Details of the experimenal sources:
 

Source IDDescription
28Analysis of lumenal and peripheral thylakoid proteome from A. thaliana chloroplasts extracted with Na2CO3, followed by isoelectric focussing (IPG strips) and 1-D SDS PAGE, in gel digestion and MALDI-TOF MS (Voyager DE-STR) (Voyager DE-STR) peptide mass finger printing and/or nanoLC-ESI-MS/MS (Q-TOF) (Q-TOF). Alll data were published in Friso et al (2004) Plant Cell 16, 478-499
30Analysis of lumenal and peripheral thylakoid proteome from A. thaliana chloroplasts extracted with Na2CO3, followed by isoelectric focussing (IPG strips) and 1-D SDS PAGE, in gel digestion and MALDI-TOF MS (Voyager DE-STR) (Voyager DE-STR) peptide mass finger printing and/or nanoLC-ESI-MS/MS (Q-TOF) (Q-TOF). Alll data were published in Peltier et al (2002) Plant Cell 14, 211-236
31Analysis of lumenal and peripheral thylakoid proteome from A. thaliana chloroplasts extracted with Triton X114 and phase separation, collecting the upper phase, followed by isoelectric focussing (IPG strips) and 1-D SDS PAGE, in gel digestion and MALDI-TOF MS (Voyager DE-STR) (Voyager DE-STR) peptide mass finger printing and/or nanoLC-ESI-MS/MS (Q-TOF) (Q-TOF). Alll data were published in Friso et al (2004) Plant Cell 16, 478-499
36Analysis of stripped thylakoid membrane proteome from A. thaliana chloroplasts. The membrane proteome was fractionationated using sequential extraction with Acetone/Chloroform/Methanol, followed by 1-D SDS PAGE, in gel digestion and nanoLC-ESI-MS/MS (Q-TOF). This is fromthe proteome soluble in C/M (1:1). Alll data were published in Friso et al (2004) Plant Cell 16, 478-499
39Analysis of stripped thylakoid membrane proteome from A. thaliana chloroplasts. The membrane proteome was fractionationated using sequential extraction with Acetone/Chloroform/Methanol, followed by 1-D SDS PAGE, in gel digestion and nanoLC-ESI-MS/MS (Q-TOF). This is fromthe proteome soluble in C/M (1:1). Alll data were published in Friso et al (2004) Plant Cell 16, 478-499
44Analysis of stripped thylakoid membrane proteome from A. thaliana chloroplasts. The membrane proteome was fractionationated using sequential extraction with Acetone/Chloroform/Methanol, followed by 1-D SDS PAGE, in gel digestion by acid hydrolysis, trypsin or chemotrypsin and nanoLC-ESI-MS/MS (Q-TOF). This sample is the acetone extracted proteome. Alll data were published in Friso et al (2004) Plant Cell 16, 478-499
45Analysis of stripped thylakoid membrane proteome from A. thaliana chloroplasts. The membrane proteome was fractionationated using sequential extraction with Acetone/Chloroform/Methanol, followed by 1-D SDS PAGE, in gel digestion and nanoLC-ESI-MS/MS (Q-TOF). This is from the lower phase of extraction with C/M (9:1). Alll data were published in Friso et al (2004) Plant Cell 16, 478-499
46Analysis of stripped thylakoid membrane proteome from A. thaliana chloroplasts. The membrane proteome was fractionationated using sequential extraction with Acetone/Chloroform/Methanol, followed by 1-D SDS PAGE, in gel digestion and nanoLC-ESI-MS/MS (Q-TOF). This is from the upper phase of extraction with C/M (9:1). Alll data were published in Friso et al (2004) Plant Cell 16, 478-499
47Analysis of stripped thylakoid membrane proteome from A. thaliana chloroplasts. The membrane proteome was fractionationated using sequential extraction with Acetone/Chloroform/Methanol, followed by 1-D SDS PAGE, in gel digestion and nanoLC-ESI-MS/MS (Q-TOF). This is from proteins extracted and soluble in C/M (1:1). Alll data were published in Friso et al (2004) Plant Cell 16, 478-499
48Analysis of stripped thylakoid membrane proteome from A. thaliana chloroplasts. The membrane proteome was fractionationated using sequential extraction with Acetone/Chloroform/Methanol, followed by 1-D SDS PAGE, in gel digestion and nanoLC-ESI-MS/MS (Q-TOF). This is from the insoluble pellet of C/M (1:1). Alll data were published in Friso et al (2004) Plant Cell 16, 478-499
101Analysis of stripped thylakoid membrane proteome from A. thaliana chloroplasts. The membrane proteome was fractionationated using sequential extraction with Acetone/Chloroform/Methanol, followed by 1-D SDS PAGE, in gel digestion and nanoLC-ESI-MS/MS (Q-TOF). This is from the upper phase of extraction with C/M (9:1). Alll data were published in Friso et al (2004) Plant Cell 16, 478-499
105Analysis of stripped thylakoid membrane proteome from A. thaliana chloroplasts. The membrane proteome was fractionationated using "Three Phase Partitioning - TPP", followed by 1-D SDS PAGE, in gel digestion with trypsin and nanoLC-ESI-MS/MS (Q-TOF). All data were published in Peltier et al. (2004) JBC 279 (47), 49367-49383. After publication, all MS data were reanalyzed against ATHv6 and new filter
106Analysis of stripped thylakoid membrane proteome from A. thaliana chloroplasts. The membrane proteome was fractionationated using "Three Phase Partitioning - TPP", followed by 1-D SDS PAGE, in gel digestion with trypsin and nanoLC-ESI-MS/MS (Q-TOF). All data were published in Peltier et al. (2004) JBC 279 (47), 49367-49383. After publication, all MS data were reanalyzed against ATHv6 and new filter
107Analysis of stripped thylakoid membrane proteome from A. thaliana chloroplasts. The membrane proteome was fractionationated using "Three Phase Partitioning - TPP", followed by 1-D SDS PAGE, in gel digestion with trypsin and nanoLC-ESI-MS/MS (Q-TOF). All data were published in Peltier et al. (2004) JBC 279 (47), 49367-49383. After publication, all MS data were reanalyzed against ATHv6 and new filter
115Analysis of stripped thylakoid membrane proteome from A. thaliana chloroplasts. The membrane proteome was fractionationated using "Three Phase Partitioning - TPP", followed by 1-D SDS PAGE, in gel digestion with trypsin and nanoLC-ESI-MS/MS (Q-TOF). All data were published in Peltier et al. (2004) JBC 279 (47), 49367-49383
122Analysis of stripped thylakoid membrane proteome from A. thaliana chloroplasts. The membrane proteome was fractionationated using "Three Phase Partitioning - TPP", followed byin solution digestion with trypsin and nanoLC-ESI-MS/MS (Q-TOF). All data were published in Peltier et al. (2004) JBC 279 (47), 49367-49383. After publication, all MS data were reanalyzed against ATHv6 and new filter
1332-DE gel analysis of Mesophyll (M) chloroplast stroma from maize (T43) leaf tips. Purified M chloroplast stromal proteome was separated by isoelectric focussing (IPG strips, pI4-7) and 1-D SDS PAGE, in gel digestion and MALDI-TOF MS (Voyager DE-STR) peptide mass finger printing and/or nanoLC-ESI-MS/MS (Q-TOF). Data were published in Majeran et al. (2005) Plant Cell 17, 3111-3140
1362-DE gel analysis of Bundle sheath (BS) chloroplast stroma from maize (T43) leaf tips. Purified BS chloroplast stromal proteome was separated by isoelectric focussing (IPG strips, pI4-7) and 1-D SDS PAGE, in gel digestion and MALDI-TOF MS (Voyager DE-STR) peptide mass finger printing and/or nanoLC-ESI-MS/MS (Q-TOF). Data were published in Majeran et al. (2005) Plant Cell 17, 3111-3140
