Article
Plant Sciences
Hualin Nie, Moonkyo Kim, Sanghee Lee, Sohee Lim, Mi Sun Lee, Ju Hyeok Kim, Sol Ji Noh, Seong Won Park, Sang-Tae Kim, Ah-Young Shin, Yi Lee, Suk-Yoon Kwon
Summary: By assembling the genomes of two Korean watermelon lines with unique fruit characteristics, researchers identified numerous protein-coding genes and single-nucleotide polymorphisms (SNPs). Through further analysis, they constructed a high-density genetic linkage map and discovered 15 quantitative trait loci (QTLs) associated with watermelon fruit quality traits. Investigation of the mapping intervals revealed 33 candidate genes with coding sequence variants, including a phytoene synthase gene that potentially regulates flesh color changes at the protein level.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Environmental Sciences
Yukun Li, Jianjian Lv, Jie Wu, Ping Liu, Baoquan Gao
Summary: This study conducted a transcriptomic analysis to investigate the effect of Vibrio parahaemolyticus infection and low salt stress on the immune mechanism of crabs. The differentially expressed genes (DEGs) were compared and the results provided data support for understanding the immune mechanism of crustaceans against V. parahaemolyticus and the molecular mechanism by which salinity affects immunity.
FRONTIERS IN MARINE SCIENCE
(2022)
Article
Environmental Sciences
Xianliang Meng, Nishad Jayasundara, Jingyan Zhang, Xianyun Ren, Baoquan Gao, Jian Li, Ping Liu
Summary: This study investigated the toxicity and metabolism mechanisms of ammonia in the hepatopancreas of female swimming crab. Ammonia exposure resulted in reduced vtg expression, inhibition of multiple signaling pathways, and alterations in energy metabolism. Furthermore, changes in antioxidant systems, protein and lipid oxidations, and cellular apoptosis were observed, indicating metabolic suppression, oxidative stress, and apoptosis in the hepatopancreas of P. trituberculatus.
ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY
(2021)
Article
Immunology
Yi Zhang, Mengqi Ni, Yunhui Bai, Qiao Shi, Jinbin Zheng, Zhaoxia Cui
Summary: Previously, it was believed that invertebrates relied solely on their non-specific innate immune system to combat invading microorganisms. However, recent studies have shown that invertebrates actually have a diverse and specific innate immune response due to their hyper-variable immune molecules. In this study, a full-length transcriptome analysis of immune-related genes in Portunus trituberculatus was conducted, revealing the diversity of immune-related genes and their tissue distributions. Furthermore, the study also identified several candidates for antibiotic agents in the prevention and treatment of bacteriosis.
FRONTIERS IN IMMUNOLOGY
(2022)
Article
Multidisciplinary Sciences
Baohua Duan, Tongxu Kang, Haifu Wan, Weibiao Liu, Fenghao Zhang, Shumei Mu, Yueqiang Guan, Zejian Li, Yang Tian, Xianjiang Kang
Summary: This study investigated the genetic diversity and population structure of 420 Portunus trituberculatus individuals collected from seven populations in the Bohai Sea using 40 SSR loci. The results showed a low genetic diversity in the cultured population compared to the wild populations. Population structure analysis revealed the subdivision of P. trituberculatus into four subpopulations, but there was no obvious correlation between genetic structure and geographical distribution.
SCIENTIFIC REPORTS
(2023)
Article
Environmental Sciences
Jiameng Chen, Xiayue Chen, Changkao Mu, Chunlin Wang, Yangfang Ye, Ronghua Li, Weiwei Song, Ce Shi, Lei Liu, Huan Wang
Summary: The changes in critical genes during the larval development of Portunus trituberculatus were investigated, with specific focus on the early developmental stages and the megalopa stage. Genes associated with physiological activities and gender differentiation were found to be differentially expressed at these stages. This study provides a theoretical basis for the artificial growing seedlings technology of P. trituberculatus.
FRONTIERS IN MARINE SCIENCE
(2023)
Article
Environmental Sciences
Yanan Yang, Yuanfeng Xu, Peng Zhang, Zhaoxia Cui, Chenchang Bao
Summary: The CHH superfamily neuropeptides, which include CHH, MIH, VIH/GIH, and MOIH, are involved in various biological activities such as metabolism, molting, reproduction, and osmotic regulation. The discovery of ITP in insects expanded the members of CHHs.
