Genome-wide association analysis provides genetic insights into variation of nutritional quality traits in sea cucumber <italic style="font-style: italic">Apostichopus</italic> <italic style="font-style: italic">japonicus</italic>

Hongyuan ZHAO; Da HUO; Wei CUI; Chunxi JIANG; Shilin LIU; Irène RASOAMANANTO; Libin ZHANG; Lina SUN

doi:10.1007/s00343-025-4274-2

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Genome-wide association analysis provides genetic insights into variation of nutritional quality traits in sea cucumber Apostichopus japonicus

Biology | Updated：2025-10-16

- Genome-wide association analysis provides genetic insights into variation of nutritional quality traits in sea cucumber Apostichopus japonicus
- Genome-wide association analysis provides genetic insights into variation of nutritional quality traits in sea cucumber Apostichopus japonicus
- 海洋湖沼学报(英文) 2025年43卷第5期页码：1609-1622
- Affiliations：
  
  1.School of Marine Science and Engineering, Qingdao Agricultural University, Qingdao 266109, China
  2.CAS Key Laboratory of Marine Ecology and Environmental Sciences, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
  3.Key Laboratory of Breeding Biotechnology and Sustainable Aquaculture, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
  4.University of Chinese Academy of Sciences, Beijing 100049, China
  5.Institut Halieutique et des Sciences Marines (IH.SM), University of Toliara, P. O. Box 141, Toliara 601, Madagascar
- Author bio：
  
  sunlina@qdio.ac.cn
- Funds：
  
  the Key Research and Development Program of Shandong(2021LZGC029;2023LZGC019);the National Natural Science Foundation of China(42076093);the Special Funds for the Central Government to Guide Local Science and Technology Development(YDZX2023043);the Taishan Scholars Program(tsqn202306279)
- DOI：10.1007/s00343-025-4274-2
  中图分类号：
- 收稿：2024-10-16，
  
  录用：2024-11-12，
  
  网络首发：2024-11-27，
  
  纸质出版：2025-09-01
- Accepted：
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Genome-wide association analysis provides genetic insights into variation of nutritional quality traits in sea cucumber Apostichopus japonicus[J]. 海洋湖沼学报(英文), 2025,43(5):1609-1622.

ZHAO Hongyuan,HUO Da,CUI Wei,et al.Genome-wide association analysis provides genetic insights into variation of nutritional quality traits in sea cucumber Apostichopus japonicus[J].Journal of Oceanology and Limnology,2025,43(05):1609-1622.
Genome-wide association analysis provides genetic insights into variation of nutritional quality traits in sea cucumber Apostichopus japonicus[J]. 海洋湖沼学报(英文), 2025,43(5):1609-1622. DOI： 10.1007/s00343-025-4274-2.

ZHAO Hongyuan,HUO Da,CUI Wei,et al.Genome-wide association analysis provides genetic insights into variation of nutritional quality traits in sea cucumber Apostichopus japonicus[J].Journal of Oceanology and Limnology,2025,43(05):1609-1622. DOI： 10.1007/s00343-025-4274-2.

摘要

Abstract

Sea cucumber

Apostichopus

japonicus

is a crucial aquatic species known for its nutritional value. However

the genetic basis and regulatory mechanisms underlying its nutritional quality remain underexplored. This study investigates the nutritional quality of

japonicus

from different geographical regions and identifies genetic markers associated with these traits through a genome-wide association study (GWAS). We observed significant regional variations in the nutritional content of

japonicus

. Samples collected from Nanhuangcheng Island displayed the highest levels of saponins

whereas those from Laizhou exhibited the highest concentrations of glycosaminoglycans. Lingshan Island samples were the richest in amino acids

while samples from Rizhao contained the highest levels of polyunsaturated fatty acids. Through GWAS

265 candidate genes and related single nucleotide polymorphisms (SNPs) were identified as being significantly associated with essential nutritional traits

including genes like ubiquitin domain-containing protein 1 (

UBTD1

)

inactive pancreatic lipase-related protein 1

protein arginine N-methyltransferase 5 (

PRMT5

) and GDP-fucose protein O-fucosyltransferase 1 (

POFUT1

). This study advanced our knowledge of the genetic mechanisms underlying the nutritional quality of

japonicus

. The genetic markers identified herein offer crucial insights for breeding initiatives aimed at optimizing the nutritional profile of sea cucumbers.

关键词

Keywords

references

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Genome-wide association analysis provides genetic insights into variation of nutritional quality traits in sea cucumber Apostichopus japonicus

Genome-wide association analysis provides genetic insights into variation of nutritional quality traits in sea cucumber Apostichopus japonicus

DOI：10.1007/s00343-025-4274-2

摘要

Abstract

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