AI Article Synopsis
- The study examines how the kidney transcriptome of the freshwater fish Labeo rohita responds to increasing salinity levels (2, 4, 6, and 8 ppt).
- A total of 10.25 Gbps of data was collected, leading to the identification of various long non-coding RNAs (lncRNAs) and micro RNAs (miRNAs), with distinct expression patterns found at each salinity level.
- Two competing endogenous RNA (ceRNA) networks were constructed, showing the complex interactions between lncRNAs, miRNAs, and mRNAs in response to the salinity treatments.
Article Abstract
The present study describes the kidney transcriptome of Labeo rohita, a freshwater fish, exposed to gradually increased salinity concentrations (2, 4, 6 and 8ppt). A total of 10.25 Gbps data was generated, and a suite of bioinformatics tools, including FEELnc, CPC2 and BLASTn were employed for identification of long non-coding RNAs (lncRNAs) and micro RNAs (miRNAs). Our analysis revealed a total of 170, 118, 99, and 269 differentially expressed lncRNA and 120, 118, 99, and 124 differentially expressed miRNAs in 2, 4, 6 and 8 ppt treatment groups respectively. Two competing endogenous RNA (ceRNA) networks were constructed i.e. A* ceRNA network with up-regulated lncRNAs and mRNAs, down-regulated miRNAs; and B* ceRNA network vice versa. 2ppt group had 131 and 83 lncRNA-miRNA-mRNA pairs in A* and B* networks, respectively. 4ppt group featured 163 pairs in A* network and 191 in B* network, while the 6ppt had 103 and 105 pairs. 8ppt group included 192 and 174 pairs. These networks illuminate the intricate RNA interactions in freshwater fish to varying salinity conditions.
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| http://www.ncbi.nlm.nih.gov/pmc/articles/PMC10883911 | PMC |
| http://dx.doi.org/10.1038/s41597-024-03056-y | DOI Listing |
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