tRNA epitranscriptomics and biased codon are linked to proteome expression in Plasmodium falciparum
Abstract Among components of the translational machinery, ribonucleoside modifications on tRNAs are emerging as critical regulators of cell physiology and stress response. Here, we demonstrate highly coordinated behavior of the repertoire of tRNA modifications of Plasmodium falciparum throughout the...
Ausführliche Beschreibung
Gespeichert in:
| Autor*in: |
Ng, Chee Sheng [verfasserIn] Sinha, Ameya [verfasserIn] Aniweh, Yaw [verfasserIn] Nah, Qianhui [verfasserIn] Babu, Indrakanti Ramesh [verfasserIn] Gu, Chen [verfasserIn] Chionh, Yok Hian [verfasserIn] Dedon, Peter C [verfasserIn] Preiser, Peter R [verfasserIn] |
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| Format: |
E-Artikel |
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| Sprache: |
Englisch |
| Erschienen: |
2018 |
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| Schlagwörter: |
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| Anmerkung: |
© The Author(s) 2018 |
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| Übergeordnetes Werk: |
Enthalten in: Molecular Systems Biology - Nature Publishing Group UK, 2023, 14(2018), 10 vom: 04. Okt. |
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| Übergeordnetes Werk: |
volume:14 ; year:2018 ; number:10 ; day:04 ; month:10 |
| Links: |
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| DOI / URN: |
10.15252/msb.20178009 |
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| Katalog-ID: |
SPR05809265X |
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| 100 | 1 | |a Ng, Chee Sheng |e verfasserin |4 aut | |
| 245 | 1 | 0 | |a tRNA epitranscriptomics and biased codon are linked to proteome expression in Plasmodium falciparum |
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| 520 | |a Abstract Among components of the translational machinery, ribonucleoside modifications on tRNAs are emerging as critical regulators of cell physiology and stress response. Here, we demonstrate highly coordinated behavior of the repertoire of tRNA modifications of Plasmodium falciparum throughout the intra‐erythrocytic developmental cycle (IDC). We observed both a synchronized increase in 22 of 28 modifications from ring to trophozoite stage, consistent with tRNA maturation during translational up‐regulation, and asynchronous changes in six modifications. Quantitative analysis of ~2,100 proteins across the IDC revealed that up‐ and down‐regulated proteins in late but not early stages have a marked codon bias that directly correlates with parallel changes in tRNA modifications and enhanced translational efficiency. We thus propose a model in which tRNA modifications modulate the abundance of stage‐specific proteins by enhancing translation efficiency of codon‐biased transcripts for critical genes. These findings reveal novel epitranscriptomic and translational control mechanisms in the development and pathogenesis of Plasmodium parasites. | ||
| 520 | |a Synopsis Using a LC‐MS/MS based method, we characterize tRNA modifications in P. falciparum. Here we present a model integrating these epitranscriptomic changes and codon‐biased translation based on a quantitative systems‐level analysis of the genome, transcriptome and the proteome across the parasite's asexual lifecycle. Identified 28 modified ribonucleosides in P. falciparum tRNA.iTRAQ‐based quantitative proteomics for 2,100 proteins across Plasmodium IDC.Dynamic reprograming of tRNA modifications for regulating translational activities. | ||
| 520 | |a Graphical Abstract Using a LC‐MS/MS based method, we characterize tRNA modifications in P. falciparum. Here we present a model integrating these epitranscriptomic changes and codon‐biased translation based on a quantitative systems‐level analysis of the genome, transcriptome and the proteome across the parasite's asexual lifecycle. | ||
| 650 | 4 | |a quantitative proteomics |7 (dpeaa)DE-He213 | |
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| 700 | 1 | |a Aniweh, Yaw |e verfasserin |4 aut | |
| 700 | 1 | |a Nah, Qianhui |e verfasserin |4 aut | |
| 700 | 1 | |a Babu, Indrakanti Ramesh |e verfasserin |4 aut | |
| 700 | 1 | |a Gu, Chen |e verfasserin |4 aut | |
| 700 | 1 | |a Chionh, Yok Hian |e verfasserin |4 aut | |
| 700 | 1 | |a Dedon, Peter C |e verfasserin |0 (orcid)0000-0003-0011-3067 |4 aut | |
| 700 | 1 | |a Preiser, Peter R |e verfasserin |0 (orcid)0000-0003-4331-7000 |4 aut | |
