scholarly journals Rapid pathogen discovery in diseased turbot (Scophthalmus maximus) using 16S rRNA high throughput sequencing

2021 ◽  
Vol 21 ◽  
pp. 100835
Author(s):  
Yufeng Si ◽  
Jinxuan Wen ◽  
Yao Xu ◽  
Patarida Roengjit ◽  
Hao Wang
Biology ◽  
2021 ◽  
Vol 10 (7) ◽  
pp. 626
Author(s):  
Ting Xue ◽  
Yiping Liu ◽  
Min Cao ◽  
Mengyu Tian ◽  
Lu Zhang ◽  
...  

Increasing evidence suggests that non-coding RNAs (ncRNA) play an important role in a variety of biological life processes by regulating gene expression at the transcriptional and post-transcriptional levels. Turbot (Scophthalmus maximus) has been threatened by various pathogens. In this study, the expression of circular RNAs (circRNAs), microRNAs (miRNAs), and mRNA in the immune organs spleen of turbot infected with Aeromonas salmonicida was analyzed by high-throughput sequencing, and a circRNA-miRNA-mRNA network was constructed, so as to explore the function of non-coding RNA in the immune system of teleost. Illumina sequencing was performed on the uninfected group and infected group. A total of 119 differential expressed circRNAs (DE-circRNAs), 140 DE-miRNAs, and 510 DE-mRNAs were identified in the four infected groups compared with the uninfected group. Most DE-mRNAs and the target genes of DE-ncRNAs were involved in immune-related pathways. The quantitative real-time PCR (qRT-PCR) results verified the reliability and accuracy of the high-throughput sequencing data. Ninety-six differentially expressed circRNA-miRNA-mRNA regulatory networks were finally constructed. Among them, 15 circRNA-miRNA-mRNA were presented in the form of “up (circRNA)-down (miRNA)-up (mRNA)” or “down-up-down”. Immune-related genes gap junction CX32.2, cell adhesion molecule 3, and CC chemokine were also found in these networks. These results indicate that ncRNA may regulate the expression of immune-related genes through the circRNA-miRNA-mRNA regulatory network and thus participate in the immune response of turbot spleen after pathogen infection.


2019 ◽  
Vol 306 ◽  
pp. 108271 ◽  
Author(s):  
Zhanggen Liu ◽  
Junyi Li ◽  
Benliang Wei ◽  
Tao Huang ◽  
Yangsheng Xiao ◽  
...  

2019 ◽  
Vol 665 ◽  
pp. 367-378 ◽  
Author(s):  
María Cristina Casero ◽  
David Velázquez ◽  
Miguel Medina-Cobo ◽  
Antonio Quesada ◽  
Samuel Cirés

2012 ◽  
Vol 78 (7) ◽  
pp. 2489-2492 ◽  
Author(s):  
Matthew E. Rhodes ◽  
Aharon Oren ◽  
Christopher H. House

ABSTRACT16S rRNA amplicon libraries from a haloarchaeal bloom in the hypersaline Dead Sea in 1992 were analyzed together with the 2007 residual population and simulated blooms in experimental mesocosms. Significant population shifts were observed during the bloom, and surprisingly a signature from the bloom was retained 15 years later.


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