Article
Environmental Sciences
Umar Farouk Mustapha, You-Xing Peng, Yuan-Qing Huang, Daniel Assan, Fei Zhi, Gang Shi, Yang Huang, Guang-Li Li, Dong-Neng Jiang
Summary: This study presents the first report on the transcriptome analysis of gonads in differentiating spotted scat, revealing potential genes related to reproduction and gonadal development. The study provides insights into the expression patterns of sex and gonadal-related genes in differentiating gonads of this species.
FRONTIERS IN MARINE SCIENCE
(2022)
Article
Biochemistry & Molecular Biology
Yongguan Liao, Hongjuan Shi, Tong Han, Dongneng Jiang, Baoyue Lu, Gang Shi, Chunhua Zhu, Guangli Li
Summary: This study investigates the development of red coloration in fish and its relationship with pigment cell differentiation and gene expression. The findings provide insights into selective breeding for ornamental aquatic animals.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Agriculture, Dairy & Animal Science
Umar Farouk Mustapha, Daniel Assan, Yuan-Qing Huang, Guang-Li Li, Dong-Neng Jiang
Summary: Fishes have younger chromosomes than mammals and birds, providing excellent models to study sex chromosome differentiation. The spotted scat, with its young chromosome, is ideal for studying the evolution of sex chromosomes. Dmrt2a, a candidate sex determination gene in spotted scat, shows incomplete sex linkage, suggesting a young sex chromosome system. Further studies are needed to understand the role of Dmrt2a in developmental processes and its implications in vertebrate evolution.
Article
Biochemistry & Molecular Biology
Hongjuan Shi, Xiaoying Ru, Umar Farouk Mustapha, Dongneng Jiang, Yang Huang, Shuhui Pan, Chunhua Zhu, Guangli Li
Summary: The study identified duplicated genes nr0b1a and nr0b1b in spotted scat, showing that they have distinct expression patterns and regulatory effects in the reproductive system. Nr0b1b may be involved in ovarian development based on its regulatory effects on Nr5a1-mediated cyp19a1a expression.
COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY B-BIOCHEMISTRY & MOLECULAR BIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Umar Farouk Mustapha, Fei Zhi, Yuang-Qing Huang, Daniel Assan, Guang-Li Li, Dong-Neng Jiang
Summary: This study presents the first occurrence of intersex associated with testis-ova in spotted scat reared in a controlled environment. The study found that the ectopic primary oocytes (Ecto-PO) appear after sex differentiation and degenerate during sexual maturation. The Ecto-PO did not significantly affect the development of the testis and could be considered a common natural aberration.
FISH PHYSIOLOGY AND BIOCHEMISTRY
(2022)
Article
Biochemistry & Molecular Biology
Yi Zhai, Si-Ping Deng, Jian-Ye Liu, Dong-Neng Jiang, Yang Huang, Chun-Hua Zhu, Guang-Li Li, Ming-Hui Li
Summary: The study found that Lpxrfa in spotted scat may play a role in regulating reproduction and have significant impact on the hypothalamo-pituitary-gonadal axis.
FISH PHYSIOLOGY AND BIOCHEMISTRY
(2021)
Article
Biochemistry & Molecular Biology
Junxiao Su, Shaokui Yi, Zexia Gao, Khalid Abbas, Xiaoyun Zhou
Summary: DNA methylation plays a crucial role in regulating the expression patterns of aromatase genes cyp19a1a and cyp19a1b during gametogenesis in Misgurnus anguillicaudatus. Methylation negatively regulates the expression of cyp19a1a in the ovaries, while cyp19a1b expression fluctuates in the brain but maintains high methylation levels. This study highlights the importance of DNA methylation in mediating gonadal development in teleosts.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2023)
Article
Genetics & Heredity
Fei Zhi, Dong-Neng Jiang, Umar Farouk Mustapha, Shao-Xiang Li, Hong-Juan Shi, Guang-Li Li, Chun-Hua Zhu
Summary: 42Sp50 is an important gene involved in fish ovarian development, with high expression in the ovary. Its expression is biased towards the ovary in various fish species. The DNA methylation level of the 42Sp50 promoter is low, and its expression is regulated by Dmrt4, Sf1, and Foxh1.
