Long-term engaged in the marine bioinformatics. Participated in scientific research voyages in China's offshore and deep-sea areas. During the scientific expedition in the Xisha area of the South China Sea on the Deep - Sea Warrior manned submersible, was rated as an Advanced Worker.

  Published the first genome of the Arctic fish Anisarchus medius, the first genome of a deep-sea cold-seep gastropod, and the first transcriptome of an in  situ fixed hadal sea cucumber. Also, identified a new species (a sea anemone from the trough) and simultaneously released its high-quality genome. Through research on the hadal snailfish, explored its molecular mechanisms of deep-sea adaptation and found that gut symbiotic bacteria might be involved in its adaptation to high hydrostatic pressure. Put forward the original view of the molecular convergent evolution of deep-sea megafauna and won the Excellence Award of the President of the Chinese Academy of Sciences. Developed the self-developed AI model BERT-DomainAFP to predict antifreeze proteins in the genomes of polar fish, constructed the first genome database of Pseudomonas plecoglossicida (https://pplecoglossicida.fafu.edu.cn/), and explored the cultivation and phylogeographic evolution history of seaweeds.

Current main research directions:

(1) Biological adaptation and evolution in extreme marine environments such as the deep sea, Antarctic, and Arctic.

(2) Biological genomics and disease prevention in aquaculture waters related to organisms like large yellow croakers and Pseudomonas plecoglossicida.

Courses Taught

Bioinformatics: Imparted knowledge about bioinformatics tools and techniques, enabling students to analyze biological data effectively.

Marine Biology: Introduced the diversity, ecology, and evolution of marine organisms, inspiring students' interest in marine life.

Deep-Sea Animal World: Explored the unique features and adaptations of deep - sea animals, expanding students' horizons.

Polar Ocean Vision: Presented the characteristics and research status of the polar ocean, raising students' awareness of polar regions.

Guiding Students' Scientific Research Projects

1. Study on the Pathogenic Mechanism of hemK in Pseudomonas plecoglossicida Infecting Large Yellow Croakers, University - level Innovation Training Project in 2023 (Project No.: FAFUXMPC20230718001 - 00328), from 2023 - 07 - 18 to 2024 - 06 - 01. 

2. Construction of Pseudomonas plecoglossicida Database, University - level Innovation Training Project in 2023 (Project No.: FAFUXMPC20230718001 - 00310), from 2023 - 07 - 18 to 2024 - 06 - 01. 

3. Development of Identification Tools for Pathogenic and Non - pathogenic Strains of Pseudomonas plecoglossicida Infecting Large Yellow Croakers, University - level Innovation Training Project in 2024 (Project No.: FAFUXMPC20240507002 - 00020), from 2024 - 07 - 18 to 2025 - 06 - 01. 

Honors and awards of Students under guidance

2023: Students under guidance won the second prize and excellence award in the Fujian Provincial College Students' Seafood Processing and Innovation Competition.

2023: Students under guidance supervised got a bronze award in the Fujian Provincial Internet + Innovation and Entrepreneurship Competition.

2023: The social practice team led by him in the Three - Goes - to - the - Countryside activity was named an excellent social practice team of Fujian Agriculture and Forestry University. One of his students also received relevant individual and work honors.

1. National Natural Science Foundation of China, Young Scientists Fund Project, 32202995, Research on the Pathogenic Mechanism of the Type VI Secretion System (T6SS) Effector Protein SmpB of Pseudomonas plecoglossicida Infecting Large Yellow Croakers, from 2023 - 01 to 2025 - 12, ¥300,000, in progress, principal investigator.

2. National Natural Science Foundation of China, General Program, 42276247, Research on the Diversity of Fishes in the Central Arctic Ocean and Their Habitat Selection and Adaptive Evolution, from 2023 - 01 to 2026 - 12, ¥ 560,000 yuan, in progress, co - applicant (112,000 yuan).

