Transcriptome Analysis of Head Kidney Anti-LMBV Responses in Largemouth Bass (Micropterus salmoides)

doi:10.11924/j.issn.1000-6850.casb2024-0440

Abstract

Abstract:

The transcription profile of Micropterus salmoides against LMBV infection was analyzed to reveal the immune response mechanism of Micropterus salmoides in response to LMBV infection. The head kidney tissues of largemouth bass infected with LMBV 72h were analyzed by transcriptome sequencing using Illumina NovaSeq 6000 sequencing platform. A total of 5953 differentially expressed genes (DEGs) were obtained, of which 1704 were up-regulated and 4249 were down-regulated. Through GO function annotation, DEGs were mainly related to single-organism process, metabolic process, membrane, cell, binding, catalytic activity, etc. The KEGG enrichment analysis showed that DEGs were mainly enriched in metabolic pathways such as glycolysis, primary bile acid biosynthesis. There were 4 immune response-related signaling pathways enriched including cytokine-cytokine receptor interaction, ECM-receptor interaction, phagosome and intestinal immune network for IgA production. The immune-related increased DEGs were cxcr4, il10, mrc, ncf4, itgb2, il27, ccl25, etc. while the decreased degs were cxcl12, tgfb3, il20ra, col4a5, itgb1, etc. PPI analysis showed that itgb1, itga8 and itgb6 were the hub genes of immune-related DEGs. This study analyzed the transcription profile of largemouth bass infected with LMBV to provide a theoretical basis for the molecular mechanism and disease prevention of largemouth bass immunity against LMBV.

Key words: Micropterus salmoides, LMBV, transcriptome, immune response

ZHANG Jingjing, CHEN Bin, ZHUO Yuchen, WENG Kejia, LIN Ershu, CHEN Yushu, FAN Haiping. Transcriptome Analysis of Head Kidney Anti-LMBV Responses in Largemouth Bass (Micropterus salmoides)[J]. Chinese Agricultural Science Bulletin, 2024, 40(35): 148-155.

Figures/Tables 9

References 22

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基因名称	引物(5′—3′)
itga6	GCTAAACGGAAACGCAGAC
itga6	ACCCTCCTTCAGGAAATTCACCA
ccr9	TCCATCAGCCCTTCACCC
ccr9	CCAGCCATTCAACGCCTC
cxcr2	CCTGGAAATCTGGTCGTG
cxcr2	CCTGCGAGTCTCCATAGC
ctss	TCAAAGGAAAGGCTGGCTAC
ctss	TGTCCTCCGTCTGTGCC
itgb2	GTGTCTGTGGCTCTTATCG
itgb2	CCATTTGGCTTTCTTCTT
ncf1	TGTCTCAGTACCACCTGGGTCAC
ncf1	CTGGCTTTCCGTCAGTTTGCTCT
β-actin	CCACCACAGCCGAGAGGGAA
β-actin	TCATGGTGGATGGGGCCAGG

基因名称	引物(5′—3′)
itga6	GCTAAACGGAAACGCAGAC
itga6	ACCCTCCTTCAGGAAATTCACCA
ccr9	TCCATCAGCCCTTCACCC
ccr9	CCAGCCATTCAACGCCTC
cxcr2	CCTGGAAATCTGGTCGTG
cxcr2	CCTGCGAGTCTCCATAGC
ctss	TCAAAGGAAAGGCTGGCTAC
ctss	TGTCCTCCGTCTGTGCC
itgb2	GTGTCTGTGGCTCTTATCG
itgb2	CCATTTGGCTTTCTTCTT
ncf1	TGTCTCAGTACCACCTGGGTCAC
ncf1	CTGGCTTTCCGTCAGTTTGCTCT
β-actin	CCACCACAGCCGAGAGGGAA
β-actin	TCATGGTGGATGGGGCCAGG

样本名	原始序列/条	有效序列/条	有效碱基/Gb	错误率/%	Q20/%	Q30/%	GC含量/%
EK1	40716768	40265536	6.04G	0.02	98.09	94.67	48.28
EK2	40235984	39754866	5.96G	0.02	98.09	94.61	48.93
EK3	41964132	41441194	6.22G	0.02	98.19	94.86	49.05
BK1	51406336	50946762	7.64G	0.03	96.68	91.97	47.84
BK2	41622308	41160564	6.17G	0.02	98.13	94.78	47.53
BK3	47646868	47093288	7.06G	0.02	98.24	94.89	49.46

样本名	原始序列/条	有效序列/条	有效碱基/Gb	错误率/%	Q20/%	Q30/%	GC含量/%
EK1	40716768	40265536	6.04G	0.02	98.09	94.67	48.28
EK2	40235984	39754866	5.96G	0.02	98.09	94.61	48.93
EK3	41964132	41441194	6.22G	0.02	98.19	94.86	49.05
BK1	51406336	50946762	7.64G	0.03	96.68	91.97	47.84
BK2	41622308	41160564	6.17G	0.02	98.13	94.78	47.53
BK3	47646868	47093288	7.06G	0.02	98.24	94.89	49.46