FRONTIERS IN GENETICS
(2022)
Article
Biotechnology & Applied Microbiology
Zhi He, Zhijun Ma, Deying Yang, Qiqi Chen, Zhide He, Jiaxiang Hu, Faqiang Deng, Qian Zhang, Jiayang He, Lijuan Ye, Hongjun Chen, Liang He, Xiaoli Huang, Wei Luo, Shiyong Yang, Xiaobin Gu, Mingwang Zhang, Taiming Yan
Summary: This study identified 721 circRNAs in ricefield eel gonads and discovered 147 differentially expressed circRNAs during sex change, with some (such as novel_circ_0000659, novel_circ_0004005, and novel_circ_0005865) closely involved in sex change. The downregulation of circSnd1 and foxl2, along with their interaction with mal-miR-135b/c, suggests a regulatory role in sex change.
Article
Biochemistry & Molecular Biology
Madhavi Mookkan, Kailasam Muniyandi, Stalin Palaniyandi
Summary: This study examined the changes in carotenoid profile in wild-caught spotted scat broodstocks during the reproductive season to determine the most effective strategy for enriching broodstocks in artificial breeding programs. The results revealed significant differences in carotenoid levels among tissues during sexual maturation.
FISH PHYSIOLOGY AND BIOCHEMISTRY
(2022)
Article
Biotechnology & Applied Microbiology
Maoliang Su, Nanxi Liu, Zhengqi Zhang, Junbin Zhang
Summary: In this study, the branchial osmoregulatory mechanisms in Scatophagus argus acclimated to different salinities were explored using proteomics techniques. The results showed that the regulation of sodium ion influx and efflux, as well as ATP synthesis, played crucial roles in the osmoregulatory process.
Article
Fisheries
Daniel Assan, Yaorong Wang, Umar Farouk Mustapha, Charles Brighton Ndandala, Zhiyuan Li, Guang-Li Li, Huapu Chen
Summary: This study cloned and identified the cDNA sequence of neuropeptide Y (Npy) in spotted scat and found that it is expressed in all tissues, especially in the brain. The research revealed that Npy promotes growth in spotted scat by increasing food intake and interacts with other appetite-regulating peptides. This is significant for the aquaculture industry of the spotted scat.
Article
Biochemistry & Molecular Biology
Jianshuang Li, Min Song, Haishen Wen, Ying Zhang, Yun Li, Likang Lyu, Xiaojie Wang, Xin Qi
Summary: Using black rockfish as a research model, this study investigated the gonad lipidomics and gene expression levels during different developmental stages, revealing a potential regulatory network of lipid metabolism. Through UHPLC-QTOFMS, four significant differential glycerophospholipid metabolic pathways were identified, and pathway-related enzyme-coding genes were confirmed and analyzed. The findings provide insights into substance metabolism and regulation during gonad development in ovoviviparity teleosts.
FISH PHYSIOLOGY AND BIOCHEMISTRY
(2021)
Article
Fisheries
Daniel Assan, Umar Farouk Mustapha, Charles Brighton Ndandala, Zhiyuan Li, Guangli Li, Chunren Huang, Guangwen Zhao, Huapu Chen, Mouyan Jiang
Summary: In this study, the Pyy peptide was cloned from the spotted scat fish for the first time and found to be widely expressed in the intestine and muscle tissues. Feeding had minimal short-term effects on pyy mRNA levels, but after 7 days of feeding, the levels in the hypothalamus were significantly higher. The study also identified a local interaction between Pyy and appetite-regulating peptides in the spotted scat.
AQUACULTURE REPORTS
(2023)
Article
Fisheries
Huy V. Nguyen, Nghia V. Duc, Son K. H. Nguyen
Summary: This study evaluated gonadal development and spawning of Scatophagus argus in captivity, finding that gonadal development increased from March to a peak in July, with a spawning peak from June to August. Only female gonadosomatic index fluctuated significantly month-by-month. Histological examination revealed that S. argus is a multiple-spawner. Spawning induction using LHRH-A2 resulted in better fertilization and hatching rates.