3. Fujian Provincial Department of Science and Technology, General Program of Fujian Provincial Natural Science Foundation, 2022J01131323, Research on the Low - temperature Pathogenic Mechanism of Pseudomonas plecoglossicida, a Pathogen Infecting Ningde Large Yellow Croakers, from 2022 - 08 - 01 to 2025 - 08 - 01, ¥100,000 yuan, in progress, principal investigator. 

4. Ministry of Science and Technology of the People's Republic of China, 14th Five - Year Plan National Key Research and Development Program, 2022YFD2401000, Germplasm Innovation and New Variety Cultivation of High - Resistance and High - Quality Large Yellow Croakers, from 2023 - 01 to 2027 - 12, ¥ 36.7 million yuan, in progress, key member (¥300,000). 

5. Fujian Agriculture and Forestry University, Interdisciplinary Project, 71202103C, Interdisciplinary Integration to Promote Marine Scientific and Technological Innovation and High - Quality Development of the Industry · Germplasm Innovation and Genetic Breeding of Marine Aquatic Animals, sub - project Collection and Systematic Evaluation of Germplasms for Characteristic Aquaculture in Fujian and Taiwan, from 2021 - 06 to 2024 - 05, ¥1.5 million yuan, in progress, sub - project leader (¥400,000). 

6. Served as a provincial - level individual science and technology commissioner in Fujian Province from 2022 - 2024, a district - and city - level individual science and technology commissioner in Pingtan Comprehensive Experimental Area from 2021 - 2024, and the initiator of a provincial - level team science and technology commissioner in Fujian Province in 2023. 

Main Scientific Research Papers (# indicates co - first author,  *indicates corresponding author)

1.Liu Ruoyu, Meng Ziyu, Mu Yinnan, Zhang Ran, Ma Hanhui, Hu Jingjing, Wang Yanan, Shi Yuxin, Li Yanan, Wang Chaofeng, Zhang Weini, Lin Longshan*, Zheng Ping*, Chen Xinhua*. 2025. Chromosome-level reference genome and annotation of the Arctic fish Anisarchus medius. Scientific Data, 12(1): 68. 

2.Chen Shengzhen, Zheng Ping, Zheng Lele, Yao Qinglong, Meng Ziyu, Lin Longshan, Chen Xinhua*, Liu Ruoyu*. 2025. BERT-DomainAFP: Antifreeze Protein Recognition and Classification Model Based on BERT and Structural Domain Annotation. iScience, 28(4).

3.Lin Jinting(#), Wu Jiahao(#), Zhang Dan, Cai Xinkai, Du Lumiao, Lu Lin, Liu Chaojia, Chen Shengzhen, Yao Qinglong, Xie Shiyu, Xu Xiaowen, Wang Xiaomei, Liu Ruoyu*, Qin Yuan*, Zheng Ping*. 2024. The GRAS gene family and its roles in pineapple (Ananas comosus L.) developmental regulation and cold tolerance. BMC Plant Biology, 24(1): 1204.

4.Liu Ruoyu, Chen Li, Luo Site, Zhu Xinlong, Jiang Zhenwei, Nethupul Hasitha, Chen Xinhua*. The complete mitochondrial genome of snailfish Liparis tanakae Gilbert & Burke, 1912 (Perciformes: Cottioidei: Liparidae). Mitochondrial DNA Part B, 2022, 7(4): 649-651. 

5.Mu Yinan(#), Bian Chao(#), Liu Ruoyu(#), Wang Yuguang, Shao Guangming, Li Jia, Qiu Ying, He Tianliang, Li Wanru, Ao Jingqun, Shi Qiong*, Chen Xinhua*. Whole genome sequencing of a snailfish from the Yap Trench (~7,000 m) clarifies the molecular mechanisms underlying adaptation to the deep sea. PLoS Genetics, 2021, 17(5): e1009530. 

6.Liu Ruoyu, Liu Jun, Zhang Haibin*. Positive selection analysis provides insights into the deep-sea adaptation of a hadal sea cucumber (Paelopatides sp.) to the Mariana Trench. Journal of Oceanology and Limnology, 2021, 39 (01), 266-281. 

