Genome-wide analysis reveals rapid and dynamic changes in miRNA and siRNA sequence and expression during ovule and fiber development in allotetraploid cotton (Gossypium hirsutum L.)
| العنوان: | Genome-wide analysis reveals rapid and dynamic changes in miRNA and siRNA sequence and expression during ovule and fiber development in allotetraploid cotton (Gossypium hirsutum L.) |
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| المؤلفون: | Misook Ha, Xueying Guan, Vanitharani Ramachandran, Xuemei Chen, Vikram Agarwal, Z. Jeffrey Chen, David M. Stelly, Andrew Woodward, Mingxiong Pang, Barbara A. Triplett |
| المصدر: | Genome Biology Pang, Mingxiong; Woodward, Andrew W; Agarwal, Vikram; Guan, Xueying; Ha, Misook; Ramachandran, Vanitharani; et al.(2009). Genome-wide analysis reveals rapid and dynamic changes in miRNA and siRNA sequence and expression during ovule and fiber development in allotetraploid cotton (Gossypium hirsutum L). Genome Biology, 10(11), R122. doi: http://dx.doi.org/10.1186/gb-2009-10-11-r122Test. Retrieved from: http://www.escholarship.org/uc/item/5g5843w1Test |
| سنة النشر: | 2009 |
| مصطلحات موضوعية: | 0106 biological sciences, Small RNA, Small interfering RNA, DNA, Plant, Molecular Sequence Data, Genes, Plant, 01 natural sciences, Gossypium herbaceum, 03 medical and health sciences, Gene Expression Regulation, Plant, MYB, RNA, Messenger, RNA, Small Interfering, skin and connective tissue diseases, Gene, 030304 developmental biology, 2. Zero hunger, Genetics, Regulation of gene expression, Expressed Sequence Tags, 0303 health sciences, Gossypium, biology, Base Sequence, Models, Genetic, Nucleotides, Reverse Transcriptase Polymerase Chain Reaction, Gene Expression Profiling, Research, RNA, food and beverages, biology.organism_classification, Gene expression profiling, MicroRNAs, sense organs, 010606 plant biology & botany, Genome-Wide Association Study |
| الوصف: | Rapid and dynamic changes in the expression of small RNAs are seen during ovule and fiber development in allotetraploid cotton. Background Cotton fiber development undergoes rapid and dynamic changes in a single cell type, from fiber initiation, elongation, primary and secondary wall biosynthesis, to fiber maturation. Previous studies showed that cotton genes encoding putative MYB transcription factors and phytohormone responsive factors were induced during early stages of ovule and fiber development. Many of these factors are targets of microRNAs (miRNAs) that mediate target gene regulation by mRNA degradation or translational repression. Results Here we sequenced and analyzed over 4 million small RNAs derived from fiber and non-fiber tissues in cotton. The 24-nucleotide small interfering RNAs (siRNAs) were more abundant and highly enriched in ovules and fiber-bearing ovules relative to leaves. A total of 31 miRNA families, including 27 conserved, 4 novel miRNA families and a candidate-novel miRNA, were identified in at least one of the cotton tissues examined. Among 32 miRNA precursors representing 19 unique miRNA families identified, 7 were previously reported, and 25 new miRNA precursors were found in this study. Sequencing, miRNA microarray, and small RNA blot analyses showed a trend of repression of miRNAs, including novel miRNAs, during ovule and fiber development, which correlated with upregulation of several target genes tested. Moreover, 223 targets of cotton miRNAs were predicted from the expressed sequence tags derived from cotton tissues, including ovules and fibers. The cotton miRNAs examined triggered cleavage in the predicted sites of the putative cotton targets in ovules and fibers. Conclusions Enrichment of siRNAs in ovules and fibers suggests active small RNA metabolism and chromatin modifications during fiber development, whereas general repression of miRNAs in fibers correlates with upregulation of a dozen validated miRNA targets encoding transcription and phytohormone response factors, including the genes found to be highly expressed in cotton fibers. Rapid and dynamic changes in siRNAs and miRNAs may contribute to ovule and fiber development in allotetraploid cotton. |
| وصف الملف: | application/pdf |
| تدمد: | 1474-760X |
| الوصول الحر: | https://explore.openaire.eu/search/publication?articleId=doi_dedup___::d6532c3ff5b5c8acbfae2584316ec2d9Test https://pubmed.ncbi.nlm.nih.gov/19889219Test |
| حقوق: | OPEN |
| رقم الانضمام: | edsair.doi.dedup.....d6532c3ff5b5c8acbfae2584316ec2d9 |
| قاعدة البيانات: | OpenAIRE |
| تدمد: | 1474760X |
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