Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Complexome profiling on the lpa2 mutant

ABSTRACT: Chlamydomonas wild type CC 4533 and lpa2 mutant were grown in TAP medium at 25°C and ~30 µmol photons m^-2 s^-1 on a rotary shaker. Protein complexes of three wild type (wt) and three lpa2 (mut) samples were separated by BN-PAGE and cut into 36 slices. Subsequent mass spectrometry enables the analysis of protein complex migration patterns of wild type and mutant complexes.

INSTRUMENT(S): TripleTOF 6600

ORGANISM(S): Chlamydomonas Reinhardtii

TISSUE(S): Photosynthetic Cell

SUBMITTER: Benedikt Venn

LAB HEAD: Michael Schroda

PROVIDER: PXD023443 | Pride | 2021-09-28

REPOSITORIES: Pride

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	20180420_MS_JBbnAida001.zip	Other
	20180420_MS_JBbnBida001.zip	Other
	20180420_MS_JBbnCida001.zip	Other
	20180420_MS_JBbnDida001.zip	Other
	20180420_MS_JBbnEida001.zip	Other

Items per page:

1 - 5 of 22

Publications

Complexome profiling on the Chlamydomonas lpa2 mutant reveals insights into PSII biogenesis and new PSII associated proteins.

Spaniol Benjamin B Lang Julia J Venn Benedikt B Schake Lara L Sommer Frederik F Mustas Matthieu M Geimer Stefan S Wollman Francis-André FA Choquet Yves Y Mühlhaus Timo T Schroda Michael M

Journal of experimental botany 20220101 1

While the composition and function of the major thylakoid membrane complexes are well understood, comparatively little is known about their biogenesis. The goal of this work was to shed more light on the role of auxiliary factors in the biogenesis of photosystem II (PSII). Here we have identified the homolog of LOW PSII ACCUMULATION 2 (LPA2) in Chlamydomonas. A Chlamydomonas reinhardtii lpa2 mutant grew slower in low light, was hypersensitive to high light, and exhibited aberrant structures in t ...[more]

PMID: 34436580

Similar Datasets

Effects of Lin28a overexpression on gene expression changes during culturing neural stem cells (NSCs) derived from mouse embryonic ventral midbrain (VM)

Project description:Purpose: we want to see gene expression changes during in vitro expansion of VM-derived NSCs (VM-NSCs) with cell passges in the absence or presence of Lin28a overexpression. changes upon Lin28 overexpression in P1 and P3 stages of Neural stem cells. RNA-seq, sRNA-seq, and Polysome-seq with/without Lin28 overexpression in P1 and P3 stages of Neural stem cells.

2016-08-11 | E-GEOD-77851 | biostudies-arrayexpress

Lysine acetylation of chloroplast proteins 2

Project description:In photosynthesis, light is absorbed by the thylakoid embedded light harvesting pigment protein complexes (LHCs) that surround the photosynthetic reaction centers, photosystem II (PSII) and photosystem I (PSI). The distribution of light energy between the photosystems is balanced through state transitions1,2, which refer to the phosphorylation-dependent association of the loosely bound (L) LHCII antenna trimer either to PSII or PSI 3,4. Apart from phosphorylation, other mechanisms regulating state transitions have not been reported this far. In this study we demonstrate that lysine (Lys) acetylation of chloroplast proteins is a prerequisite for state transitions in Arabidopsis thaliana. Knock-out mutants lacking a chloroplast acetyltransferase NSI (At1g32070; AtNSI, SNAT) show selective decreases in the Lys acetylation status of several photosynthetic proteins including PSI, PSII and LHCII subunits. Fluorescence measurements revealed that changes in the wavelength of illumination do not cause state transitions in the nsi mutants even though their LHCII phosphorylation status is not defected. Furthermore, biochemical analyses of thylakoid proteins and protein complexes showed that nsi plants are not able to accumulate the phosphorylation dependent PSI-LHCII megacomplex. Our results manifest that Lys acetylation by NSI has an integral role in the regulation of state transitions in Arabidopsis.

