Insights Into Long Non-Coding RNA and mRNA Expression in the Jejunum of Lambs Challenged With Escherichia coli F17

被引:5
作者
Chen, Weihao [1 ]
Lv, Xiaoyang [1 ]
Zhang, Weibo [1 ]
Hu, Tingyan [1 ]
Cao, Xiukai [1 ]
Ren, Ziming [1 ]
Getachew, Tesfaye [2 ]
Mwacharo, Joram M. [2 ]
Haile, Aynalem [2 ]
Sun, Wei [1 ,3 ]
机构
[1] Yangzhou Univ, Coll Anim Sci & Technol, Yangzhou, Jiangsu, Peoples R China
[2] Int Ctr Agr Res Dry Areas, Addis Ababa, Ethiopia
[3] Yangzhou Univ, Joint Int Res Lab Agr & Agri Prod Safety, Minist Educ China, Yangzhou, Jiangsu, Peoples R China
基金
中国国家自然科学基金;
关键词
lamb; E. coli F17; lncRNA; mRNA; RNA-Seq; machine learning; PREVALENCE; ETEC; DIARRHEA; IDENTIFICATION; RESISTANCE; PATHWAYS; FIMBRIAE; DISEASE; PROFILE; CELLS;
D O I
10.3389/fvets.2022.819917
中图分类号
S85 [动物医学(兽医学)];
学科分类号
0906 ;
摘要
It has long been recognized that enterotoxigenic Escherichia coli (ETEC) is the major pathogen responsible for vomiting and diarrhea. E. coli F17, a main subtype of ETEC, is characterized by high morbidity and mortality in young livestock. However, the transcriptomic basis underlying E. coli F17 infection has not been fully understood. In the present study, RNA sequencing was conducted to explore the expression profiles of mRNAs and long non-coding RNAs (lncRNAs) in the jejunum of lambs who were identified as resistant or sensitive to E. coli F17 that was obtained in a challenge experiment. A total of 772 differentially expressed (DE) mRNAs and 190 DE lncRNAs were detected between the E. coli F17-resistance and E. coli F17-sensitive lambs (i.e., TFF2, LOC105606142, OLFM4, LYPD8, REG4, APOA4, TCONS_00223467, and TCONS_00241897). Then, a two-step machine learning approach (RX) combination Random Forest and Extreme Gradient Boosting were performed, which identified 16 mRNAs and 17 lncRNAs as potential biomarkers, within which PPP2R3A and TCONS_00182693 were prioritized as key biomarkers involved in E. coli F17 infection. Furthermore, functional enrichment analysis showed that peroxisome proliferator-activated receptor (PPAR) pathway was significantly enriched in response to E. coli F17 infection. Our finding will help to improve the knowledge of the mechanisms underlying E. coli F17 infection and may provide novel targets for future treatment of E. coli F17 infection.
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页数:13
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