Transcriptome analysis of acute high temperature-responsive genes and pathways in Palaemon gravieri

Shi, Wenjun; Hu, Runhao; Wang, Pan; Zhao, Rongjun; Shen, Hui; Li, Hui; Wang, Libao; Qiao, Yi; Jiang, Ge; Cheng, Jie; Wan, Xihe

doi:10.1016/j.cbd.2021.100958

Cited by 9 publications

(6 citation statements)

References 73 publications

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“…Our results suggest that this is at least partly controlled via sediment-induced energetic downregulation of specific metabolic genes and genes associated with protein biosynthesis. A similar metabolic depression was detected in other invertebrates like mussels [35] or shrimps [36] exposed to abiotic stress such as temperature, indicating that a reduction of cellular metabolic activity is a general strategy of different organismic groups to cope with stressful conditions. In contrast, reduced flow velocity induced gene expression as this was the treatment with the highest number of upregulated genes.…”

Section: Single and Combined Stressor Effectssupporting

confidence: 63%

Impacts of multiple anthropogenic stressors on the transcriptional response of Gammarus fossarum in a mesocosm field experiment

et al. 2022

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Background Freshwaters are exposed to multiple anthropogenic stressors, leading to habitat degradation and biodiversity decline. In particular, agricultural stressors are known to result in decreased abundances and community shifts towards more tolerant taxa. However, the combined effects of stressors are difficult to predict as they can interact in complex ways, leading to enhanced (synergistic) or decreased (antagonistic) response patterns. Furthermore, stress responses may remain undetected if only the abundance changes in ecological experiments are considered, as organisms may have physiological protective pathways to counteract stressor effects. Therefore, we here used transcriptome-wide sequencing data to quantify single and combined effects of elevated fine sediment deposition, increased salinity and reduced flow velocity on the gene expression of the amphipod Gammarus fossarum in a mesocosm field experiment. Results Stressor exposure resulted in a strong transcriptional suppression of genes involved in metabolic and energy consuming cellular processes, indicating that G. fossarum responds to stressor exposure by directing energy to vitally essential processes. Treatments involving increased salinity induced by far the strongest transcriptional response, contrasting the observed abundance patterns where no effect was detected. Specifically, increased salinity induced the expression of detoxification enzymes and ion transporter genes, which control the membrane permeability of sodium, potassium or chloride. Stressor interactions at the physiological level were mainly antagonistic, such as the combined effect of increased fine sediment and reduced flow velocity. The compensation of the fine sediment induced effect by reduced flow velocity is in line with observations based on specimen abundance data. Conclusions Our findings show that gene expression data provide new mechanistic insights in responses of freshwater organisms to multiple anthropogenic stressors. The assessment of stressor effects at the transcriptomic level and its integration with stressor effects at the level of specimen abundances significantly contribute to our understanding of multiple stressor effects in freshwater ecosystems.

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Section: Single and Combined Stressor Effectssupporting

confidence: 63%

Impacts of multiple anthropogenic stressors on the transcriptional response of Gammarus fossarum in a mesocosm field experiment

et al. 2022

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“…The experimental shrimp (weight: 3.8 ± 0.31 g, length: 5.8 ± 0.2 cm) were collected from the Rudong base of the Institute of Oceanology & Marine Fisheries, Jiangsu, Nantong, China. The shrimps were temporarily reared with reference to the previous method of our research group [ 53 ]. In brief, prior to the challenge experiment, shrimp were raised in a 500 L clean barrel tank for one week at 18 ± 0.5 °C, 25 ppt (containing around 250 shrimp in 350 L marine water).…”

Section: Methodsmentioning

confidence: 99%

Complete genome analysis of pathogenic Metschnikowia bicuspidata strain MQ2101 isolated from diseased ridgetail white prawn, Exopalaemon carinicauda

et al. 2023

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Background Metschnikowia bicuspidata is a pathogenic yesst that can cause disease in many different economic aquatic animal species. In recent years, there was a new disease outbreak in ridgetail white prawn (Exopalaemon carinicauda) in coastal areas of Jiangsu Province China that was referred to as zombie disease by local farmers. The pathogen was first isolated and identified as M. bicuspidata. Although the pathogenicity and pathogenesis of this pathogen in other animals have been reported in some previous studies, research on its molecular mechanisms is still very limited. Therefore, a genome-wide study is necessary to better understand the physiological and pathogenic mechanisms of M. bicuspidata. Result In this study, we obtained a pathogenic strain, MQ2101, of M. bicuspidata from diseased E. carinicauda and sequenced its whole genome. The size of the whole genome was 15.98 Mb, and it was assembled into 5 scaffolds. The genome contained 3934 coding genes, among which 3899 genes with biological functions were annotated in multiple underlying databases. In KOG database, 2627 genes were annotated, which were categorized into 25 classes including general function prediction only, posttranslational modification, protein turnover, chaperones, and signal transduction mechanisms. In KEGG database, 2493 genes were annotated, which were categorized into five classes, including cellular processes, environmental information processing, genetic information processing, metabolism and organismal systems. In GO database, 2893 genes were annotated, which were mainly classified in cell, cell part, cellular processes and metabolic processes. There were 1055 genes annotated in the PHI database, accounting for 26.81% of the total genome, among which 5 genes were directly related to pathogenicity (identity ≥ 50%), including hsp90, PacC, and PHO84. There were also some genes related to the activity of the yeast itself that could be targeted by antiyeast drugs. Analysis based on the DFVF database showed that strain MQ2101 contained 235 potential virulence genes. BLAST searches in the CAZy database showed that strain MQ2101 may have a more complex carbohydrate metabolism system than other yeasts of the same family. In addition, two gene clusters and 168 putative secretory proteins were predicted in strain MQ2101, and functional analysis showed that some of the secretory proteins may be directly involved in the pathogenesis of the strain. Gene family analysis with five other yeasts revealed that strain MQ2101 has 245 unique gene families, including 274 genes involved in pathogenicity that could serve as potential targets. Conclusion Genome-wide analysis elucidated the pathogenicity-associated genes of M. bicuspidate while also revealing a complex metabolic mechanism and providing putative targets of action for the development of antiyeast drugs for this pathogen. The obtained whole-genome sequencing data provide an important theoretical basis for transcriptomic, proteomic and metabolic studies of M. bicuspidata and lay a foundation for defining its specific mechanism of host infestation.

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“…It has been demonstrated that HSPs serve as crucial "helpers" by assisting in the correct folding, assembly, or disassembly of proteins and protein complexes as well as the correct refolding of aberrant or damaged proteins [72,73]. This has been supported in several studies of heat stress in marine animals, including A. japonicus [35,60,[74][75][76].…”

Section: 4mentioning

confidence: 95%

Exploring Endoplasmic Reticulum Stress Pathways in Apostichopus Japonicus Under Heat Stress Based on Transcriptome Analysis

Yang,

Lu,

et al. 2024

Preprint

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Transcriptome analysis of acute high temperature-responsive genes and pathways in Palaemon gravieri

Cited by 9 publications

References 73 publications

Impacts of multiple anthropogenic stressors on the transcriptional response of Gammarus fossarum in a mesocosm field experiment

Impacts of multiple anthropogenic stressors on the transcriptional response of Gammarus fossarum in a mesocosm field experiment

Complete genome analysis of pathogenic Metschnikowia bicuspidata strain MQ2101 isolated from diseased ridgetail white prawn, Exopalaemon carinicauda

Exploring Endoplasmic Reticulum Stress Pathways in Apostichopus Japonicus Under Heat Stress Based on Transcriptome Analysis

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