2018-07-03 | PXD007630 | Pride

Thylakoids of Picea abies - The unique photosynthetic apparatus of Pinaceae - Analysis of photosynthetic complexes in Norway spruce (Piceaabies)

Project description:Analysis of the subunits composition of the thylakoids protein complexes in Picea abies (Norway spruce) by means of two-dimensional large-pore Blue-Native/sodium dodecyl sulfate-polyacrylamide gel electrophoresis (2D lpBN/SDS-PAGE) and in-gel tryptic digestion of single spots.

2019-04-02 | PXD010071 | Pride

Complexome profiling of membrane fraction from Nox4 overexpressing HEK293 cells

Project description:Within the family of NADPH oxidases, Nox4 is unique as it is predominantly localized in the endoplasmic reticulum, has constitutive activity and generates H2O2. We hypothesize that these features are consequences of a so far unidentified Nox4-interacting protein. Blue native gel electrophoresis of solubilized membranes from HEK293 cells (overexpressing Nox4) separated macromolecular complexes containing Nox4. The combination of native gel electrophoresis and quantitative mass spectrometry was applied to identify proteins that co-migrate with Nox4. In addition, the data set contains information about macromolecular protein complexes in human cellular membranes that are stable to the solubilization with digitonin.

2017-04-07 | PXD003509 | Pride

PsbS interacting proteins - PsbS interactions involved in the activation of energy dissipation in Arabidopsis

Project description:PsbS Protein Interactions during Non-photochemical quenching The non-photochemical quenching of excitation energy (NPQ) describes a photoprotective mechanism in the antenna of PSII which dissipates excess excitation energy as heat at the level of 1Chl* and by that prevents the formation of singlet oxygen in PSII. Four different components contribute to NPQ, namely qT, qE, qZ and qI. Under saturating light conditions, the qE represents the dominant NPQ component; qE is based on a complex mechanism which strictly depends on the ΔpH across the thylakoid membrane, the PsbS protein and the xanthophyll zeaxanthin (Zx). The central role of PsbS in these processes is related to the function of PsbS as sensor of the lumen pH. However, the molecular basis of this central function and particularly the underlying interactions of PsbS with PSII antenna proteins that lead to energy quenching are largely unclear. In this work, we present an in vitro approach to identify protein transient interactions involving the PsbS protein during NPQ induction and relaxation in Arabidopsis thaliana, revealing its direct role in the formation of quenching sites in the antenna complexes of photosystem II.

2016-01-12 | PXD002160 | Pride

Mammalian NET-seq reveals genome-wide nascent transcription coupled to RNA processing

Project description:We have generated single-nucleotide resolution, nascent transcription profiles from HeLa cells by developing Native Elongation Transcript sequencing technology for mammalian chromatin (mNET-seq). Our extensive data sets provide a substantial resource to study mammalian nascent transcript profiles. We reveal unanticipated phosphorylation states for RNA polymerase II C-terminal domain (Pol II CTD) at both gene ends. We also observe that following 5’ splice site cleavage by the spliceosome, upstream exon transcripts are tethered to Pol II CTD phosphorylated on the serine 5 position (S5P) which is accumulated over downstream exons. We further show that depletion of termination factors substantially reduces Pol II pausing at gene ends leading to termination defects. Remarkably termination factors play an additional promoter role by restricting non-productive RNA synthesis and redistributing Pol II CTD S2P to promoters. These data demonstrate that CTD phosphorylation is more dynamic and variably distributed across mammalian transcription units than previously envisaged. To monitor nascent RNA within the mammalian Pol II complex, and its association with different CTD phosphorylation states, we employed mNET-seq methodology on HeLa cells, complemented with direct sequencing of chromatin-bound RNA (ChrRNA-seq). mNET-seq was preformed using the antibodies 8WG16, CMA602, CMA603 and CMA601, which are specific for unphosphorylated CTD, Ser2 phosphorylation, Ser5 phosphorylation and all CTD isoforms, respectively. In another experiment, to evaluate the effect of transcription termination factors in nascent RNA production by Pol II, mNET-seq and complemented with ChrRNA-seq was preformed on HeLa cells transfected with siRNA against PTBP1, CPSF73, CstF64+CstF64tau or Xrn2, and the gene profiles were compared with profiles from HeLa transfected with siRNA for Luciferase generated by the same protocol.

