PXD059803-1

PXD059803 is an original dataset announced via ProteomeXchange.

Title	Genetic analysis of arabidopsis autophagy-related 8 family proteins reveals their redundant and regulatory roles in plant autophagy
Description	Autophagy, a critical process for the vacuolar degradation of proteins and organelles, is governed by multiple conserved autophagy-related (ATG) proteins. The central component of the ATG machinery is the ubiquitin-like protein ATG8, which is essential for multiple steps of the autophagy process, including phagophore expansion, autophagosome closure, trafficking and fusion with the lysosome/vacuole, and selective cargo recruitment. Currently, our understanding of the roles of ATG8 in plant autophagy and the functional specialization of ATG8 family members is limited due to genetic redundancy. To assess the roles of ATG8 genes in plant autophagy, here we used CRISPR/Cas9 technology to systematically knockout the Arabidopsis ATG8 genes. By analyzing the atg8 mutants, we found that in contrast to mammalian ATG8s, in which the LC3s and GABARAP subfamilies play distinct roles in the autophagic process, Arabidopsis ATG8s perform an overlapping function in controlling autophagic flux. Combinatorial mutations of Clade I and Clade II ATG8s resulted in severely impaired autophagy under nutrient-starved conditions. Furthermore, we found that RABG3 proteins, members of the RAB7/RABG GTPase family, interact with ATG8s through AIM-LDS interfaces, and that such interaction is essential for the association of RABG3 proteins with the autophagosomal membrane and probably for the fusion of autophagosome with the vacuole, but is not required for endosomal trafficking. With the collection of multiple high-order atg8 mutants generated in this study, we now provide a venue to study the roles of ATG8 genes in canonical autophagy and non-canonical autophagy in Arabidopsis.
HostingRepository	PRIDE
AnnounceDate	2025-01-16
AnnouncementXML	Submission_2025-01-15_16:59:49.601.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD059803
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Kuo-En Chen
SpeciesList	scientific name: Arabidopsis thaliana (Mouse-ear cress); NCBI TaxID: 3702;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2025-01-14 21:17:24	ID requested
⏵ 1	2025-01-15 16:59:49	announced

10.6019/PXD059803;

submitter keyword: Autophagy

ATG8

Rab GTPase

autophagosome-vacuole fusion

AIM

LDS

Nutrient recycling

Vacuole.

Richard D.
contact affiliation	Department of Biology,Washington University in St. Louis
contact email	rdvierstra@gmail.com
lab head
Kuo-En Chen
contact affiliation	Department of Biology, Washington University in St. Louis
contact email	kuo-en@wustl.edu
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/2025/01/PXD059803

PRIDE project URI

• PRIDE
  1. PXD059803
     1. Label: PRIDE project
     2. Name: Genetic analysis of arabidopsis autophagy-related 8 family proteins reveals their redundant and regulatory roles in plant autophagy