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Co-Expression Network Analysis of Gene Encoding Transmembrane Proteins and Long Non-Coding RNAs in the Halophyte Suaeda salsa for the Development of Saline Agriculture and Food Security
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Maryam Azizi   , Ehsan Mohsenifard , Kaveh Kavousi , Mohammad Reza Ghaffari * |
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Abstract: (6 Views) |
| Salinity stress is one of the major factors limiting agricultural production in saline soils. Although transmembrane proteins are known to play essential roles in maintaining ion homeostasis, their co-expression patterns with long non-coding RNAs (lncRNAs) in halophytes remain poorly understood. In this study, the co-expression network of differentially expressed transmembrane protein-coding genes and long non-coding RNAs in Suaeda salsa was investigated using RNA-Seq data. Among 4,148 differentially expressed genes, 454 transmembrane protein-coding genes were identified, and 1,575 significant co-expression interactions were detected between these genes and 348 differentially expressed lncRNAs. Based on the number of co-expression interactions, 208 genes were selected for functional annotation. Functional analysis showed that these genes were mainly associated with transporters and ion channels, membrane receptors and protein kinases, signaling pathways, phosphorylation, and membrane metabolism. In addition, the high abundance of multi-pass transporters and single-pass receptors highlighted the importance of proteins involved in stress perception, signal transduction, and ion homeostasis. These findings provide a set of candidate genes and lncRNAs for future functional studies and may serve as a valuable resource for identifying molecular targets in plant breeding programs and advancing saline agriculture. |
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| Keywords: Gene expression, Transmemebrane protein, Salinity stress, RNA-Seq |
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Full-Text [PDF 1111 kb]
(3 Downloads)
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Type of Study: Research |
Subject:
Special
Received: 2026/02/22 | Accepted: 2026/07/31
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