Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1082803 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR28200550_1.fastq.gz | Fastqsanger.gz | |||
| SRR28200550_2.fastq.gz | Fastqsanger.gz | |||
| SRR28200551_1.fastq.gz | Fastqsanger.gz | |||
| SRR28200551_2.fastq.gz | Fastqsanger.gz | |||
| SRR28200552_1.fastq.gz | Fastqsanger.gz |
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Project description:Nutrition is an important part of the protection process of Yangze sturgeon. This study tested the transcriptome levels of brain, liver and spleen after feeding different fat source diets to Yangze sturgeon.
2021-07-29 | GSE136237 | GEO
Project description:The biology and physiology of Siberian sturgeon reproduction differ substantially from teleost fish. Seminal plasma support and protect the viability, motility and fertilizing capacity of spermatozoa by creating the optimal environment for the storage. The present study for the first time described in-depth proteomic characterization of Siberian sturgeon seminal plasma using gel based and gel-free proteomic approaches: LC-MS/MS, 2DE and 2D blue native (BN)/SDS-PAGE. LC-MS/MS allowed to identify 657 proteins, which were classified according to their functions and pathways. 2DE visualized 339 spots corresponding to 76 unique proteins (almost 60% were present in various proteoforms). For the first time we demonstrated interactions between seminal proteins; four (C1-C4) multiprotein complexes were identified after 2D BN/SDS-PAGE; composed of (C1) serotransferrin-2 (TF) and fish-egg lectin (FEL); (C2) serum albumin 2 (ALB) and retinol-binding protein 4 (RBP4); (C3) ALB and TF (C3) and (C4) apolipoprotein A-I (APOA1), riboflavin-binding protein (RfBP) and myoglobin (MB). BN-SDS-PAGE also revealed that immunoglobulin and TF formed homomultimeric (dimer, trimer, tetramer and pentamer) complexes in seminal plasma. ALB, TF, Beta-Ala-His dipeptidase, glyceraldehyde-3-phosphate dehydrogenase, IGH, APOA1, hemopexin, type-4 ice-structuring protein, FEL, RfBP and glycogen phosphorylase, liver form-like were selected as major seminal plasma proteins. The functional analysis of identified proteins indicated their involvement mainly in immune system process and response to stimulus, metabolism, vesicle-mediated transport, proteolysis, and catherin binding involved in cell-cell adhesion. Moreover, 67 proteins were associated with reproductive processes, including spermatogenesis, fertilization, acrosomal reaction and sperm motility. Comparative proteomic analysis of sturgeon seminal plasma showed common proteins with fish and human and 150 proteins specific for sturgeon which may reflect the specificity of sturgeon reproduction. To conclude, this integrative proteomic view lead to deeper insight into physiological function of seminal plasma and processes occurred in sturgeon reproductive tract.
2023-12-12 | PXD035351 | Pride
Project description:Background: The cryopreservation of semen is crucial for conserving genetic diversity and reproductive success in endangered species like the Siberian sturgeon. However, this process can cause cryodamage, affecting quality and protein profile of spermatozoa. While cryoprotectants like dimethyl sulfoxide (DMSO) and methanol (MeOH) facilitate post-thaw motility recovery, DMSO-preserved spermatozoa exhibit reduced fertilizing ability. This study investigates how DMSO and MeOH impact the proteome of Siberian sturgeon spermatozoa and examines semen quality parameters. Two complementary approaches of quantitative proteomics, liquid chromatography-mass spectrometry (LC-MS) and two-dimensional difference in gel electrophoresis (2D-DIGE), were used to analyze the proteomic profiles of fresh and cryopreserved spermatozoa, as well as the extracellular medium (EM; n=7 for each group). Results: Cryopreservation led to a decline in motility parameters (MOT, VCL, PROG) and viability, along with an increase in ROS levels, membrane fluidity, and acrosome damage. Despite similar quality parameters between DMSO and MeOH-preserved sperm, DMSO-preserved sperm showed dramatically lower fertilization success (6.2% vs 51.2%). A total of 224 and 118 differentially abundant proteins in spermatozoa cryopreserved with MeOH and DMSO, respectively, were identified compared to fresh samples, with 342 and 363 proteins released into the EM. The most affected proteins by cryopreservation included H2A, CABYR, PYGM, ENO3, DBI and LTA4H. Additionally, 36 and 39 uniquely altered sperm-leakage proteins were identified for MeOH and DMSO cryopreserved samples, respectively. Bioinformatic analysis showed that MeOH-specific proteins were related to chromosomal structure and mitochondrial functionality, while DMSO-specific proteins were mainly involved in acrosome reaction, zona pellucida binding, flagella structure, and nuclear pore organization. These proteins are potentially involved in sturgeon sperm fertilizing ability. The expression of six proteins was verified by western blot analysis. Conclusions: This study provides the first comprehensive proteomic characterization of Siberian sturgeon spermatozoa after cryopreservation with DMSO and MeOH, revealing insights into proteomic changes that affect fertilizing ability and aiding conservation efforts for this endangered species.
2024-08-10 | PXD052170 | Pride
Project description:Microarray expriments were performed in 5 tissues of Amur sturgeon, included liver, spleen, brain ,muscle and heart.
2015-12-30 | GSE57102 | GEO
Project description:Sturgeon species, considered living fossils, exhibit unique reproductive characteristics, making it crucial to comprehend the molecular processes governing the formation and quality of their eggs. However, there is a notable lack of comprehensive data concerning the protein composition analysis of sturgeon eggs and ovarian fluid (OF) and their functional significance. To address this knowledge gap, this study aimed to conduct a comprehensive comparative proteomic analysis of Siberian sturgeon eggs and OF using liquid chromatography-mass spectrometry (LC-MS/MS). A total of 566 proteins were identified in eggs, while 617 proteins were identified in OF, with 772 proteins showing differential abundance. Among the differentially abundant proteins, 407 were more abundant in eggs, while 365 showed higher abundance in OF. Furthermore, we identified 288 proteins specific to eggs and 339 proteins specific to OF, along with the top ten most abundant proteins in each. Functional annotation analysis unveiled enriched metabolic pathways, such as oxidative phosphorylation and fatty acid metabolism, as well as protein ubiquitination and translation, in eggs. Conversely, ovarian fluid proteins primarily associated with immune system processes, including the complement and coagulation cascade, neutrophil and leukocyte-mediated immunity, cholesterol metabolism, and regulation of actin cytoskeleton. This study presents the first comprehensive characterization of the protein composition of sturgeon ovarian fluid and eggs, shedding light on their distinct functional roles. The findings not only advance our understanding of sturgeon reproduction but also shed light on egg-OF signaling and origin of the OF proteins. Moreover the identified proteins offer potential biomarkers for predicting egg quality contributing to the development of effective breeding strategies for sturgeon species.
2023-12-18 | PXD044168 | Pride
Project description:In this study, we utilized the microfluidics chip technology on the gonads of Amur sturgeon to identifiy gender-specific miRNAs. The probes of all miRNAs about 663 published in fish and our novel miRNAs from sturgeon were chosed in the microarray experiment.
2016-06-30 | GSE62787 | GEO
Project description:In this study, we utilized the microfluidics chip technology on the gonads of Amur sturgeon to identifiy gender-specific sRNAs. The probes of all miRNAs about 2751 published in fish and our novel miRNAs from sturgeon were chosed in the microarray experiment.
2019-05-29 | GSE83840 | GEO
Project description:The Chinese sturgeon (Acipenser sinensis) is anadromous fish distributed in Yangtze River and East China Sea. In this study, we reported cleft-palate Chinese sturgeons in artificial population for the first time. In order to explore the genetic basis of palate malformation in A. sinensis, Illumina RNA-seq technology was used to analyze the transcriptome data of normal and cleft-palate individuals in farmed Chinese sturgeons. Raw reads were obtained and assembled into 808,612 unigenes, with an average length of 509.33 bp and an N50 of 574 bp. Sequence similarity analyses against four public databases (Nr, Uniprot, KEGG and COGs) found 158,642 unigenes that can be annotated. GABAergic synapse and TGF-β signal pathway were the most two enriched pathways with high Richfactor in the analyses of different expressed genes. In these two signal pathways, six genes (GABRA4, GS, GNS, S6K, PITX2, and BMP8) were found as cleft-palate genes in Chinese sturgeon. These findings contribute to our understanding of the genetic basis of cleft palate in sturgeon, while simultaneously adding to our knowledge about craniofacial development.
2018-03-24 | GSE112292 | GEO
Project description:sturgeon Transcriptome
| PRJNA474667 | ENA