FRONTIERS IN MARINE SCIENCE
(2021)
Article
Plant Sciences
Xuejun Zhang, Yueming Ling, Wenli Yang, Minghua Wei, Zhenzhu Wang, Meihua Li, Yong Yang, Bin Liu, Hongping Yi, Yang-Dong Guo, Qiusheng Kong
Summary: This study constructed two F-2 populations using the DM-resistant accession PI 442177 and mapped QTLs conferring DM resistance. A high-density genetic map was generated and a major QTL DM9.1 was consistently detected at different growth stages. QTL-seq analysis validated the presence of DM9.1 and a KASP marker co-segregating with DM9.1 was successfully developed, providing valuable information for DM-resistant gene cloning and melon DM-resistant breeding programs.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Biochemistry & Molecular Biology
Jianjian Lv, Ronghua Li, Zhencheng Su, Baoquan Gao, Xingbin Ti, Deping Yan, Guangjian Liu, Ping Liu, Chunlin Wang, Jian Li
Summary: Portunus trituberculatus, commonly known as the swimming crab, is a species of major ecological and economic importance. The genome sequencing of this crab species revealed insights into the genetic basis of salinity adaptation and rapid growth, as well as identifying a specific region of the Y chromosome for the first time in its genome. This decoding of the swimming crab genome is valuable for further biological and evolutionary studies, as well as molecular breeding efforts.
MOLECULAR ECOLOGY RESOURCES
(2022)
Article
Chemistry, Applied
Chunhui Liu, Zhaohui Chen, Jing Chen, Sai Wang, Jiao Li, Xiangzhao Mao
Summary: This study revealed the molecular-level change mechanism of carotenoids in the hepatopancreas of swimming crab (Portunus trituberculatus) during storage. It was found that low temperature inhibited aerobic respiration of the portunid, resulting in a lower pH and degradation of carotenoids. Longer cold storage time increased oxidative stress, leading to a further decrease in carotenoids content. Autolysis of the portunid released carotenoids stored in other parts, such as the ovary, increasing the detection content of carotenoids. This research provides a basis for developing fresh-keeping technology for portunid during low-temperature storage.
Article
Biochemistry & Molecular Biology
Ramon E. Rivera-Vicens, Catalina A. Garcia-Escudero, Nicola Conci, Michael Eitel, Gert Woerheide
Summary: The use of RNA sequencing and de novo transcriptome assembly is crucial for ecological and evolutionary studies, especially for nonmodel organisms lacking genome information. A multi-assembler approach, followed by a reduction step, is often employed to improve the assembly quality. TransPi is a comprehensive pipeline for de novo transcriptome assembly that achieves higher completeness percentages and reduces duplication rates compared to single assembler approaches. It is easy to configure and can be seamlessly deployed using Conda, Docker, and Singularity.
MOLECULAR ECOLOGY RESOURCES
(2022)
Article
Genetics & Heredity
Baohua Duan, Shumei Mu, Yueqiang Guan, Weibiao Liu, Tongxu Kang, Yana Cheng, Zejian Li, Yang Tian, Xianjiang Kang
Summary: The study evaluated the genetic diversity and population structure of economically important mariculture species P. trituberculatus in China. The findings provide valuable information for germplasm exploration and sustainable aquaculture production.
FRONTIERS IN GENETICS
(2022)
Article
Plant Sciences
Wenchong Chen, Weiwu Yu, Ang Dong, Yanru Zeng, Huwei Yuan, Bingsong Zheng, Rongling Wu
Summary: This study utilizes advanced genotyping technologies to investigate the genetic structure of Torreya grandis, a species with high economic and ornamental values. A high-density linkage map is constructed, and the results suggest that the identified QTLs are relatively young and can be better utilized through clonal propagation.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Multidisciplinary Sciences
Kota Kambara, Kaien Fujino, Hanako Shimura
Summary: The study developed a de novo assembly pipeline for transcriptome data of the wild orchid Cypripedium in Japan. The pipeline created a more complete and less redundant contig set by combining multiple data sets and integrating assemblies. Trinity and IDBA-Tran assemblers showed good performance in this study. The contig set obtained can be used as a reference for differential gene expression analysis and other downstream analysis in RNA-seq.
Article
Fisheries
Fang Fang, Ye Yuan, Min Jin, Bo Shi, Tingting Zhu, Jiaxiang Luo, Jingjing Lu, Xuexi Wang, Lefei Jiao, Qicun Zhou
Summary: This study found that feeding swimming crab with krill oil significantly increased body weight and molting ratio, while up-regulating the expression of genes related to molting, immunity, and energy metabolism. The results suggest that krill oil may have positive effects on molting and growth in swimming crab.