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10.15252/msb.20178009 doi (DE-627)SPR05809265X (SPR)msb.20178009-e DE-627 ger DE-627 rakwb eng Ng, Chee Sheng verfasserin aut tRNA epitranscriptomics and biased codon are linked to proteome expression in Plasmodium falciparum 2018 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © The Author(s) 2018 Abstract Among components of the translational machinery, ribonucleoside modifications on tRNAs are emerging as critical regulators of cell physiology and stress response. Here, we demonstrate highly coordinated behavior of the repertoire of tRNA modifications of Plasmodium falciparum throughout the intra‐erythrocytic developmental cycle (IDC). We observed both a synchronized increase in 22 of 28 modifications from ring to trophozoite stage, consistent with tRNA maturation during translational up‐regulation, and asynchronous changes in six modifications. Quantitative analysis of ~2,100 proteins across the IDC revealed that up‐ and down‐regulated proteins in late but not early stages have a marked codon bias that directly correlates with parallel changes in tRNA modifications and enhanced translational efficiency. We thus propose a model in which tRNA modifications modulate the abundance of stage‐specific proteins by enhancing translation efficiency of codon‐biased transcripts for critical genes. These findings reveal novel epitranscriptomic and translational control mechanisms in the development and pathogenesis of Plasmodium parasites. Synopsis Using a LC‐MS/MS based method, we characterize tRNA modifications in P. falciparum. Here we present a model integrating these epitranscriptomic changes and codon‐biased translation based on a quantitative systems‐level analysis of the genome, transcriptome and the proteome across the parasite's asexual lifecycle. Identified 28 modified ribonucleosides in P. falciparum tRNA.iTRAQ‐based quantitative proteomics for 2,100 proteins across Plasmodium IDC.Dynamic reprograming of tRNA modifications for regulating translational activities. Graphical Abstract Using a LC‐MS/MS based method, we characterize tRNA modifications in P. falciparum. Here we present a model integrating these epitranscriptomic changes and codon‐biased translation based on a quantitative systems‐level analysis of the genome, transcriptome and the proteome across the parasite's asexual lifecycle. quantitative proteomics (dpeaa)DE-He213 tRNA modifications (dpeaa)DE-He213 Sinha, Ameya verfasserin (orcid)0000-0001-7959-075X aut Aniweh, Yaw verfasserin aut Nah, Qianhui verfasserin aut Babu, Indrakanti Ramesh verfasserin aut Gu, Chen verfasserin aut Chionh, Yok Hian verfasserin aut Dedon, Peter C verfasserin (orcid)0000-0003-0011-3067 aut Preiser, Peter R verfasserin (orcid)0000-0003-4331-7000 aut Enthalten in Molecular Systems Biology Nature Publishing Group UK, 2023 14(2018), 10 vom: 04. Okt. (DE-627)490536905 (DE-600)2193510-5 1744-4292 nnns volume:14 year:2018 number:10 day:04 month:10 https://dx.doi.org/10.15252/msb.20178009 X:SPRINGER Resolving-System kostenfrei Volltext SYSFLAG_0 GBV_SPRINGER GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_72 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_171 GBV_ILN_206 GBV_ILN_213 GBV_ILN_224 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_636 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2004 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2007 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2026 GBV_ILN_2027 GBV_ILN_2034 GBV_ILN_2037 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2049 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2059 GBV_ILN_2061 GBV_ILN_2064 GBV_ILN_2068 GBV_ILN_2088 GBV_ILN_2093 GBV_ILN_2106 GBV_ILN_2108 GBV_ILN_2110 GBV_ILN_2111 GBV_ILN_2118 GBV_ILN_2122 GBV_ILN_2129 GBV_ILN_2143 GBV_ILN_2144 GBV_ILN_2147 GBV_ILN_2148 GBV_ILN_2152 GBV_ILN_2153 GBV_ILN_2190 GBV_ILN_2232 GBV_ILN_2336 GBV_ILN_2470 GBV_ILN_2507 GBV_ILN_2522 GBV_ILN_2548 GBV_ILN_4012 GBV_ILN_4029 GBV_ILN_4035 GBV_ILN_4037 GBV_ILN_4046 GBV_ILN_4112 GBV_ILN_4116 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4155 GBV_ILN_4242 GBV_ILN_4246 GBV_ILN_4249 GBV_ILN_4251 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4311 GBV_ILN_4313 GBV_ILN_4314 GBV_ILN_4315 GBV_ILN_4318 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4328 GBV_ILN_4333 GBV_ILN_4334 GBV_ILN_4335 GBV_ILN_4336 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4393 GBV_ILN_4598 GBV_ILN_4700 AR 14 2018 10 04 10 |
| spelling |
