Transcriptome analysis reveals the potential mechanism of carotenoids change in hepatopancreas under low-temperature storage from swimming crab (Portunus trituberculatus)

Liu, Chunhui; Chen, Zhaohui; Chen, Jing; Wang, Qianqian; Li, Jiao; Mao, Xiangzhao

doi:10.1016/j.foodchem.2022.135241

Cited by 7 publications

(2 citation statements)

References 41 publications

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“…The fragmented mRNA was used as a template to produce the first strand of cDNA. Following that, the second strand cDNA synthesis was carried out using DNA Polymerase I and RNase H. We screened the cDNA fragments of 370~420 bp and purified them with the AMPure XP system (Beckman Coulter, Beverly, CA, USA) [ 16 ]. Then, PCR was performed and the PCR products were purified again by AMPure XP system to obtain the cDNA library.…”

Section: Methodsmentioning

confidence: 99%

Exploration of Potential Target Genes of miR-24-3p in Chicken Myoblasts by Transcriptome Sequencing Analysis

Ling,

Wang,

et al. 2023

Genes

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Broiler skeletal muscle growth is significantly influenced by miRNAs. Our earlier research demonstrated that miR-24-3p significantly suppressed the proliferation of chicken myoblasts while promoting their differentiation. The purpose of this study is to investigate miR-24-3p potential target genes in chickens. We collected myoblasts of Jinghai yellow chicken and transfected four samples with mimics of miR-24-3p and another four samples with mimic NC (negative control) for RNA-seq. We obtained 54.34 Gb of raw data in total and 50.79 Gb of clean data remained after filtering. Moreover, 11,635 genes were found to be co-expressed in these two groups. The mimic vs. NC comparison group contained 189 DEGs in total, 119 of which were significantly up-regulated and 70 of which were significantly down-regulated. Important biological process (BP) terminology such as nuclear chromosomal segregation, reproduction, and nuclear division were discovered by GO enrichment analysis for DEGs in the mimic vs. NC comparison group. KEGG pathway analysis showed that focal adhesion, cytokine–cytokine receptor interaction, the TGF-β signaling pathway, and the MAPK signaling pathway were enriched in the top 20. Variation site analysis illustrated the SNP (single nucleotide polymorphisms) and INDEL (insertion–deletion) in the tested samples. By comparing the target genes predicted by miRDB (MicroRNA target prediction database) and TargetScan with the 189 DEGs found by the transcriptome sequencing, we discovered two up-regulated DEGs (NEURL1 and IQSEC3) and two down-regulated DEGs (REEP1 and ST6GAL1). Finally, we carried out qPCR experiments on eight DEGs and discovered that the qPCR results matched the sequencing outcomes. These findings will aid in identifying potential miR-24-3p target genes in chicken skeletal muscle and offer some new directions for upcoming research on broiler breeding.

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Section: Methodsmentioning

confidence: 99%

Exploration of Potential Target Genes of miR-24-3p in Chicken Myoblasts by Transcriptome Sequencing Analysis

Ling,

Wang,

et al. 2023

Genes

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“…Swimming crab has gained recognition as a unique culinary offering in coastal regions due to its delightful taste, nutritional richness, and distinctive flavor ( Yang et al, 2021 , Yang et al, 2021 ). Due to the high salt and oxygen in the oceanic environment, the survival rate of the swimming crab is significantly diminished after capture ( Liu, Chen, Chen, Wang, Li, & Mao, 2023 ). The quality of the untreated swimming crab undergoes swift deterioration after death due to biochemical, microbiological and physical changes.…”

Section: Introductionmentioning

confidence: 99%

Changes in the physicochemical characteristics and microbial community compositions of the abdomen and cheliped muscles in swimming crab (Portunus trituberculatus) during frozen storage

Dong,

Wu,

et al. 2024

Food Chemistry: X

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Comparison of freezing and heating treatment sequence on biochemical properties and flavor of swimming crabs (Portunus Trituberculatus) meat during freeze-thaw cycles

Yang,

Huang,

Sun

et al. 2024

Food Research International

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Transcriptome analysis reveals the potential mechanism of carotenoids change in hepatopancreas under low-temperature storage from swimming crab (Portunus trituberculatus)

Cited by 7 publications

References 41 publications

Exploration of Potential Target Genes of miR-24-3p in Chicken Myoblasts by Transcriptome Sequencing Analysis

Exploration of Potential Target Genes of miR-24-3p in Chicken Myoblasts by Transcriptome Sequencing Analysis

Changes in the physicochemical characteristics and microbial community compositions of the abdomen and cheliped muscles in swimming crab (Portunus trituberculatus) during frozen storage

Comparison of freezing and heating treatment sequence on biochemical properties and flavor of swimming crabs (Portunus Trituberculatus) meat during freeze-thaw cycles

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