7.Feng Chenguang (#), Liu Ruoyu(#), Xu Wenjie, Zhou Yang, Zhu Chenglong, Liu June, Wu Baosheng, Li Yongxin, Qiu Qiang, He Shunping, Zhang Haibin*, Wang Kun*. The genome of a new anemone species (Actiniaria: Hormathiidae) provides insights into deep-sea adaptation. Deep Sea Research Part I: Oceanographic Research Papers. 2021, 170:103492. 

8.Liu Ruoyu(#), Wang Kun(#), Liu Jun, Xu Wenjie, Zhou Yang, Zhu Chenglong, Wu Baosheng, Li Yongxin, Wang Wen, He Shunping, Feng Chenguang*, Zhang Haibin*. De novo genome assembly of limpet Bathyacmaea lactea (Gastropoda: Pectinodontidae), the first reference genome of a deep-sea gastropod endemic to cold seeps. Genome Biology and Evolution, 2020, 12(6): evaa100. 

9.Thomas Elin A*, Liu Ruoyu, Amon Diva, Copley Jon T, Glover Adrian G, Helyar Sarah J, Olu Karine, Wiklund Helena, Zhang Haibin, Sigwart Julia D. Chiridota heheva—the cosmopolitan holothurian. Marine Biodiversity, 2020, 50(6): 110.

10.刘若愚, 孙忠民, 姚建亭, 胡自民*, 段德麟*. 中国近海重要生态建群红藻真江蓠的群体遗传多样性研究. 生物多样性. 2016, 24(7), 781-790. 

Liu Ruoyu, Sun Zhongmin, Yao Jianting, Hu Zimin*, Duan Delin*. A Study on the Population Genetic Diversity of Gracilaria vermiculophylla, an Important Ecological Community-Forming Red Alga in the Coastal Waters of China. Biodiversity Science. 2016, 24(7), 781-790. (in Chinese).

11.Hu Zimin*, Liu Ruoyu, Zhang Jie, Duan Delin, Wang Gaoge, Li Wenhong. A unique genetic lineage at the southern coast of China in the agar-producing Gracilaria vermiculophylla (Gracilariales, Florideophyceae). Algae, 2018, 33 (3), 269-278.

12.Hu Zimin*, Kantachumpoo Attachai*, Liu Ruoyu, Sun Zhongmin, Yao Jianting, Komatsu Teruhisa, Uwai Shinya, Duan Delin. A late Pleistocene marine glacial refugium in the southwest of Hainan Island, China: phylogeographical insights from the brown alga Sargassum polycystum. Journal of Biogeography, 2017, 45 (2), 355-366.

13.Li Jingjing, Hu Zimin*, Liu Ruoyu, Zhang Jie, Liu Shaolun, Duan Delin*. Phylogeographic surveys and apomictic genetic connectivity in the North Atlantic red seaweed Mastocarpus stellatus. Molecular Phylogenetics and Evolution, 2016, 94, 463-472. 

14.Li Youshen, Zhang Baoyu, Li Jianxin, Zhou Yuanyuan, Liu Ruoyu, Chen Xinhua*.Peptide chain release factor methyltransferase gene hemK regulates multiple bacterial phenotypes and is essential for the pathogenicity of Pseudomonas plecoglossicida. Aquaculture Reports, 2024, 36.

15.Wang Yongyang, Wu Ziliang, Chen Hui, Liu Ruoyu, Zhang Weini*, Chen Xinhua*. Astragalus polysaccharides protect against inactivated Vibrio alginolyticus-induced inflammatory injury in macrophages of large yellow croaker. Fish and Shellfish Immunology. 2022, 131, 95-104.

16.Zhang Weini, Wang Yongyang, Cheng Anyi, Liu Ruoyu, Kang Fuyu, Zhao Jinping, Shao Jianchun, Huang Xiaohong*, Chen Xinhua*. Protective effects of dietary Astragalus polysaccharides on large yellow croaker (Larimichthys crocea) against Vibrio alginolyticus infection. Aquaculture, 2024, 581: 740398.