10.15252/msb.20178009 doi (DE-627)SPR05809265X (SPR)msb.20178009-e DE-627 ger DE-627 rakwb eng Ng, Chee Sheng verfasserin aut tRNA epitranscriptomics and biased codon are linked to proteome expression in Plasmodium falciparum 2018 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © The Author(s) 2018 Abstract Among components of the translational machinery, ribonucleoside modifications on tRNAs are emerging as critical regulators of cell physiology and stress response. Here, we demonstrate highly coordinated behavior of the repertoire of tRNA modifications of Plasmodium falciparum throughout the intra‐erythrocytic developmental cycle (IDC). We observed both a synchronized increase in 22 of 28 modifications from ring to trophozoite stage, consistent with tRNA maturation during translational up‐regulation, and asynchronous changes in six modifications. Quantitative analysis of ~2,100 proteins across the IDC revealed that up‐ and down‐regulated proteins in late but not early stages have a marked codon bias that directly correlates with parallel changes in tRNA modifications and enhanced translational efficiency. We thus propose a model in which tRNA modifications modulate the abundance of stage‐specific proteins by enhancing translation efficiency of codon‐biased transcripts for critical genes. These findings reveal novel epitranscriptomic and translational control mechanisms in the development and pathogenesis of Plasmodium parasites. Synopsis Using a LC‐MS/MS based method, we characterize tRNA modifications in P. falciparum. Here we present a model integrating these epitranscriptomic changes and codon‐biased translation based on a quantitative systems‐level analysis of the genome, transcriptome and the proteome across the parasite's asexual lifecycle. Identified 28 modified ribonucleosides in P. falciparum tRNA.iTRAQ‐based quantitative proteomics for 2,100 proteins across Plasmodium IDC.Dynamic reprograming of tRNA modifications for regulating translational activities. Graphical Abstract Using a LC‐MS/MS based method, we characterize tRNA modifications in P. falciparum. Here we present a model integrating these epitranscriptomic changes and codon‐biased translation based on a quantitative systems‐level analysis of the genome, transcriptome and the proteome across the parasite's asexual lifecycle. quantitative proteomics (dpeaa)DE-He213 tRNA modifications (dpeaa)DE-He213 Sinha, Ameya verfasserin (orcid)0000-0001-7959-075X aut Aniweh, Yaw verfasserin aut Nah, Qianhui verfasserin aut Babu, Indrakanti Ramesh verfasserin aut Gu, Chen verfasserin aut Chionh, Yok Hian verfasserin aut Dedon, Peter C verfasserin (orcid)0000-0003-0011-3067 aut Preiser, Peter R verfasserin (orcid)0000-0003-4331-7000 aut Enthalten in Molecular Systems Biology Nature Publishing Group UK, 2023 14(2018), 10 vom: 04. Okt. (DE-627)490536905 (DE-600)2193510-5 1744-4292 nnns volume:14 year:2018 number:10 day:04 month:10 https://dx.doi.org/10.15252/msb.20178009 X:SPRINGER Resolving-System kostenfrei Volltext SYSFLAG_0 GBV_SPRINGER GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_72 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_171 GBV_ILN_206 GBV_ILN_213 GBV_ILN_224 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_636 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2004 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2007 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2026 GBV_ILN_2027 GBV_ILN_2034 GBV_ILN_2037 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2049 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2059 GBV_ILN_2061 GBV_ILN_2064 GBV_ILN_2068 GBV_ILN_2088 GBV_ILN_2093 GBV_ILN_2106 GBV_ILN_2108 GBV_ILN_2110 GBV_ILN_2111 GBV_ILN_2118 GBV_ILN_2122 GBV_ILN_2129 GBV_ILN_2143 GBV_ILN_2144 GBV_ILN_2147 GBV_ILN_2148 GBV_ILN_2152 GBV_ILN_2153 GBV_ILN_2190 GBV_ILN_2232 GBV_ILN_2336 GBV_ILN_2470 GBV_ILN_2507 GBV_ILN_2522 GBV_ILN_2548 GBV_ILN_4012 GBV_ILN_4029 GBV_ILN_4035 GBV_ILN_4037 GBV_ILN_4046 GBV_ILN_4112 GBV_ILN_4116 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4155 GBV_ILN_4242 GBV_ILN_4246 GBV_ILN_4249 GBV_ILN_4251 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4311 GBV_ILN_4313 GBV_ILN_4314 GBV_ILN_4315 GBV_ILN_4318 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4328 GBV_ILN_4333 GBV_ILN_4334 GBV_ILN_4335 GBV_ILN_4336 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4393 GBV_ILN_4598 GBV_ILN_4700 AR 14 2018 10 04 10 |
