PXD044152

PXD044152 is an original dataset announced via ProteomeXchange.

Title	Effect of diet and association with fertility outcomes in semen proteome and transcriptome from wild and captive Black-footed ferrets
Description	The black-footed ferret (Mustela nigripes) is a star example of the efforts of conservation programs in bringing endangered species back from the brink of extinction. As one of the world’s most endangered mammals, the vast majority of black-footed ferrets living in the wild today are the offspring of a founding captive population. The success of this ongoing breeding program, however, is threatened by inbreeding depression and the observed decline in pregnancy rates since its founding. As the wild and modern captive populations share a genetic history, the greatest difference between the two groups is the captive environment of the breeding program. In this study, we used RNA sequencing and proteomics for the first time in black-footed ferrets to explore whether the diet of wild ferrets versus captive diet variants could explain the differences in fertility and sperm characteristics observed between each population. We find that changes in both the transcriptional and proteomic profile of black-footed ferret ejaculate are strongly associated with differences in fertility, especially in pathways associated with innate immunity and metabolism; that transcriptional changes are further exacerbated by diet. Overall, our results support the hypothesis of ongoing environmental-dependent inbreeding depression in the black-footed ferret, with a need to re-evaluate dietary and environmental parameters of the conservation program; and also illustrates the value of multi-level genomics for conservation management programs.
HostingRepository	PRIDE
AnnounceDate	2024-10-08
AnnouncementXML	Submission_2024-10-08_11:39:04.289.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Juan Vazquez
SpeciesList	scientific name: Mustela nigripes; NCBI TaxID: 77151;
ModificationList	phosphorylated residue
Instrument	6220 Time-of-Flight LC/MS; MALDI Synapt MS; Synapt MS; Q Exactive HF; LCQ Classic; TripleTOF 5600; 6410 Triple Quadrupole LC/MS; Q Exactive; LTQ Orbitrap; 4800 Proteomics Analyzer; 6340 Ion Trap LC/MS; Orbitrap Fusion Lumos; LTQ; Orbitrap Exploris 480; LTQ Orbitrap Velos; Q TRAP; Q-Tof Ultima; maXis; LTQ FT; autoflex; ultraflex; QSTAR; 4700 Proteomics Analyzer; Orbitrap Fusion; 6520A Quadrupole Time-of-Flight LC/MS; LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2023-07-27 11:38:29	ID requested
⏵ 1	2024-10-08 11:39:04	announced

Dataset with its publication pending

submitter keyword: black-footed ferret, fertility,conservation, diet, genomics

Juan Manuel Vazquez
contact affiliation	Department of Integrative Biology, University of California Berkeley
contact email	aging@berkeley.edu
lab head
Juan Vazquez
contact affiliation	Department of Integrative Biology University of California, Berkeley
contact email	aging@berkeley.edu
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD044152
     1. Label: PRIDE project
     2. Name: Effect of diet and association with fertility outcomes in semen proteome and transcriptome from wild and captive Black-footed ferrets