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Tytuł pozycji:

Genome-wide profiling of alternative splicing genes in hybrid poplar (P.alba×P.glandulosa cv.84K) leaves.

Tytuł :
Genome-wide profiling of alternative splicing genes in hybrid poplar (P.alba×P.glandulosa cv.84K) leaves.
Autorzy :
Wang R; Beijing Advanced Innovation Center for Tree Breeding by Molecular Design, Beijing Forestry University, Beijing, China.; National Engineering Laboratory for Tree Breeding, Beijing Forestry University, Beijing, China.
Yin P; Beijing Advanced Innovation Center for Tree Breeding by Molecular Design, Beijing Forestry University, Beijing, China.; National Engineering Laboratory for Tree Breeding, Beijing Forestry University, Beijing, China.
Ruixia Y; National Engineering Laboratory for Tree Breeding, Beijing Forestry University, Beijing, China.
Liu X; Beijing Advanced Innovation Center for Tree Breeding by Molecular Design, Beijing Forestry University, Beijing, China.; National Engineering Laboratory for Tree Breeding, Beijing Forestry University, Beijing, China.
Luo L; National Engineering Laboratory for Tree Breeding, Beijing Forestry University, Beijing, China.
Xu J; Beijing Advanced Innovation Center for Tree Breeding by Molecular Design, Beijing Forestry University, Beijing, China.; National Engineering Laboratory for Tree Breeding, Beijing Forestry University, Beijing, China.
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Źródło :
PloS one [PLoS One] 2020 Nov 18; Vol. 15 (11), pp. e0241914. Date of Electronic Publication: 2020 Nov 18 (Print Publication: 2020).
Typ publikacji :
Journal Article; Research Support, Non-U.S. Gov't
Język :
English
Imprint Name(s) :
Original Publication: San Francisco, CA : Public Library of Science
MeSH Terms :
Alternative Splicing*
Chimera/*genetics
Plant Proteins/*genetics
Populus/*growth & development
Whole Genome Sequencing/*methods
Chimera/growth & development ; Chromosomes, Plant/genetics ; Exons ; Gene Expression Regulation, Plant ; High-Throughput Nucleotide Sequencing ; Introns ; Plant Leaves/genetics ; Plant Leaves/growth & development ; Populus/genetics ; RNA Splice Sites
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Substance Nomenclature :
0 (Plant Proteins)
0 (RNA Splice Sites)
Entry Date(s) :
Date Created: 20201118 Date Completed: 20210106 Latest Revision: 20210106
Update Code :
20210210
PubMed Central ID :
PMC7673502
DOI :
10.1371/journal.pone.0241914
PMID :
33206683
Czasopismo naukowe
Alternative splicing (AS) is a post-transcriptional process common in plants and essential for regulation of environmental fitness of plants. In the present study, we focus on the AS events in poplar leaves to understand their effects on plant growth and development. The hybrid poplar (P.alba×P.glandulosa cv.84K) leaves were collected for RNA extraction. The extracted RNA was sequenced using on an Illumina HiSeq™ 2000 platform. Using the Populus trichocarpa genome as the reference, a total of 3810 AS genes were identified (9225 AS events), which accounted for 13.51% of all the expressed genes. Intron retention was the most common AS event, accounting for 43.86% of all the AS events, followed by alternative 3' splice sites (23.75%), alternative 5' splice sites (23.71%), and exon skipping (8.68%). Chromosomes 10 had the most condensed AS events (33.67 events/Mb) and chromosome 19 had the least (12.42 events/Mb). Association analysis showed that AS in the poplar leaves was positively correlated with intron length, exon number, exon length, and gene expression level, and was negatively correlated with GC content. AS genes in the poplar leaves were associated mainly with inositol phosphate metabolism and phosphatidylinositol signaling system pathways that would be significant on wooden plant production.
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