Microbiota in monocultured Litopenaeus vannamei vs. polyculture with Trachinotus ovatus

The structures of the microbial community in the intestine, aquaculture water, and sediment of Litopenaeus vannamei, both in monoculture and mixed culture with Trachinotus ovatus, were analyzed by sequencing 16S rRNA amplicons. 1,120,500 valid reads were obtained from 21 samples, and 3,767 operational taxonomic units (OTUs) were classified. In the two culture modes, the abundance and diversity of bacterial in the sediment were significantly higher than in the L. vannamei intestine under the monoculture mode, in the water and intestines of L. vannamei and T. ovatus under the mix-culture mode (P 0.05). The dominant phyla in the sediment under two culture modes were Proteobacteria, Bacteroidetes, and Chloroflexi. The microbial community structure in the water and L. vannamei intestine were similar in both culture modes. The dominant phyla included Cyanobacteria, Proteobacteria, and Actinobacteria, with their abundances ranging from 80.88% to 97.10%. Proteobacteria was the dominant phylum in each group of samples, and the dominant genus in both culture modes was GpIIa. There was little difference in microbial community structures under the two culture modes; while the culture mode did not affect the core phyla/genera, there were differences in relative abundance. The experimental results provide a reference for the exploration of efficient and specific probiotic screening and microbial formulation techniques

Transcriptome analysis of <em>Marsupenaeus japonicus</em> hepatopancreas during WSSV persistent infection

White Spot Syndrome Virus (WSSV) can cause a large-scale death of cultured shrimp and significant damage to the shrimp farming industry. Marsupenaeus japonicus is one of the world's most important economically farmed shrimp. This study found that some M. japonicus survived the spontaneous outbreak of WSSV. Surprisingly, these virus-carrying shrimp showed no apparent illnesses or outbreaks of white spot disease in the subsequent cultivation, and their body size was substantially smaller than healthy shrimp, indicating a long-term fight between the host and the virus. To investigate this interesting phenomenon, we analyzed the transcriptomes of healthy shrimp and survived shrimp through the RNA-Seq platform, attempting to reveal the underlying molecular mechanism of the struggle between M. japonicus and WSSV. Transcriptional analysis showed that a total of 37,815 unigenes were assembled, with an average length of 1,193.34 bp and N50 of 2,049 bp. In the KEGG pathway, enrichment analysis of DEGs pathways related to immunity, biosynthesis, and growth metabolism was enriched, including pentose phosphate pathway, glycerophospholipid metabolism, fatty acid biosynthesis, Wnt signaling pathway, biosynthesis of amino acids, ascorbate, and aldarate metabolism. Our data showed a delicate balance between M. japonicus and WSSV infection: On the one hand, WSSV infection can cause host metabolism and biosynthesis disorders in the host, and the virus consumes a portion of the material and energy required for shrimp average growth and reproduction. If WSSV infection persisted for a long time, then the growth rate of M. japonicus decreased. On the other hand, the host can regulate immune defense to resist subsequent viral infection. This study reveals the underlying molecular mechanism of a long-term battle of M. japonicus against WSSV infection, providing novel insights for preventing WSSV persistent infection in M. japonicus and other farmed shrimp species

The effect of water temperature on the pathogenicity of decapod iridescent virus 1 (DIV1) in Litopenaeus vannamei

Decapod iridescent virus 1 (DIV1) has caused huge losses to the shrimp breeding industry in recent years as a new shrimp virus. In this study, white leg shrimp, Litopenaeus vannamei, were cultured at different temperatures (26 ± 1 °C and 32 ± 1 °C) and the same salinity, then infected with DIV1 by intramuscular injection to determine the effects of water temperature on viral infection. The DIV1 copy counts in the gills, hepatopancreas, pleopods, intestines, and muscles of L. vannamei were measured in samples collected at 6, 12, and 24 h post-infection (hpi), and the survival rate of L. vannamei was assessed every 6 h after infection. At 96 hpi, the survival rates of L. vannamei in the high (32 ± 1 ℃) and standard (26 ± 1 ℃) water temperature groups were 2.22% and 4.44%, respectively. The peak time of mortality in the high-water temperature group was 6 h earlier than in the standard water temperature group. After 24 hours of DIV1 infection, the DIV1 copy counts in the standard water temperature treatment group were significantly higher than those in the high-water temperature treatment group. The tissues with the highest virus copy counts in the standard and high-temperature groups were the intestines (2.9×1011 copies/g) and muscles (7.0×108 copies/g). The effect of temperature on the pathogenicity of DIV1 differs from that of other previously studied viruses, such as white spot syndrome virus, Taura syndrome virus, and infectious hypodermal and hematopoietic necrosis virus, because the high-water temperature did not mitigate the damage caused by DIV1 infection

Metagenomic Analysis of Bacterial Communities and Antibiotic Resistance Genes in Penaeus monodon Biofloc-Based Aquaculture Environments

