ArticleBMC genomics2013
Transcriptomic characterization of cold acclimation in larval zebrafish.
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 79 papers.
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
79 citing papers in PubMed, 214 citations in OpenAlex.
- Physiological and Transcriptomic Responses to Cold Stress in Taiwan Loach (Antioxidants (Basel, Switzerland) · 2026Article
- Analysis of hepatic and serum responses to acute cold stress in juvenile yellowfin tuna Thunnus albacares (Bonnaterre 1788).Journal of fish biology · 2026Article
- Frequency-selective thymic programming by early-life cold stress requires interferon regulatory factor 5.Frontiers in immunology · 2026Article
- Long-Term Heat Stress Triggers Immune Activation and Cell Death Remodeling in the Brain of Largemouth Bass (Animals : an open access journal from MDPI · 2025Article
- A Natural Hybrid Zone of Swordtails Reveals Molecular Insights Into the Adaptive Genomic Basis of Thermal Tolerance.Molecular ecology · 2024Article
- Article
- Analysis of Differential Gene Expression under Acute Lead or Mercury Exposure in Larval Zebrafish Using RNA-Seq.Animals : an open access journal from MDPI · 2024Article
- Metabolomic-based analysis reveals bile acid-mediated ovarian failure induced by low temperature in zebrafish.Zoological research · 2024Article
- Transcriptomic Characterization of Key Factors and Signaling Pathways for the Regeneration of Partially Hepatectomized Liver in Zebrafish.International journal of molecular sciences · 2024Article
- A large-effect fitness trade-off across environments is explained by a single mutation affecting cold acclimation.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Regulation of PGC-1α of the Mitochondrial Energy Metabolism Pathway in the Gills of Indian Medaka (International journal of molecular sciences · 2023Article
- The role of antifreeze genes in the tolerance of cold stress in the Nile tilapia (Oreochromis niloticus).BMC genomics · 2023Article
- Two Forms of Sexual Dimorphism in Gene Expression in Drosophila melanogaster: Their Coincidence and Evolutionary Genetics.Molecular biology and evolution · 2023Article
- Delayed First Feeding Chronically Impairs Larval Fish Growth Performance, Hepatic Lipid Metabolism, and Visceral Lipid Deposition at the Mouth-Opening Stage.Marine biotechnology (New York, N.Y.) · 2023Article
- Flower transcriptional response to long term hot and cold environments inFrontiers in plant science · 2023Article
- Warming Accelerates the Onset of the Molecular Stress Response and Increases Mortality of Larval Atlantic Cod.Integrative and comparative biology · 2022Article
- Rising floor and dropping ceiling: organ heterogeneity in response to cold acclimation of the largest extant amphibian.Proceedings. Biological sciences · 2022Article
- Understanding the Function and Mechanism of Zebrafish Tmem39b in Regulating Cold Resistance.International journal of molecular sciences · 2022Article
- Transcriptome analysis reveals the early resistance of zebrafish larvae to oxidative stress.Fish physiology and biochemistry · 2022Article
- A transcriptomic atlas underlying developmental plasticity of seasonal forms of Bicyclus anynana butterflies.Molecular biology and evolution · 2022Article
19 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
6 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundTemperature is one of key environmental parameters that affect the whole life of fishes and an increasing number of studies have been directed towards understanding the mechanisms of cold acclimation in fish. However, the adaptation of larvae to cold stress and the cold-specific transcriptional alterations in fish larvae remain largely unknown. In this study, we characterized the development of cold-tolerance in zebrafish larvae and investigated the transcriptional profiles under cold stress using RNA-seq.
resultsPre-exposure of 96 hpf zebrafish larvae to cold stress (16°C) for 24 h significantly increased their survival rates under severe cold stress (12°C). RNA-seq generated 272 million raw reads from six sequencing libraries and about 92% of the processed reads were mapped to the reference genome of zebrafish. Differential expression analysis identified 1,431 up- and 399 down-regulated genes. Gene ontology enrichment analysis of cold-induced genes revealed that RNA splicing, ribosome biogenesis and protein catabolic process were the most highly overrepresented biological processes. Spliceosome, proteasome, eukaryotic ribosome biogenesis and RNA transport were the most highly enriched pathways for genes up-regulated by cold stress. Moreover, alternative splicing of 197 genes and promoter switching of 64 genes were found to be regulated by cold stress. A shorter isoform of stk16 that lacks 67 amino acids at the N-terminus was specifically generated by skipping the second exon in cold-treated larvae. Alternative promoter usage was detected for per3 gene under cold stress, which leading to a highly up-regulated transcript encoding a truncated protein lacking the C-terminal domains.
conclusionsThese findings indicate that zebrafish larvae possess the ability to build cold-tolerance under mild low temperature and transcriptional and post-transcriptional regulations are extensively involved in this acclimation process.
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.