MicroRNA transcriptome analysis of oriental river prawn Macrobrachium nipponense in responding to starvation stress

Butt, 2007, Effect of starvation on biological factors related to immunological defence in the Sydney rock oyster (Saccostrea glomerata), Aquaculture, 264, 82, 10.1016/j.aquaculture.2006.12.031 Caruso, 2010, Physiological responses to starvation in the European eel (Anguilla anguilla): effects on haematological, biochemical, non-specific immune parameters and skin structures, Fish Physiol. Biochem., 36, 71, 10.1007/s10695-008-9290-6 Caruso, 2011, Response to short term starvation of growth, haematological, biochemical and non-specific immune parameters in European sea bass (Dicentrarchus labrax) and blackspot sea bream (Pagellus bogaraveo), Mar. Environ. Res., 72, 46, 10.1016/j.marenvres.2011.04.005 Chen, 2017, Characterization of microRNAs in orange-spotted grouper (Epinephelus coioides) fin cells upon red-spotted grouper nervous necrosis virus infection, Fish Shellfish Immunol, 63, 228, 10.1016/j.fsi.2017.02.031 Denman, 1993, Using RNAFOLD to predict the activity of small catalytic RNAs, Biotechniques., 15, 1090 Friedlder, 2012, miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades, Nucleic Acids Res., 40, 37, 10.1093/nar/gkr688 Gao, 2019, Identification and expression profiling analysis of microRNAs in Nile tilapia (Oreochromis niloticus) in responding to Streptococcus agalactiae infection, Fish Shellfish Immunol, 87, 333, 10.1016/j.fsi.2019.01.018 Guo, 2018, Differential expression of microRNAs in hemocytes from white shrimp Litopenaeus vannamei under copper stress, Fish Shellfish Immunol, 74, 152, 10.1016/j.fsi.2017.12.053 He, 2018, Identification of microRNAs involved in cold adaptation of Litopenaeus vannamei by high-throughput sequencing, Gene, 677, 24, 10.1016/j.gene.2018.07.042 Hikita, 1999, Short-term fasting and the reversal of the stage of promotion in rat hepatocarcinogenesis: role of cell replication, apoptosis, and gene expression, Toxicol. Sci., 52, 17, 10.1093/toxsci/52.suppl_1.17 Huang, 2012, Characterization of host microRNAs that respond to DNA virus infection in a crustacean, BMC Genomics, 13, 159, 10.1186/1471-2164-13-159 Jin, 2017, Integrated analysis of microRNA and mRNA expression profiles during the sex-differentiation sensitive period in oriental river prawn, Macrobrachium nipponense, Sci. Rep., 7, 12011, 10.1038/s41598-017-10867-0 Johanson, 2014, The role of microRNAs in lymphopoiesis, Int. J. Hematol., 100, 246, 10.1007/s12185-014-1606-y Kaewkascholkul, 2016, Shrimp miRNAs regulate innate immune response against white spot syndrome virus infection, Dev. Comp. Immunol., 60, 191, 10.1016/j.dci.2016.03.002 Kim, 1995, Effect of restricted feeding regimens on compensatory weight gain and body tissue changes in channel catfish Ictalurus punctatus in ponds, Aquaculture, 135, 285, 10.1016/0044-8486(95)01027-0 Koyasu, Shigeo, The role of PI3K in immune cells. Nat. Immunol.. 4, 313–319. doi: https://doi.org/10.1038/ni0403-313. Kurstak, 2018, Viruses, immunity, and mental disorders, Br. J. Psychiatry, 154, 1 Lang, 2017, Identification of a novel toll gene (Shtoll3) from the freshwater crab Sinopotamon henanense and its expression pattern changes in responding to cadmium followed by Aeromonas hydrophila infection, Fish Shellfish Immunol, 71, 177, 10.1016/j.fsi.2017.10.013 Li, 2010, Effect of intermittent starvation on growth and some antioxidant indexes of Macrobrachium nipponense (De Haan), Aquac. Res., 40, 526, 10.1111/j.1365-2109.2008.02123.x Li, 2015, Molecular characterization of insulin-like androgenic gland hormone-binding protein gene from the oriental river prawn Macrobrachium nipponense and investigation of its transcriptional relationship with the insulin-like androgenic gland hormone gene, Gene Comp Endocr, 216, 152, 10.1016/j.ygcen.2014.12.007 Li, 2015, Cloning of genomic sequences of three crustacean hyperglycemic hormone superfamily genes and elucidation of their roles of regulating insulin-like androgenic gland hormone gene, Gene, 561, 68, 10.1016/j.gene.2015.02.012 Li, 2017, The identification of microRNAs participated in the response of Chinese shrimp Fenneropenaeus chinensis to white spot syndrome virus infection, Fish Shellfish Immunol, 68, 220, 10.1016/j.fsi.2017.05.060 Li, 2018, Differential expression of microRNAs in Portunus trituberculatus in responding to Hematodinium parasites, Fish Shellfish Immunol, 83, 134, 10.1016/j.fsi.2018.09.011 Li, 2018, Comparative transcriptome analysis of Chinese grass shrimp (Palaemonetes sinensis) infected with isopod parasite Tachaea chinensis, Fish Shellfish Immunol, 82, 153, 10.1016/j.fsi.2018.08.013 