MassIVE MSV000100270

Partial Public PXD072133

Atlantic herring oocyte and sperm proteomes

Subscribe Comment Convert Spectra Add Reanalysis

Description

As part of a major genomic study of the evolution of Atlantic herring (Clupea harengus), deep proteomes were obtained from the oocytes and sperm of herring. Three biological replicates of each tissue were used. The proteins were extracted and fractionated using basic reversed-phase (bRP) chromatography. Twelve fractions from each replicate were analyzed using LC-MS/MS. Mass spectrometry data were acquired in data-dependent acquisition (DDA) mode using an Orbitrap Exploris 480 instrument. The raw data were processed and searched using MaxQuant. Protein identification was performed using a reference proteome database of Clupea harengus supplemented with sequences of three additional LRRC8C2 alleles. LRRC8C2 is a sperm-specific volume-regulated ion channel that is the focus of a major evolutionary study. As a result, more than 4,000 and 6,000 protein groups were identified in sperm and oocytes, respectively. The Baltic North allele of LRRC8C2 was unambiguously expressed. [doi:10.25345/C5MW28T6S] [dataset license: CC0 1.0 Universal (CC0 1.0)]

Keywords: Atlantic herring, oocyte, sperm, data dependent acquisition, label-free quantitation, LRRC8C ; DatasetType:Proteomics

Contact

Principal Investigators:
(in alphabetical order) 		Prof. Henning Urlaub, Max Planck Institute for Multidisciplinary Sciences, Germany
Submitting User: sergey_moshkovskiy

Publications

Ma C, Sangdehi FM, Kawaguchi M, Sano K, Dannenberg SV, Pettersson ME, Wallberg A, Wort JL, Yan Y, Moshkovskii S, Berg F, Folkvord A, Lenz C, Urlaub H, Kaupp UB, Yasumasu S, Andersson L.
Sperm, egg, and embryo proteins critical for genetic adaptation of herring to low salinity in the Baltic Sea.
Proc Natl Acad Sci U S A. 2026 May 19;123(20):e2601861123. Epub 2026 May 11.

Number of Files:
Total Size:
Spectra:
Subscribers:
 
Owner Reanalyses
Experimental Design
    Conditions:
    Biological Replicates:
    Technical Replicates:
 
Identification Results
    Proteins (Human, Remapped):
    Proteins (Reported):
    Peptides:
    Variant Peptides:
    PSMs:
 
Quantification Results
    Differential Proteins:
    Quantified Proteins:
 
Browse Dataset Files
 
FTP Download Link (click to copy):

Species

Instrument

Modifications

- Dataset Reanalyses

+ Dataset History

Click here to queue conversion of this dataset's submitted spectrum files to open formats (e.g. mzML). This process may take some time.

When complete, the converted files will be available in the "ccms_peak" subdirectory of the dataset's FTP space (accessible via the "FTP Download" link to the right).
Number of distinct conditions across all analyses (original submission and reanalyses) associated with this dataset.

Distinct condition labels are counted across all files submitted in the "Metadata" category having a "Condition" column in this dataset.

"N/A" means no results of this type were submitted.
Number of distinct biological replicates across all analyses (original submission and reanalyses) associated with this dataset.

Distinct replicate labels are counted across all files submitted in the "Metadata" category having a "BioReplicate" or "Replicate" column in this dataset.

"N/A" means no results of this type were submitted.
Number of distinct technical replicates across all analyses (original submission and reanalyses) associated with this dataset.

The technical replicate count is defined as the maximum number of times any one distinct combination of condition and biological replicate was analyzed across all files submitted in the "Metadata" category. In the case of fractionated experiments, only the first fraction is considered.

"N/A" means no results of this type were submitted.
Originally identified proteins that were automatically remapped by MassIVE to proteins in the SwissProt human reference database.

"N/A" means no results of this type were submitted.
Number of distinct protein accessions reported across all analyses (original submission and reanalyses) associated with this dataset.

"N/A" means no results of this type were submitted.
Number of distinct unmodified peptide sequences reported across all analyses (original submission and reanalyses) associated with this dataset.

"N/A" means no results of this type were submitted.
Number of distinct peptide sequences (including modified variants or peptidoforms) reported across all analyses (original submission and reanalyses) associated with this dataset.

"N/A" means no results of this type were submitted.
Total number of peptide-spectrum matches (i.e. spectrum identifications) reported across all analyses (original submission and reanalyses) associated with this dataset.

"N/A" means no results of this type were submitted.
Number of distinct proteins quantified across all analyses (original submission and reanalyses) associated with this dataset.

Distinct protein accessions are counted across all files submitted in the "Statistical Analysis of Quantified Analytes" category having a "Protein" column in this dataset.

"N/A" means no results of this type were submitted.
Number of distinct proteins found to be differentially abundant in at least one comparison across all analyses (original submission and reanalyses) associated with this dataset.

A protein is differentially abundant if its change in abundance across conditions is found to be statistically significant with an adjusted p-value <= 0.05 and lists no issues associated with statistical tests for differential abundance.

Distinct protein accessions are counted across all files submitted in the "Statistical Analysis of Quantified Analytes" category having a "Protein" column in this dataset.

"N/A" means no results of this type were submitted.
This dataset may not contain all raw spectra data as originally deposited in PRIDE. It has been imported to MassIVE for reanalysis purposes, so its spectra data here may consist solely of processed peak lists suitable for reanalysis with most software.