PXD030417

PXD030417 is an original dataset announced via ProteomeXchange.

Title	Molecular mechanism of Engineered Zymomonas mobilis response to furfural and acetic acid stress
Description	This study investigated the responses of ZM532 and wild-type ZM4 to acetic acid and furfural using genomics, transcriptomics and label free quantitative proteome. By Sanger sequencing technology we re-verified of previously identified 19 mutations in ZM532, but we found a total of 23 single nucleotide polymorphisms (SNPs) in the coding sequence (CDS; 4) and intergenic region (19) in ZM532. Six SNPs were however novel in this study. We also identified a total of 1865 and 14 novel differentially expressed genes (DEGs) in ZM532 and wild-type ZM4. Further we identified 1,532 proteins by label free proteome. These proteins and genes are involved in amino acid biosynthesis, macromolecules repair, glycolysis, flagella assembly, ABC transporter, fermentation, and ATP synthesis pathways and stress response. The exclusively found genes and proteins in ZM532 confirmed and help to unravel the acetic acid and furfural tolerance mechanism between ZM532 and wild-type ZM4. May be these proteins and genes play key roles in ZM532 regulation with strong expressions under acids stress conditions. Furthermore, we knocked-out and overexpressed two differentially expressed genes (DEGs), ZMO_RS02740 up-regulated and ZMO_RS06525 down-regulated to investigate their roles in acetic acid and furfural tolerance. Our knockout and complementary experiments revealed that up-regulated expression gene ZMO RS02740 and the down-regulated expression gene ZMO-RS06525 play important roles in dealing with Furfural and acetic acid stress. ZM532 can be used to substitute ZM4 as a biocatalyst for bioethanol under acetic acid and furfural condition, with a shorter fermentation time and higher productivity.
HostingRepository	PRIDE
AnnounceDate	2024-02-12
AnnouncementXML	Submission_2024-02-12_09:03:51.034.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Xiangxu Gongye
SpeciesList	scientific name: Zymomonas mobilis subsp. mobilis ZM4 = ATCC 31821; NCBI TaxID: 264203;
ModificationList	acetylated residue
Instrument	Thermo Fisher Scientific instrument model

Revision	Datetime	Status	ChangeLog Entry
0	2021-12-15 04:35:16	ID requested
⏵ 1	2024-02-12 09:03:52	announced

10.1186/s12934-023-02095-1;

Shabbir S, Wang W, Nawaz M, Boruah P, Kulyar MF, Chen M, Wu B, Liu P, Dai Y, Sun L, Gou Q, Liu R, Hu G, Younis T, He M, Molecular mechanism of engineered Zymomonas mobilis to furfural and acetic acid stress. Microb Cell Fact, 22(1):88(2023) [pubmed]

submitter keyword: Proteome, Zymomonas mobilis, Lignocellulosic biomass,Acetic acid, Furfural, RNA-Seq

Mingxiong He
contact affiliation	Renmin South Rd. 4-13, Chengdu 610041, China
contact email	hemingxiong@caas.cn
lab head
Xiangxu Gongye
contact affiliation	Chinese Academy of Agricultural Sciences
contact email	gongyexiangxu@caas.cn
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD030417
     1. Label: PRIDE project
     2. Name: Molecular mechanism of Engineered Zymomonas mobilis response to furfural and acetic acid stress