1372-DE gel analysis of Bundle sheath (BS) chloroplast stroma from maize (T43) leaf tips. Purified BS chloroplast stromal proteome was separated by isoelectric focussing (IPG strips, pI4-7) and 1-D SDS PAGE, in gel digestion and MALDI-TOF MS (Voyager DE-STR) peptide mass finger printing and/or nanoLC-ESI-MS/MS (Q-TOF). Data were published in Majeran et al. (2005) Plant Cell 17, 3111-3140
1432-DE gel analysis of Mesophyll (M) chloroplast stroma from maize (T43) leaf tips. Purified M chloroplast stromal proteome was separated by isoelectric focussing (IPG strips, pI4-7) and 1-D SDS PAGE, in gel digestion and MALDI-TOF MS (Voyager DE-STR) peptide mass finger printing and/or nanoLC-ESI-MS/MS (Q-TOF). Data were published in Majeran et al. (2005) Plant Cell 17, 3111-3140
1442-DE gel analysis of Bundle sheath (BS) chloroplast stroma from maize (T43) leaf tips. Purified BS chloroplast stromal proteome was separated by isoelectric focussing (IPG strips, pI4-7) and 1-D SDS PAGE, in gel digestion and MALDI-TOF MS (Voyager DE-STR) peptide mass finger printing and/or nanoLC-ESI-MS/MS (Q-TOF). Data were published in Majeran et al. (2005) Plant Cell 17, 3111-3140
1452-DE gel analysis of Mesophyll (M) chloroplast stroma from maize (T43) leaf tips. Purified M chloroplast stromal proteome was separated by isoelectric focussing (IPG strips, pI4-7) and 1-D SDS PAGE, in gel digestion and MALDI-TOF MS (Voyager DE-STR) peptide mass finger printing and/or nanoLC-ESI-MS/MS (Q-TOF). Data were published in Majeran et al. (2005) Plant Cell 17, 3111-3140
1462-DE gel analysis of Bundle sheath (BS) chloroplast stroma from maize (T43) leaf tips. Purified BS chloroplast stromal proteome was separated by isoelectric focussing (IPG strips, pI4-7) and 1-D SDS PAGE, in gel digestion and MALDI-TOF MS (Voyager DE-STR) peptide mass finger printing and/or nanoLC-ESI-MS/MS (Q-TOF). Data were published in Majeran et al. (2005) Plant Cell 17, 3111-3140.
1472-DE gel analysis of Mesophyll (M) chloroplast stroma from maize (T43) leaf tips. Purified M chloroplast stromal proteome was separated by isoelectric focussing (IPG strips, pI4-7) and 1-D SDS PAGE, in gel digestion and MALDI-TOF MS (Voyager DE-STR) peptide mass finger printing and/or nanoLC-ESI-MS/MS (Q-TOF). Data were published in Majeran et al. (2005) Plant Cell 17, 3111-3140
1482-DE gel analysis of Mesophyll (M) chloroplast stroma from maize (T43) leaf tips. Purified M chloroplast stromal proteome was separated by isoelectric focussing (IPG strips, pI4-7) and 1-D SDS PAGE, in gel digestion and MALDI-TOF MS (Voyager DE-STR) peptide mass finger printing and/or nanoLC-ESI-MS/MS (Q-TOF). Data were published in Majeran et al. (2005) Plant Cell 17, 3111-3140
151Analysis of the native stromal proteome of A. thaliana chloroplasts. The stromal proteome was separated first by CN-PAGE, folllowed by SDS-PAGE. Proteins were identified by MALDI-TOF MS (Voyager DE-STR) peptide mass finger printing and/or nanoLC-ESI-MS/MS (Q-TOF). Data are published in Peltier et al. (2006) Molec. Cell. Proteomics 5 (1), 514-533
155Comparative proteome analysis of Bundle sheath (BS) and Mesophyll (M) chloroplast stroma from maize (T43) leaf tips. BS/M expression ratio's were determined using (parallel) quantitication of extracted single ion chromatograms from nanoLC-ESI mass spectrometry of trypsin digested MS and B stromal proteomes. Data were published in Majeran et al. (2005) Plant Cell 17, 3111-3140
156Comparative proteome analysis of Bundle sheath (BS) and Mesophyll (M) chloroplast stroma from maize (T43) leaf tips. BS/M expression ratio's were determined using (parallel) quantitication of extracted single ion chromatograms from nanoLC-ESI mass spectrometry of trypsin digested MS and B stromal proteomes. Data were published in Majeran et al. (2005) Plant Cell 17, 3111-3140
157Comparative proteome analysis of Bundle sheath (BS) and Mesophyll (M) chloroplast stroma from maize (T43) leaf tips. BS/M expression ratio's were determined using (parallel) quantitication of extracted single ion chromatograms from nanoLC-ESI mass spectrometry of trypsin digested MS and B stromal proteomes. Data were published in Majeran et al. (2005) Plant Cell 17, 3111-3140
158Comparative proteome analysis of Bundle sheath (BS) and Mesophyll (M) chloroplast stroma from maize (T43) leaf tips. BS/M expression ratio's were determined using (parallel) quantitication of extracted single ion chromatograms from nanoLC-ESI mass spectrometry of trypsin digested MS and B stromal proteomes. Data were published in Majeran et al. (2005) Plant Cell 17, 3111-3140
168Analysis of lumenal and peripheral thylakoid proteome from 1 day high light (1000 uE/m2.s) treated wt A. thaliana chloroplasts extracted by sonication, followed by isoelectric focussing (IPG strips) and 1-D SDS PAGE, in gel digestion and nanoLC-ESI-MS/MS (Q-TOF). Data are published in Giacomelli etal (2006) Plant Physiology 141(2) 685-701
169Analysis of lumenal and peripheral thylakoid proteome from 1 day high light (1000 uE/m2.s) treated wt A. thaliana chloroplasts extracted by sonication, followed by isoelectric focussing (IPG strips) and 1-D SDS PAGE, in gel digestion and nanoLC-ESI-MS/MS (Q-TOF). Data are published in Giacomelli etal (2006) Plant Physiology 141(2) 685-701
170Analysis of lumenal and peripheral thylakoid proteome from A. thaliana chloroplasts extracted by sonication, followed by isoelectric focussing (IPG strips) and 1-D SDS PAGE, in gel digestion and nanoLC-ESI-MS/MS (Q-TOF). Data are published in Giacomelli etal (2006) Plant Physiology 141(2) 685-701
171Analysis of lumenal and peripheral thylakoid proteome from A. thaliana chloroplasts extracted by sonication, followed by isoelectric focussing (IPG strips) and 1-D SDS PAGE, in gel digestion and nanoLC-ESI-MS/MS (Q-TOF). Data are published in Giacomelli etal (2006) Plant Physiology 141(2) 685-701
172Analysis of lumenal and peripheral thylakoid proteome from A. thaliana chloroplasts extracted by sonication, followed by isoelectric focussing (IPG strips) and 1-D SDS PAGE, in gel digestion and nanoLC-ESI-MS/MS (Q-TOF). Data are published in Giacomelli etal (2006) Plant Physiology 141(2) 685-701
173Analysis of lumenal and peripheral thylakoid proteome from A. thaliana chloroplasts extracted by sonication, followed by isoelectric focussing (IPG strips) and 1-D SDS PAGE, in gel digestion and nanoLC-ESI-MS/MS (Q-TOF). Data are published in Giacomelli etal (2006) Plant Physiology 141(2) 685-701
180Comparative chloroplast stromal proteome analysis of the Arabidopsis thaliana clpr2-1 mutant and wt (both col-0). Intact chloroplasts were purified from fully grown leaf rosettes, and stroma was collected by ultracentrifugation of lysed chloroplasts and labeled by cICAT reagent. After mixing with wt cICAT labeled proteome, and SDS-PAGE separation, 12 bands were proteins were trypsinized and quantified by nanoLC-ESI-MS and identified by nanoLCESI-MS/MS (Q-TOF). This is biological replicate #1. Quantitative data published in Zybailov et al (2009) MCP. Identities used in Zybailov et al (2008) PlosOne