2015-04-23 | E-GEOD-60358 | biostudies-arrayexpress

Thylakoid protein phosphorylation in Physcomitrella patens

Project description:Physcomitrella patens is a model plant representing the group of mosses, which diverged from vascular plant ancestors early after land colonization. To investigate the unique characteristic of the composition and post-translational regulation of Physcomitrella patens photosynthetic apparatus, we have separated the thylakoids protein complexes in their subunits composition by means of two-dimensional large-pore Blue-Native/sodium dodecyl sulfate-polyacrylamide gel electrophoresis (2D lpBN/SDS-PAGE), followed by protein in-gel tryptic digestion of single spots. To identify the kinase responsible for phosphorylation of the major thylakoid protein complex photosystem II, a mutant line lacking the ortholog of kinase STN8 in the model angiosperm Arabidopsis thaliana has been generated and the identified thylakoid protein phosphorylation pattern have been compared with the WT moss.

2019-05-08 | PXD012501 | Pride

Dynamic complexome profiling identifies impaired protein turnover in mouse CLPP-/-embryonic fibroblasts

Project description:We studied dynamics within mitochondrial complexes in MEFs from CLPP-/- and wildtype mice.

2020-03-05 | PXD017463 | Pride

SM/J mice display spontaneous early onset disc degeneration link to ion transport system and matrisome changes

Project description:To fully apprehend the complex mechanisms responsible for intervertebral disc (IVD) degeneration, one needs to gain a deeper understanding of what characterizes a good and bad intervertebral disc. Using a quantitative proteomic approach, we compared methodically the differences existing between a mouse model known as good healer LG/J to another mouse model characterize as bad healer SM/J. A total of 5245 proteins were identified. By assessing the overlap of the NP LG/J and SM/J proteomic signature with a list of over 1000 matrisomal proteins generated by Naba and co-workers (33), we provide a first comprehensive comparison of NP IVD matrix composition in a good and bad condition and identify potential changes that are fundamental for maintenance of a healthy disc.

2018-04-16 | PXD008784 | Pride

Complexome profiling of HEK293 WT and TMBIM5 mitochondria

Project description:Mitochondria adapt to different energetic demands reshaping their proteome. Mitochondrial proteases are emerging as key regulators of these adaptive processes. Here, we use a multi-proteomic approach to demonstrate regulation of the m-AAA protease AFG3L2 by the mitochondrial proton gradient, coupling mitochondrial protein turnover to the energetic status of mitochondria. We identify TMBIM5 (previously also known as GHITM or MICS1) as a Ca2+/H+ exchanger in the mitochondrial inner membrane, which binds to and inhibits the m-AAA protease. TMBIM5 ensures cell survival and respiration, allowing Ca2+ efflux from mitochondria and limiting mitochondrial hyperpolarization. Persistent hyperpolarization, however, triggers degradation of TMBIM5 and activation of the m-AAA protease. The m-AAA protease broadly remodels the mitochondrial proteome and mediates the proteolytic breakdown of respiratory complex I to confine ROS production and oxidative damage in hyperpolarized mitochondria. TMBIM5 thus integrates mitochondrial Ca2+ signaling and the energetic status of mitochondria with protein turnover rates to reshape the mitochondrial proteome and adjust the cellular metabolism. This dataset was used to demonstrate that TMBIM5-/- is not required for Complex I assembly into supercomplexes.

2022-07-26 | PXD033084 | Pride