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10.15252/msb.20178009 doi (DE-627)SPR05809265X (SPR)msb.20178009-e DE-627 ger DE-627 rakwb eng Ng, Chee Sheng verfasserin aut tRNA epitranscriptomics and biased codon are linked to proteome expression in Plasmodium falciparum 2018 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © The Author(s) 2018 Abstract Among components of the translational machinery, ribonucleoside modifications on tRNAs are emerging as critical regulators of cell physiology and stress response. Here, we demonstrate highly coordinated behavior of the repertoire of tRNA modifications of Plasmodium falciparum throughout the intra‐erythrocytic developmental cycle (IDC). We observed both a synchronized increase in 22 of 28 modifications from ring to trophozoite stage, consistent with tRNA maturation during translational up‐regulation, and asynchronous changes in six modifications. Quantitative analysis of ~2,100 proteins across the IDC revealed that up‐ and down‐regulated proteins in late but not early stages have a marked codon bias that directly correlates with parallel changes in tRNA modifications and enhanced translational efficiency. We thus propose a model in which tRNA modifications modulate the abundance of stage‐specific proteins by enhancing translation efficiency of codon‐biased transcripts for critical genes. These findings reveal novel epitranscriptomic and translational control mechanisms in the development and pathogenesis of Plasmodium parasites. Synopsis Using a LC‐MS/MS based method, we characterize tRNA modifications in P. falciparum. Here we present a model integrating these epitranscriptomic changes and codon‐biased translation based on a quantitative systems‐level analysis of the genome, transcriptome and the proteome across the parasite's asexual lifecycle. Identified 28 modified ribonucleosides in P. falciparum tRNA.iTRAQ‐based quantitative proteomics for 2,100 proteins across Plasmodium IDC.Dynamic reprograming of tRNA modifications for regulating translational activities. Graphical Abstract Using a LC‐MS/MS based method, we characterize tRNA modifications in P. falciparum. Here we present a model integrating these epitranscriptomic changes and codon‐biased translation based on a quantitative systems‐level analysis of the genome, transcriptome and the proteome across the parasite's asexual lifecycle. quantitative proteomics (dpeaa)DE-He213 tRNA modifications (dpeaa)DE-He213 Sinha, Ameya verfasserin (orcid)0000-0001-7959-075X aut Aniweh, Yaw verfasserin aut Nah, Qianhui verfasserin aut Babu, Indrakanti Ramesh verfasserin aut Gu, Chen verfasserin aut Chionh, Yok Hian verfasserin aut Dedon, Peter C verfasserin (orcid)0000-0003-0011-3067 aut Preiser, Peter R verfasserin (orcid)0000-0003-4331-7000 aut Enthalten in Molecular Systems Biology Nature Publishing Group UK, 2023 14(2018), 10 vom: 04. Okt. (DE-627)490536905 (DE-600)2193510-5 1744-4292 nnns volume:14 year:2018 number:10 day:04 month:10 https://dx.doi.org/10.15252/msb.20178009 X:SPRINGER Resolving-System kostenfrei Volltext SYSFLAG_0 GBV_SPRINGER GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_72 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_171 GBV_ILN_206 GBV_ILN_213 GBV_ILN_224 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_636 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2004 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2007 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2026 GBV_ILN_2027 GBV_ILN_2034 GBV_ILN_2037 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2049 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2059 GBV_ILN_2061 GBV_ILN_2064 GBV_ILN_2068 GBV_ILN_2088 GBV_ILN_2093 GBV_ILN_2106 GBV_ILN_2108 GBV_ILN_2110 GBV_ILN_2111 GBV_ILN_2118 GBV_ILN_2122 GBV_ILN_2129 GBV_ILN_2143 GBV_ILN_2144 GBV_ILN_2147 GBV_ILN_2148 GBV_ILN_2152 GBV_ILN_2153 GBV_ILN_2190 GBV_ILN_2232 GBV_ILN_2336 GBV_ILN_2470 GBV_ILN_2507 GBV_ILN_2522 GBV_ILN_2548 GBV_ILN_4012 GBV_ILN_4029 GBV_ILN_4035 GBV_ILN_4037 GBV_ILN_4046 GBV_ILN_4112 GBV_ILN_4116 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4155 GBV_ILN_4242 GBV_ILN_4246 GBV_ILN_4249 GBV_ILN_4251 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4311 GBV_ILN_4313 GBV_ILN_4314 GBV_ILN_4315 GBV_ILN_4318 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4328 GBV_ILN_4333 GBV_ILN_4334 GBV_ILN_4335 GBV_ILN_4336 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4393 GBV_ILN_4598 GBV_ILN_4700 AR 14 2018 10 04 10 |