ISRAELI JOURNAL OF AQUACULTURE-BAMIDGEH
(2022)
Article
Endocrinology & Metabolism
Xingjiang Mu, Maoliang Su, Lang Gui, Xuemei Liang, Peipei Zhang, Pan Hu, Zhenhao Liu, Junbin Zhang
GENERAL AND COMPARATIVE ENDOCRINOLOGY
(2015)
Article
Biochemistry & Molecular Biology
Zhen-Hao Liu, Bao-Feng Lian, Qiong-Zhu Dong, Han Sun, Jin-Wang Wei, Yuan-Yuan Sheng, Wei Li, Yi-Xue Li, Lu Xie, Lei Liu, Lun-Xiu Qin
BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR BASIS OF DISEASE
(2018)
Article
Biodiversity Conservation
Siqi Li, Zhenhao Liu, Pan Hu, Xuemei Liang, Huifen Liu, Maoliang Su, Junbin Zhang
CONSERVATION GENETICS RESOURCES
(2014)
Article
Biochemical Research Methods
Yin Wang, Zhenhao Liu, Baofeng Lian, Lei Liu, Lu Xie
COMBINATORIAL CHEMISTRY & HIGH THROUGHPUT SCREENING
(2018)
Article
Biochemistry & Molecular Biology
Yong Xu, Daixi Li, Zhenhao Liu, David L. Gibbs, Lu Xie, Guangrong Qin
FRONTIERS IN MOLECULAR BIOSCIENCES
(2020)
Article
Cell Biology
Gang Liu, Zhenhao Liu, Xiaomeng Sun, Xiaoqiong Xia, Yunhe Liu, Lei Liu
Summary: This study identified nine commonly differentially methylated regions across various cancer types, with a focus on the role of dysregulation of the HOXA locus in pan-cancer carcinogenesis. Analysis of 3D DNA interaction profiles revealed that the HOXA locus in cancer cell lines merged with nearby topological domains, unlike in normal cell lines.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Article
Genetics & Heredity
Linfeng Xu, Xingxing Jian, Zhenhao Liu, Jingjing Zhao, Siwen Zhang, Yong Lin, Lu Xie
Summary: The study focused on the role of immune cell signatures (ICS) in hepatocellular carcinoma (HCC) prognosis and treatment. A new ICSscore was developed based on gene expression profiles, which successfully stratified HCC patients and correlated with the American Joint Committee on Cancer staging system. The ICSscore was also effective in distinguishing treatment-responding and non-responding samples in HCC and other cancers like melanoma and breast cancer, showing potential for expanded application in therapeutic evaluation.
FRONTIERS IN GENETICS
(2021)
Article
Biotechnology & Applied Microbiology
Zhenhao Liu, Siwen Zhang, Jian Ouyang, Dan Wu, Lanming Chen, Wen Zhou, Lu Xie
Summary: This study investigates the role of cell-cell interaction events (CCEs) in hepatocellular carcinoma (HCC) and its impact on therapeutic responses and clinical outcomes. By analyzing single-cell RNA sequencing data, the heterogeneity of tumor microenvironment (TME) and dysregulated CCEs in HCC were identified. Dysregulated CCEs such as SPP1-CD44, MIF-TNFRSF14, and VEGFA-NRP1 were found to play crucial roles in tumorigenesis and HCC development. The study also extracted a CCE-based immune regulatory network and identified a prognostic signature based on CCE genes. This research provides insights into the interaction between tumor cells and the microenvironment, and establishes a workflow strategy for CCE analyses based on scRNA-seq data.
Article
Genetics & Heredity
Chunyu Liu, Yu Zhang, Xingxing Jian, Xiaoxiu Tan, Manman Lu, Jian Ouyang, Zhenhao Liu, Yuyu Li, Linfeng Xu, Lanming Chen, Yong Lin, Lu Xie
Summary: ProGeo-neo is a proteogenomics-based neoantigen prediction pipeline that identifies MHC-I binding peptides based on SNV mutations. To improve accuracy, we present ProGeo-neo v2.0 with new features including prediction of MHC-II restricted neoantigens and identification of additional candidate neoantigens. We also propose more efficient screening methods to narrow down the range of candidate peptides, providing a more meaningful reference for subsequent experimental validation.
Article
Multidisciplinary Sciences
Jiliang Xia, Jingyu Zhang, Xuan Wu, Wanqing Du, Yinghong Zhu, Xing Liu, Zhenhao Liu, Bin Meng, Jiaojiao Guo, Qin Yang, Yihui Wang, Qinglin Wang, Xiangling Feng, Guoxiang Xie, Yi Shen, Yanjuan He, Juanjuan Xiang, Minghua Wu, Gang An, Lugui Qiu, Wei Jia, Wen Zhou
Summary: This study reveals that the elevated glycine level in the bone marrow microenvironment of multiple myeloma is associated with MM progression, and MM cells utilize the SLC6A9 protein to absorb glycine for the synthesis of glutathione and purines.