17.Li Yanan, Chen Zongfu, Zhang, Haibin, Liu Ruoyu, Chen Shuichun, Lin Li*. Analysis of environmental selection pressure of superoxide dismutase in deep-sea sea cucumber. Journal of Oceanology and Limnology, 2024.

Dissertations

18.刘若愚 (2020). 基于组学数据探讨海参的深海适应性和深海生物的趋同演化研究 [D]. 中国科学院深海科学与工程研究所, 三亚. 博士

Liu Ruoyu (2020). Comparative omics provide insights into the deep-sea adaptation of sea cucumbers and convergent evolution across deep-sea animals [D]. Institute of Deep Sea Science and Engineering, Chinese Academy of Sciences, Sanya. Doctoral Dissertation (in Chinese).19.刘若愚 (2016). 中国近海重要生态建群红藻真江蓠(Gracilaria vermiculophylla)的居群遗传多样性研究 [D]. 中国科学院海洋研究所, 青岛. 硕士 《中国优秀硕士学位论文全文数据库》11(2)证书编号：1016206098. 

Liu Ruoyu (2016). Population genetic diversity of the habitat-forming red alga Gracilaria vermiculophylla along the China coasts [D]. Institute of Oceanology, Chinese Academy of Sciences, Qingdao. Master's Dissertation (in Chinese). (Full-text Database of Chinese Excellent Master's Theses, 11(2), Certificate No.: 1016206098).

Books

20.彭晓彤等 (2023). 深渊科学：地质、环境与生命新前沿 [B]. 科学出版社. 2023-03-30. ISBN： 9787030751232（张海滨, 刘君, 刘若愚, 穆文丹, 李亚男. 第4章 深渊大型底栖无脊椎动物物种分布及适应性进化）

Peng Xiaotong et al. (2023). New Frontiers in Hadal Science: Geology, Environment and Life [B]. Science Press. March 30, 2023. ISBN: 9787030751232 (Zhang Haibin, Liu Jun, Liu Ruoyu, Mu Wendan, Li Yanan. Chapter 4: Species Distribution and Adaptive Evolution of Hadal Macrobenthic Invertebrates)  (in Chinese).

Dr. Liu Ruoyu, male, born in August 1990 in Susong, Anhui Province, China.  Associate professor and master supervisor at College of Ocean, Fujian Agriculture and Forestry University. Young member of Chinese Ocean Research Committee. Class C high-level talent introduced to Fujian Province, and introduced talent by Fujian Provincial Party Committee Organization Department. Candidate for Fujian Agriculture and Forestry University's Hundred Talents Climbing Plan. 

Recipient of Chinese Academy of Sciences President's Excellence Award.

Long-term engaged in the marine bioinformatics. Participated in scientific research voyages in China's offshore and deep-sea areas. During the scientific expedition in the Xisha area of the South China Sea on the Deep - Sea Warrior manned submersible, was rated as an Advanced Worker.

Published the first genome of the Arctic fish Anisarchus medius, the first genome of a deep-sea cold-seep gastropod, and the first transcriptome of an in  situ fixed hadal sea cucumber. Also, identified a new species (a sea anemone from the trough) and simultaneously released its high-quality genome. Through research on the hadal snailfish, explored its molecular mechanisms of deep-sea adaptation and found that gut symbiotic bacteria might be involved in its adaptation to high hydrostatic pressure. Put forward the original view of the molecular convergent evolution of deep-sea megafauna and won the Excellence Award of the President of the Chinese Academy of Sciences. Developed the self-developed AI model BERT-DomainAFP to predict antifreeze proteins in the genomes of polar fish, constructed the first genome database of Pseudomonas plecoglossicida (https://pplecoglossicida.fafu.edu.cn/), and explored the cultivation and phylogeographic evolution history of seaweeds.

Chinese Invention Patent

1.朱军, 鲍时翔, 林勇,刘若愚, 邹潇潇, 黄惠琴. 长茎葡萄蕨藻池塘养殖技术: 中国发明专利, CN106973780A, 2017-07-25. 