Li, 2019, Comparative transcriptional analysis and RNA interference reveal immunoregulatory pathways participated in growth of the oriental river prawn Macrobrachium nipponense, Comp Biochem Phys D, 29, 24 Li, 2019, Transcriptional responses to starvation stress in the hepatopancreas of oriental river prawn Macrobrachium nipponense, Environ. Pollut., 252, 14, 10.1016/j.envpol.2019.05.064 Li, 2019, Molecular and functional analysis of the insulin-like peptides gene in the oriental river prawn Macrobrachium nipponense, Gen. Comp. Endocrinol., 280, 209, 10.1016/j.ygcen.2019.05.006 Liu, 2010, Effects of starvation time on utilization of energy materials and energy budget of Macrobrachium nipponense, J Hebei Univer., 30, 706 Livak, 2001, Analysis of relative gene expression data using real-time quantitative PCR and the 2− ΔΔCT method, Methods, 25, 402, 10.1006/meth.2001.1262 Matozzo, 2011, Can starvation influence cellular and biochemical parameters in the crab Carcinus aestuarii?, Mar. Environ. Res., 71, 207, 10.1016/j.marenvres.2011.01.004 Morshedi, 2016, Cyclical short-term starvation and refeeding provokes compensatory growth in sub-yearling Siberian sturgeon, Acipenser baerii Brandt, 1869, Anim Feed Sci Tech., 232, 207, 10.1016/j.anifeedsci.2016.10.005 Mortazavi, 2008, Mapping and quantifying mammalian transcriptomes by RNA-Seq, Nat. Methods, 5, 621, 10.1038/nmeth.1226 Nantapojd, 2019, Identification and expression of white spot syndrome virus-encoded microRNAs in infected Penaeus monodon, Aquaculture, 503, 436, 10.1016/j.aquaculture.2019.01.023 Rao, 2016, A transcriptome study on Macrobrachium rosenbergii hepatopancreas experimentally challenged with white spot syndrome virus (WSSV), J. Invertebr. Pathol., 136, 10, 10.1016/j.jip.2016.01.002 Romualdi, 2003, IDEG6: a web tool for detection of differentially expressed genes in multiple tag sampling experiments, Physiol. Genomics, 12, 159, 10.1152/physiolgenomics.00096.2002 Shankar, 2011, MicroRNAs can generate thresholds in target gene expression, Nat. Genet., 43, 854, 10.1038/ng.905 Shekhar, 2019, Comparative analysis of shrimp (Penaeus vannamei) miRNAs expression profiles during WSSV infection under experimental conditions and in pond culture, Fish Shellfish Immunol, 93, 288, 10.1016/j.fsi.2019.07.057 Sun, 2016, Identification and comparative analysis of the oriental river prawn (Macrobrachium nipponense) microRNA expression profile during hypoxia using a deep sequencing approach, Comp Biochem Phys D, 17, 41 Sun, 2016, Differential expression of microRNAs of Litopenaeus vannamei in responding to different virulence WSSV infection, Fish Shellfish Immunol, 58, 18, 10.1016/j.fsi.2016.08.062 Verghese, 2010, Effect of moulting, eyestalk ablation, starvation and transportation on the immune response of the Indian spiny lobster, Panulirus homarus, Aquac. Res., 39, 1009, 10.1111/j.1365-2109.2008.01949.x Wang, 2005, Effects of starvation on growth and biochemical composition in shrimp Macrobrachium nipponense, J Hebei Univer, 25, 644 Wang, 2016, Comprehensive identification and profiling of Nile tilapia (Oreochromis niloticus) microRNAs response to Streptococcus agalactiae infection through high-throughput sequencing, Fish Shellfish Immunol, 54, 93, 10.1016/j.fsi.2016.03.159 Wang, 2018, High-throughput sequencing analysis of microRNAs in gills of red swamp crayfish, Procambarus clarkii infected with white spot syndrome virus, Fish Shellfish Immunol, 83, 18, 10.1016/j.fsi.2018.09.007 Xu, 2010, Identification and characterization of microRNAs in Clonorchis sinensis of human health significance, BMC Genomics, 11, 521, 10.1186/1471-2164-11-521 Zhang, 2009, Large-scale genome analysis reveals unique features of microRNAs, Gene, 443, 100, 10.1016/j.gene.2009.04.027 Zhao, 2016, Characterization of microRNAs by deep sequencing in red claw crayfish Cherax quadricarinatus haematopoietic tissue cells after white spot syndrome virus infection, Fish Shellfish Immunol, 59, 469, 10.1016/j.fsi.2016.11.012 Zhao, 2018, A transcriptome study on Macrobrachium nipponense hepatopancreas experimentally challenged with white spot syndrome virus (WSSV), PLoS One, 13 Zheng, 2018, Identification of microRNAs with heat stress responsive and immune properties in Marsupenaeus japonicus based on next-generation sequencing and bioinformatics analysis: essential regulators in the heat stress-host interactions, Fish Shellfish Immunol, 81, 390, 10.1016/j.fsi.2018.05.030 Zhou, 2015, Three novel toll genes (PtToll1–3) identified from a marine crab, Portunus trituberculatus: different tissue expression and response to pathogens, Fish Shellfish Immunol, 46, 737, 10.1016/j.fsi.2015.07.027