NATURE COMMUNICATIONS
(2022)
Article
Multidisciplinary Sciences
Chunmei Kuang, Meijuan Xia, Gang An, CuiCui Liu, Cong Hu, Jingyu Zhang, Zhenhao Liu, Bin Meng, Pei Su, Jiliang Xia, Jiaojiao Guo, Yinghong Zhu, Xing Liu, Xuan Wu, Yi Shen, Xiangling Feng, Yanjuan He, Jian Li, Lugui Qiu, Jiaxi Zhou, Wen Zhou
Summary: This study identified an association between thrombocytopenia and poor prognosis in multiple myeloma (MM) patients, and identified serine as a key metabolic regulator of thrombocytopenia. Serine suppresses megakaryocyte and thrombocyte production, leading to thrombocytopenia. Inhibiting serine utilization or treatment with TPO can enhance megakaryocyte and thrombocyte production, and suppress MM progression.
NATURE COMMUNICATIONS
(2023)
Article
Cell Biology
Yunjia Wang, Zhenhao Liu, Guanteng Yang, Qile Gao, Lige Xiao, Jiong Li, Chaofeng Guo, Benjamin R. Troutwine, Ryan S. Gray, Lu Xie, Hongqi Zhang
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2020)
Article
Oncology
Siwen Zhang, Zhenhao Liu, Dan Wu, Lanming Chen, Lu Xie
FRONTIERS IN ONCOLOGY
(2020)
Article
Oncology
Wenfang Xu, Zhenhao Liu, He Ren, Xueqing Peng, Aoshen Wu, Duan Ma, Gang Liu, Lei Liu
Article
Genetics & Heredity
Xiangge Meng, Chengping Li, Yu Hei, Xiang Zhou, Guoli Zhou
Summary: The study used IVT-SAPAS sequencing to analyze the dynamic changes of APA sites during adipogenesis in bovine subcutaneous preadipocytes and intramuscular preadipocytes. The results showed that APA plays an important role in adipocyte differentiation, and UTR-APA switching genes have different trends, with intramuscular preadipocytes tending to use shorter 3'UTR for differentiation. TRIB3, WWTR1, and INSIG1 play important roles in intramuscular preadipocyte differentiation.
Article
Genetics & Heredity
S. Alizadeh, S. Khamse, N. Tajeddin, H. R. Khorram Khorshid, A. Delbari, M. Ohadi
Summary: This study identifies a specific genotype at a CG-rich trinucleotide short tandem repeat (STR) locus that is associated with late-onset neurocognitive disorders such as Alzheimer's disease (AD).
Article
Genetics & Heredity
Shougang Liu, Zhe Zhuang, Fanghua Liu, Xiuqing Yuan, Zeqiao Zhang, Xiaoqian Liang, Xinhui Li, Yongfeng Chen
Summary: This study investigated the effect and mechanism of RPL9 and TIFA in scalp psoriasis, and identified RPL9 as a potential therapeutic target for scalp psoriasis.
Article
Genetics & Heredity
Shiting Wang, Jiaqi Chen, Zhichao Jin, Ying Xing, Ruiping Wang
Summary: This study suggests a causal association between hair color and skin cancers, with light hair colors (red, blonde, and light brown) being associated with an increased risk and dark brown hair being associated with a decreased risk.
Article
Genetics & Heredity
Joseph Hawadak, Loick Pradel Kojom Foko, Rodrigue Roman Dongang Nana, Karmveer Yadav, Veena Pande, Aparup Das, Vineeta Singh
Summary: This study investigates the genetic diversity and natural selection of the Pfama-1 gene in Plasmodium falciparum isolates from Cameroon. The study finds a considerable nucleotide and haplotype diversity, as well as specific mutations in Cameroonian isolates. Positive diversifying selection and the identification of selected codon sites suggest the potential implication of these genetic variations in host immune pressure and parasite-binding complex modulation. The findings provide valuable baseline data for malaria vaccine design.
Article
Genetics & Heredity
Emily Biernat, Mansi Verma, Chhabi K. Govind
Summary: RSC is an essential ATP-dependent chromatin remodeling complex in Saccharomyces cerevisiae. It regulates nucleosome-depleted regions (NDRs) by sliding flanking nucleosomes away from NDRs. Depletion of RSC leads to nucleosome encroachment in NDRs and transcription initiation defects. The study compared the effects of catalytic-dead Sth1 and rapid depletion of Sth1 on transcription. Rapid depletion of Sth1 reduces recruitment of TBP and Pol II, while the catalytic-dead mutant exhibits a severe reduction in TBP binding but accumulates Pol II in coding regions. The results suggest a role for RSC in transcription elongation and termination processes.
