Munazah Andrabi

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About Munazah Andrabi:

No description specified

SEEK ID: https://ibisbahub.eu/people/126

Locations: United Kingdom , Spain , Italy , France , Finland , Belgium

ORCID: Not specified

Joined: 29th Jan 2020

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IBISBA public documents

This programme is for making IBISBA documents available to the public.

Projects: IBISBA 1.0 deliverables, PREP-IBISBA deliverables, Policy notes and public reports

Web page: Not specified

IBISBA is designed to accelerate end-to-end bioprocess development, linking best-in-class R&D facilities to provide seamless multi-technology services.

Focusing on the different R&D phases in bioprocess development, IBISBA offers services related to computer-assisted design of biocomponents, construction of enzymes and microbial strains, the fermentation, downstream processing and project knowledge asset management.

Projects: Uncurated Protocols Library, Template library, Muconic Acid Production in Yeast, Public announcements and documents, IBISBA Library, Curated Protocols Library, Test, DBTL-P, test, Sandbox, kHub_Test_2024

Web page: http://www.ibisba.eu

IBISBA 2020 f2f

Files and projects to support the IBISBA 2020 f2f

Projects: An inventory of the Aspergillus niger secretome by combining in silico predictions with shotgun proteomics data, Example testing project

Web page: Not specified

TransNational Access

IBISBA offers access to best-in-class facilities and know-how. Clients from academia, SMEs and big industry can find tailored solutions for their R&D needs.

Using a H2020 funding framework, IBISBA currently offers limited opportunities to researchers to obtain subsidised access to IBISBA specialised research structures and facilities, including contribution to user's travel and subsistence costs. Open Calls are launched regularly, inviting researchers from all sectors (academia and industry) ...

Projects: TRANSCRIPTPROM - Integrative and comparative analyses of response of Pichia pastoris, FLOX: FLavin-containing OXidoreductases, PlanOvac, HIGHFLUX, SporeDel, Yeast Glycerol, Galambr, SULFOCEL, Muconic Acid Production, Promoters 4 Pichia, Evocolour - The evolution and genetics of Flavobacteria forming structurally coloured colonies for sustainable biomaterials, Extreme - Genomic approach for extremozymes screening of thermophilic/anaerobic Caldicoprobacter algerensis strain, HMOzyme, PILOT-MP - Pilot scale process development for microbial proteins, UMB - Upscaling and optimisation of microalgae production for bivalves hatchery, Biocare, MEOX, Coculture, YarroFuels, PlasticPutida, Lipro-alga, Cyanofcs, ENGINEER4ARGININE, Upscale of the biocatalytic transformation of Free Fatty Acids into high-value products (BIOFFA), B-PAC, BIOFFA, GLYCOMICS, KorallionBio, MAROX, PROTEIFROM, SUPI

Web page: https://www.ibisba.eu/Our-Offer/Subsidised-Access

Showing 5 out of a possible 24 Projects Advanced Projects list for this Person with search and filtering

Muconic Acid Production in Yeast

No description specified

Programme: IBISBA

Public web page: Not specified

Organisms: Saccharomyces cerevisiae

IBISBA 1.0 deliverables

This project collects together the IBISBA 1.0 deliverables

Programme: IBISBA public documents

Public web page: Not specified

Organisms: Not specified

PREP-IBISBA deliverables

This project make available the deliverables of the PREP-IBISBA project

Programme: IBISBA public documents

Public web page: Not specified

Organisms: Not specified

blah blah

Programme: IBISBA

Public web page: Not specified

Organisms: Not specified

High-resolutions fluxomics of industrial cyanobacteria

Programme: TransNational Access

Public web page: Not specified

Organisms: Not specified

View all 24 Projects

Showing 5 out of a possible 6 Institutions Advanced Institutions list for this Person with search and filtering

CNR - Consiglio Nazionale delle Ricerche

Country: Italy

City: Rome

Web page: https://www.cnr.it

INSAT - Institut National des Science Appliquees de Toulouse

Country: France

City: Toulouse

Web page: http://www.insa-toulouse.fr

UAB - Universitat Autònoma de Barcelona

Country: Spain

City: Barcelona

Web page: http://www.uab.cat/

UNIMAN - The University of Manchester

Country: United Kingdom

City: Manchester

Web page: http://www.manchester.ac.uk/

VITO - Vlaamse Instelling voor Technologisch Onderzoek N.V.

