Transcriptome analysis demonstrate widespread differential expression of long noncoding RNAs involve in Larimichthys crocea immune response

2016 ◽  
Vol 51 ◽  
pp. 1-8 ◽  
Author(s):  
Lihua Jiang ◽  
Wei Liu ◽  
Aiyi Zhu ◽  
Jianshe Zhang ◽  
Jiajian Zhou ◽  
...  
BMC Genomics ◽  
2021 ◽  
Vol 22 (1) ◽  
Author(s):  
Minjie Huang ◽  
Jie Dong ◽  
Haikun Guo ◽  
Minghui Xiao ◽  
Deqian Wang

Abstract Background Dinotefuran (CAS No. 165252–70-0), a neonicotinoid insecticide, has been used to protect various crops against invertebrate pests and has been associated with numerous negative sublethal effects on honey bees. Long noncoding RNAs (lncRNAs) play important roles in mediating various biological and pathological processes, involving transcriptional and gene regulation. The effects of dinotefuran on lncRNA expression and lncRNA function in the honey bee brain are still obscure. Results Through RNA sequencing, a comprehensive analysis of lncRNAs and mRNAs was performed following exposure to 0.01 mg/L dinotefuran for 1, 5, and 10 d. In total, 312 lncRNAs and 1341 mRNAs, 347 lncRNAs and 1458 mRNAs, and 345 lncRNAs and 1155 mRNAs were found to be differentially expressed (DE) on days 1, 5 and 10, respectively. Gene set enrichment analysis (GSEA) indicated that the dinotefuran-treated group showed enrichment in carbohydrate and protein metabolism and immune-inflammatory responses such as glycine, serine and threonine metabolism, pentose and glucuronate interconversion, and Hippo and transforming growth factor-β (TGF-β) signaling pathways. Moreover, the DE lncRNA TCONS_00086519 was shown by fluorescence in situ hybridization (FISH) to be distributed mainly in the cytoplasm, suggesting that it may serve as a competing endogenous RNA and a regulatory factor in the immune response to dinotefuran. Conclusion This study characterized the expression profile of lncRNAs upon exposure to neonicotinoid insecticides in young adult honey bees and provided a framework for further study of the role of lncRNAs in honey bee growth and the immune response.


2019 ◽  
Vol 121 (2) ◽  
pp. 1126-1143 ◽  
Author(s):  
Ping Li ◽  
Xiaoyu Chen ◽  
Xuelian Chang ◽  
Tiantian Tang ◽  
Kemin Qi

2014 ◽  
Vol 22 (6) ◽  
pp. 672-678 ◽  
Author(s):  
Xiao-Feng Xu ◽  
Juan Li ◽  
Yun-Xia Cao ◽  
Da-Wei Chen ◽  
Zhi-Guo Zhang ◽  
...  

2015 ◽  
Vol 290 (5) ◽  
pp. 1659-1671 ◽  
Author(s):  
Liang hui You ◽  
Li jun Zhu ◽  
Lei Yang ◽  
Chun mei Shi ◽  
Ling xia Pang ◽  
...  

2020 ◽  
Vol 21 (12) ◽  
pp. 4217
Author(s):  
Lukasz Paukszto ◽  
Anita Mikolajczyk ◽  
Jan P. Jastrzebski ◽  
Marta Majewska ◽  
Kamil Dobrzyn ◽  
...  

Endometrial infections at a young age can lead to fertility issues in adulthood. Bacterial endotoxins, such as lipopolysaccharide (LPS), can participate in long-term molecular changes even at low concentrations. Lipopolysaccharide plays a crucial role in the progression of septic shock, inflammation and auto-immune diseases. The aim of this study was to describe transcriptomic modulations in the porcine endometrium, induced in vivo by a single subclinical dose of LPS from Salmonella Enteritidis. which did not produce clinical symptoms of toxicity. The RNA-seq methodology was applied to reveal 456 differentially expressed regions, including 375 genes, four long noncoding RNAs, and 77 other unclassified transcripts. Two independent methods confirmed 118 alternatively spliced genes that participate i.a., in the formation of the MHC-I complex and the adaptive immune response. Single nucleotide variant-calling algorithms supported the identification of 3730 allele-specific expression variants and 57 canonical A-to-I RNA editing sites. The results demonstrated that the differential expression of genes involved in inflammation, immune response, angiogenesis and endometrial development may be maintained for up to 7 days after exposure to LPS. RNA editing sites and long noncoding RNAs (lncRNAs) play an important role in transcriptional regulatory machinery in the porcine endometrium in response to LPS administration.


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