2019 ; Vol.29-8: 1324~1334
|Author||Qianqian Zhang, Xiehao Wang, Defeng Zhang, Meng Long, Zhenbing Wu, Yuqing Feng, Jingwen Hao, Shuyi Wang, Qian Liao, Aihua Li|
|Place of duty||Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan 430072, P.R. China|
|Title||De novo Assembly and Analysis of Amur Sturgeon (Acipenser schrenckii) Transcriptome in Response to Mycobacterium Marinum Infection to Identify Putative Genes Involved in Immunity|
J. Microbiol. Biotechnol.2019 ;
|Abstract||Fish mycobacteriosis is a common bacterial disease in many species of freshwater and marine
fish and has caused severe loss of fish production. Mycobacterium marinum has been the most
prevalent pathogen observed in several outbreaks of mycobacteriosis of farmed sturgeons in
China. However, the immune responses and pathology of sturgeons in mycobacterial infection
are rarely studied. Therefore, we used the Illumina RNA-seq method to analyze the
transcriptome profile of Acipenser schrenckii challenged with Mycobacterium marinum. To begin,
168,220 non-redundant contigs were acquired from the infection and control groups, and
among these, 33,225 contigs have acquired annotations. A total of 4,043 differently expressed
(DE) contigs between the two groups were identified, and among these, 2479 were upregulated
and 1564 were down-regulated in the infected fish. A total of 1,340 DE contigs with
acquired annotations in KEGG were enriched for 124 pathways including the TNF signaling
pathway, and the Toll-like receptor signaling pathway. The roles of DE genes involved in
significant pathways and other processes were discussed. The 2,209 DE contigs that have yet
to acquire proper annotation may represent candidate genes associated with infection in
sturgeons and are expected to serve as immunogenetic resources for further study. To our best
knowledge, this is the first transcriptome study on sturgeons under bacterial infection.|
|Key_word||Amur sturgeon, transcriptome, Mycobacterium marinum, infection, immune mechanism|
Aronson JD. 1926. Spontaneous tuberculosis in salt water fish. J. Infect. Dis. 187(Suppl 2): 315-320.
Ramakrishnan L. 2013. Looking within the zebrafish to understand the tuberculous granuloma, pp. 251-266. The New Paradigm of Immunity to Tuberculosis, Ed. Springer
Swaim LE, Connolly LE, Volkman HE, Humbert O, Born DE, Ramakrishnan L. 2006. Mycobacterium marinum infection of adult zebrafish causes caseating granulomatous tuberculosis and is moderated by adaptive immunity. Infect. Immun. 74: 6108-6117.
Parikka M, Hammaren MM, Harjula S-KE, Halfpenny NJ, Oksanen KE, Lahtinen MJ, et al. 2012. Mycobacterium marinum causes a latent infection that can be reactivated by gamma irradiation in adult zebrafish. PLoS Pathog. 8: e1002944.
Zhang DF, Ji C, Zhang XJ, Li TT, Li AH, Gong XN. 2015. Mixed mycobacterial infections in farmed sturgeons. Aquac. Res. 46: 1914-1923.
Ng P, Wei C-L, Sung W-K, Chiu KP, Lipovich L, Ang CC, et al. 2005. Gene identification signature (GIS) analysis for transcriptome characterization and genome annotation. Nat. Methods 2: 105-111.
Livak KJ, Schmittgen TD. 2001. Analysis of relative gene expression data using real-time quantitative PCR and the 2−ΔΔCT method. Methods 25: 402-408.
Yue H, Li C, Du H, Zhang S, Wei Q. 2015. Sequencing and de novo assembly of the gonadal transcriptome of the endangered Chinese sturgeon (Acipenser sinensis). PLoS One 10: e0127332.
Kaneko H, Yamada H, Mizuno S, Udagawa T, Kazumi Y, Sekikawa K, et al. 1999. Role of tumor necrosis factor-alpha in Mycobacterium-induced granuloma formation in tumor necrosis factor-alpha-deficient mice. Lab. Invest. 79: 379-386.