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10.15252/msb.20178009 doi (DE-627)SPR05809265X (SPR)msb.20178009-e DE-627 ger DE-627 rakwb eng Ng, Chee Sheng verfasserin aut tRNA epitranscriptomics and biased codon are linked to proteome expression in Plasmodium falciparum 2018 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © The Author(s) 2018 Abstract Among components of the translational machinery, ribonucleoside modifications on tRNAs are emerging as critical regulators of cell physiology and stress response. Here, we demonstrate highly coordinated behavior of the repertoire of tRNA modifications of Plasmodium falciparum throughout the intra‐erythrocytic developmental cycle (IDC). We observed both a synchronized increase in 22 of 28 modifications from ring to trophozoite stage, consistent with tRNA maturation during translational up‐regulation, and asynchronous changes in six modifications. Quantitative analysis of ~2,100 proteins across the IDC revealed that up‐ and down‐regulated proteins in late but not early stages have a marked codon bias that directly correlates with parallel changes in tRNA modifications and enhanced translational efficiency. We thus propose a model in which tRNA modifications modulate the abundance of stage‐specific proteins by enhancing translation efficiency of codon‐biased transcripts for critical genes. These findings reveal novel epitranscriptomic and translational control mechanisms in the development and pathogenesis of Plasmodium parasites. Synopsis Using a LC‐MS/MS based method, we characterize tRNA modifications in P. falciparum. Here we present a model integrating these epitranscriptomic changes and codon‐biased translation based on a quantitative systems‐level analysis of the genome, transcriptome and the proteome across the parasite's asexual lifecycle. Identified 28 modified ribonucleosides in P. falciparum tRNA.iTRAQ‐based quantitative proteomics for 2,100 proteins across Plasmodium IDC.Dynamic reprograming of tRNA modifications for regulating translational activities. Graphical Abstract Using a LC‐MS/MS based method, we characterize tRNA modifications in P. falciparum. Here we present a model integrating these epitranscriptomic changes and codon‐biased translation based on a quantitative systems‐level analysis of the genome, transcriptome and the proteome across the parasite's asexual lifecycle. quantitative proteomics (dpeaa)DE-He213 tRNA modifications (dpeaa)DE-He213 Sinha, Ameya verfasserin (orcid)0000-0001-7959-075X aut Aniweh, Yaw verfasserin aut Nah, Qianhui verfasserin aut Babu, Indrakanti Ramesh verfasserin aut Gu, Chen verfasserin aut Chionh, Yok Hian verfasserin aut Dedon, Peter C verfasserin (orcid)0000-0003-0011-3067 aut Preiser, Peter R verfasserin (orcid)0000-0003-4331-7000 aut Enthalten in Molecular Systems Biology Nature Publishing Group UK, 2023 14(2018), 10 vom: 04. Okt. (DE-627)490536905 (DE-600)2193510-5 1744-4292 nnns volume:14 year:2018 number:10 day:04 month:10 https://dx.doi.org/10.15252/msb.20178009 X:SPRINGER Resolving-System kostenfrei Volltext SYSFLAG_0 GBV_SPRINGER GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_72 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_171 GBV_ILN_206 GBV_ILN_213 GBV_ILN_224 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_636 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2004 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2007 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2026 GBV_ILN_2027 GBV_ILN_2034 GBV_ILN_2037 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2049 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2059 GBV_ILN_2061 GBV_ILN_2064 GBV_ILN_2068 GBV_ILN_2088 GBV_ILN_2093 GBV_ILN_2106 GBV_ILN_2108 GBV_ILN_2110 GBV_ILN_2111 GBV_ILN_2118 GBV_ILN_2122 GBV_ILN_2129 GBV_ILN_2143 GBV_ILN_2144 GBV_ILN_2147 GBV_ILN_2148 GBV_ILN_2152 GBV_ILN_2153 GBV_ILN_2190 GBV_ILN_2232 GBV_ILN_2336 GBV_ILN_2470 GBV_ILN_2507 GBV_ILN_2522 GBV_ILN_2548 GBV_ILN_4012 GBV_ILN_4029 GBV_ILN_4035 GBV_ILN_4037 GBV_ILN_4046 GBV_ILN_4112 GBV_ILN_4116 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4155 GBV_ILN_4242 GBV_ILN_4246 GBV_ILN_4249 GBV_ILN_4251 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4311 GBV_ILN_4313 GBV_ILN_4314 GBV_ILN_4315 GBV_ILN_4318 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4328 GBV_ILN_4333 GBV_ILN_4334 GBV_ILN_4335 GBV_ILN_4336 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4393 GBV_ILN_4598 GBV_ILN_4700 AR 14 2018 10 04 10 |
