ArticleScientific reports2014
Genome-wide identification of transcription factors and transcription-factor binding sites in oleaginous microalgae Nannochloropsis.
Article in Scientific reports, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers, 1 of them a synthesis that pooled it.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
30 citing papers in PubMed, 1 synthesis or guideline pooled it, 108 citations in OpenAlex.
- Pooled it
- Transcription Factor Analysis of Rhodophytes Suggests Trihelix Transcription Factors Across the Florideophyceae.Plants (Basel, Switzerland) · 2025Article
- Article
- Identification and Overexpression of Endogenous Transcription Factors to Enhance Lipid Accumulation in the Commercially Relevant SpeciesbioRxiv : the preprint server for biology · 2025Article
- NgAP2a TargetsInternational journal of molecular sciences · 2024Article
- Engineering Fatty Acid Biosynthesis in Microalgae: Recent Progress and Perspectives.Marine drugs · 2024Review
- Review
- Harnessing genetic engineering to drive economic bioproduct production in algae.Frontiers in bioengineering and biotechnology · 2024Review
- The Metabolism of Reactive Oxygen Species and Their Effects on Lipid Biosynthesis of Microalgae.International journal of molecular sciences · 2023Review
- Exploring a blue-light-sensing transcription factor to double the peak productivity of oil in Nannochloropsis oceanica.Nature communications · 2022Article
- Bioinformatic identification of hub genes and related transcription factors in low shear stress treated endothelial cells.BMC medical genomics · 2021Article
- A multi-omic characterization of temperature stress in a halotolerant Scenedesmus strain for algal biotechnology.Communications biology · 2021Article
- AP2/ERF and R2R3-MYB family transcription factors: potential associations between temperature stress and lipid metabolism in Auxenochlorella protothecoides.Biotechnology for biofuels · 2021Article
- Enhancement of Lipid Production under Heterotrophic Conditions by Overexpression of an Endogenous bZIP Transcription Factor inJournal of microbiology and biotechnology · 2020Article
- Integration of proteome and transcriptome refines key molecular processes underlying oil production inBiotechnology for biofuels · 2020Article
- Time-resolved carotenoid profiling and transcriptomic analysis reveal mechanism of carotenogenesis for astaxanthin synthesis in the oleaginous green algaBiotechnology for biofuels · 2019Article
- Characterization of type I and type II diacylglycerol acyltransferases from the emerging model algaBiotechnology for biofuels · 2019Article
- Transcriptional regulation of microalgae for concurrent lipid overproduction and secretion.Science advances · 2019Article
- Advanced genetic tools enable synthetic biology in the oleaginous microalgae Nannochloropsis sp.Plant cell reports · 2018Review
- Analysis of bZIP Transcription Factor Family and Their Expressions under Salt Stress inInternational journal of molecular sciences · 2018Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Nannochloropsis spp. are a group of oleaginous microalgae that harbor an expanded array of lipid-synthesis related genes, yet how they are transcriptionally regulated remains unknown. Here a phylogenomic approach was employed to identify and functionally annotate the transcriptional factors (TFs) and TF binding-sites (TFBSs) in N. oceanica IMET1. Among 36 microalgae and higher plants genomes, a two-fold reduction in the number of TF families plus a seven-fold decrease of average family-size in Nannochloropsis, Rhodophyta and Chlorophyta were observed. The degree of similarity in TF-family profiles is indicative of the phylogenetic relationship among the species, suggesting co-evolution of TF-family profiles and species. Furthermore, comparative analysis of six Nannochloropsis genomes revealed 68 "most-conserved" TFBS motifs, with 11 of which predicted to be related to lipid accumulation or photosynthesis. Mapping the IMET1 TFs and TFBS motifs to the reference plant TF-"TFBS motif" relationships in TRANSFAC enabled the prediction of 78 TF-"TFBS motif" interaction pairs, which consisted of 34 TFs (with 11 TFs potentially involved in the TAG biosynthesis pathway), 30 TFBS motifs and 2,368 regulatory connections between TFs and target genes. Our results form the basis of further experiments to validate and engineer the regulatory network of Nannochloropsis spp. for enhanced biofuel production.
Indexed as
Identifiers
What OpenQuestion holds
Registered trials
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.