Analysis of the gene transcription patterns and DNA methylation characteristics of triploid sea cucumbers (Apostichopus japonicus).

Sci Rep

Key Laboratory of Mariculture and Stock Enhancement in North China's Sea, Ministry of Agriculture and Rural Affairs, Dalian Ocean University, 52 Heishijiao Rd., Dalian, 116023, Liaoning, People's Republic of China.

Published: April 2021

Breeding of polyploid aquatic animals is still an important approach and research hotspot for realizing the economic benefits afforded by the improvement of aquatic animal germplasm. To better understand the molecular mechanisms of the growth of triploid sea cucumbers, we performed gene expression and genome-wide comparisons of DNA methylation using the body wall tissue of triploid sea cucumbers using RNA-seq and MethylRAD-seq technologies. We clarified the expression pattern of triploid sea cucumbers and found no dosage effect. DEGs were significantly enriched in the pathways of nucleic acid and protein synthesis, cell growth, cell division, and other pathways. Moreover, we characterized the methylation pattern changes and found 615 differentially methylated genes at CCGG sites and 447 differentially methylated genes at CCWGG sites. Integrative analysis identified 23 genes (such as Guf1, SGT, Col5a1, HAL, HPS1, etc.) that exhibited correlations between promoter methylation and expression. Altered DNA methylation and expression of various genes suggested their roles and potential functional interactions in the growth of triploid sea cucumbers. Our data provide new insights into the epigenetic and transcriptomic alterations of the body wall tissue of triploid sea cucumbers and preliminarily elucidate the molecular mechanism of their growth, which is of great significance for the breeding of fine varieties of sea cucumbers.

Download full-text PDF

Source
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8027599PMC
http://dx.doi.org/10.1038/s41598-021-87278-9DOI Listing

Publication Analysis

Top Keywords

sea cucumbers
28
triploid sea
24
dna methylation
12
growth triploid
8
body wall
8
wall tissue
8
tissue triploid
8
differentially methylated
8
methylated genes
8
methylation expression
8

Similar Publications

Revered and Reviled: The Plight of the Vanishing Sea Cucumbers.

Ann Rev Mar Sci

January 2025

Sea Cucumber Specialist Group, Species Survival Commission, International Union for Conservation of Nature, Gland, Switzerland.

Sea cucumbers paradoxically suffer from being both highly prized and commonly disregarded. As an Asian medicine and delicacy, they command fabulous prices and are thus overfished, poached, and trafficked. As noncharismatic animals, many are understudied and inadequately protected.

View Article and Find Full Text PDF

Identification and structural characterization of glucosylceramides in Holothuria (Halodeima) grisea: Insights from TLC and NMR techniques.

Carbohydr Res

January 2025

Departamento de Bioquímica e Biologia Molecular, Universidade Federal do Paraná, 81531-990, Curitiba, PR, Brazil. Electronic address:

Sea cucumbers are widely used in oriental cuisine due to their medicinal properties. Antioxidant, antifungal, antiviral, anticancer and neuroprotective activities have already been identified in several species and in different tissues. Among the class of compounds with biological activity are cerebrosides, which have important functions for the proper functioning of cells, especially neuronal cells.

View Article and Find Full Text PDF

Dietary Bacillus improves behavior, intestinal health, and growth of juvenile sea cucumbers Apostichopus japonicus at low temperature.

J Therm Biol

January 2025

Key Laboratory of Mariculture & Stock Enhancement in North China's Sea, Ministry of Agriculture and Rural Affairs, Dalian Ocean University, Dalian, China. Electronic address:

The traditional overwintering process of sea cucumbers (Apostichopus japonicus) requires burning a large amount of coal to raise the water temperature. It is useful but costly and not environmentally friendly. Bacillus is proposed as a cheap and green alternative.

View Article and Find Full Text PDF

Levels and oxidative toxicity of microplastics and perfluoroalkyl substances (PFASs) in different tissues of sea cucumber (Holothuria tubulosa).

Sci Total Environ

January 2025

School of Biosciences and Veterinary Medicine, University of Camerino, Via Gentile III Da Varano, I-62032 Camerino, MC, Italy. Electronic address:

Nowadays, marine pollution is a global problem which finds in microplastics (MPs) and emerging pollutants, such as perfluoroalkyl substances (PFASs), two of the main culprits. Sea cucumbers are a group of marine benthic invertebrates that show ecological, economic and social relevance. As deposit/suspension feeders, sea cucumbers show high susceptibility to bioaccumulate marine pollutants, including PFASs and MPs.

View Article and Find Full Text PDF

Background: The observed growth variability of different aquaculture species in captivity hinders its large-scale production. For the sandfish Holothuria scabra, a tropical sea cucumber species, there is a scarcity of information on its intestinal microbiota in relation to host growth, which could provide insights into the processes that affect growth and identify microorganisms with probiotic or biochemical potential that could improve current production strategies. To address this gap, this study used 16 S rRNA amplicon sequencing to characterize differences in gut and fecal microbiota among large and small juveniles reared in floating ocean nurseries.

View Article and Find Full Text PDF

Want AI Summaries of new PubMed Abstracts delivered to your In-box?

Enter search terms and have AI summaries delivered each week - change queries or unsubscribe any time!