181Comparative chloroplast stromal proteome analysis of the Arabidopsis thaliana clpr2-1 mutant and wt (both col-0). Intact chloroplasts were purified from fully grown leaf rosettes, and stroma was collected by ultracentrifugation of lysed chloroplasts and labeled by cICAT reagent.. After mixing with wt cICAT labeled proteome, and SDS-PAGE separation, 12 bands were proteins were trypsinized and quantified by nanoLC-ESI-MS and identified by nanoLCESI-MS/MS (Q-TOF).This is biological replicate #1. Quantitative data published in Zybailov et al (2009) MCP. Identities used in Zybailov et al (2008) PlosOne
1822-DE gel analysis of Bundle sheath (BS) chloroplast stroma from maize (T43) leaf tips. Purified BS chloroplast stromal proteome was separated by isoelectric focussing (IPG strips, pI4-7) and 1-D SDS PAGE, in gel digestion and MALDI-TOF MS (Voyager DE-STR) peptide mass finger printing and/or nanoLC-ESI-MS/MS (Q-TOF). Data were published in Majeran et al. (2005) Plant Cell 17, 3111-3140
1832-DE gel analysis of Mesophyll (M) chloroplast stroma from maize (T43) leaf tips. Purified M chloroplast stromal proteome was separated by isoelectric focussing (IPG strips, pI4-7) and 1-D SDS PAGE, in gel digestion and MALDI-TOF MS (Voyager DE-STR) peptide mass finger printing and/or nanoLC-ESI-MS/MS (Q-TOF). Data were published in Majeran et al. (2005) Plant Cell 17, 3111-3140
187Comparative chloroplast stromal proteome analysis of the Arabidopsis thaliana clpr2-1 mutant and wt (both col-0). Intact chloroplasts were purified from fully grown leaf rosettes, and stroma was collected by ultracentrifugation of lysed chloroplasts and labeled by cICAT reagent.After mixing with wt cICAT labeled proteome, and SDS-PAGE separation, 12 bands were proteins were trypsinized and quantified by nanoLC-ESI-MS and identified by nanoLCESI-MS/MS (Q-TOF).This is biological replicate #2. Identities used in Zybailov et al (2008) PlosOne
188Comparative chloroplast stromal proteome analysis of the Arabidopsis thaliana clpr2-1 mutant and wt (both col-0). Intact chloroplasts were purified from fully grown leaf rosettes, and stroma was collected by ultracentrifugation of lysed chloroplasts and labeled by cICAT reagent.. After mixing with wt cICAT labeled proteome, and SDS-PAGE separation, 12 bands were proteins were trypsinized and quantified by nanoLC-ESI-MS and identified by nanoLCESI-MS/MS (Q-TOF).This is biological replicate #2. Identities used in Zybailov et al (2008) PlosOne
1922-DE analysis of fractinated stroma from wt (col-0) Arabidopsis thaliana chloroplasts. Stroma was fractionated on sucrose gradients and the top fraction (#4) containing moecules of ~1-~150 kDa collected and separated by IEF (4-7), followed by SDS-PAGE. Protein spots were picked, trpysinized and analyzed by MS. Rutschow et al (2008) Plant Physiology
194Comparative chloroplast stromal proteome analysis of the Arabidopsis thaliana ffc1-1 (SRP54 KO) mutant and wt (both col-0). Intact chloroplasts were purified from fully grown leaf rosettes, and stroma was collected by ultracentrifugation of lysed chloroplasts and labeled by cICAT reagent.After mixing with wt cICAT labeled proteome, and SDS-PAGE separation, 12 bands were proteins were trypsinized and quantified by nanoLC-ESI-MS and identified by nanoLCESI-MS/MS (Q-TOF). A more detailed description of the analysis can be found in Rutschow et al (2008) Plant Physiology. Identities used in Zybailov et al (2008) PlosOne
195Comparative chloroplast stromal proteome analysis of the Arabidopsis thaliana ffc1-1 (SRP54 KO) mutant and wt (both col-0). Intact chloroplasts were purified from fully grown leaf rosettes, and stroma was collected by ultracentrifugation of lysed chloroplasts and labeled by cICAT reagent. After mixing with wt cICAT labeled proteome, and SDS-PAGE separation, 12 bands were proteins were trypsinized and quantified by nanoLC-ESI-MS and identified by nanoLCESI-MS/MS (Q-TOF). A more detailed description of the analysis can be found in Rutschow et al (2008) Plant Physiology.Identities used in Zybailov et al (2008) PlosOne
201Comparative proteome analysis of Bundle sheath (BS) and Mesophyll (M) chloroplast stroma from maize (T43) leaf tips. BS/M expression ratio's were determined using cICAT (cleavable stable isotope affinity tags), followed by identification and quantification by 2-D-LC-ESI mass spectrometry.Data were published in Majeran et al. (2005) Plant Cell 17, 3111-3140
202Comparative proteome analysis of Bundle sheath (BS) and Mesophyll (M) chloroplast stroma from maize (T43) leaf tips. BS/M expression ratio's were determined using cICAT (cleavable stable isotope affinity tags), followed by identification and quantification by 2-D-LC-ESI mass spectrometry.Data were published in Majeran et al. (2005) Plant Cell 17, 3111-3140
210Comparative proteome analysis of Bundle sheath (BS) and Mesophyll (M) chloroplast stroma from maize (T43) leaf tips. BS/M expression ratio's were determined using cICAT (cleavable stable isotope affinity tags), followed by 1-D gel separation and identification and quantification by nanoLC-ESI mass spectrometry.Data were published in Majeran et al. (2005) Plant Cell 17, 3111-3140
211Comparative proteome analysis of Bundle sheath (BS) and Mesophyll (M) chloroplast stroma from maize (T43) leaf tips. BS/M expression ratio's were determined using cICAT (cleavable stable isotope affinity tags), followed by 1-D gel separation and identification and quantification by nanoLC-ESI mass spectrometry.Data were published in Majeran et al. (2005) Plant Cell 17, 3111-3140
217Analysis of lumenal and peripheral thylakoid proteome from A. thaliana chloroplasts extracted by sonication, followed by isoelectric focussing (IPG strips) and 1-D SDS PAGE, in gel digestion and nanoLC-ESI-MS/MS (Q-TOF).Data are published in Giacomelli etal (2006) Plant Physiology 141(2) 685-701
218Plastoglobule proteome analysis from wt (Col-0) Arabidopsis thaliana chloroplasts. plastoglobules were extracted by sonication, followed by purification through sucrose gradient flotations. Proteins were identified by in-solution trypsination and nanoLC-ESI-MS/MS (Q-TOF). Data are published in Ytterberg etal (2006) Plant Physiology140(3):984-97
219Plastoglobule proteome analysis from wt (Col-0) Arabidopsis thaliana chloroplasts. plastoglobules were extracted by sonication, followed by purification through sucrose gradient flotations. Proteins were identified by in-solution trypsination and nanoLC-ESI-MS/MS (Q-TOF).Data are published in Ytterberg etal (2006) Plant Physiology140(3):984-97
220Plastoglobule proteome analysis from wt (Col-0) Arabidopsis thaliana chloroplasts. plastoglobules were extracted by sonication, followed by purification through sucrose gradient flotations. Proteins were identified by in-solution trypsination and nanoLC-ESI-MS/MS (Q-TOF).Data are published in Ytterberg etal (2006) Plant Physiology140(3):984-97
