Evidence map›Paper›PMID 41407722›Full record

ArticleScientific data2025

Chromosome-level genome assembly and annotation of the tropical sea cucumber Bohadschia ocellate.

Qianying Huang, Xuan Wang, Zhou Qin, Dingding Fan, Hua Ge, Yingxin Lin, Junyan Wang, Yun Yang, Zhenyu Xie, Da Huo and 9 more

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PubMed Full text at PMC Publisher
In one paragraph

Article in Scientific data, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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0citing papers in PubMed
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1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

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3 · Its place in the literature

Who cites it

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

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PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

19 authors.

Qianying Huang *School of Medicine, Foshan University, Foshan, 528225, China.
Xuan Wang *State Key Laboratory of Breeding Biotechnology and Sustainable Aquaculture, Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, 510301, China.
Zhou QinState Key Laboratory of Breeding Biotechnology and Sustainable Aquaculture, Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, 510301, China.
Dingding FanState Key Laboratory of Breeding Biotechnology and Sustainable Aquaculture, Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, 510301, China.ORCID http://orcid.org/0000-0002-8201-3846
Hua GeSchool of Medicine, Foshan University, Foshan, 528225, China.
Yingxin LinSchool of Medicine, Foshan University, Foshan, 528225, China.
Junyan WangSchool of Medicine, Foshan University, Foshan, 528225, China.
Yun YangLaboratory of Marine Resource Utilization in the South China Sea, Hainan University, Haikou, 570228, China.
Zhenyu XieLaboratory of Marine Resource Utilization in the South China Sea, Hainan University, Haikou, 570228, China.
Da HuoXisha Marine Environment National Observation and Research Station, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Sansha, 573199, China.
Chang ChenXisha Marine Environment National Observation and Research Station, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Sansha, 573199, China.
Haipeng QinAgro-Tech Extension Center of Guangdong Province, Huizhou, 516081, China.
Xiaoli ZhangSchool of Medicine, Foshan University, Foshan, 528225, China.
Xiangxing ZhuSchool of Medicine, Foshan University, Foshan, 528225, China.
Dongsheng TangSchool of Medicine, Foshan University, Foshan, 528225, China.
Chunhua RenState Key Laboratory of Breeding Biotechnology and Sustainable Aquaculture, Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, 510301, China.
Chaoqun HuState Key Laboratory of Breeding Biotechnology and Sustainable Aquaculture, Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, 510301, China.
Ting ChenState Key Laboratory of Breeding Biotechnology and Sustainable Aquaculture, Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, 510301, China.ORCID http://orcid.org/0000-0002-5777-909X
Aifen YanSchool of Medicine, Foshan University, Foshan, 528225, China. yanaifen@fosu.edu.cn.

Funding

National Natural Science Foundation of China (National Science Foundation of China) 42176132
6 · The paper itself

Abstract

A chromosome-level genome assembly of Bohadschia ocellata, a member of the Holothuriidae family, was constructed through the integration of MGI DNBSEQ-T7 short-read sequencing, PacBio HiFi long-read sequencing, and Hi-C genomic scaffolding technology. After optimization to eliminate redundant sequences, the genome assembly was precisely anchored to 23 chromosomes, resulting in a total size of 909.18 Mb. The N50 of its contig and scaffold sequences were 12.00 Mb and 38.97 Mb, respectively, confirming that the assembly was highly continuous. According to Merqury and BUSCO evaluations, the genome assembly reached a QV of 64.44 and completeness of 94.40%. From this assembly, 31,277 protein-coding genes were identified, which were 98.10% complete based on BUSCO assessment of the predicted proteome. Functional annotations were obtained from at least one database for more than 99% of these genes. This high-quality B. ocellata genome assembly from the current study could offer valuable information for further genetic and evolutionary studies of this sea cucumber species.

Indexed as

ChromosomesGenomeSea CucumbersAnimalsMolecular Sequence Annotation

Identifiers

PMID41407722
PMCPMC12859142

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.