Zhu Jun, Bao Shixiang, Lin Yong, Liu Ruoyu, Zou Xiaoxiao, Huang Huiqin. Pond Culture Technology of Caulerpa lentillifera. Chinese Invention Patent, CN106973780A, July 25, 2017 (in Chinese).

2.朱军, 鲍时翔, 林勇, 邹潇潇, 刘若愚. 一种海葡萄汁饮料及其制备的方法: 中国发明专利, CN106858211A, 2017-06-20. 

Zhu Jun, Bao Shixiang, Lin Yong, Zou Xiaoxiao, Liu Ruoyu. A Method for Preparing Caulerpa lentillifera Juice Beverage and the Beverage Itself. Chinese Invention Patent, CN106858211A, June 20, 2017 (in Chinese).

3.刘若愚, 陈盛圳, 陈新华, 郑平, 孟子钰. 一种基于迁移学习的抗冻蛋白分型预测方法: 中国发明专利, CN202410678242.X申请号20240529, CN118447928A公开号20240806. 

Liu Ruoyu, Chen Shengzhen, Chen Xinhua, Zheng Ping, Meng Ziyu. A Method for Predicting the Typing of Antifreeze Proteins Based on Transfer Learning. Chinese Invention Patent, Application No. CN202410678242.X (filed on May 29, 2024), Publication No. CN118447928A (published on August 6, 2024). (in Chinese).

4.陈新华, 刘若愚, 翟宇, 孟子钰，黄晞越. 一种基于变形假单胞菌菌株 oprL 基因检测致病性变形假单胞菌的引物、试剂盒、方法及应用：中国发明专利, 202411414959.X申请号20241011， CN119242828A公开号20250103. Chen Xinhua, 

Liu Ruoyu, Zhai Yu, Meng Ziyu, Huang Xiyue. Primers, Kit, Method and Application for Detecting Pathogenic Pseudomonas plecoglossicida Based on the oprL Gene of Pseudomonas plecoglossicida Strains. Chinese Invention Patent, Application No. 202411414959.X (filed on January 11, 2024), Publication No. CN119242828A (published on January 3, 2025). (in Chinese).

Software Copyrights

5.福建农林大学，刘若愚，郑平，陈新华. （2024年01月05日）基于计算机视觉的大黄鱼体尺体重表型测量分析系统V1.0，中华人民共和国国家版权局 计算机软件著作权登记证书，证书号：软著登字第12442162号，登记号：2024SR0038289，开发完成时间：2023年11月10日。

Phenotypic Measurement and Analysis System for Body Size and Weight of Large Yellow Croakers Based on Computer Vision V1.0. (in Chinese).

6.福建农林大学，刘若愚，郑平，陈新华. （2024年01月05日）北极鱼基因组数据分析管理系统V1.0，中华人民共和国国家版权局 计算机软件著作权登记证书，证书号：软著登字第12442121号，登记号：2024SR0038248，开发完成时间：2023年11月15日。

Genomic Data Analysis and Management System for Arctic Fish V1.0. (in Chinese).

7.福建农林大学，刘若愚，郑平，陈新华. （2024年01月25日）变形假单胞菌基因分型分析系统V1.0，中华人民共和国国家版权局 计算机软件著作权登记证书，证书号：软著登字第12570816号，登记号：2024SR0166943，开发完成时间：2023年12月01号。

Genotyping Analysis System for Pseudomonas plecoglossicida V1.0. (in Chinese).

8.福建农林大学，刘若愚，郑平，陈新华. （2024年01月25日）大黄鱼致病菌变形假单胞菌的致病基因筛选系统V1.0，中华人民共和国国家版权局 计算机软件著作权登记证书，证书号：软著登字第12570832号，登记号：2024SR0166959，开发完成时间：2023年12月01号。

Pathogenic Gene Screening System for Pseudomonas plecoglossicida, a Pathogen of Large Yellow Croakers V1.0. (in Chinese).