221Plastoglobule proteome analysis from high-light treated wt (Col-0) Arabidopsis thaliana chloroplasts. Plants were grown under optimal conditions and then exposed to continuous 1000 uE.m2.sec for 7 days. plastoglobules were extracted from chloroplasts by sonication, followed by purification through sucrose gradient flotations. Proteins were identified by in-solution trypsination and nanoLC-ESI-MS/MS (Q-TOF).Data are published in Ytterberg etal (2006) Plant Physiology140(3):984-97
222Plastoglobule proteome analysis from high-light treated wt (Col-0) Arabidopsis thaliana chloroplasts. Plants were grown under optimal conditions and then exposed to continuous 1000 uE.m2.sec for 7 days. plastoglobules were extracted from chloroplasts by sonication, followed by purification through sucrose gradient flotations. Proteins were identified by in-solution trypsination and nanoLC-ESI-MS/MS (Q-TOF).Data are published in Ytterberg etal (2006) Plant Physiology140(3):984-97
223Plastoglobule proteome analysis from high-light treated wt (Col-0) Arabidopsis thaliana chloroplasts. Plants were grown under optimal conditions and then exposed to continuous 1000 uE.m2.sec for 7 days. plastoglobules were extracted from chloroplasts by sonication, followed by purification through sucrose gradient flotations. Proteins were identified by in-solution trypsination and nanoLC-ESI-MS/MS (Q-TOF).Data are published in Ytterberg etal (2006) Plant Physiology140(3):984-97
224Plastoglobule proteome analysis from dark treated wt (Col-0) Arabidopsis thaliana chloroplasts. Plants were grown under optimal conditions and then kept for 7 days in complete darkness. Plastoglobules were extracted from chloroplasts by sonication, followed by purification through sucrose gradient flotations. Proteins were identified by in-solution trypsination and nanoLC-ESI-MS/MS (Q-TOF).Data are published in Ytterberg etal (2006) Plant Physiology140(3):984-97
225Plastoglobule proteome analysis from dark treated wt (Col-0) Arabidopsis thaliana chloroplasts. Plants were grown under optimal conditions and then kept for 7 days in complete darkness. Plastoglobules were extracted from chloroplasts by sonication, followed by purification through sucrose gradient flotations. Proteins were identified by in-solution trypsination and nanoLC-ESI-MS/MS (Q-TOF).Data are published in Ytterberg etal (2006) Plant Physiology140(3):984-97
226Plastoglobule proteome analysis from the Arabidopsis thaliana mutant clpr2-1. Chloroplast were purified and plastoglobules were extracted by sonication, followed by purification through sucrose gradient flotations. Proteins were identified by in-solution trypsination and nanoLC-ESI-MS/MS (Q-TOF).Data are published in Ytterberg etal (2006) Plant Physiology140(3):984-97
228Low Density Lipid Body (LDLB) proteome analysis from rice etioplasts. Etioplasts were purified and LDLB (plastoglobules and prolamellar bodies) were extracted by sonication, followed by purification through sucrose gradient flotations. Proteins were identified by in-solution trypsination and nanoLC-ESI-MS/MS (Q-TOF).Data are published in Ytterberg etal (2006) Plant Physiology140(3):984-97
230Analysis of lumenal and peripheral thylakoid proteome from the maize mutant (T47) in HCF136 homologue extracted by sonication, followed by isoelectric focussing (IPG strips) and 1-D SDS PAGE, in gel digestion and MALDI-TOF MS (Voyager DE-STR) peptide mass finger printing and/or nanoLC-ESI-MS/MS (Q-TOF). Data were generated for Covskoff et al. (2008) Plant Physiology 146, 1469-1481
235Plastoglobule proteome analysis from the Arabidopsis thaliana wt Chloroplast were purified and plastoglobules were extracted by sonication, followed by purification through sucrose gradient flotations. Proteins were identified by 1D SDS-PAGE and nanoLC-ESI-MS/MS (Q-TOF).Data are published in Ytterberg etal (2006) Plant Physiology140(3):984-97
2362-DE analysis of fractionated stroma from ffc2-1 (col-0) Arabidopsis thaliana chloroplasts. Stroma was fractionated on sucrose gradients and the top fraction (#4) containing moecules of ~1-~150 kDa collected and separated by IEF (4-7), followed by SDS-PAGE. Protein spots were picked, trpysinized and analyzed by peptide mass finger printing using MALDI-TOF MS. Rutschow et al (2008) Plant Physiology
2372-DE analysis of fractionated stroma from wt (col-0) Arabidopsis thaliana chloroplasts. Stroma was fractionated on sucrose gradients and the top fraction (#3) containing moecules of ~150-500 kDa collected and separated by IEF (4-7), followed by SDS-PAGE. Protein spots were picked, trpysinized and analyzed by peptide mass finger printing using MALDI-TOF MS. Rutschow et al (2008) Plant Physiology
2382-DE analysis of fractionated stroma from ffc2-1 (col-0) Arabidopsis thaliana chloroplasts. Stroma was fractionated on sucrose gradients and the top fraction (#3) containing moecules of ~150-500 kDa collected and separated by IEF (4-7), followed by SDS-PAGE. Protein spots were picked, trpysinized and analyzed by peptide mass finger printing using MALDI-TOF MS. Rutschow et al (2008) Plant Physiology
239Analysis of the native stromal proteome of maize Mesophyll chloroplasts. The stromal proteome was separated first by CN-PAGE, folllowed by SDS-PAGE. Proteins were identified by MALDI-TOF MS (Voyager DE-STR) peptide mass finger printing. Unpublished information.
240Analysis of the native stromal proteome of maize Bundle Sheath chloroplasts. The stromal proteome was separated first by CN-PAGE, folllowed by SDS-PAGE. Proteins were identified by MALDI-TOF MS (Voyager DE-STR) peptide mass finger printing. Unpublished information
241Analysis of the oligomeric thylakoid proteome of maize (T43) mesophyll chloroplasts. The thylakoid membrane was solubilized by the detergent DM and then separated first by BN-PAGE, folllowed by SDS-PAGE. Proteins were identified by MALDI-TOF MS (Voyager DE-STR) peptide mass finger printing and/or nanoLC-ESI-MS/MS (Q-TOF). Published in Majeran et al (2008) Molec. Cellular Proteomics.
242Analysis of total leaf proteome of mature clpr2-1 A. thaliana plants. Proteins were identified by in-solution trypsination and nanoLC-ESI-MS/MS (Q-TOF). Unpublished information
243Analysis of total leaf proteome of mature wt A. thaliana plants. Proteins were identified by in-solution trypsination and nanoLC-ESI-MS/MS (Q-TOF). Unpublished information
244Analysis of total leaf proteome of young clpr2-1 A. thaliana plants. Proteins were identified by in-solution trypsination and nanoLC-ESI-MS/MS (Q-TOF). Unpublished information
245Analysis of total leaf proteome of young wt A. thaliana plants. Proteins were identified by in-solution trypsination and nanoLC-ESI-MS/MS (Q-TOF). Unpublished information
246Reference gel with all identified proteins of lumenal and peripheral thylakoid proteome from wt and vtc2-2 A. thaliana chloroplasts extracted by sonication, followed by isoelectric focussing (IPG strips) and 1-D SDS PAGE, in gel digestion and nanoLC-ESI-MS/MS (Q-TOF).
247Reference gel with all quantified proteins of lumenal and peripheral thylakoid proteome from wt and vtc2-2 A. thaliana chloroplasts extracted by sonication, followed by isoelectric focussing (IPG strips) and 1-D SDS PAGE, in gel digestion and nanoLC-ESI-MS/MS (Q-TOF).
