ArticleBMC genomics2016
Temperature expression patterns of genes and their coexpression with LncRNAs revealed by RNA-Seq in non-heading Chinese cabbage.
Article in BMC genomics, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 47 papers.
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Who cites it
47 citing papers in PubMed.
- Decoding core molecular mechanisms of heat-stress tolerance in Brassica napus using transcriptomics and machine learning.Plant cell reports · 2026Article
- Molecular mechanisms and breeding strategies for heat tolerance in vegetable crops under global warming.Horticulture research · 2026Article
- Comparative physiological and transcriptomic analyses identify computationally predicted key genes and regulatory pathways in non-heading Chinese cabbage under heat stress.BMC plant biology · 2025Article
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- Current perspectives of lncRNAs in abiotic and biotic stress tolerance in plants.Frontiers in plant science · 2023Review
- A natural antisense RNA improves chrysanthemum cold tolerance by regulating the transcription factor DgTCP1.Plant physiology · 2022Article
- Transcriptomics and Genomics Analysis Uncover the Differentially Expressed Chlorophyll and Carotenoid-Related Genes in Celery.International journal of molecular sciences · 2022Article
- The Functional Interplay between Ethylene, Hydrogen Sulfide, and Sulfur in Plant Heat Stress Tolerance.Biomolecules · 2022Review
- Global identification and integrated analysis of heat-responsive long non-coding RNAs in contrasting rice cultivars.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2022Article
- Bidirectional lncRNA Transfer betweenInternational journal of molecular sciences · 2022Article
- Comprehensive transcriptome analysis reveals heat-responsive genes in flowering Chinese cabbage (Frontiers in plant science · 2022Article
- Genetic and Physiological Responses to Heat Stress inFrontiers in plant science · 2022Review
- The Dynamism of Transposon Methylation for Plant Development and Stress Adaptation.International journal of molecular sciences · 2021Review
- Transcriptional profiling reveals changes in gene regulation and signaling transduction pathways during temperature stress in wucai (Brassica campestris L.).BMC genomics · 2021Article
- Comparative analysis of long noncoding RNAs in angiosperms and characterization of long noncoding RNAs in response to heat stress in Chinese cabbage.Horticulture research · 2021Article
- Identification of long noncoding RNAs involved in resistance to downy mildew in Chinese cabbage.Horticulture research · 2021Article
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7 authors.
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Abstract
backgroundNon-heading Chinese cabbage (NHCC, Brassica rapa ssp. chinensis) is an important leaf vegetable grown worldwide. However, little is known about the molecular mechanisms underlying tolerance for extreme temperature in NHCC. The limited availability of NHCC genomic information has greatly hindered functional analysis and molecular breeding.
resultsHere, we conduct comprehensive analyses of cold and heat treatments in NHCC using RNA-seq. Approximately 790 million paired-end reads representing 136,189 unigenes with N50 length of 1705 bp were obtained. Totally, 14,329 differentially expressed genes (DEGs) were detected. Among which, 10 DEGs were detected in all treatments, including 7 up-regulated and 3 down-regulated. The enrichment analyses showed 25 and 33 genes were enriched under cold and heat treatments, respectively. Additionally, 10,001 LncRNAs were identified, and 9,687 belonged to novel LncRNAs. The expression of miRNAs were more than that of pri-miRNAs and LncRNAs. Furthermore, we constructed a coexpression network for LncRNAs and miRNAs. It showed 67 and 192 genes were regulated by LncRNAs under cold and heat treatments, respectively. We constructed the flowchart for identifying LncRNAs of NHCC using transcriptome. Except conducting the de novo transcriptome analyses, we also compared these unigenes with the Chinese cabbage proteins. We identified several most important genes, and discussed their regulatory networks and crosstalk in cold and heat stresses.
conclusionsWe presented the first comprehensive characterization for NHCC crops and constructed the flowchart for identifying LncRNAs using transcriptome. Therefore, this study represents a fully characterized NHCC transcriptome, and provides a valuable resource for genetic and genomic studies under abiotic stress.
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