Biofloc technology (BFT) is one of the most promising technologies in global aquaculture for the purpose of improving water quality, waste treatment, and disease prevention in intensive aquaculture systems. However, characterization of the microbial species and antibiotic resistance potentially present in biofloc-based aquaculture environments is needed. In this study, we used high-throughput sequencing technology to comprehensively compare the bacterial communities in mariculture ponds of Penaeus monodon (P. monodon), by testing of water, biofloc, and intestine of P. monodon. Operational taxonomic units (OTUs) cluster analysis showed that the nine samples tested divided into 45 phyla and 457 genera. Proteobacteria was the dominant bacteria in water, biofloc and prawn intestine. In biofloc and intestine, the Ruegeria (2.23–6.31%) genus represented the largest proportion of bacteria, with Marivita (14.01–20.94%) the largest group in water. Microbial functional annotation revealed that in all the samples, genes encoding metabolism were predominant. The antibiotic resistance gene annotation showed the highest absolute abundance of patB, adeF, OXA-243, and Brucella_suis_mprF from Proteobacteria. PatB (11.33–15.01%), adeF (15.79–18.16%), OXA-243 (35.65%), and Brucella_suis_mprF (10.03%) showed the highest absolute abundance of antibiotic resistance genes in water, biofloc, and intestines, respectively. These findings may greatly increase our understanding of the characteristics of the microbiota of shrimp biofloc-based aquaculture systems and the complex interactions among shrimp, ambient microflora, and environmental variables. It provides a reference basis for policy on breeding, environmental safety, and maintaining food safety in the production of P. monodon

Magmatic Ni-Cu-(PGE) deposits in magma plumbing systems: Features, formation and exploration

The three most crucial factors for the formation of large and super-large magmatic sulfide deposits are: (1) a large volume of mantle-derived mafic-ultramafic magmas that participated in the formation of the deposits; (2) fractional crystallization and crustal contamination, particularly the input of sulfur from crustal rocks, resulting in sulfide immiscibility and segregation; and (3) the timing of sulfide concentration in the intrusion. The super-large magmatic Ni-Cu sulfide deposits around the world have been found in small mafic-ultramafic intrusions, except for the Sudbury deposit. Studies in the past decade indicated that the intrusions hosting large and super-large magmatic sulfide deposits occur in magma conduits, such as those in China, including Jinchuan (Gansu), Yangliuping (Sichuan), Kalatongke (Xinjiang), and Hongqiling (Jilin). Magma conduits as open magma systems provide a perfect environment for extensive concentration of immiscible sulfide melts, which have been found to occur along deep regional faults. The origin of many mantle-derived magmas is closely associated with mantle plumes, intracontinental rifts, or post-collisional extension. Although it has been confirmed that sulfide immiscibility results from crustal contamination, grades of sulfide ores are also related to the nature of the parental magmas, the ratio between silicate magma and immiscible sulfide melt, the reaction between the sulfide melts and newly injected silicate magmas, and fractionation of the sulfide melt. The field relationships of the ore-bearing intrusion and the sulfide ore body are controlled by the geological features of the wall rocks. In this paper, we attempt to demonstrate the general characteristics, formation mechanism, tectonic settings, and indicators of magmatic sulfide deposits occurring in magmatic conduits which would provide guidelines for further exploration

The secondary bacterial infection caused by WSSV outbreaks impacts shrimp Marsupenaeus japonicus’ growth as well as its intestinal microbiota’s composition and function

Intestinal microbiota homeostasis is a complex ecosystem and is essential for promoting aquatic animals’ growth. Invading pathogens can cause dynamical composition and structure change in the hosts’ microbiota due to this affecting their functions. WSSV is one of the most common and dangerous shrimp pathogens, which leads to white spot disease with too high mortality. A few studies on shrimp intestinal microbiota mainly focused on the changes during acute infection stage. Marsupenaeus japonicus is one of the most cultured shrimp with a decent ability to cope with environmental changes. In the current research, using M. japonicus as a model, we compared the differences of intestinal microbiota between healthy shrimp and the shrimp that survived through the WSSV outbreak. Our study showed that compared to the healthy M. japonicus, the WSSV outbreak disrupted intestinal microbiota structure in the survived shrimp: There was less potential beneficial bacteria and more harmful bacteria. Furthermore, the diversity and total abundance of intestinal microbiota in WSSV-survived shrimp increased significantly. On top of that, a metagenomic analysis by PICRUSt suggested that the changed intestinal microbiota could help the host to combat the secondary bacterial infections caused by WSSV outbreaks by regulating cell growth and death, reducing cell motility, improving energy metabolism, and increasing intestinal enzyme activities regardless the smaller sizes of WSSV-survived shrimp. This could be a result of excessive energy consumption and reduced nutrient-absorbing intestinal microbiota. Our study indicated that shrimp intestinal microbiota plays a fundamental role in combating against secondary infections and regulating the hosts’ growth post WSSV outbreaks. The eventual goal is to development of more efficient diagnostics and therapeutic strategies