Article
Multidisciplinary Sciences
Da-Cheng Hao, Pei Li, Pei-Gen Xiao, Chun-Nian He
Summary: This study analyzed the full-length transcriptomes and metabolomes of five Dichocarpum species in China, revealing the biosynthesis pathways and evolutionary trajectories of alkaloids in these plants. The results provide insights for further research on genomics and application of plants in the Ranunculales order.
Article
Multidisciplinary Sciences
Lei Yang, Binglin Xing, Fen Li, Li Kui Wang, Linlin Yuan, Amosi Leonard Mbuji, Zhengqiang Peng, Farag Malhat, Shaoying Wu
Summary: This study used PacBio single-molecule real-time (SMRT) sequencing to uncover the full-length transcriptome profiling of fall armyworm larval brain, identifying a large number of detoxification genes and providing crucial data support for understanding the insecticide resistance mechanisms in fall armyworm.
Article
Biotechnology & Applied Microbiology
Longsheng Xing, Qiang Wu, Yu Xi, Cong Huang, Wanxue Liu, Fanghao Wan, Wanqiang Qian
Summary: By using PacBio single-molecule real-time sequencing, the full-length transcriptome of the codling moth was obtained, revealing a large number of novel transcripts and splice events. Additionally, long noncoding RNAs and fusion transcripts were identified and validated. This study provides important insights into the complexity of the transcriptome and will contribute to improving genome annotations and functional studies in this insect.
Article
Genetics & Heredity
Zhihong Fang, Jianning Liu, Xinming Wu, Yan Zhang, Huili Jia, Yonghong Shi
Summary: This study constructs the full-length transcriptome of Alfalfa root and elucidates its molecular mechanism under drought stress. The results reveal 2615, 6011, and 4617 DEGs in three comparisons, with enrichment of ribosome, glutathione metabolism, and biosynthesis of amino acids. The majority of DEGs belong to AP2/ERF-ERF (37), C2H2 (32), and bHLH (22) bZIP (22) transcription factors. Additionally, 24 genes related to ABA and auxin hormone signaling pathway are identified.
FRONTIERS IN GENETICS
(2023)
Article
Plant Sciences
Martina Kintlova, Jan Vrana, Roman Hobza, Nicolas Blavet, Vojtech Hudzieczek
Summary: The study revealed a significant number of deregulated gene expressions in barley plants under cadmium stress, with genes related to reactive oxygen species, cell structure, ion transport, and stress response being among the affected. Multiple copies of the HvPCR2 gene responsible for cadmium detoxification were identified, showing a specific pattern of upregulation in different tissues. This study represents the first example of gene multiplication in plants for PCR2.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Genetics & Heredity
Shiwen Xu, Yuange Duan, Ling Ma, Fan Song, Li Tian, Wanzhi Cai, Hu Li
Summary: By improving gene annotation and constructing a transcription map using full-length transcriptome sequencing, the study examined the transcription and post-transcriptional processing of the mitochondrial genome of Coridius chinensis. The transcription model was similar to that of Drosophila, with both strands being transcribed except for the antisense genes downstream of trnS2. Cytochrome c subunit genes showed higher expression compared to NADH-dehydrogenase subunit genes. The study also identified the presence of long non-coding RNAs with tandem repeats in the control region and the occurrence of both reverse and forward cleavage models in the post-transcriptional cleavage process.
Article
Horticulture
Lin Zhang, Chengwei Song, Lili Guo, Dalong Guo, Xian Xue, Huafang Wang, Xiaogai Hou
Summary: The exogenous brassinosteroid treatment can delay the flowering period of tree peony, and several key genes and pathways related to this process have been identified.
Article
Agriculture, Dairy & Animal Science
Junyuan Lin, Linfei Guan, Liyan Ge, Guangyu Liu, Yujie Bai, Xiaolin Liu
Summary: This study utilized transcriptome data to reveal gene expression differences in Muscovy ducks with different ovulation statuses, identifying potential hub genes and important pathways regulating ovulation. These findings provide a data source for further research on gene expression and genetics in Muscovy ducks, as well as a scientific basis for improving reproductive performance.