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10.15252/msb.20178009 doi (DE-627)SPR05809265X (SPR)msb.20178009-e DE-627 ger DE-627 rakwb eng Ng, Chee Sheng verfasserin aut tRNA epitranscriptomics and biased codon are linked to proteome expression in Plasmodium falciparum 2018 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © The Author(s) 2018 Abstract Among components of the translational machinery, ribonucleoside modifications on tRNAs are emerging as critical regulators of cell physiology and stress response. Here, we demonstrate highly coordinated behavior of the repertoire of tRNA modifications of Plasmodium falciparum throughout the intra‐erythrocytic developmental cycle (IDC). We observed both a synchronized increase in 22 of 28 modifications from ring to trophozoite stage, consistent with tRNA maturation during translational up‐regulation, and asynchronous changes in six modifications. Quantitative analysis of ~2,100 proteins across the IDC revealed that up‐ and down‐regulated proteins in late but not early stages have a marked codon bias that directly correlates with parallel changes in tRNA modifications and enhanced translational efficiency. We thus propose a model in which tRNA modifications modulate the abundance of stage‐specific proteins by enhancing translation efficiency of codon‐biased transcripts for critical genes. These findings reveal novel epitranscriptomic and translational control mechanisms in the development and pathogenesis of Plasmodium parasites. Synopsis Using a LC‐MS/MS based method, we characterize tRNA modifications in P. falciparum. Here we present a model integrating these epitranscriptomic changes and codon‐biased translation based on a quantitative systems‐level analysis of the genome, transcriptome and the proteome across the parasite's asexual lifecycle. Identified 28 modified ribonucleosides in P. falciparum tRNA.iTRAQ‐based quantitative proteomics for 2,100 proteins across Plasmodium IDC.Dynamic reprograming of tRNA modifications for regulating translational activities. Graphical Abstract Using a LC‐MS/MS based method, we characterize tRNA modifications in P. falciparum. Here we present a model integrating these epitranscriptomic changes and codon‐biased translation based on a quantitative systems‐level analysis of the genome, transcriptome and the proteome across the parasite's asexual lifecycle. quantitative proteomics (dpeaa)DE-He213 tRNA modifications (dpeaa)DE-He213 Sinha, Ameya verfasserin (orcid)0000-0001-7959-075X aut Aniweh, Yaw verfasserin aut Nah, Qianhui verfasserin aut Babu, Indrakanti Ramesh verfasserin aut Gu, Chen verfasserin aut Chionh, Yok Hian verfasserin aut Dedon, Peter C verfasserin (orcid)0000-0003-0011-3067 aut Preiser, Peter R verfasserin (orcid)0000-0003-4331-7000 aut Enthalten in Molecular Systems Biology Nature Publishing Group UK, 2023 14(2018), 10 vom: 04. Okt. (DE-627)490536905 (DE-600)2193510-5 1744-4292 nnns volume:14 year:2018 number:10 day:04 month:10 https://dx.doi.org/10.15252/msb.20178009 X:SPRINGER Resolving-System kostenfrei Volltext SYSFLAG_0 GBV_SPRINGER GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_72 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_171 GBV_ILN_206 GBV_ILN_213 GBV_ILN_224 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_636 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2004 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2007 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2026 GBV_ILN_2027 GBV_ILN_2034 GBV_ILN_2037 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2049 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2059 GBV_ILN_2061 GBV_ILN_2064 GBV_ILN_2068 GBV_ILN_2088 GBV_ILN_2093 GBV_ILN_2106 GBV_ILN_2108 GBV_ILN_2110 GBV_ILN_2111 GBV_ILN_2118 GBV_ILN_2122 GBV_ILN_2129 GBV_ILN_2143 GBV_ILN_2144 GBV_ILN_2147 GBV_ILN_2148 GBV_ILN_2152 GBV_ILN_2153 GBV_ILN_2190 GBV_ILN_2232 GBV_ILN_2336 GBV_ILN_2470 GBV_ILN_2507 GBV_ILN_2522 GBV_ILN_2548 GBV_ILN_4012 GBV_ILN_4029 GBV_ILN_4035 GBV_ILN_4037 GBV_ILN_4046 GBV_ILN_4112 GBV_ILN_4116 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4155 GBV_ILN_4242 GBV_ILN_4246 GBV_ILN_4249 GBV_ILN_4251 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4311 GBV_ILN_4313 GBV_ILN_4314 GBV_ILN_4315 GBV_ILN_4318 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4326 GBV_ILN_4328 GBV_ILN_4333 GBV_ILN_4334 GBV_ILN_4335 GBV_ILN_4336 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4393 GBV_ILN_4598 GBV_ILN_4700 AR 14 2018 10 04 10 |
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Enthalten in Molecular Systems Biology 14(2018), 10 vom: 04. Okt. volume:14 year:2018 number:10 day:04 month:10 |
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Ng, Chee Sheng @@aut@@ Sinha, Ameya @@aut@@ Aniweh, Yaw @@aut@@ Nah, Qianhui @@aut@@ Babu, Indrakanti Ramesh @@aut@@ Gu, Chen @@aut@@ Chionh, Yok Hian @@aut@@ Dedon, Peter C @@aut@@ Preiser, Peter R @@aut@@ |
