Transcriptomic profiling of mink spleen infected by Aleutian mink disease virus: Insight into immune response
Notice bibliographique
Résumé
Aleutian disease (AD) is one of the most challenging mink diseases that causes high mortality and affects several economically important traits. Aleutian mink disease virus (AMDV) targets multiple organs, the spleen being one of the major targeted organs. Transcriptomics has been widely used to reveal genes and biological pathways and to identify biomarkers for early detection or prevention of diseases. This study aimed to identify genes and pathways related to the host response to AD infection in the spleen using transcriptomics. For this purpose, twelve AMDV-free black male mink (3 sets of 4 full-sibs) were housed for 4–7 days pre-inoculation and then were intranasally inoculated with viral homogenate and euthanized at 24 h (Day 1), 48 h (Day 2), and Day 7 post-infection. Spleen tissues were collected from infected and control (Day 0) mink for RNA isolation. Libraries were prepared (Illumina TruSeq™ RNA kit) and sequenced (HiScanSQ, 101 bp paired-end reads). After cleaning with Cutadapt v1.4.2, 942,803,540 high-quality reads remained for analysis. Differential gene expression analyses revealed that the highest number of significant differentially expressed (DE) genes were observed between Day 1 and Day 0 (168) while the fewest DE genes (23) were observed between Day 7 and Day 0. A total of 19 DE genes are identified between three observation pair comparisons and eight of them are directly involved in immune response ( FGL2, TLF8, LRP1, SERPINB9, MSR1, C3, PLA2R1 , and XCR1) . Gene enrichment analyses revealed pathways related to innate immune and lipid metabolism which are important mechanisms for the host to fight against infections. One of the important pathways is neutrophil degranulation which functions as aiding in the elimination of pathogens and the initiation of the inflammatory process. In conclusion, the current study provides insight into the transcriptomic profiles of the spleen in mink infected with AMDV. Identified candidate genes might be used for functional studies or as prior information for markers or genomic selection against AD in mink. Further studies in other tissues or single-cell RNA sequencing might deliver more comprehensive pictures of host responses to AMDV infections. • Spleen transcriptomic profiles of mink infected with Aleutian disease virus were performed on Day 0, Day 1, Day 2 and Day 7. • Profiles from Day 1, Day 2 and Day 7 were compared to Day 0 (control). • 19 differentially expressed genes are identified between the three observation pair comparisons (Day 0 vs infection Day 1, 2, or 7)). • Eight common dysregulated genes ( FGL2, TLF8, LRP1, SERPINB9, MSR1, C3, PLA2R1 , and XCR1) are involved in immune function . • Innate immune and lipid metabolism were significantly enriched pathways. • The most interactive genes in network analyses included CD86, MMP9, VCAM, PPARG, PDGFRA, SMG1, SLCA7, GATA1, CCL5 and C3.
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Comment cette classification a été obtenuedéplier
Prédiction distillée sur la base complète
Imitation des enseignantsNi prévalence calibrée, ni vérité terrain. Validation humaine à venir. Apprise à partir de 10 348 étiquettes directes de Codex et de 10 348 étiquettes directes de Gemma. Le mode candidate est l'union des têtes enseignantes seuillées; le consensus est leur intersection. Ces sorties portent le statut machine_predicted_unvalidated et ne sont ni des étiquettes humaines ni des étiquettes directes de modèles de pointe.
Scores Codex et Gemma par catégorie
| Catégorie | Codex | Gemma |
|---|---|---|
| Métarecherche | 0,003 | 0,001 |
| Méta-épidémiologie (sens strict) | 0,000 | 0,000 |
| Méta-épidémiologie (sens large) | 0,000 | 0,000 |
| Bibliométrie | 0,000 | 0,006 |
| Études des sciences et des technologies | 0,001 | 0,002 |
| Communication savante | 0,000 | 0,000 |
| Science ouverte | 0,001 | 0,001 |
| Intégrité de la recherche | 0,000 | 0,000 |
| Charge utile insuffisante (le modèle a refusé de juger) | 0,000 | 0,000 |
Scores machine (provisoires)
Les deux têtes enseignantes du modèle étudiant, lues sur ce travail. Un score ordonne la base pour la relecture; il n'affirme jamais une catégorie, et le statut de validation accompagne chaque rangée tel quel.
Scores de référence d'un modèle non mature (critères de maturité non atteints, 7 itérations). Un score ordonne; il n'affirme jamais une catégorie.
score_only:v0-immature-baseline · tel quel depuis la passe de notation : score_only signifie que le nombre peut ordonner les travaux, et qu'aucune étiquette de catégorie n'en découleClassification
machine, non validéePrédiction automatique; un appel candidat d’une seule tête enseignante, pas un consensus.
Le détail, modèle par modèle et score par score, se trouve en fin de page sous « Comment cette classification a été obtenue ».