248Analysis of the oligomeric thylakoid proteome of mixed maize Bundle Sheath & Mesophyll chloroplasts from 'WT' for comparison to the hcf136 mutant. The thylakoid membrane was solubilized by the detergent DM and then separated first by BN-PAGE, folllowed by SDS-PAGE. Proteins were identified by MALDI-TOF MS (Voyager DE-STR) peptide mass finger printing. Samples for MS analysis mixed with matching hcf136 samples. Published in Covskoff et al. (2008) Plant Physiology 146, 1469-1481
249Comparative chloroplast stromal proteome analysis of the Arabidopsis thaliana ffc1-2 mutant and wt (both col-0). Intact chloroplasts were purified from fully grown leaf rosettes, and stroma was collected by ultracentrifugation of lysed chloroplasts and labeled by cICAT reagent. After mixing with wt cICAT labeled proteome, and SDS-PAGE separation, 12 bands were proteins were trypsinized and quantified by nanoLC-ESI-MS and identified by nanoLCESI-MS/MS (Q-TOF).- Biological exp 2. A more detailed description of the analysis can be found in Rutschow et al (2008) Plant Physiology
250Comparative chloroplast stromal proteome analysis of the Arabidopsis thaliana ffc1-2 mutant and wt (both col-0). Intact chloroplasts were purified from fully grown leaf rosettes, and stroma was collected by ultracentrifugation of lysed chloroplasts and labeled by cICAT reagent. After mixing with wt cICAT labeled proteome, and SDS-PAGE separation, 12 bands were proteins were trypsinized and quantified by nanoLC-ESI-MS and identified by nanoLCESI-MS/MS (Q-TOF).- Biological exp 2. A more detailed description of the analysis can be found in Rutschow et al (2008) Plant Physiology
251Analysis of the oligomeric thylakoid proteome of maize mesophyll and bundle sheath chloroplasts. The thylakoid membranes were solubilized by the detergent DM and then diluted 10-fold and then separated first by BN-PAGE, folllowed by SDS-PAGE. Proteins were identified by MALDI-TOF MS (Voyager DE-STR) peptide mass finger printing and/or nanoLC-ESI-MS/MS (Q-TOF) . Matched spots of BS and M thylakoids were mixed prior to MS analysis. Published in Majeran et al (2008) Molec. Cellular Proteomics.
252Analysis of the oligomeric thylakoid proteome of maize mesophyll and bundle sheath chloroplasts. The thylakoid membranes were solubilized by the detergent DM and then diluted 10-fold and then separated first by BN-PAGE, folllowed by SDS-PAGE. Proteins were identified by MALDI-TOF MS (Voyager DE-STR) peptide mass finger printing and/or nanoLC-ESI-MS/MS (Q-TOF) . Matched spots of BS and M thylakoids were mixed prior to MS analysis. Published in Majeran et al (2008) Molec. Cellular Proteomics.
2592-DE analysis of fractionated stroma from wt (col-0) Arabidopsis thaliana chloroplasts. Stroma was fractionated on sucrose gradients and the top fraction (#4) containing moecules of ~1-~150 kDa collected and separated by IEF (4-7), followed by SDS-PAGE. Protein spots were picked, trpysinized and analyzed by peptide mass finger printing using MALDI-TOF MS. A more detailed description of the analysis can be found in Rutschow et al (2008) Plant Physiology
2602-DE analysis of fractionated stroma from ffc2-1 (col-0) Arabidopsis thaliana chloroplasts. Stroma was fractionated on sucrose gradients and the top fraction (#4) containing moecules of ~1-~150 kDa collected and separated by IEF (4-7), followed by SDS-PAGE. Protein spots were picked, trpysinized and analyzed by peptide mass finger printing using MALDI-TOF MS. A more detailed description of the analysis can be found in Rutschow et al (2008) Plant Physiology
2612-DE analysis of fractionated stroma from wt (col-0) Arabidopsis thaliana chloroplasts. Stroma was fractionated on sucrose gradients and the top fraction (#3) containing moecules of ~150-500 kDa collected and separated by IEF (4-7), followed by SDS-PAGE. Protein spots were picked, trpysinized and analyzed by peptide mass finger printing using MALDI-TOF MS. A more detailed description of the analysis can be found in Rutschow et al (2008) Plant Physiology
262Analysis of thylakoid membrane proteome from mixed maize Bundle Sheath and Mesophyll chloroplasts. The membrane proteome was fractionationated using "Three Phase Partitioning - TPP", followed by 1-D SDS PAGE, in gel digestion with trypsin and nanoLC-ESI-MS/MS (Q-TOF). All spectra pooled per lane for DB search with Mascot. Unpublished information.
264Plastoglobule proteome analysis from the Arabidopsis thaliana mutant clpr2-1. Chloroplast were purified and plastoglobules were extracted by sonication, followed by purification through sucrose gradient flotations. Proteins were identified by 1D SDS-PAGE and nanoLC-ESI-MS/MS (Q-TOF).Data are published in Ytterberg etal (2006) Plant Physiology140(3):984-97
270Analysis of the oligomeric thylakoid proteome of mixed maize Bundle Sheath & Mesophyll chloroplasts from 'WT' for comparison to the hcf136 mutant. The thylakoid membrane was solubilized by the detergent DM and then separated first by BN-PAGE, folllowed by SDS-PAGE. Proteins were identified by MALDI-TOF MS (Voyager DE-STR) peptide mass finger printing. Data were generated for Covskoff et al. (2008) Plant Physiology 146, 1469-1481
272Comparative chloroplast stromal proteome analysis of the Arabidopsis thaliana clpr2-1 mutant and wt (both col-0). Intact chloroplasts were purified from fully grown leaf rosettes, and stroma was collected by ultracentrifugation of lysed chloroplasts and labeled by cICAT reagent. After mixing with wt cICAT labeled proteome, and SDS-PAGE separation, 12 bands were proteins were trypsinized and quantified by nanoLC-ESI-MS and identified by nanoLCESI-MS/MS (Q-TOF). This is biological replicate #3. Information used for Zybailov et al (2008) PlosOne 3(4)
273Comparative chloroplast stromal proteome analysis of the Arabidopsis thaliana clpr2-1 mutant and wt (both col-0).Intact chloroplasts were purified from fully grown leaf rosettes, and stroma was collected by ultracentrifugation of lysed chloroplasts and labeled by cICAT reagent. After mixing with wt cICAT labeled proteome, and SDS-PAGE separation, 12 bands were proteins were trypsinized and quantified by nanoLC-ESI-MS and identified by nanoLCESI-MS/MS (Q-TOF). This is biological replicate #3. Information used for Zybailov et al (2008) PlosOne 3(4)
303Analysis of the chloroplast stromal proteome of the Arabidopsis thaliana wt plants (col-0). Stroma was purified from fully grown leaf rosettes, run out on SDS-PAGE . 12 bands were trypsinized overnight, peptides purified by C18 zip tips, and analyzed by RP-LC-ESI-LTQ-Orbitrap in triplicate (3x). This is biological replicate #1. Published in Zybailov et al (2008) PlosOne 3(4). Also PTM paper Zybailov et al (2009)
324Collaboration with Jung-Youn Lee . Cell wall pellets from Arabidopsis thaliana. Protein run out by SDS-PAGE and lane cut on 12 continuous slices. Tryptic digest and purification of peptides on C18 ziptips. Analysis by RP-LC-ESI-LTQ-Orbitrap.
325Collaboration with Jung-Youn Lee . Cell wall pellets from BY-2 (tobacco) cells. Protein run out by SDS-PAGE and lane cut on 12 continuous slices. Tryptic digest and purification of peptides on C18 ziptips. Analysis by RP-LC-ESI-LTQ-Orbitrap.
