. The novel transcripts related to storage root initiation identified in this study provide a starting point for further investigation into the molecular mechanisms underlying this process.
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