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Here, we demonstrate highly coordinated behavior of the repertoire of tRNA modifications of Plasmodium falciparum throughout the intra‐erythrocytic developmental cycle (IDC). We observed both a synchronized increase in 22 of 28 modifications from ring to trophozoite stage, consistent with tRNA maturation during translational up‐regulation, and asynchronous changes in six modifications. Quantitative analysis of ~2,100 proteins across the IDC revealed that up‐ and down‐regulated proteins in late but not early stages have a marked codon bias that directly correlates with parallel changes in tRNA modifications and enhanced translational efficiency. We thus propose a model in which tRNA modifications modulate the abundance of stage‐specific proteins by enhancing translation efficiency of codon‐biased transcripts for critical genes. 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Ng, Chee Sheng |
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Ng, Chee Sheng misc quantitative proteomics misc tRNA modifications tRNA epitranscriptomics and biased codon are linked to proteome expression in Plasmodium falciparum |
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tRNA epitranscriptomics and biased codon are linked to proteome expression in Plasmodium falciparum quantitative proteomics (dpeaa)DE-He213 tRNA modifications (dpeaa)DE-He213 |
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tRNA epitranscriptomics and biased codon are linked to proteome expression in Plasmodium falciparum |
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tRNA epitranscriptomics and biased codon are linked to proteome expression in Plasmodium falciparum |
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Ng, Chee Sheng Sinha, Ameya Aniweh, Yaw Nah, Qianhui Babu, Indrakanti Ramesh Gu, Chen Chionh, Yok Hian Dedon, Peter C Preiser, Peter R |
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trna epitranscriptomics and biased codon are linked to proteome expression in plasmodium falciparum |
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tRNA epitranscriptomics and biased codon are linked to proteome expression in Plasmodium falciparum |
| abstract |
Abstract Among components of the translational machinery, ribonucleoside modifications on tRNAs are emerging as critical regulators of cell physiology and stress response. Here, we demonstrate highly coordinated behavior of the repertoire of tRNA modifications of Plasmodium falciparum throughout the intra‐erythrocytic developmental cycle (IDC). We observed both a synchronized increase in 22 of 28 modifications from ring to trophozoite stage, consistent with tRNA maturation during translational up‐regulation, and asynchronous changes in six modifications. Quantitative analysis of ~2,100 proteins across the IDC revealed that up‐ and down‐regulated proteins in late but not early stages have a marked codon bias that directly correlates with parallel changes in tRNA modifications and enhanced translational efficiency. We thus propose a model in which tRNA modifications modulate the abundance of stage‐specific proteins by enhancing translation efficiency of codon‐biased transcripts for critical genes. These findings reveal novel epitranscriptomic and translational control mechanisms in the development and pathogenesis of Plasmodium parasites. Synopsis Using a LC‐MS/MS based method, we characterize tRNA modifications in P. falciparum. Here we present a model integrating these epitranscriptomic changes and codon‐biased translation based on a quantitative systems‐level analysis of the genome, transcriptome and the proteome across the parasite's asexual lifecycle. Identified 28 modified ribonucleosides in P. falciparum tRNA.iTRAQ‐based quantitative proteomics for 2,100 proteins across Plasmodium IDC.Dynamic reprograming of tRNA modifications for regulating translational activities. Graphical Abstract Using a LC‐MS/MS based method, we characterize tRNA modifications in P. falciparum. Here we present a model integrating these epitranscriptomic changes and codon‐biased translation based on a quantitative systems‐level analysis of the genome, transcriptome and the proteome across the parasite's asexual lifecycle. © The Author(s) 2018 |
| abstractGer |
