Comparative Transcriptomic Analysis to Identify the Genes Related to Delayed Gland Morphogenesis in Gossypium bickii
| Autor: | Li Shuyan, M. Ali, Qiaolian Wang, Xiaoxu Feng, Youping Zhang, Lv Limin, Zuo Dongyun, Mian Faisal Nazir, Guoli Song, Muhammad Bilal Tufail, Hailiang Cheng, Mahtab Soomro |
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| Jazyk: | angličtina |
| Rok vydání: | 2020 |
| Předmět: |
0106 biological sciences
0301 basic medicine lcsh:QH426-470 Gland morphogenesis RNA-Seq Gossypium 01 natural sciences Article law.invention Transcriptome 03 medical and health sciences Gene Expression Regulation Plant law Morphogenesis Genetics KEGG Transcription factor Gene Genetics (clinical) Polymerase chain reaction biology WGCNA Gene Expression Profiling DEGs Computational Biology food and beverages Gossypium bickii biology.organism_classification lcsh:Genetics Gene Ontology 030104 developmental biology Seeds RNA RNA-seq 010606 plant biology & botany |
| Zdroj: | Genes, Vol 11, Iss 472, p 472 (2020) Genes Volume 11 Issue 5 |
| ISSN: | 2073-4425 |
| Popis: | Cotton is one of the major industrial crops that supply natural fibers and oil for industries. This study was conducted to understand the mechanism of delayed gland morphogenesis in seeds of Gossypium bickii. In this study, we compared glandless seeds of G. bickii with glanded seeds of Gossypium arboreum. High-throughput sequencing technology was used to explore and classify the expression patterns of gland-related genes in seeds and seedlings of cotton plants. Approximately 131.33 Gigabases of raw data from 12 RNA sequencing samples with three biological replicates were generated. A total of 7196 differentially-expressed genes (DEGs) were identified in all transcriptome data. Among them, 3396 genes were found up-regulated and 3480 genes were down-regulated. Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) annotations were performed to identify different functions between genes unique to glandless imbibed seeds and glanded seedlings. Co-expression network analysis revealed four modules that were identified as highly associated with the development of glandless seeds. Here the hub genes in each module were identified by weighted gene co-expression network analysis (WGCNA). In total, we have selected 13 genes involved in transcription factors, protein and MYB-related functions, that were differentially expressed in transcriptomic data and validated by quantitative reverse-transcription polymerase chain reaction (qRT-PCR). These selected genes may play an important role for delayed gland morphogenesis. Our study provides comprehensive insight into the key genes related to glandless traits of seeds and plants, and can be further exploited by functional and molecular studies. |
| Databáze: | OpenAIRE |
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