326Analysis of the chloroplast stromal proteome of the Arabidopsis thaliana wt plants (col-0). Stroma was purified from fully grown leaf rosettes, run out on SDS-PAGE . 12 bands were trypsinized overnight, peptides purified by C18 zip tips, and analyzed by RP-LC-ESI-LTQ-Orbitrap once (1x). This is biological replicate #2. - the corresponding thylakoid sample was analyzed under experiment #327. Published in Zybailov et al (2008) PlosOne 3(4) Also PTM paper Zybailov et al (2009)
327Analysis of the chloroplast thylakoid proteome of the Arabidopsis thaliana wt plants (col-0). Thylakoids were colected from isolated chloroplast of fully grown leaf rosettes, run out on SDS-PAGE . 12 bands were trypsinized overnight, peptides purified by C18 zip tips, and analyzed by RP-LC-ESI-LTQ-Orbitrap in duplo (2x). This from biological replicate #2 - the corresponding stromal sample was analyzed under experiment #326. Published in Zybailov et al (2008) PlosOne 3(4). Also PTM paper Zybailov et al (2009)
329Analysis of nucleoids purified from intact chloroplasts from the tip??? of young maize leaves (4th leaf??) of 14-day old seedlings??. Nucleoid proteins were separated by SDS-PAGE, stained with Sypro Ruby/Coomassie Brilliant Blue? and 26 visible bands were cut. Proteins were manually? digested with trypsin and analyzed by RP-LC-MS/MS on a Q-TOF.
331Analysis of nucleoids purified from intact chloroplasts from the tip??? of young maize leaves (4th leaf??) of 14-day old seedlings??. Nucleoid proteins were separated by SDS-PAGE, stained with Sypro Ruby/Coomassie Brilliant Blue? and 21 visible bands were cut. Proteins were manually? digested with trypsin and analyzed by RP-LC-MS/MS on a LTQ-Orbitrap.
333Analysis of nucleoids purified from intact chloroplasts from the tip??? of young maize leaves (4th leaf??) of 14-day old seedlings??. Nucleoid proteins were separated by SDS-PAGE, stained with Sypro Ruby/Coomassie Brilliant Blue? and the complete gel lanes was cut in 21 continuous slices. Proteins were manually? digested with trypsin and analyzed by RP-LC-MS/MS on a Q-TOF.
336Plastoglobule proteome analysis from thylakoids purified by mixed bundle sheath (BS) and mesophyl (M) maize tissue. The selected tissue was from the tip??? of young maize leaves (4th leaf??) of 14-day old seedlings??.Plastoglobules were extracted by sonication, followed by purification through sucrose gradient flotations. The purified PG proteome was separated by SDS-PAGE, the gel lane was cut in 7 continuous slices and proteins were digested with trypsin, followed by off-line purification of peptides on C18 microcolumns. Proteins were identified by nanoLC-ESI-MS/MS using a LTQ-Orbitrap.
339Analysis of the chloroplast stroma proteome of the Arabidopsis thaliana wt plants (col-0). Stroma was purified from fully grown leaf rosettes, run out on SDS-PAGE . 12 bands were trypsinized overnight, peptides purified by C18 zip tips, and analyzed by RP-LC-ESI-LTQ-Orbitrap once (1x). This is from biological replicate #3 - the corresponing thylakoid sample was analyzed under experiment #343 and corresponding low density membrane fraction uder experiment #342. Published in Zybailov et al (2008) PlosOne 3(4). Also PTM paper Zybailov et al (2009)
342Analysis of the chloroplast low densitity proteome of the Arabidopsis thaliana wt plants (col-0). Low density membranes were collected from stromal sample from intact chloroplasts of fully grown leaf rosettes, run out on SDS-PAGE . 12 bands were trypsinized overnight, peptides purified by C18 zip tips, and analyzed by RP-LC-ESI-LTQ-Orbitrap in duplo (2x). This from biological replicate #3 - the stroma was analyzed under experiment #339 and correspoding thylakoids were analyzed under experiment #343. Published in Zybailov et al (2008) PlosOne 3(4)
343Analysis of the chloroplast thylakoid proteome of the Arabidopsis thaliana wt plants (col-0). Stroma was purified from fully grown leaf rosettes, run out on SDS-PAGE . 12 bands were trypsinized overnight, peptides purified by C18 zip tips, and analyzed by RP-LC-ESI-LTQ-Orbitrap in duplo (2x). This from biological replicate #3 - the corresponding stromal sample was analyzed under experiment #339. Published in Zybailov et al (2008) PlosOne 3(4). Also PTM paper Zybailov et al (2009)
351redundant split tech rep of exp 307. Published in PTM paper Zybailov et al (2009)
352redundant split tech rep of exp 307. Published in PTM paper Zybailov et al (2009)
355redundant split tech rep of exp 322. Published in PTM paper Zybailov et al (2009)
356redundant split tech rep of exp 322. Published in PTM paper Zybailov et al (2009)
359Comparative analysis of Bundle sheath and Mesophyll thylakoids by iTRAQ. The thylakoid membranes were delipidized and proteins 'in-solution' digested with trypsin. BS and M derived peptides were differentially labeled with iTRAQ reagents and analyzed by nanoLC-ESI-MS/MS (Q-TOF) . Published in Majeran et al (2008) Molec. Cellular Proteomics
361Comparative total leaf proteome analysis of the Arabidopsis thaliana wt (Col 0) as a control for the analysis of clpr4-1 (wt1). Total proteins were extracted from 1 month old plantlets grown on 2% sucrose under short daylength. 400 microgram of protein was separated by SDS-PAGE and gel lane cut in 12 bands, digested with trypsin and analyzed by DDA nanoLC-LTQ-Orbitrap. Data weer searched using Mascot against AtH v8. Published in PTM paper Zybailov et al (2009).
362Analysis of the oligomeric thylakoid proteome of maize (T43) mesophyll and bundle sheath chloroplasts. The thylakoid membranes were solubilized by the detergent DM and then separated first by BN-PAGE, folllowed by SDS-PAGE. Proteins were identified by nanoLC-ESI-MS/MS (Q-TOF). Published in Majeran et al (2008) Molec. Cellular Proteomics
371Comparative total leaf proteome analysis of the Arabidopsis thaliana wt (Col 0) as a control for the analysis of clpr4-1 (wt2). Total proteins were extracted from 1 month old plantlets grown on soil under short daylength. 400 microgram of protein was separated by SDS-PAGE and gel lane cut in 12 bands, digested with trypsin and analyzed by DDA nanoLC-LTQ-Orbitrap. Data weer searched using Mascot against AtH v8. Published in PTM paper Zybailov et al (2009).
393Comparative chloroplast thylakoid proteome analysis of the Arabidopsis thaliana ffc1-1 (SRP54 KO) mutant and wt (both col-0). Intact chloroplasts were purified from fully grown leaf rosettes, and thylakoids were collected and stripped for peripheral proteins. Proteomes were digested and labeled with the iTRAQ reagent (four lables 114, 115, 116, 117), followed by SCX fractionation of the mixed labeled proteomes. Selected fractions were analyzed by nanoLCESI-MS/MS (Q-TOF). This is biological replicate 1. A more detailed description of the analysis can be found in Rutschow et al (2008) Plant Physiology
394Comparative chloroplast thylakoid proteome analysis of the Arabidopsis thaliana ffc1-1 (SRP54 KO) mutant and wt (both col-0). Intact chloroplasts were purified from fully grown leaf rosettes, and thylakoids were collected and stripped for peripheral proteins. Proteomes were digested and labeled with the iTRAQ reagent (four lables 114, 115, 116, 117), followed by SCX fractionation of the mixed labeled proteomes. Selected fractions were analyzed by nanoLCESI-MS/MS (Q-TOF). This is biological replicate 2. A more detailed description of the analysis can be found Rutschow et al (2008) Plant Physiology.