Article
Genetics & Heredity
Xianliang Meng, Fulong Jia, Xiaohui Zhang, Ping Liu, Jian Li
MITOCHONDRIAL DNA PART A
(2016)
Article
Genetics & Heredity
Xian-liang Meng, Fu-long Jia, Ping Liu, Jian Li
MITOCHONDRIAL DNA PART A
(2016)
Article
Genetics & Heredity
Xianliang Meng, Xiaohui Zhang, Jian Li, Ping Liu
Article
Multidisciplinary Sciences
Yun-wei Dong, Ming-ling Liao, Xian-liang Meng, George N. Somero
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2018)
Article
Genetics & Heredity
Xianliang Meng, Baoquan Gao, Jian Li, Ping Liu
MITOCHONDRIAL DNA PART B-RESOURCES
(2019)
Article
Genetics & Heredity
Xianliang Meng, Baoquan Gao, Jian Li, Ping Liu
MITOCHONDRIAL DNA PART B-RESOURCES
(2019)
Article
Endocrinology & Metabolism
Xianliang Meng, Mengqian Zhang, Baoquan Gao, Jianjian Lv, Jian Li, Ping Liu
FRONTIERS IN ENDOCRINOLOGY
(2020)
Article
Environmental Sciences
Xianliang Meng, Nishad Jayasundara, Jingyan Zhang, Xianyun Ren, Baoquan Gao, Jian Li, Ping Liu
Summary: This study investigated the toxicity and metabolism mechanisms of ammonia in the hepatopancreas of female swimming crab. Ammonia exposure resulted in reduced vtg expression, inhibition of multiple signaling pathways, and alterations in energy metabolism. Furthermore, changes in antioxidant systems, protein and lipid oxidations, and cellular apoptosis were observed, indicating metabolic suppression, oxidative stress, and apoptosis in the hepatopancreas of P. trituberculatus.
ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY
(2021)
Article
Environmental Sciences
Yunliang Lu, Jingyan Zhang, Jianwei Cao, Ping Liu, Jian Li, Xianliang Meng
Summary: This study analyzed the changes in histology, cellular stress responses, and apoptosis in the hepatopancreas of the swimming crab under ammonia stress. The results showed that long-term exposure to high concentrations of ammonia resulted in severe damage to the hepatopancreas and inhibited cellular stress responses. The study also found that after recovery, the expression of many genes involved in cellular responses still differed significantly from the control group.
FRONTIERS IN MARINE SCIENCE
(2022)
Article
Environmental Sciences
Jingyan Zhang, Mengqian Zhang, Nishad Jayasundara, Xianyun Ren, Baoquan Gao, Ping Liu, Jian Li, Xianliang Meng
Summary: The study revealed that long-term exposure to ammonia can lead to accumulation of ammonia, reduction of ATP and AEC, impairment of antioxidant defense, increased lipid peroxidation, and induction of endoplasmic reticulum stress, ultimately resulting in apoptosis through the p53-bax pathway in the gills of the swimming crab.
FRONTIERS IN MARINE SCIENCE
(2021)
Article
Physiology
Daixia Wang, Xiaochen Liu, Jingyan Zhang, Baoquan Gao, Ping Liu, Jian Li, Xianliang Meng
FRONTIERS IN PHYSIOLOGY
(2022)
Article
Environmental Sciences
Baoquan Gao, Jianjian Lv, Xianliang Meng, Jitao Li, Yukun Li, Ping Liu, Jian Li
FRONTIERS IN MARINE SCIENCE
(2022)
Article
Biology
Daixia Wang, Xiaochen Liu, Yan Shang, Xuee Yu, Baoquan Gao, Jianjian Lv, Jitao Li, Ping Liu, Jian Li, Xianliang Meng
Summary: This study aimed to investigate the effect of ammonia on molting and molt signaling in the swimming crab Portunus trituberculatus. The results showed that low levels of ammonia stimulated molting, while high levels of ammonia inhibited molting and led to molting death syndrome.
Article
Fisheries
Xiaochen Liu, Daixia Wang, Yan Shang, Xuee Yu, Baoquan Gao, Jianjian Lv, Jitao Li, Ping Liu, Jian Li, Xianliang Meng
Summary: This study investigates the survival, energy metabolism, and cellular stress responses in juvenile P. trituberculatus, an important aquaculture species in China, under acute nitrite stress. The results show that nitrite significantly decreases the survival rate and impairs energy metabolism, leading to oxidative damage, ER stress, and autophagy and apoptosis. This study improves our understanding of the adverse effects of nitrite and provides valuable information for hatchery management.