Country: Belgium

City: Mol

Web page: https://vito.be

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In-silico prediction and mass spectrometric validation of the Aspergillus niger secretome

An inventory of the Aspergillus niger secretome by combining in silico predictions with shotgun proteomics data

No description specified

Submitter: Munazah Andrabi

Studies: Culture experiments, In-Silico Prediction, Metabolic model analysis, Validation of the secretome of Aspergillus niger

Assays: GPI Anchor Predictions, Growth experiment, Identify enzymes from spectra, Liquid chromatography tandem mass spectrometry, Mass Spectrometry Analysis, Obtain metabolic model, Obtain proteomes, Orthology identification, Signal Peptide Predictions

Snapshots: Snapshot 1

DOI: 10.34701/ibisba.1.investigation.8.1

Created: 18th May 2020 at 12:58, Last updated: 19th May 2020 at 10:36

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Metabolic model analysis

An inventory of the Aspergillus niger secretome by combining in silico predictions with shotgun proteomics data

No description specified

Submitter: Munazah Andrabi

Investigation: In-silico prediction and mass spectrometric val...

Assays: Identify enzymes from spectra, Obtain metabolic model

Snapshots: Snapshot 1, Snapshot 2

Created: 18th May 2020 at 16:01

Validation of the secretome of Aspergillus niger

An inventory of the Aspergillus niger secretome by combining in silico predictions with shotgun proteomics data

No description specified

Submitter: Munazah Andrabi

Investigation: In-silico prediction and mass spectrometric val...

Assays: Mass Spectrometry Analysis

Snapshots: No snapshots

Created: 18th May 2020 at 16:00

Culture experiments

An inventory of the Aspergillus niger secretome by combining in silico predictions with shotgun proteomics data

No description specified

Submitter: Munazah Andrabi

Investigation: In-silico prediction and mass spectrometric val...

Assays: Growth experiment, Liquid chromatography tandem mass spectrometry

Snapshots: No snapshots

Created: 18th May 2020 at 15:59

In-Silico Prediction

An inventory of the Aspergillus niger secretome by combining in silico predictions with shotgun proteomics data

A majority rule based classifier that evaluates signal peptide (SP) predictions from the best homologs of three neighbouring Aspergillus species was developed to create an improved list of potential signal peptide containing proteins encoded by the Aspergillus niger genome.

Submitter: Munazah Andrabi

Investigation: In-silico prediction and mass spectrometric val...

Assays: GPI Anchor Predictions, Obtain proteomes, Orthology identification, Signal Peptide Predictions

Snapshots: No snapshots

Created: 18th May 2020 at 14:30

Showing 5 out of a possible 9 Assays Advanced Assays list for this Person with search and filtering

Obtain proteomes

An inventory of the Aspergillus niger secretome by combining in silico predictions with shotgun proteomics data

No description specified

Submitter: Munazah Andrabi

Assay type: Comparative Genomics

Technology type: Next generation sequencing

Investigation: In-silico prediction and mass spectrometric val...

Study: In-Silico Prediction

Organisms: No organisms

SOPs: No SOPs

Data files: No Data files

Snapshots: No snapshots

Created: 18th May 2020 at 16:02, Last updated: 18th May 2020 at 16:02

Signal Peptide Predictions

An inventory of the Aspergillus niger secretome by combining in silico predictions with shotgun proteomics data

No description specified

Submitter: Munazah Andrabi

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: In-silico prediction and mass spectrometric val...

Study: In-Silico Prediction

Organisms: No organisms

SOPs: No SOPs

Data files: Aspergillus niger CBS513.88 protein model verif..., Aspergillus niger centered protein clusters wit...

Snapshots: No snapshots

Created: 18th May 2020 at 16:04, Last updated: 3rd Sep 2020 at 13:49

Orthology identification

An inventory of the Aspergillus niger secretome by combining in silico predictions with shotgun proteomics data

No description specified

Submitter: Munazah Andrabi

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: In-silico prediction and mass spectrometric val...

Study: In-Silico Prediction

Organisms: No organisms

SOPs: No SOPs

Data files: No Data files

Snapshots: No snapshots

Created: 18th May 2020 at 16:05

GPI Anchor Predictions

An inventory of the Aspergillus niger secretome by combining in silico predictions with shotgun proteomics data

No description specified

Submitter: Munazah Andrabi

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: In-silico prediction and mass spectrometric val...

