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Li Z, et al.  (2009) Rational extension of the ribosome biogenesis pathway using network-guided genetics. PLoS Biol 7(10):e1000213

Abstract: Biogenesis of ribosomes is an essential cellular process conserved across all eukaryotes and is known to require >170 genes for the assembly, modification, and trafficking of ribosome components through multiple cellular compartments. Despite intensive study, this pathway likely involves many additional genes. Here, we employ network-guided genetics-an approach for associating candidate genes with biological processes that capitalizes on recent advances in functional genomic and proteomic studies-to computationally identify additional ribosomal biogenesis genes. We experimentally evaluated >100 candidate yeast genes in a battery of assays, confirming involvement of at least 15 new genes, including previously uncharacterized genes (YDL063C, YIL091C, YOR287C, YOR006C/TSR3, YOL022C/TSR4). We associate the new genes with specific aspects of ribosomal subunit maturation, ribosomal particle association, and ribosomal subunit nuclear export, and we identify genes specifically required for the processing of 5S, 7S, 20S, 27S, and 35S rRNAs. These results reveal new connections between ribosome biogenesis and mRNA splicing and add >10% new genes-most with human orthologs-to the biogenesis pathway, significantly extending our understanding of a universally conserved eukaryotic process.

Status: Published Type: Journal Article | Research Support, N.I.H., Extramural | Research Support, Non-U.S. Gov't | Research Support, U.S. Gov't, Non-P.H.S. PubMed ID: 19806183

Topics addressed in this paper

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AAH1 ADE4 AFG2 ASC1 ATG17 AVL9 BCP1 BFR2 BRE5 BUD22
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BUD23 BUD27 CBP2 CKA1 CKB2 CSM1 DED1 DHH1 DIA4 EAP1
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Topics Genes linked to topics (#21 - 30 )
ELA1 ELP2 ELP3 ENO1 ENP2 ESL2 FCF1 FCF2 FUN12 HAS1
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Topics Genes linked to topics (#31 - 40 )
HMO1 JIP5 KRE33 LHP1 LIA1 LSG1 LSM6 LSM7 MHR1 MOG1
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NCL1 NEW1 NOP1 NOP9 NPL3 NRP1 OLA1 OPI11 PIN4 PUF6
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Topics Genes linked to topics (#51 - 60 )
PUS1 RET1 RKM3 RNH70 RPG1 RPL15A RPL8A RPS3 RRP14 RRP17
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Topics Genes linked to topics (#61 - 70 )
RRP36 RTT103 SAC3 SBP1 SCS2 SGD1 SLX9 SNR24 SNU66 SYO1
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Topics Genes linked to topics (#71 - 80 )
TIF34 TIF35 TIF4631 TOM1 TOP1 TRF5 TSR1 TSR3 TSR4 URA7
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Topics Genes linked to topics (#81 - 85 )
UTP25 YDR433W YER077C YER156C YRB2
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