Article
Multidisciplinary Sciences
Yanxia Zhu, Yanfen Huang, Kunhua Wei, Junnan Yu, Jianping Jiang
Summary: This study provides transcriptomic resources for Chinese Dao-di herb Zanthoxylum nitidum through SMRT sequencing technology. A total of 16,163 transcripts were obtained, with 88% successfully annotated. Additionally, 6,255 long non-coding RNAs and 22,780 simple sequence repeats were identified. Out of 100 randomly selected primer pairs, 36 were verified as positive, with 20 showing polymorphism. These findings enrich the genetic resources of Z. nitidum, facilitating future research on relevant topics.
Article
Marine & Freshwater Biology
Liyi Pei, Lihua Jiang, Chunyan Chen, Yingying Ye, Fei Jing, Yifan Liu, Bilin Liu
Summary: Here, we determined the complete mitochondrial genome sequence of Eucleoteuthis luminosa for the first time. The genome showed a significant AT bias and gene rearrangements compared to the traditional model. Phylogenetic analysis revealed the classification of Vampyroteuthidae and Octopodidae as sister groups within Octopodiformes, and Sepiolidae within Sepiida. These findings provide insights into the gene rearrangements and evolution of E. luminosa and contribute to the phylogenetic studies of Cephalopoda.
Article
Genetics & Heredity
Chi Zhang, Kun Zhang, Ying Peng, Jianshe Zhou, Yifan Liu, Bingjian Liu
Summary: The complete mitochondrial genomes of three Garra species were studied, along with the mechanisms of rearrangements that occur in their genomes. It was found that these species had rearranged mitochondrial genomes compared to other fish, possibly through a process of replication and loss. These findings provide a foundation for future phylogenetic studies.
FRONTIERS IN GENETICS
(2022)
Article
Agronomy
Yun Jia, Ying Zhang, Lei Zhang, Fengwei Wang, Gang Yu, Yaling Wang, Xiaoyan Kang, Yongpeng Wu
Summary: This study investigated the molecular mechanisms of fruit quality formation in a new kiwifruit variety with high soluble solids content, Actinidia arguta cv. Qinziyu, through transcriptome analysis using PacBio single-molecule real-time (SMRT) sequencing. Key enzyme genes involved in carbohydrate and amino acid metabolism pathways, as well as the bHLH gene family, were analyzed to understand the synthesis of soluble sugar, organic acid, and anthocyanin in A. arguta cv. Qinziyu. The research provides the first set of gene isoforms from a full-length transcriptome in A. arguta cv. Qinziyu and comprehensive insights into the molecular mechanism of fruit quality formation.
Article
Genetics & Heredity
Huilong Zhang, Zhen Liu, Aishuang Hu, Haiwen Wu, Jianfeng Zhu, Fengzhi Wang, Pingping Cao, Xiuyan Yang, Huaxin Zhang
Summary: This study utilized SMRT technology to obtain transcriptome data of N. sibirica under salt treatment for the first time, resulting in 234,508 CCSs and 49,240 non-redundant transcripts. Analysis revealed numerous SSRs, LncRNAs, and CDSs, confirming the reliability and effectiveness of gene prediction using full-length transcripts obtained through SMRT technology. This research data provides more reliable and accurate information for further analysis of the regulatory network and molecular mechanisms in N. sibirica under salt stress.
Article
Multidisciplinary Sciences
Xinjie Zhao, Shiwen Xu, Jingrui Li, Hailin Yang, Li Tian, Fan Song, Wanzhi Cai, Zhonglong Lin, Hu Li
Summary: This study provides insights into the transcriptional and posttranscriptional regulation processes of highly rearranged insect mitogenomes through analysis of the transcription map of Aphidius gifuensis. It was found that there are significant differences in transcriptional regulation between the J and N strands, and that rearranged gene clusters have little effect on the transcription mode. The presence of potential control regions suggests their importance in transcriptional regulation.
Article
Plant Sciences
Beibei Chen, Tingting Liu, Zhuanying Yang, Shaoxia Yang, Jinhui Chen
Summary: This study analyzed the molecular mechanism of salt stress response in Sonneratia apetala leaves using Iso-seq and RNA-seq technologies. The results showed significant changes in growth and physiological indexes under salt stress. Additionally, several genes related to salt stress response were identified.