395Comparative total leaf proteome analysis of the Arabidopsis thaliana ffc1-1 (SRP54 KO) mutant and wt (both col-0). Total proteins were extracted from seedling in stage 1.07 (ffc and wt) as well as stage 1.11 (wt only). Proteomes were digested and labeled with the iTRAQ reagent (four lables 114, 115, 116, 117), followed by SCX fractionation of the mixed labeled proteomes. Selected fractions were analyzed by nanoLCESI-MS/MS (Q-TOF). This is biological replicate 1. A more detailed description of the analysis can be found in Rutschow et al (2008) Plant Physiology.
396Comparative total leaf proteome analysis of the Arabidopsis thaliana ffc1-1 (SRP54 KO) mutant and wt (both col-0). Total proteins were extracted from seedling in stage 1.07 (ffc and wt) as well as stage 1.11 (wt only). Proteomes were digested and labeled with the iTRAQ reagent (four lables 114, 115, 116, 117), followed by SCX fractionation of the mixed labeled proteomes. Selected fractions were analyzed by nanoLCESI-MS/MS (Q-TOF). This is biological replicate 2. A more detailed description of the analysis can be found inRutschow et al (2008) Plant Physiology.
399Label-free quantitative analysis of the oligomeric thylakoid proteome of maize bundle sheath (BS) chloroplasts for comparison to the thylakoid proteome of mesophyll thylakoids.The selected tissue was from the tip of young maize leaves (3rd leaf) of 12-day old seedlings.The thylakoid membrane was solubilized by the detergent DM and then diluted 10-fold and then separated by BN-PAGE. The complete gel lane was cut in 27 continuous slices and proteins were digested with trypsin, followed by off-line purification of peptides on C18 microcolumns. Proteins were identified by nanoLC-ESI-MS/MS using a LTQ-Orbitrap. Each sample was analysed in triplo. Published in Majeran et al (2008) Molec. Cellular Proteomics
400Label-free quantitative analysis of the oligomeric thylakoid proteome of maize mesophyll (M) chloroplasts for comparison to the thylakoid proteome of bundle sheath (BS) thylakoids. The selected tissue was from the tip of young maize leaves (3rd leaf) of 12-day old seedlings.The thylakoid membrane was solubilized by the detergent DM and then diluted 10-fold and then separated by BN-PAGE. The complete gel lane was cut in 27 continuous slices and proteins were digested with trypsin, followed by off-line purification of peptides on C18 microcolumns. Proteins were identified by nanoLC-ESI-MS/MS using a LTQ-Orbitrap. Each sample was analysed in triplo. Published in Majeran et al (2008) Molec. Cellular Proteomics
4012D-IEF followed by SDS-PAGE protein separation of bundle sheath strands soluble proteome TIP. Spots were identified with MALDI-TOF and Q-TOF. Protein abundance was quantified with image analysis software. gel analysis of bundle sheath strands soluble proteome
4022D-IEF followed by SDS-PAGE protein separation of bundle sheath strands soluble proteome Base Yellow. Spots were identified with MALDI-TOF and Q-TOF. Protein abundance was quantified with image analysis software. gel analysis of bundle sheath strands soluble proteome
4032D-IEF followed by SDS-PAGE protein separation of bundle sheath strands soluble proteome Base Green Plate1. Spots were identified with MALDI-TOF and Q-TOF. Protein abundance was quantified with image analysis software. gel analysis of bundle sheath strands soluble proteome
4042D-IEF followed by SDS-PAGE protein separation of bundle sheath strands soluble proteome Base Green Plate2. Spots were identified with MALDI-TOF and Q-TOF. Protein abundance was quantified with image analysis software. gel analysis of bundle sheath strands soluble proteome
420CN-PAGE analysis of the stroma of chloroplast isolated from the clpr1-1 EMS mutant. The 350 kDa region of the gel was excized, digested by trypsin and analysis by nanoLC-LTQ-Orbitrap mass spectrometry. Information about the Clp subunits was published in Kim et al (2009) Plant Cell.
451Comparative total leaf proteome analysis of the Arabidopsis thaliana clpr4-1 mutant. Total proteins were extracted from 2 month old plantlets grown on 2% sucrose under short daylength. 400 microgram of protein was separated by SDS-PAGE and gel lane cut in 12 bands, digested with trypsin and analyzed by DDA nanoLC-LTQ-Orbitrap. Data weer searched using Mascot against AtH v8. Not for quantification
511Comparative total leaf proteome analysis of the Arabidopsis thaliana clpr4-1 mutant. Total proteins were extracted from 2 month old plantlets grown on 2% sucrose under short daylength. 400 microgram of protein was separated by SDS-PAGE and gel lane cut in 20 bands, digested with trypsin and analyzed by DDA nanoLC-LTQ-Orbitrap. Data were searched using Mascot against AtH v8. Published in Kim et al (2009) The Plant Cell (in press)
512Comparative total leaf proteome analysis of the Arabidopsis thaliana wt (Col 0) as a control for the analysis of clpr4-1 (wt2). Total proteins were extracted from 1 month old plantlets grown on 2%sucrose under short daylength. 400 microgram of protein was separated by SDS-PAGE and gel lane cut in 20 bands, digested with trypsin and analyzed by DDA nanoLC-LTQ-Orbitrap. Data were searched using Mascot against AtH v8. Published in Kim et al (2009) The Plant Cell (in press)
513Comparative total leaf proteome analysis of the Arabidopsis thaliana wt (Col 0) as a control for the analysis of clpr4-1 (wt2). Total proteins were extracted from 1 month old plantlets grown on 2%sucrose under short daylength. 400 microgram of protein was separated by SDS-PAGE and gel lane cut in 20 bands, digested with trypsin and analyzed by DDA nanoLC-LTQ-Orbitrap. Data were searched using Mascot against AtH v8. Published in Kim et al (2009) The Plant Cell (in press)
516Comparative total leaf proteome analysis of the Arabidopsis thaliana clpr4-1 mutant. Total proteins were extracted from 2 month old plantlets grown on 2% sucrose under short daylength. 400 microgram of protein was separated by SDS-PAGE and gel lane cut in 20 bands, digested with trypsin and analyzed by DDA nanoLC-LTQ-Orbitrap. Data were searched using Mascot against AtH v8.Published in Kim et al (2009) The Plant Cell (in press)
527Comparative total leaf proteome analysis of the Arabidopsis thaliana wt (Col 0) as a control for the analysis of clpr4-1 (wt1). Total proteins were extracted from 1 month old plantlets grown on 2% sucrose under short daylength. 400 microgram of protein was separated by SDS-PAGE and gel lane cut in 12 bands, digested with trypsin and analyzed by DDA nanoLC-LTQ-Orbitrap. Data weer searched using Mascot against AtH v8. Not for quantification.
528Comparative total leaf proteome analysis of the Arabidopsis thaliana wt (Col 0) as a control for the analysis of clpr4-1 (wt2). Total proteins were extracted from 1 month old plantlets grown on soil under short daylength. 400 microgram of protein was separated by SDS-PAGE and gel lane cut in 12 bands, digested with trypsin and analyzed by DDA nanoLC-LTQ-Orbitrap. Data weer searched using Mascot against AtH v8. Not for quantification.
