PXD074041

PXD074041 is an original dataset announced via ProteomeXchange.

Title	Mass spectrometry of Pseudococcus longispinus mealybug
Description	Intracellular bacteria in the early stages of host adaptation often show extraordinarily disrupted genomes, where up to half of their ancestral genes are found in a pseudogenized state. The mealybug Pseudococcus longispinus hosts two bacterial endosymbionts with high pseudogene loads, Symbiopectobacterium endolongispinus and Sodalis endolongispinus. Here, we measure the transcriptional and translational responses of these bacterial symbionts to understand how bacteria avoid (or fail to avoid) making large amounts of non-functional RNAs and proteins from these pseudogenes. Consistent with previous work, we show that pseudogenes continue to be transcribed, but at lower levels compared to intact and functional genes. Also consistent with previous work, we show that few pseudogene transcripts are translated into stable proteins. However, we find that numerous pseudogene transcripts still bind to Symbiopectobacterium ribosomes, and uncover a possible role for the tmRNA ribosome rescue system in the targeting of pseudogene proteins for degradation. Our results suggest a possible mechanism by which bacterial endosymbionts remove aberrant pseudogene-derived proteins during the critical time when many pseudogenes have formed but not enough time has passed for sequence evolution to erode ribosome binding sites from pseudogene transcripts.
HostingRepository	PRIDE
AnnounceDate	2026-09-07
AnnouncementXML	Submission_2026-09-07_04:20:08.977.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Arkadiy Garber
SpeciesList	scientific name: Pseudococcus longispinus; NCBI TaxID: NEWT:13233;
ModificationList	No PTMs are included in the dataset
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2026-02-04 01:11:38	ID requested
⏵ 1	2026-09-07 04:20:09	announced

10.1093/molbev/msag153;

Garber AI, Nwachukwu J, Stikeleather R, York C, McCutcheon JP, The transcriptional and translational outcomes for pseudogenes in bacterial endosymbionts. Mol Biol Evol, 43(7):(2026) [pubmed]

submitter keyword: bacteriome,mealybugs, pseudogenes, translation, endosymbionts

John P McCutcheon
contact affiliation	Howard Hughes Medical Institute Center for Mechanisms of Evolution, Biodesign Institute, Arizona State University
contact email	john.mccutcheon@asu.edu
lab head
Arkadiy Garber
contact affiliation	Arizona State University
contact email	rkdgarber@gmail.com
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2026/09/PXD074041

PRIDE project URI

• PRIDE
  1. PXD074041
     1. Label: PRIDE project
     2. Name: Mass spectrometry of Pseudococcus longispinus mealybug