Article
Biochemistry & Molecular Biology
Liang Yan, Jinzhu Ma, Yiping Zhu, Jiawei Zan, Zhen Wang, Liefeng Ling, Qiang Li, Jun Lv, Shimei Qi, Yingya Cao, Ying Liu, Long Cao, Yao Zhang, Zhilin Qi, Liuwang Nie
JOURNAL OF CELLULAR BIOCHEMISTRY
(2018)
Article
Immunology
Jiucui Tong, Zhiming Zhou, Weiwei Qi, Siyan Jiang, Bin Yang, Zhengling Zhong, Yuanwei Jia, Xuyi Li, Lei Xiong, Liuwang Nie
INTERNATIONAL IMMUNOPHARMACOLOGY
(2019)
Article
Multidisciplinary Sciences
Lei Xiong, Jinxiu Dong, Hui Jiang, Jiawei Zan, Jiucui Tong, Jianjun Liu, Meng Wang, Liuwang Nie
Article
Developmental Biology
Jinxiu Dong, Hui Jiang, Lei Xiong, Jiawei Zan, Jianjun Liu, Mengli Yang, Kai Zheng, Ziming Wang, Liuwang Nie
MECHANISMS OF DEVELOPMENT
(2019)
Article
Reproductive Biology
Jinxiu Dong, Lei Xiong, Hengwu Ding, Hui Jiang, Jiawei Zan, Liuwang Nie
BIOLOGY OF REPRODUCTION
(2020)
Article
Genetics & Heredity
Lei Xiong, Mengli Yang, Kai Zheng, Ziming Wang, Shengli Gu, Jiucui Tong, Jianjun Liu, Nadar Ali Shah, Liuwang Nie
FRONTIERS IN GENETICS
(2020)
Article
Biology
Shengli Gu, Jianjun Liu, Lei Xiong, Jinxiu Dong, Entao Sun, Haoran Hu, Mengli Yang, Liuwang Nie
Summary: The study analyzed for the first time the histological and morphological changes in leeches in different states, finding a high survival rate of 86.7% in liquid nitrogen and 100% after rehydration with water loss below 84.8%. Leeches rapidly formed a hemispherical shape after freezing, desiccation, and ethanol dehydration, with a glass-like substance observed on the surface, and a spongelike structure on the posterior sucker surface, containing mucopolysaccharides, acid cells, and collagen fibers possibly playing a key protective role during freezing.
Article
Biochemistry & Molecular Biology
Jianjun Liu, Siqi Liu, Kai Zheng, Min Tang, Liping Gu, James Young, Ziming Wang, Yeyan Qiu, Jinxiu Dong, Shengli Gu, Lei Xiong, Ruanbao Zhou, Liuwang Nie
Summary: The study presents a high-quality, chromosome-level genomic sequence of the Mauremys reevesii turtle, with 96.55% of the genome covered and synteny analysis conducted with a terrestrial turtle genome. The reconstructed demographic history revealed varied effective population sizes among turtle species inhabiting different environments.
MOLECULAR ECOLOGY RESOURCES
(2022)
Article
Developmental Biology
Jinxiu Dong, Siqi Liu, Ziming Wang, Kai Zheng, Mengli Yang, Jianjun Liu, Liuwang Nie
Summary: This study investigates the role of natural selection in the codon usage bias of sperm-egg binding proteins in turtles, revealing their evolutionary conservation and importance in inter-species hybridization. The results provide a theoretical basis for developing techniques to detect whether different turtle species can interbreed, which is essential for breeding management and species protection.
Article
Zoology
Yan-An Gong, Li-Fang Peng, Song Huang, Yan-Feng Lin, Ru-Yi Huang, Yu-Hao Xu, Dian-Cheng Yang, Liu-Wang Nie
Summary: The newly discovered species of the soft-shelled turtle genus Pelodiscus has distinct characteristics that set it apart from other species, originating from southern Anhui Province, China. Phylogenetic relationships were analyzed using gene sequences, and the new species formed a monophyletic clade with strong support. The findings increase the number of Pelodiscus species to six, with five distributed in China and three being endemic.
Article
Toxicology
Ji-Guang Gao, Yu Jiang, Jiu-Tao Zheng, Liu-Wang Nie
Summary: Teenagers who consume junk foods high in acrylamide (AA) may experience decreased reproductive capacity. This study investigated the effects of pubertal AA exposure on spermatogenesis in male mice. The results showed that AA exposure during puberty led to increased germ cell apoptosis, decreased sperm concentration, and defects in sperm. AA exposure also disrupted the meiotic process, affecting the progression of meiotic prophase I.
TOXICOLOGY LETTERS
(2022)
Article
Zoology
J. Liu, M. Wang, Q. Shi, J. Li, Y. Wang, L. Nie
EUROPEAN ZOOLOGICAL JOURNAL
(2019)