PXD013642-1

PXD013642 is an original dataset announced via ProteomeXchange.

Title	Proteomic analysis of Rhizobium favelukesii LPU83 in response to acid stress.
Description	Acid soils constitute a severe problem for leguminous crops mainly through a disturbance in rhizobia-legume interactions. Rhizobium favelukesii—an acid-tolerant rhizobium able to nodulate alfalfa—is highly competitive for nodule occupation under acid conditions, but inefficient in biologic nitrogen fixation. In this work, we obtained a general description of the acid-stress response of R. favelukesii LPU83 by means of proteomics by comparing the total proteome profiles in the presence or absence of acid stress by nanoflow ultrahigh-performance liquid chromatography coupled to mass spectrometry. Thus, a total of 336 proteins were identified with a significant differential expression, 136 of which species were significantly overexpressed and 200 underexpressed in acidity. An in-silico functional characterization with those respective proteins revealed a complex and pleiotropic response by these rhizobia involving components of oxidative phosphorylation, glutamate metabolism, and peptidoglycan biosynthesis, among other pathways. Furthermore, a lower permeability was evidenced in the acid-stressed cells along with several overexpressed proteins related to γ-aminobutyric-acid metabolism, such as the gene product of livK, which was mutated. This mutant exhibited an acid-sensitive phenotype in agreement with the proteomics results. We conclude that both γ-aminobutyric-acid metabolism and a modified cellular envelope could be relevant to acid tolerance in R. favelukesii.
HostingRepository	PRIDE
AnnounceDate	2022-04-08
AnnouncementXML	Submission_2022-04-08_13:44:32.795.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Juliet Nilsson
SpeciesList	scientific name: Rhizobium favelukesii; NCBI TaxID: 348824;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2019-04-26 01:40:10	ID requested
⏵ 1	2022-04-08 13:44:33	announced
2	2024-10-22 05:35:55	announced	2024-10-22: Updated project metadata.

Nilsson JF, Castellani LG, Draghi WO, P, é, rez-Gim, é, nez J, Torres Tejerizo GA, Pistorio M, LPU83 in Response to Acid Stress. J Proteome Res, 18(10):3615-3629(2019) [pubmed]

submitter keyword: Acid-stress rhizobia proteomics

Mariano Pistorio
contact affiliation	Instituto de Biotecnología y Biología Molecular. Departamento de Ciencias Biologicas, Facultad de Ciencias Exactas, Universidad Nacional de La Plata. CONICET.
contact email	pistorio@biol.unlp.edu.ar
lab head
Juliet Nilsson
contact affiliation	Instituto de Biotecnologia y Biologia Molecular (IBBM) -CCT La Plata CONICET- Fac. de Cs. Exactas, UNLP.
contact email	julietnilsson@gmail.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD013642
     1. Label: PRIDE project
     2. Name: Proteomic analysis of Rhizobium favelukesii LPU83 in response to acid stress.