564Comparative total leaf proteome analysis of the Arabidopsis thaliana wt plants (col-0) for label-free comparison to clpr2-1. Leaves were harvested at growth stage 1.07 and total leaf proteins were extracted with SDS and 400 microgram run out on SDS-PAGE. 12 bands were trypsinized, peptides purfied by C18 ziptips and analyzed by DDA RP-LC-ESI-LTQ-Orbitrap. This is biological replicate 2, technical replicate 1. Published in Zybailov et al (2009) MCP
565Comparative total leaf proteome analysis of the Arabidopsis thaliana wt plants (col-0) for label-free comparison to clpr2-1. Leaves were harvested at growth stage 1.07 and total leaf proteins were extracted with SDS and run out on SDS-PAGE. 12 bands were trypsinized and analyzed by RP-LC-ESI-LTQ-Orbitrap (no ziptip). This is biological replicate 2, technical replicate 2. Published in Zybailov et al (2009) MCP
566Comparative total leaf proteome analysis of the Arabidopsis thaliana clpr2-1. Leaves were harvested at growth stage 1.07 and total leaf proteins were extracted with SDS and 400 microgram run out on SDS-PAGE. 12 bands were trypsinized, peptides purfied by C18 ziptips and analyzed by DDA RP-LC-ESI-LTQ-Orbitrap. This is biological replicate 2, technical replicate 1. Published in Zybailov et al (2009) MCP
567Comparative total leaf proteome analysis of the Arabidopsis thaliana wt plants (col-0) for label-free comparison to clpr2-1. Leaves were harvested at growth stage 1.07 and total leaf proteins were extracted with SDS and run out on SDS-PAGE. 12 bands were trypsinized analyzed by RP-LC-ESI-LTQ-Orbitrap (no ziptip). This is biological replicate 2, technical replicate 2. Published in Zybailov et al (2009) MCP
595Comparative total leaf proteome analysis of the Arabidopsis thaliana wt plants (col-0) for label-free comparison to clpr2-1. Leaves were harvested at growth stage 1.07 and total leaf proteins were extracted with SDS and 400 microgram run out on SDS-PAGE. 12 bands were trypsinized, peptides purfied by C18 ziptips and analyzed by DDA RP-LC-ESI-LTQ-Orbitrap. This is biological replicate 1, technical replicate 1. Published in Zybailov et al (2009) MCP
596Comparative total leaf proteome analysis of the Arabidopsis thaliana wt plants (col-0) for label-free comparison to clpr2-1. Leaves were harvested at growth stage 1.07 and total leaf proteins were extracted with SDS and run out on SDS-PAGE. 12 bands were trypsinized, peptides purfied by C18 ziptips andanalyzed by RP-LC-ESI-LTQ-Orbitrap. This is biological replicate 1, technical replicate 2. Published in Zybailov et al (2009) MCP
597Comparative total leaf proteome analysis of the Arabidopsis thaliana clpr2-1. Leaves were harvested at growth stage 1.07 and total leaf proteins were extracted with SDS and 400 microgram run out on SDS-PAGE. 12 bands were trypsinized, peptides purfied by C18 ziptips and analyzed by DDA RP-LC-ESI-LTQ-Orbitrap. This is biological replicate 1, technical replicate 1. Published in Zybailov et al (2009) MCP
598Comparative total leaf proteome analysis of the Arabidopsis thaliana wt plants (col-0) for label-free comparison to clpr2-1. Leaves were harvested at growth stage 1.07 and total leaf proteins were extracted with SDS and run out on SDS-PAGE. 12 bands were trypsinized, peptides purfied by C18 ziptips and analyzed by RP-LC-ESI-LTQ-Orbitrap. This is biological replicate 1, technical replicate 2. Published in Zybailov et al (2009) MCP
599Comparative total leaf proteome analysis of the Arabidopsis thaliana wt plants (col-0) for label-free comparison to clpr2-1. Leaves were harvested at growth stage 1.14 and total leaf proteins were extracted with SDS and 400 microgram run out on SDS-PAGE. 12 bands were trypsinized, peptides purfied by C18 ziptips and analyzed by DDA RP-LC-ESI-LTQ-Orbitrap. This is biological replicate 1, technical replicate 1. Published in Zybailov et al (2009) MCP
600Comparative total leaf proteome analysis of the Arabidopsis thaliana wt plants (col-0) for label-free comparison to clpr2-1. Leaves were harvested at growth stage 1.14 and total leaf proteins were extracted with SDS and run out on SDS-PAGE. 12 bands were trypsinized, peptides purfied by C18 ziptips andanalyzed by RP-LC-ESI-LTQ-Orbitrap. This is biological replicate 1, technical replicate 2. Published in Zybailov et al (2009) MCP
601Comparative total leaf proteome analysis of the Arabidopsis thaliana clpr2-1. Leaves were harvested at growth stage 1.14 and total leaf proteins were extracted with SDS and 400 microgram run out on SDS-PAGE. 12 bands were trypsinized, peptides purfied by C18 ziptips and analyzed by DDA RP-LC-ESI-LTQ-Orbitrap. This is biological replicate 1, technical replicate 1. Published in Zybailov et al (2009) MCP
602Comparative total leaf proteome analysis of the Arabidopsis thaliana wt plants (col-0) for label-free comparison to clpr2-1. Leaves were harvested at growth stage 1.14 and total leaf proteins were extracted with SDS and run out on SDS-PAGE. 12 bands were trypsinized, peptides purfied by C18 ziptips and analyzed by RP-LC-ESI-LTQ-Orbitrap. This is biological replicate 1, technical replicate 2. Published in Zybailov et al (2009) MCP
617Shotgun analysis of the chloroplast stromal proteome analysis of the Arabidopsis thaliana wt plants (col-0) for label free comparison with clpr2-1. Intact chloroplasts were purified from fully grown leaf rosettes, and stroma was collected by ultracentrifugation of lysed chloroplasts and.run out on SDS-PAGE . 12 bands were trypsinized and quantified by nanoLC-ESI-MS and identified by nanoLCESI-MS/MS (Q-TOF). This is technical replicate #1. Information used for Zybailov et al (2008) PlosOne 3(4) - data were refiltered for more accurate analysis. Quantitative data published in Zybailov et al (2009) MCP
618Shotgun analysis of the chloroplast stromal proteome analysis of the Arabidopsis thaliana clpr2-1 mutant (col-0) for label free comparison with wt. Intact chloroplasts were purified from fully grown leaf rosettes, and stroma was collected by ultracentrifugation of lysed chloroplasts and run out on SDS-PAGE . 12 bands were trypsinized and quantified by nanoLC-ESI-MS and identified by nanoLCESI-MS/MS (Q-TOF). This is technical replicate #1. Information used for Zybailov et al (2008) PlosOne 3(4) - data were refiltered for more accurate analysis. Quantitative data published in Zybailov et al (2009) MCP
619Shotgun analysis of the chloroplast stromal proteome analysis of the Arabidopsis thaliana wt plants (col-0) for label free comparison with clpr2-1. Intact chloroplasts were purified from fully grown leaf rosettes, and stroma was collected by ultracentrifugation of lysed chloroplasts and.run out on SDS-PAGE . 12 bands were trypsinized and quantified by nanoLC-ESI-MS and identified by nanoLCESI-MS/MS (Q-TOF).This is technical replicate #1 - bands 1-8 only. Same samples as experiment #274. Information used for Zybailov et al (2008) PlosOne 3(4)- data were refiltered for more accurate analysis
620Shotgun analysis of the chloroplast stromal proteome analysis of the Arabidopsis thaliana clpr2-1 mutant (col-0) for label free comparison with wt. Intact chloroplasts were purified from fully grown leaf rosettes, and stroma was collected by ultracentrifugation of lysed chloroplasts and.run out on SDS-PAGE. 12 bands were trypsinized and quantified by nanoLC-ESI-MS and identified by nanoLCESI-MS/MS (Q-TOF). This is technical replicate #2-bands 1-8 only. Same samples as experiment #275. Information used for Zybailov et al (2008) PlosOne 3(4)- data were refiltered for more accurate analysis
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