{
  "abstract": "Crassostrea hongkongensis and Crassostrea ariakensis are commercially and nutritionally important oysters. However, species-specific differences in amino acid composition and protein expression profiles, and underlying mechanisms, remain poorly understood. Here, we integrated high-performance liquid chromatography (HPLC), transcriptomic, and proteomic analysis to address these objectives. C. ariakensis exhibited significantly higher total hydrolyzed amino acid contents than C. hongkongensis, with glycine, alanine, glutamic acid, proline and serine being the predominant amino acids in both species. Proteomic analysis identified 1371 differentially expressed proteins (DEPs) that were primarily enriched in proteasome, spliceosome, ribosome, and amino acid metabolism. Transcriptomic analysis screened 16,747 differentially expressed genes (DEGs), which were significantly enriched in the Notch signaling pathway, Ubiquitin mediated proteolysis, Neuroactive ligand-receptor interaction and Phagosome pathways. The integration of proteomics and transcriptomics jointly identified five common KEGG pathways, among which gene set enrichment analysis (GSEA) showed ECM-receptor interaction and folate biosynthesis to be significantly downregulated in C. hongkongensis, suggesting their potential involvement in shaping amino acid composition and protein abundance. Collectively, these findings provide a foundation for the further investigation of species-specific nutritional differences and their potential implications for oyster aquaculture.",
  "abstract_shown": true,
  "affiliations": [
    "Laboratory of Quality & Safety Risk Assessment on Agro-Products Processing (Zhanjiang), Ministry of Agriculture and Rural Affairs, Agricultural Products Processing Research Institute, Chinese Academy of Tropical Agricultural Sciences, Zhanjiang 524001, China.",
    "School of Medical Sciences, Faculty of Medicine and Health, Örebro University, SE-701 82 Örebro, Sweden.",
    "Turku Centre for Biotechnology, University of Turku, FI-20520 Turku, Finland.",
    "Turku Centre for Biotechnology, Abo Akademi University, FI-20520 Turku, Finland.",
    "Department of Life Technologies, University of Turku, FI-20014 Turku, Finland."
  ],
  "article_type": "research article",
  "arxiv": null,
  "author_total": 9,
  "authors": [
    {
      "affs": [
        0
      ],
      "name": "Shaojuan Liu",
      "orcid": "0000-0001-8400-4161"
    },
    {
      "affs": [
        0
      ],
      "name": "Huifang Ma"
    },
    {
      "affs": [
        0
      ],
      "name": "Ling Lin"
    },
    {
      "affs": [
        0
      ],
      "name": "Shaodong Zeng"
    },
    {
      "affs": [
        0
      ],
      "name": "Saihao Ren"
    },
    {
      "affs": [
        0
      ],
      "name": "Donghong Zhu"
    },
    {
      "affs": [
        1,
        2,
        3,
        4
      ],
      "name": "Matej Orešič",
      "orcid": "0000-0002-2856-9165"
    },
    {
      "affs": [
        0
      ],
      "name": "Xiaowei Pan"
    },
    {
      "affs": [
        0
      ],
      "name": "Jianzhi Ye"
    }
  ],
  "bibtex": "https://research.draconitic.com/paper/4scp7skjjw506.bib",
  "cited_by": 0,
  "doi": "10.3390/foods15203606",
  "fulltext_url": "https://europepmc.org/articles/PMC13704749",
  "id": "4scp7skjjw506",
  "issns": [
    "2304-8158"
  ],
  "landing_url": "https://europepmc.org/article/MED/42940242",
  "language": "eng",
  "licence": "CC-BY",
  "licence_label": "CC BY",
  "licence_source": "article",
  "licence_url": "https://creativecommons.org/licenses/by/4.0/",
  "metadata_licence": null,
  "native_subjects": [
    [
      "openalex",
      "2306|Marine Bivalve and Aquaculture Studies"
    ]
  ],
  "openalex": "W7221526685",
  "pdf_url": "https://europepmc.org/articles/PMC13704749?pdf=render",
  "pmcid": "PMC13704749",
  "pmid": "42940242",
  "published": "2026-10-10",
  "publisher": null,
  "ris": "https://research.draconitic.com/paper/4scp7skjjw506.ris",
  "sources": [
    {
      "first_seen": "2026-10-30T12:22:24Z",
      "native_id": "MED:42940242",
      "source": "europepmc",
      "url": "https://europepmc.org/article/MED/42940242"
    }
  ],
  "subjects": [
    {
      "field": "earth",
      "origin": "openalex:2306|Marine Bivalve and Aquaculture Studies",
      "subfield": "climate"
    }
  ],
  "title": "Integrated Transcriptomics and Proteomics Reveal Amino Acid Composition and Protein Expression Profiles of Crassostrea hongkongensis and Crassostrea ariakensis.",
  "title_text": "Integrated Transcriptomics and Proteomics Reveal Amino Acid Composition and Protein Expression Profiles of Crassostrea hongkongensis and Crassostrea ariakensis.",
  "type": "peer-reviewed",
  "updated_at": "2026-10-30T12:22:24Z",
  "url": "https://research.draconitic.com/paper/4scp7skjjw506",
  "venue": "Foods (Basel, Switzerland)",
  "versions": []
}