Brix from Xenopus laevis and Brx1p From Yeast Define a New Family of Proteins Involved in the Biogenesis of Large Ribosomal Subunits

Kaser, Alexandra; Bogengruber, Edith; Hallegger, Martina; Doppler, Edith; Lepperdinger, Günter; Jantsch, Michael F.; Breitenbach, Michael; Kreil, Günther

doi:10.1515/bc.2001.199

Cited by 37 publications

(36 citation statements)

References 43 publications

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“…2A). These results are consistent with the nucleolar localization of yeast and mammalian BRX1 (Kaser et al 2001).…”

Section: Resultssupporting

confidence: 89%

Section: Introductionmentioning

confidence: 99%

“…Brx1 belongs to the Imp4 superfamily and was first characterized in Xenopus laevis and yeast, where it was found to interact with rRNA and mutants affected pre-rRNA processing (Kaser et al 2001). 35S, 27SA 2 , and the aberrant 23S prerRNA accumulated after depletion of Brx1 in yeast (Kaser et al 2001). The physical interaction of yeast Brx1 with preribosomes was subsequently confirmed by pull down of the 66S preribosomal particles by TAP-tagged Rrp1 (Horsey et al 2004).…”

Section: Introductionmentioning

confidence: 99%

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atBRX1-1 and atBRX1-2 are involved in an alternative rRNA processing pathway in Arabidopsis thaliana

Weis

Palm

Missbach

et al. 2015

RNA

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Ribosome biogenesis is an essential process in all organisms. In eukaryotes, multiple ribosome biogenesis factors (RBFs) act in the processing of ribosomal (r)RNAs, assembly of ribosomal subunits and their export to the cytoplasm. We characterized two genes in Arabidopsis thaliana coding for orthologs of yeast BRX1, a protein involved in maturation of the large ribosomal subunit. Both atBRX1 proteins, encoded by AT3G15460 and AT1G52930, respectively, are mainly localized in the nucleolus and are ubiquitously expressed throughout plant development and in various tissues. Mutant plant lines for both factors show a delay in development and pointed leaves can be observed in the brx1-2 mutant, implying a link between ribosome biogenesis and plant development. In addition, the pre-rRNA processing is affected in both mutants. Analysis of the pre-rRNA intermediates revealed that early processing steps can occur either in the 5 ′ external transcribed spacer (ETS) or internal transcribed spacer 1 (ITS1). Interestingly, we also find that in xrn2 mutants, early processing events can be bypassed and removal of the 5 ′ ETS is initiated by cleavage at the P ′ processing site. While the pathways of pre-rRNA processing are comparable to those of yeast and mammalian cells, the balance between the two processing pathways is different in plants. Furthermore, plant-specific steps such as an additional processing site in the 5 ′ ETS, likely post-transcriptional processing of the early cleavage sites and accumulation of a 5 ′ extended 5.8S rRNA not observed in other eukaryotes can be detected.

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“…2A). These results are consistent with the nucleolar localization of yeast and mammalian BRX1 (Kaser et al 2001).…”

Section: Resultssupporting

confidence: 89%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

atBRX1-1 and atBRX1-2 are involved in an alternative rRNA processing pathway in Arabidopsis thaliana

Weis

Palm

Missbach

et al. 2015

RNA

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“…The Drosophila melanogaster minifly gene (TC29010 and TC37151) is important for proper cleavage of the primary transcript and for pseudouridylation (42). The Xenopus laevis brix gene (TC28762) is also important for cleavage (43) and fibrillarin (TC39961) is important for methylation (44). Two TCs (TC39281 and TC 39286) encode nucleolin, which has several roles in ribosome biogenesis including preribosome synthesis and the transport of preribosomal particles from the cytoplasm to the nucleus (45).…”

Section: Discussionmentioning

confidence: 99%

Six nonnodulating plant mutants defective for Nod factor-induced transcriptional changes associated with the legume-rhizobia symbiosis

Mitra

Shaw

Long

2004

Proc. Natl. Acad. Sci. U.S.A.

141

104

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As the legume-rhizobia symbiosis is established, the plant recognizes bacterial-signaling molecules, Nod factors (NFs), and initiates transcriptional and developmental changes within the root to allow bacterial invasion and the construction of a novel organ, the nodule. Plant mutants defective in nodule initiation (Nod ؊ ) are thought to have defects in NF-signal transduction. However, it is unknown whether WT plants respond to NF-independent bacterial-derived signals or whether Nod ؊ plant mutants show defects in global symbiosis-associated gene expression. To characterize plant gene expression in the establishment of the symbiosis, we used an Affymetrix oligonucleotide microarray representing 9,935 Medicago truncatula expressed sequences. We identified 46 sequences that are differentially expressed in plants exposed for 24 h to WT Sinorhizobium meliloti or to the invasion defective S. meliloti mutant, exoA. Eight of these genes encode nucleolar proteins, which are implicated in ribosome biogenesis. We also identified differentially expressed transcription factors, signaling components, defense response proteins, stress response proteins, and several previously uncharacterized genes. NF appears both necessary and sufficient to induce most changes. Six of seven Nod ؊ M. truncatula mutants (nfp, dmi1, dmi2, dmi3, nsp1, and nsp2) showed no transcriptional response to S. meliloti, suggesting that the encoded proteins are required for initiating new transcription. The Nod ؊ mutant hcl, however, exhibits a reduced transcriptional response to S. meliloti, indicating that the machinery responsible for initiating new transcription is at least partially functional in this mutant.

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“…BRX1 is predicted to be ''ribosome biogenesis.'' In fact, a very recent experimental study showed that it is involved in ribosomal large subunit assembly (17). YCR013C was predicted to be involved in ''hexose metabolism.''…”

Section: Sp Methods Reveals Functional Relationships Between Genes Witmentioning

confidence: 99%

Transitive functional annotation by shortest-path analysis of gene expression data

Zhou

Kao

Wong

2002

Proc. Natl. Acad. Sci. U.S.A.

289

190

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Current methods for the functional analysis of microarray gene expression data make the implicit assumption that genes with similar expression profiles have similar functions in cells. However, among genes involved in the same biological pathway, not all gene pairs show high expression similarity. Here, we propose that transitive expression similarity among genes can be used as an important attribute to link genes of the same biological pathway. Based on large-scale yeast microarray expression data, we use the shortestpath analysis to identify transitive genes between two given genes from the same biological process. We find that not only functionally related genes with correlated expression profiles are identified but also those without. In the latter case, we compare our method to hierarchical clustering, and show that our method can reveal functional relationships among genes in a more precise manner. Finally, we show that our method can be used to reliably predict the function of unknown genes from known genes lying on the same shortest path. We assigned functions for 146 yeast genes that are considered as unknown by the Saccharomyces Genome Database and by the Yeast Proteome Database. These genes constitute around 5% of the unknown yeast ORFome.

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Brix from Xenopus laevis and Brx1p From Yeast Define a New Family of Proteins Involved in the Biogenesis of Large Ribosomal Subunits

Cited by 37 publications

References 43 publications

atBRX1-1 and atBRX1-2 are involved in an alternative rRNA processing pathway in Arabidopsis thaliana

atBRX1-1 and atBRX1-2 are involved in an alternative rRNA processing pathway in Arabidopsis thaliana

Six nonnodulating plant mutants defective for Nod factor-induced transcriptional changes associated with the legume-rhizobia symbiosis

Transitive functional annotation by shortest-path analysis of gene expression data

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