Understanding sperm storage tubule function throughout the laying cycle, especially with regards to sperm preservation may allow for the development of industry-based protocols for semen storage and cryopreservation that mimic the sperm preservation capabilities of SST and improve fertility.Īrtificial insemination sperm motility sperm storage sperm storage tubule transcriptome.Ĭopyright © 2022. Upstream analysis identified potential regulatory roles for 18 upstream regulators that could modulate sperm storage tubule function, including suppression of sperm motility. Additionally, potential pathways were identified that could be involved with suppressing sperm motility while sperm reside within the SST. Through functional annotation of differentially expressed genes during early, peak, and late egg production, novel insights regarding the role of innate and acquired immune response to sperm, lipid synthesis and transfer, steroid hormone signalling, cytoskeletal reorganization, and regulation of ion homeostasis in SST were obtained. The reference sequences in the SAM/BAM file and. using CLC Genomics Workbench (mapping to the human hg38 genome with. To import mapping data from a SAM or BAM file you need to already have the reference sequences in the Workbench. A total of 2,340 differentially expressed genes were subjected to pathway analysis through Ingenuity Pathway Analysis (IPA). 2013) or Takara Bios SMART-Seq v4 Ultra Low Input RNA Kit for Sequencing (SSv4). Read mapping and differential expression analysis were performed using CLC Genomics Workbench. This workshop would provide a brief overview of HSLS-licensed CLC Genomics Workbench, a comprehensive analysis package for genomics, transcriptomics, and. RNA sequencing was performed on sperm storage tubules isolated from the epithelium of the uterovaginal junction (UVJ) from hens at d 1, 7, 30, 60, and 90 postinsemination (n = 4 per timepoint). Note - these workflows are 'Research Use Only' (RUO), and may need to modified to fit upstream protocols. The molecular and physiological mechanisms behind sperm storage tubule differentiation, sperm protection, and regression remain largely unknown, but most likely have potential implications for substantially improving hen fertility, sperm storage, and semen cryopreservation in commercial poultry species. CLCbio Genomics Workbench QIAGEN has released example workflows and tutorials for analyzing Illumina and Oxford Nanopore SARS-CoV-2 sequence data using CLC Genomics Workbench v20.0.3. Graph and table of background distribution and the false discovery rateĬlick the Here to learn more about CLCBio ( storage tubules (SST) are specialized invaginations of the oviductal epithelium that permit avian species to store spermatozoa for extended periods of time, without compromising sperm fertilization capacity.The purpose of the tutorial is to help you get acquainted with the CLC Genomics Workbench RNA-seq tool. If you are using an older version of CLC Genomics Workbench, you should in stead choose to use the 'RNA-Seq Analysis (Legacy)' tutorial series. Import the data by going to: FileImport ( )Standard Import ( ) 4. used with CLC Genomics Workbench 7.0 or later versions. Download the sample data from our web site: testdata/chrM-tutorial-data.zip. Chromatin immunoprecipitation sequencing (ChIP-seq) analysis First, we need to download and import the data, which will be used for configuring and runningthe workflows.RNA-seq including support for paired data and transcript-level expression.Support for multiplexing with DNA barcoding. It houses tools for molecular biology and next generation sequencing (NGS) analysis (see Listing of Analysis Functions below).
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