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Transcriptome Analysis of the different expressed genes affected by ClpP in B. abortus 2308

ABSTRACT: Purpose:To gain insight into the spectrum of Brucella gene affected by the ClpP protease, as well as the genetic basis for the distinctive phenotypic properties exhibited by the clpP mutant strain. Methods: Three B. abortus 2308 and the three clpP mutant were grown in TSB at 37℃ until the log phase was reached, total RNA was isolated using the TRIzol according to the manufacturer’s instructions.The sequencing library of each RNA sample was prepared by using NEB Next Ultra Directional RNA Library Prep Kit for Illumina as recommended by the manufacturer.The HiSeq 4000 platform was used to perform the transcriptome sequencing. Results: In total, 772 genes that exhibited different expression (Fold change>4, and FDR<0.05) were identified in the clpP mutant. In the clpP mutant strain, 376 genes were up-regulated and 396 genes were down-regulated. Conclusions: According to the result of COG analysis, the different expressed genes were mainly involved in Energy production and conversion, Cell wall/membrane/envelope biogenesis, and Carbohydrate transport and metabolism. KEGG pathway analysis demonstrated that the genes exhibited significant difference were primarily enriched in ABC transporters, beta-Lactam resistance, Oxidative phosphorylation, Cationic antimicrobial peptide (CAMP) resistance, Limonene and pinene degradation, Lysine degradation, Valine, leucine and isoleucine degradation, Chloroalkane and chloroalkene degradation, Ascorbate and aldarate metabolism, Tryptophan metabolism, Citrate cycle (TCA cycle), and Histidine metabolism.

ORGANISM(S): Brucella abortus 2308

PROVIDER: GSE126915 | GEO | 2022/02/22

REPOSITORIES: GEO

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Project description:The peptidase ClpP is conserved from bacteria to human. In the mitochondrial matrix, it multimerizes and forms a macromolecular proteasome-like cylinder. Because of its known relevance for the mitochondrial unfolded protein response during cell stress, we characterized two ClpP knock-out mouse founder lines and documented similar phenotypes. Ubiquitously, ClpP absence led to accumulation of its interactor protein ClpX without transcript upregulation. Interestingly, most wild-type tissues with substantial ClpP amounts had no detectable ClpX. This inverse correlation suggests that ClpX levels and degradation are regulated by ClpP. The expectation of similar protein levels, in view of a reported association of heptameric ClpP rings with hexameric ClpX rings, was confirmed only in testis of wild-type animals. Germline tissue was exceptional also in its vulnerability to ClpP deletion, with both founder lines showing complete infertility for males and females. Otherwise, ubiquitous mitochondrial dysfunction was apparent from severe growth retardation and reduced spontaneous motor activity of the animals, and from a pronounced decrease in pre-/postnatal survival. Spermatogenesis was found aborted at the spermatid stage, acrosomes and axonemes were not formed. Overall, tissue-specific roles of ClpP were evident by this massive effect for germ cells, mild bioenergetic deficits in muscle and liver tissues, and excellent compensation in brain. ClpX was previously reported to chaperone unfolded proteins and also DNA condensation in mitochondria, so it is likely that this pathway is particularly susceptible in germ cells. In conclusion, our study indicates that the role of ClpP in quality control is indispensable during development for cells with rapid changes of mitochondrial numbers, and is relevant during aging for growth and survival of the organism. Factorial design comparing ClpP knock-out mice with wild type littermates in five different tissues (brain, testis, liver, skeletal and heart muscle)

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Transcriptome Analysis of the different expressed genes affected by ClpP in B. abortus 2308

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