Study: In-Silico Prediction

Organisms: No organisms

SOPs: No SOPs

Data files: No Data files

Snapshots: No snapshots

Created: 18th May 2020 at 16:05

Growth experiment

An inventory of the Aspergillus niger secretome by combining in silico predictions with shotgun proteomics data

No description specified

Submitter: Munazah Andrabi

Assay type: Experimental Assay Type

Technology type: Technology Type

Investigation: In-silico prediction and mass spectrometric val...

Study: Culture experiments

Organisms: No organisms

SOPs: No SOPs

Data files: No Data files

Snapshots: No snapshots

Created: 18th May 2020 at 16:06

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Aspergillus niger CBS513.88 protein model verification of four selected proteins

An inventory of the Aspergillus niger secretome by combining in silico predictions with shotgun proteomics data

No description specified

Creator: Munazah Andrabi

Submitter: Munazah Andrabi

Investigations: In-silico prediction and mass spectrometric val...

Studies: In-Silico Prediction

Assays: Signal Peptide Predictions

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Created: 3rd Sep 2020 at 13:49

Aspergillus niger centered protein clusters with a positive SignalP3 prediction

An inventory of the Aspergillus niger secretome by combining in silico predictions with shotgun proteomics data

No description specified

Creator: Munazah Andrabi

Submitter: Munazah Andrabi

Investigations: In-silico prediction and mass spectrometric val...

Studies: In-Silico Prediction

Assays: Signal Peptide Predictions

Download

Created: 3rd Sep 2020 at 13:42

Proteins detected by high-throughput mass spectrometry of secretome enriched fractions of A. niger N402 cultured under a set of controlled conditions

An inventory of the Aspergillus niger secretome by combining in silico predictions with shotgun proteomics data

No description specified

Creator: Munazah Andrabi

Submitter: Munazah Andrabi

Investigations: In-silico prediction and mass spectrometric val...

Studies: Culture experiments, Validation of the secretome of Aspergillus niger

Assays: Liquid chromatography tandem mass spectrometry, Mass Spectrometry Analysis

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Created: 20th May 2020 at 12:30

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GC/MS-based 13C metabolic flux analysis resolves the parallel and cyclic photomixotrophic metabolism of Synechocystis sp. PCC 6803 and selected deletion mutants including the Entner-Doudoroff and phosphoketolase pathways

HIGHFLUX

Abstract (Expand)

Abstract Background Cyanobacteria receive huge interest as green catalysts. While exploiting energy from sunlight, they co-utilize sugar and CO 2 . This photomixotrophic mode enables fast growth and …ze sugar and CO 2 . This photomixotrophic mode enables fast growth and high cell densities, opening perspectives for sustainable biomanufacturing. The model cyanobacterium Synechocystis sp. PCC 6803 possesses a complex architecture of glycolytic routes for glucose breakdown that are intertwined with the CO 2 -fixing Calvin-Benson-Bassham (CBB) cycle. To date, the contribution of these pathways to photomixotrophic metabolism has remained unclear. Results Here, we developed a comprehensive approach for 13 C metabolic flux analysis of Synechocystis sp. PCC 6803 during steady state photomixotrophic growth. Under these conditions, the Entner-Doudoroff (ED) and phosphoketolase (PK) pathways were found inactive but the microbe used the phosphoglucoisomerase (PGI) (63.1%) and the oxidative pentose phosphate pathway (OPP) shunts (9.3%) to fuel the CBB cycle. Mutants that lacked the ED pathway, the PK pathway, or phosphofructokinases were not affected in growth under metabolic steady-state. An ED pathway-deficient mutant ( Δeda ) exhibited an enhanced CBB cycle flux and increased glycogen formation, while the OPP shunt was almost inactive (1.3%). Under fluctuating light, ∆eda showed a growth defect, different to wild type and the other deletion strains. Conclusions The developed approach, based on parallel 13 C tracer studies with GC–MS analysis of amino acids, sugars, and sugar derivatives, optionally adding NMR data from amino acids, is valuable to study fluxes in photomixotrophic microbes to detail. In photomixotrophic cells, PGI and OPP form glycolytic shunts that merge at switch points and result in synergistic fueling of the CBB cycle for maximized CO 2 fixation. However, redirected fluxes in an ED shunt-deficient mutant and the impossibility to delete this shunt in a GAPDH2 knockout mutant, indicate that either minor fluxes (below the resolution limit of 13 C flux analysis) might exist that could provide catalytic amounts of regulatory intermediates or alternatively, that EDA possesses additional so far unknown functions. These ideas require further experiments.

Authors: Dennis Schulze, Michael Kohlstedt, Judith Becker, Edern Cahoreau, Lindsay Peyriga, Alexander Makowka, