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Spermatogenesis

Spermatogenesis is the biological process by which sperm cells are produced in the testicles.
This complex, highly organized series of events involves the division and differentiation of germ cells into mature spermatozoa.
Ths process is essential for male fertility and reproductive function.
Understanding the intricacies of spermatogenesis is crucial for researchers investigating male infertility, reproductive disorders, and the development of new contraceptive methods.
PubCompare.ai offers a powerful AI-driven platform to optimize your spermatogenesis research, helping you locate the best protocols from literature, preprints, and patents to ensure reproducibility and accuracy.

Most cited protocols related to «Spermatogenesis»

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Publication 2018
Cells Genes Homo sapiens Mus Spermatogenesis
The single-cell RNA-seq was performed based on Smart-seq2 with some modification.58 (link)–60 (link) The single spermatogenic cells were picked into lysis buffer containing reverse transcription primer. The oligo dT reverse transcription primer was composed of 8 nt sample-specific barcode, 8 nt unique molecular identifiers (UMIs) and 25 nt oligo dT primer (TCAGACGTGTGCTCTTCCGATCT-XXXXXXXX-NNNNNNNN-T25, X standing for barcode and N representing UMI). The cDNAs were synthesized by template switch oligo (TSO) primer and reverse transcription primer, followed by 20 cycles of PCR with 3′P2 primer and IS primer. Samples with different barcodes were pooled together and then purified using Agencount AMPure XP beads. Index sequences were induced by 4 cycles of PCR using biotin-modified index primer and IS primer. After being sheered by covaris S2, the cDNAs were enriched by incubating with Dynabeads MyOneTM Streptavidin C1 beads. The libraries were constructed using KAPA Hyper Prep Kit. After adaptor ligation, the samples were amplified using QP2 and short universal primer.
Full-length RNA-seq libraries were used for alternative splicing analysis. After cDNA synthesis and amplification, the samples were purified and then fragmented individually. We used KAPA Hyper Prep Kit to construct the libraries and Multiplex Oligos for Illumina to amplify the adaptor-ligated product. We sequenced the libraries on Illumina Hiseq 4000 platform in 150 bp pair-end model.
Publication 2018
2',5'-oligoadenylate Anabolism Biotin Buffers Cells DNA, Complementary Ligation oligo (dT) Oligonucleotide Primers Oligonucleotides Reverse Transcription RNA-Seq Single-Cell RNA-Seq Spermatogenesis Streptavidin

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Publication 2018
Cloning Vectors Gene Expression Gene Expression Regulation Genes Germ Cells Phase Transition Sequence Analysis Spermatid Spermatocytes Spermatogenesis Spermatogonia Transcription Factor Transcription Initiation Site
Twenty male white mice, aged 16 months and 20-23g
in weight were purchased from Iran Pasteur Institute
and housed in a temperature-controlled room at 23 ±
2℃. Animals had access to food and water. They were
cared for in accordance with the Principals and Guidelines
of the Research Center at Tehran University of
Medical Sciences. Mice were randomly divided into
control and experimental groups with 10 animals per
group. The experimental group received intraperitoneal
injections of a daily single dose of 10 mg/kg melatonin (Sigma Chemical Co., USA) dissolved in saline for 14
days. The control group received only saline. Six days
after the last injection all mice were sacrificed under
ether anesthesia and the testes were excised, cut into
small pieces and fixed in 10% formalin. Next, testes
were dehydrated in an alcohol series, cleared in xylene,
infiltrated with paraffin and embedded in paraffin. Paraffin
blocks were cut into 5 µ thick sections and stained
with hematoxylin and eosin. About 30 sections of seminiferous
tubules that were round or nearly round were
chosen randomly and measured for each group. The
tubular diameter and height of the seminiferous tubule
epithelium was measured at ×200 and ×400 magnifications
using image analyzer Leica (DMLB) and
Leica Qwin software. The diameter of the seminiferous
tubule was measured across the minor and major
axes, and the mean diameter obtained. We measured
testicular interstitial and epithelium by the point counting
method (10 (link), 11 (link)). Testis tubules were evaluated for
their modified spermatogenesis index (SI) by Johnson’s
score (12 (link)). In Johnson’s score a grade from 1 to
10 was given to each tubule cross section according to
the range from no cells to complete spermatogenesis.
Publication 2011
Anesthesia Animals Animals, Laboratory Cells Eosin Epithelium Ethanol Food Formalin Hematoxylin Males Melatonin Mice, House Paraffin Paraffin Embedding Saline Solution Spermatogenesis Testis Xylene
Isolated cells: Enzymatically isolated testicular cells and developed cells from in-vitro cultures were mixed with 250 μL of lysis buffer and 2-mercaptoethanol mixture (GenElute Total RNA Miniprep Kit; Sigma, St. Louis, USA). The lysates were frozen at −80 °C for later RNA extraction. The cDNA synthesis was performed according to the qScript cDNA Synthesis Kit (Quantabio, Beverly, MA 01915, USA), using random hexamers, and qPCR was performed using specific primers for each examined spermatogenesis marker: gfr-α (forward:CAGTTTTCGTCTGCTGAGGTTG; reverse: TTCTGCTCAAAGTGGCTCCAT; product size, 141 bp), VASA (forward: AGTATTCATGGTGATCGGGAGCAG; reverse: GCAACAAGAACTGGGCACTTTCCA; product size, 83 bp), CREM-1 (forward:TTCTTTCACGAAGACCCTCA; reverse: TGTTAGGTGGTGTCCCTTCT; product size, 138 bp), BOULE (forward: AACCCAACAAGTGGCCCAAGATAC; reverse: CTTTGGACACTCCAGCTCTGTCAT; product size, 163 bp), protamine (forward: TCCATCAAAACTCCTGCGTGA; reverse: AGGTGGCATTGTTCCTTAGCA; product size, 114 bp), ACROSIN (forward: TGTCCGTGGTTGCCAAGGATAACA; reverse: AATCCGGGTACCTGCTTGTGAGTT; product size, 149 bp), and the calibrator gene GAPDH (forward: ACCACAGTCCATGCCATCAC; reverse: CACCACCCTGTTGCTGTAGCC; product size, 450 bp). The qPCR reaction was performed following the 2 × qPCRBIO SyGreen Blue Mix Hi-ROX (PCR Biosystems Ltd., Aztec House, 397–405 Archway Road, London, UK) protocol and was performed using the LightCycler 96 real-time PCR machine (Roche, Roche Diagnostics Corporation, Roche CustomBiotech, Indianapolis, IN, USA). According to the manufacturer introductions for the SYBR Green dye, we ran a PCR profile including a three-step amplification program and subsequent melting, described as follows: preincubation 10 min at 95 °C, 40 cycles of 15 s at 95 °C, 15 s at 60 °C (all the primers were designed with this specific annealing temperature), and 10 s at 72 °C. Melting cycle: 10 s at 95 °C, 60 s at 65 °C, and 1 s at 97 °C. The PCR products were identified and distinguished using the generated melting curve. The “threshold cycle” (Ct) values, representing the cycle number at which the sample fluorescence rises statistically above the background and crossing points (CP) for each transcript were defined. The relative quantity of the gene expression was analyzed using the 2−ΔΔCt method. The results were expressed as the fold of increase related to the GAPDH of the same examined sample.
The microscopy samples were observed with an Olympus IX70 microscope (Olympus, Novato, CA, USA). The digital images and signal intensity charts were prepared using Image-Pro Plus (Media Cybernetics, Bethesda, MD, USA), Microsoft Excel, and Adobe Photoshop 7.0 software.
Publication 2018
2-Mercaptoethanol Acrosin Anabolism Buffers Cell Culture Techniques Diagnosis DNA, Complementary Fluorescence Freezing GAPDH protein, human Gene Expression Genes Microscopy Oligonucleotide Primers Protamines Real-Time Polymerase Chain Reaction Spermatogenesis SYBR Green I Testis

Most recents protocols related to «Spermatogenesis»

Raw reads were processed to generate gene expression profiles using an internal pipeline. Briefly, for each cell barcode the unique molecular identifier (UMI) was extracted after filtering read one without poly-T tails. Adapters and poly-A tails were trimmed (fastp V1) before aligning read two to GRCh38 with Drosophila melanogaster Ensembl version 102 annotation [58 (link)]. For reads with the same cell barcode, the UMI and gene were grouped together to calculate the number of UMIs for genes in each cell. UMI count tables for each cellular barcode were employed for further analysis. Cells with an unusually high number of UMIs (>37,000) or mitochondrial gene percent (>25%) were filtered out. We also excluded cells with less than 990 or more than 4200 genes detected.
Cell type identification and clustering analysis were performed using the Seurat program [59 (link), 60 (link)]. Cell-by-gene matrices for each sample were individually imported to Seurat version 3.1.1 for downstream analysis [60 (link)]. Uniform manifold approximation and projection (UMAP) and t-distributed Stochastic Neighbor Embedding (t-SNE) were performed to visualize cell clusters. Upregulated enriched genes were determined to be significant with a threshold standard of fold change >1.28 and a P-value <0.01. Differentially expressed genes (DEGs) were considered significant with a fold change >1.50 and P-value <0.05.
Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses were carried out on the gene set using clusterProfiler software to explore biological functions or pathways significantly associated with specifically expressed genes [61 (link)].
For correlation analysis, gene sets were calculated based on average expression counts that belong to each set of features via the PercentageFeatureSet function in the Seurat package [46 (link)]. Pearson correlations were calculated among these gene sets or signatures. Gene correlation analysis was performed directly on the data matrix by the Pearson correlation method.
Monocle 2 (version 2.10.1) was used to perform single cell trajectory analysis based on the matrix of cells and gene expression [62 (link)]. Monocle 2 reduced the space down to one with two dimensions and ordered the cells [63 (link)]. Once the cells were ordered, the trajectory was visualized in the reduced dimensional space. Pseudotime trajectory analysis was used to further analyze the germ cell differentiation trajectories to identify key factors or pathways required for different novel stages during spermatogenesis.
Publication 2023
Biological Processes Cells Cytosol Differentiations, Cell Drosophila melanogaster Gene Expression Genes Genes, Mitochondrial Genome Poly(A) Tail Poly T Single-Cell Analysis Spermatogenesis Tail
Sperm DNA was extracted as described above from VPA-treated mice, VPA_F1, and control mice (n = 3 each). Subsequently, DNA methylation analysis was performed using WGBS, and DNA bisulfite conversion was performed using an EZ DNA Methylation-Gold Kit (Zymo Research, Orange, CA, USA). Further, DNA libraries were constructed using the Accel-NGS Methyl-Seq DNA Library Kit (Integrated DNA Technologies, Coralville, IA, USA) or Abclonal Scale Methyl-DNA Lib Prep Kit for Illumina (Abclonal, Tokyo, Japan) according to the manufacturer’s instructions. The DNA libraries were used for 150 bp paired-end sequencing on a Novaseq 6000 platform (Illumina, San Diego, CA, USA). Adapter trimming was performed using the Trim Galore 0.5.0 program (RRID: SCR_011847) and Trimmomatic program [28 (link)]. The resulting reads were quality checked using FastQC version 0.11.7 [29 ]. The reads were aligned to the mouse genome mm10 using Bismark version 0.22.3 [30 (link)] with default parameters. Gene annotation and methylation level calculations were performed using the methylKit package [31 (link)] in R (https://www.r-project.org/). Promoters were defined as regions 2 kb upstream of the transcription start sites. The DMCs were identified as cytosines in the promoter regions whose methylation rate showed a P-value < 0.05, as determined by t-test, and the mean methylation rate difference was ≥ 20%. Similarly, regions that contained at least 10 CpGs within 300 bp and whose average difference in methylation rates was ≥ 20% were extracted as DMRs. The genomic regions rich in acetylated histones K9 and K27 located in the vicinity of the DMRs (± 1 kb) were identified using the Peak Browser of ChIP-Atlas [32 (link)], where the threshold for significance was set to 50 (q-value < 1E-05) and cell type as mouse male germ line (testis, male germ cells, spermatogonia, spermatogenic cells, round spermatids, and spermatids). Pathway analysis using IPA software version 68752261 (QIAGEN, Valencia, CA, USA) was performed for genes containing DMC in the promoter region.
Publication 2023
Cells cytidylyl-3'-5'-guanosine Cytosine DNA Chips DNA Library DNA Methylation Gene Annotation Genes Genome Germ Cells Germ Line Gold Histones hydrogen sulfite Males Methylation Mus Sperm Spermatid Spermatogenesis Spermatogonia Testis Transcription Initiation Site
This retrospective study was approved by the Ethics Committee of The First Ningbo Hospital (2021RS105). A retrospective analysis of 14 cases of primary testicular tumors confirmed by pathology in our hospital from January 2013 to December 2021. Inclusion criteria: (1) confirmed by histopathology; (2) with complete routine ultrasound and CEUS data; (3) age > 50 years. Exclusion criteria: (1) incomplete data: lack of histological and pathological results, incomplete ultrasound images; (2) received non-steroidal anti-inflammatory drugs, radiotherapy, chemotherapy and other immunotherapy; (3) Elevated AFP or HCG. The age ranged from 51 to 67 years old, with an average of (59.6 ± 5.3) years old. According to the pathological results, they were divided into non-germ cell tumor group (lymphoma and Leydig cell tumor) and germ cell tumor group (seminoma and spermatogenic tumor).
Publication 2023
Anti-Inflammatory Agents, Non-Steroidal Ethics Committees, Clinical Immunotherapy Leydig Cell Tumor Lymphoma Neoplasms Pharmacotherapy Radiotherapy Seminoma Spermatogenesis Testicular Neoplasms Tumor, Germ Cell Ultrasonics
PAS staining was used for spermatogenic staging and evaluation of the development of seminiferous tubules. Fresh mice testicular tissues were fixed with modified Davidson’s fluid fixation fluid at room temperature for 48 hr, embedded with paraffin, and sliced into sections. Slides were then dewaxed with xylene at 37°C for 30 min, rehydrated by descending concentrations of ethanol, dyed with PAS (Solarbio, Beijing, China) and hematoxylin in sequence, dehydrated with ascending concentrations of ethanol, and sealed with neutral balsam for observation. Images were taken with a Zeiss Axio Skop plus2 microscope (ZEISS, Oberkochen, Germany).
Publication 2023
Ethanol Hematoxylin Mice, House Microscopy Paraffin Embedding Seminiferous Tubule Spermatogenesis Tissues Xylene
The sections were evaluated according to the following morphological criteria [14 (link)]:

Absence of seminiferous tubules (tubular sclerosis);

Absence of germ cells (Sertoli cell only syndrome);

Maturation arrest – spermatogenesis arrested at different stages (spermatogonia, spermatocytes, or spermatids);

Hypospermatogenesis – all cell types up to spermatozoa are present, but there is a distinct decline in reproducing spermatogonia;

Mixed atrophy can be global (present in all tubules) or focal, with a variable percentage of tubules displaying various stages of qualitatively and quantitatively limited spermatogenesis.

Spermatogenesis was assessed using Johnsen's score. The Johnsen criteria convert the cell profile found along the seminiferous tubules into a ten-point score system for assessing spermatogenesis. Johnsen scores range from 1 to 10, with 1 representing the complete absence of germ cells and 10 representing maximum spermatogenesis activity.
Publication 2023
Atrophy Cells Germ Cells Oligospermia Sclerosis Seminiferous Tubule Sertoli Cell-Only Syndrome Sperm Spermatid Spermatocytes Spermatogenesis Spermatogonia

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TRIzol reagent is a monophasic solution of phenol, guanidine isothiocyanate, and other proprietary components designed for the isolation of total RNA, DNA, and proteins from a variety of biological samples. The reagent maintains the integrity of the RNA while disrupting cells and dissolving cell components.
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Trypan blue is a dye used in cell counting and viability assays. It is a vital stain that selectively colors dead cells blue, while living cells remain unstained. Trypan blue is commonly used to determine the number of viable cells present in a cell suspension.
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The NCr nu/nu is a mouse model that lacks a functional thymus, resulting in a lack of mature T cells. This athymic nude mouse model is commonly used in immunology and oncology research.
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Bouin's solution is a laboratory fixative used for the preservation and staining of biological samples. It contains a mixture of picric acid, formaldehyde, and acetic acid. Bouin's solution is commonly used in histological and cytological procedures to prepare tissue samples for microscopic examination.
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DNase I is a laboratory enzyme that functions to degrade DNA molecules. It catalyzes the hydrolytic cleavage of phosphodiester linkages in the DNA backbone, effectively breaking down DNA strands.

More about "Spermatogenesis"

Spermatogenesis is the complex biological process by which sperm cells are produced in the male testes.
This highly organized series of events involves the division and differentiation of germ cells, ultimately leading to the creation of mature spermatozoa.
This crucial process is essential for male fertility and reproductive function.
Understanding the intricacies of spermatogenesis is vital for researchers investigating male infertility, reproductive disorders, and the development of new contraceptive methods.
Key aspects of this process include the use of Busulfan, a chemotherapeutic agent, to disrupt spermatogenesis, and the application of TRIzol reagent, a commonly used solution for RNA extraction.
Researchers may also utilize DMEM (Dulbecco's Modified Eagle Medium), a nutrient-rich cell culture medium, along with Trypan blue, a dye used to assess cell viability, and DNase I, an enzyme that helps remove DNA contaminants.
Additionally, the NCr nu/nu mouse, a strain with a genetic mutation that results in a lack of thymus and T cells, can be employed in spermatogenesis studies.
To further optimize spermatogenesis research, the use of high-glucose DMEM and fetal bovine serum (FBS) may be beneficial, as these components can provide essential nutrients and growth factors for cell cultures.
Finally, Bouin's solution, a fixative commonly used in histological preparations, can be instrumental in preserving and analyzing the structural components of the testis and the spermatogenic process.
PubCompare.ai offers a powerful AI-driven platform to streamline your spermatogenesis research.
Our intelligent comparisons help you locate the best protocols from literature, preprints, and patents, ensuring reproducibility and accuracy.
Leverage PubCompare.ai to identify the optimal products and procedures for your studies and take your spermatogenesis investigations to the next level.