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    Wyświetlanie 1-2 z 2
    Tytuł:
    Transcriptomic analysis of different tissues in Korean arborvitae
    Autorzy:
    Mu, H.
    Gao, Y.
    Cheng, F.
    Lin, L.
    Wang, G.
    Xia, F.
    Powiązania:
    https://bibliotekanauki.pl/articles/2077762.pdf
    Data publikacji:
    2019
    Wydawca:
    Polska Akademia Nauk. Instytut Dendrologii PAN
    Tematy:
    Thuja koraiensis
    transcriptome
    tissue specific
    Opis:
    Korean arborvitae (Thuja koraiensis) is an evergreen shrub or small tree native to Korea and the extreme Changbai Mountain of China threatened by habitat loss. Due to the limited genomic sources of Ko- rean arborvitae, it is important to explore transcriptome to understand this economically important plant. We used RNA-seq technology to characterize the transcriptome of root, stem and leaf in Korean arborvitae, respectively. Based on the bioinformatics analysis of assembled transcriptome data, transcriptional path- ways and differentially expressed genes (DEGs) were identified. There were 152.26 million reads generated, and 446,568 unigenes with a mean size of 423.51 nt obtained via de novo assembly. Of these, 204,091 unigenes (45.70%) were further annotated by comparison to public protein databases. A total of 63,495 unigenes (14.22%) were associated into 130 pathways by searching against the KEGG database. DEGs analysis identified 11,890, 5,900 and 10,136 DEGs from the comparison of root vs. stem, root vs. leaf and stem vs. leaf, respectively. Besides, photosynthesis, plant hormone signal transduction and metabolism and biosynthesis of sugar and amino acids were changed in different tissues. We obtained 446,568 unigenes in Korean arborvitae and 11,890, 5,900 and 10,136 DEGs from the compar- ison of root vs. stem, root vs. leaf and stem vs. leaf, respectively. These results will aid in understanding and carrying out future studies on the molecular basis of Korean arborvitae and contribute to future artificial production and applications.
    Źródło:
    Dendrobiology; 2019, 81; 31-39
    1641-1307
    Pojawia się w:
    Dendrobiology
    Dostawca treści:
    Biblioteka Nauki
    Artykuł
    Tytuł:
    Global transcriptome analysis reveals genes associated with seedling advance growth traits in a selfed family of Chinese fir (Cunninghamia lanceolata)
    Autorzy:
    Deng, H.
    Hu, D.
    Wei, R.
    Yan, S.
    Wang, R.
    Zheng, H.
    Powiązania:
    https://bibliotekanauki.pl/articles/2130183.pdf
    Data publikacji:
    2022
    Wydawca:
    Polska Akademia Nauk. Instytut Dendrologii PAN
    Tematy:
    Chinese fir
    selfing
    RNA-Seq
    growth trait
    hub gene
    Opis:
    Chinese fir (Cunninghamia lanceolata (Lamb.) Hook.) is a major timber conifer species in southern China. In this study, we aimed to capture the rarely advanced phenomenon for selfing in this species and illustrated the underlying molecular mechanism, especially the hub gene-regulated networks and pathways, by global transcriptome analysis assays (RNA-Seq). Self-pollination trials revealed a wide variation of selfing effects among parents. Parent cx569 produced a selfed family with the best growth performance at the seedling stage. The growth-based extremely advanced (AD) (n=3) and depressed (DE) variants (n=3; different types) were then subjected to comparative RNA-Seq. The transcriptome data revealed more than 5000 differentially expressed genes (DEGs) for each comparison group (AD versus DE). Weighted gene co-expression network analysis (WGCNA) further identified more than 80 important DEGs that were significantly associated with growth traits in each comparison group. A subsequent enrichment analysis showed that the identified DEGs belonged to six main types, including xylem metabolism-related, sugar and energy metabolism-related, plant hormone signal transduction-related, stress response-related, cytochrome-related, and transcription factor genes. Ten hub genes represented by the ERF071, MYB-relate 305, WRKY6, WRKY31, PER3, LAC4, CESA8, CESA9, GID1, and PR1 genes were co-identified between AD and DE variants. These genes exhibited rather different expression patterns between AD and DE variants, especially of the transcription factor ERF071 gene that presented a low transcript level in the AD seedlings with only 4.45% activity compared to DE's. While, the plant hormone signal transduction GID1 gene was significantly upregulated in AD by about 20-fold when compared to DE's, and fold change of the lignin biosynthesis-related PER3, CESA9 and LAC4 gene expression parallel reached to 10–15 times in an upregulation pattern in AD seedlings. The set of hub gene-linked interaction networks and pathways revealed in this study may be responsible for the rarely advanced phenomenon for selfing at the seedling stage in Chinese fir.
    Źródło:
    Dendrobiology; 2022, 87; 27-46
    1641-1307
    Pojawia się w:
    Dendrobiology
    Dostawca treści:
    Biblioteka Nauki
    Artykuł
      Wyświetlanie 1-2 z 2

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