Harris J, Hope JC, Keane J. 2008. Tumor necrosis factor blockers influence macrophage responses to Mycobacterium tuberculosis. J. Infect. Dis. 198: 1842-1850.
Roca FJ, Ramakrishnan L. 2013. TNF dually mediates resistance and susceptibility to mycobacteria via mitochondrial reactive oxygen species. Cell 153: 521-534.
Abdallah AM, Bestebroer J, Savage ND, De Punder K, Van Zon M, Wilson L, et al. 2011. Mycobacterial secretion systems ESX-1 and ESX-5 play distinct roles in host cell death and inflammasome activation. J. Immunol. 187: 4744-4753.
MacEwan DJ. 2002. TNF ligands and receptors–a matter of life and death. Br. J. Pharmacol. 135: 855-875.
Roach SK, Schorey JS. 2002. Differential regulation of the mitogen-activated protein kinases by pathogenic and nonpathogenic mycobacteria. Infect. Immun. 70: 3040-3052.
Pathak SK, Bhattacharyya A, Pathak S, Basak C, Mandal D, Kundu M, et al. 2004. Toll-like receptor 2 and mitogen-and stress-activated kinase 1 are effectors of Mycobacterium aviuminduced cyclooxygenase-2 expression in macrophages. J. Biol. Chem. 279: 55127-55136.
Sasindran S J, T orrel les J B. 2 011. Mycobacterium tuberculosis infection and inflammation: what is beneficial for the host and for the bacterium? Front. Microbiol. 2: 2.
Samten B, Townsend JC, Weis SE, Bhoumik A, Klucar P, Shams H, et al. 2008. CREB, ATF, and AP-1 transcription factors regulate IFN-γ secretion by human T cel l s in response to mycobacterial antigen. J. Immunol. 181: 2056-2064.
van der Sar AM, Spaink HP, Zakrzewska A, Bitter W, Meijer AH. 2009. Specificity of the zebrafish host transcriptome response to acute and chronic mycobacterial infection and the role of innate and adaptive immune components. Mol. Immunol. 46(11-12): 2317-2332.
Lemos MP, Rhee KY, McKinney JD. 2011. Expression of the leptin receptor outside of bone marrow-derived cells regulates tuberculosis control and lung macrophage MHC expression. J. Immunol. 187: 3776-3784.
Wieland CW, Florquin S, Chan ED, Leemans JC, Weijer S, Verbon A, et al. 2005. Pulmonary Mycobacterium tuberculosis infection in leptin-deficient ob/ob mice. Int. Immunol. 17:1399-1408.
Mulley JF, Hargreaves AD, Hegarty MJ, Heller RS, Swain MT. 2014. Transcriptomic analysis of the lesser spotted catshark (Scyliorhinus canicula) pancreas, liver and brain reveals molecular level conservation of vertebrate pancreas function. BMC Genomics 15: 1074.
Steinwede K, Maus R, Bohling J, Voedisch S, Braun A, Ochs M, et al. 2012. Cathepsin G and neutrophil elastase contribute to lung-protective immunity against mycobacterial infections in mice. J. Immunol. 188: 4476-4487.
Robledo D, Ronza P, Harrison PW, Losada AP, Bermúdez R, Pardo BG, et al. 2014. RNA-seq analysis reveals significant transcriptome changes in turbot (Scophthalmus maximus) suffering severe enteromyxosis. BMC Genomics 15: 1149.
Singh V, Kaur C, Chaudhary VK, Rao KV, Chatterjee S. 2015. M. tuberculosis secretory protein ESAT-6 induces metabolic flux perturbations to drive foamy macrophage differentiation. Sci. Rep. 5: 12906.
Yu Y, Maguire TG, Alwine JC. 2011. Human cytomegalovirus activates glucose transporter 4 expression to increase glucose uptake during infection. J. Virol. 85: 1573-1580.