Abstract Among components of the translational machinery, ribonucleoside modifications on tRNAs are emerging as critical regulators of cell physiology and stress response. Here, we demonstrate highly coordinated behavior of the repertoire of tRNA modifications of Plasmodium falciparum throughout the intra‐erythrocytic developmental cycle (IDC). We observed both a synchronized increase in 22 of 28 modifications from ring to trophozoite stage, consistent with tRNA maturation during translational up‐regulation, and asynchronous changes in six modifications. Quantitative analysis of ~2,100 proteins across the IDC revealed that up‐ and down‐regulated proteins in late but not early stages have a marked codon bias that directly correlates with parallel changes in tRNA modifications and enhanced translational efficiency. We thus propose a model in which tRNA modifications modulate the abundance of stage‐specific proteins by enhancing translation efficiency of codon‐biased transcripts for critical genes. These findings reveal novel epitranscriptomic and translational control mechanisms in the development and pathogenesis of Plasmodium parasites. Synopsis Using a LC‐MS/MS based method, we characterize tRNA modifications in P. falciparum. Here we present a model integrating these epitranscriptomic changes and codon‐biased translation based on a quantitative systems‐level analysis of the genome, transcriptome and the proteome across the parasite's asexual lifecycle. Identified 28 modified ribonucleosides in P. falciparum tRNA.iTRAQ‐based quantitative proteomics for 2,100 proteins across Plasmodium IDC.Dynamic reprograming of tRNA modifications for regulating translational activities. Graphical Abstract Using a LC‐MS/MS based method, we characterize tRNA modifications in P. falciparum. Here we present a model integrating these epitranscriptomic changes and codon‐biased translation based on a quantitative systems‐level analysis of the genome, transcriptome and the proteome across the parasite's asexual lifecycle. © The Author(s) 2018 |
| abstract_unstemmed |
Abstract Among components of the translational machinery, ribonucleoside modifications on tRNAs are emerging as critical regulators of cell physiology and stress response. Here, we demonstrate highly coordinated behavior of the repertoire of tRNA modifications of Plasmodium falciparum throughout the intra‐erythrocytic developmental cycle (IDC). We observed both a synchronized increase in 22 of 28 modifications from ring to trophozoite stage, consistent with tRNA maturation during translational up‐regulation, and asynchronous changes in six modifications. Quantitative analysis of ~2,100 proteins across the IDC revealed that up‐ and down‐regulated proteins in late but not early stages have a marked codon bias that directly correlates with parallel changes in tRNA modifications and enhanced translational efficiency. We thus propose a model in which tRNA modifications modulate the abundance of stage‐specific proteins by enhancing translation efficiency of codon‐biased transcripts for critical genes. These findings reveal novel epitranscriptomic and translational control mechanisms in the development and pathogenesis of Plasmodium parasites. Synopsis Using a LC‐MS/MS based method, we characterize tRNA modifications in P. falciparum. Here we present a model integrating these epitranscriptomic changes and codon‐biased translation based on a quantitative systems‐level analysis of the genome, transcriptome and the proteome across the parasite's asexual lifecycle. Identified 28 modified ribonucleosides in P. falciparum tRNA.iTRAQ‐based quantitative proteomics for 2,100 proteins across Plasmodium IDC.Dynamic reprograming of tRNA modifications for regulating translational activities. Graphical Abstract Using a LC‐MS/MS based method, we characterize tRNA modifications in P. falciparum. Here we present a model integrating these epitranscriptomic changes and codon‐biased translation based on a quantitative systems‐level analysis of the genome, transcriptome and the proteome across the parasite's asexual lifecycle. © The Author(s) 2018 |
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tRNA epitranscriptomics and biased codon are linked to proteome expression in Plasmodium falciparum |
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https://dx.doi.org/10.15252/msb.20178009 |
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Sinha, Ameya Aniweh, Yaw Nah, Qianhui Babu, Indrakanti Ramesh Gu, Chen Chionh, Yok Hian Dedon, Peter C Preiser, Peter R |
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Sinha, Ameya Aniweh, Yaw Nah, Qianhui Babu, Indrakanti Ramesh Gu, Chen Chionh, Yok Hian Dedon, Peter C Preiser, Peter R |
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2024-10-25T04:56:16.131Z |
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| score |
7.399081 |