Article
Genetics & Heredity
Yunxiao Wei, Yuhan Song, Muhammad Aamir Khan, Chengzhen Liang, Zhigang Meng, Yuan Wang, Sandui Guo, Rui Zhang
Summary: This study analyzed the GhTPP protein family in upland cotton for the first time and identified the important role of GhTPPA_2 in regulating sugar metabolism, improving soluble sugar accumulation, and drought stress tolerance.
Article
Genetics & Heredity
Yannan Geng, Rui Shao, Tiantong Xu, Lilong Zhang
Summary: A novel risk model based on SCUBE3, TNNC1, SPON1, SEPT12 and ULBP1 genes was developed for predicting PMOP risk, with higher risk score indicating higher risk of suffering from PMOP. Significant differences in signaling pathway activities were observed between the high-risk score group and the low-risk score group.
Article
Genetics & Heredity
Randy P. Williams, Corina Lesseur, Haoxiang Cheng, Qian Li, Maya Deyssenroth, Christopher D. Molteno, Ernesta M. Meintjes, Sandra W. Jacobson, Joseph L. Jacobson, Helen Wainwright, Ke Hao, Jia Chen, R. Colin Carter
Summary: The study suggests that heavy alcohol exposure during pregnancy may impact the proportion of fetal placental villi macrophages and increase the expression of inflammatory genes. Further research is needed to explore these effects and evaluate the potential functional roles of placental inflammation in FASD.
Article
Genetics & Heredity
Lvjing Luo, Lishuang Sun, Shu Li, Huiting Liu, Zhengyu Chen, Shi Huang, Yinyin Mo, Genliang Li
Summary: This study analyzed the expression of Ptpn1 and miR-124-3p in testicular tissues of mice and investigated their regulatory relationship. The results showed that Ptpn1 expression was up-regulated in adult mouse testis compared to juvenile mouse testis, while miR-124-3p expression showed an opposite pattern. Further analysis suggested that the down-regulation of miR-124-3p may contribute to the high expression of Ptpn1 in adult mouse testis.
Article
Genetics & Heredity
Gairui Li, Dan Zhao, Xiaolin Peng, Yashuang Zhao
Summary: MiRNA-22 shows potential as a candidate for early diagnosis of colorectal cancer (CRC). The study found higher miR-22 expression levels in the CRC and CRA groups, suggesting its potential as a biomarker for CRC early screening.
Article
Genetics & Heredity
Zhongqiu Zhu, Qianting Yang, Xiaoying Tian, Da Man, Jian Wang, Junfang Zhang, Bingshe Han
Summary: This study constructed a ceRNA network mediated by lncRNAs in cold-acclimated zebrafish ZF4 cells and revealed that upregulation of MSTRG3207 promotes apoptosis by sponging dre-miR-736 during cold acclimation.
Article
Genetics & Heredity
Weitao Chen, Denggao Xiang, Shang Gao, Shuli Zhu, Zhi Wu, Yuefei Li, Jie Li
Summary: Dam construction has negatively impacted the genetic diversity and structure of fish populations. This case study on the endangered Hemibagrus guttatus found low genetic diversity, high levels of inbreeding, and decreasing population size in fragmented populations. Genetic structure and differentiation were also observed, indicating the influence of dams on these fish populations.
Article
Genetics & Heredity
Pooja Singh, Debleena Guin, Bijay Pattnaik, Ritushree Kukreti
Summary: Through systematic literature review and meta-analysis, it was found that idiopathic pulmonary fibrosis is significantly associated with 222 polymorphisms in 118 genes. Four polymorphisms - rs35705950/MUC5B, rs2736100/TERT, rs2076295/DSP, and rs111521887/TOLLIP, exhibited substantial epidemiological evidence supporting their association with IPF risk.
Article
Genetics & Heredity
Jianping Zhang, Zhijun Cai, Fanzhe Feng, Yufeng Peng, Yi Cui, Yongiqing Xu
Summary: This study found that exosomes secreted by young BMSCs can promote the healing of tendon-bone interface after rotator cuff tears. These exosomes can improve extracellular matrix remodeling, osteogenic differentiation, angiogenesis, and stemness of tendon-derived stem cells (TDSCs). The exosomes from young BMSCs have better effects compared to those from aged BMSCs.
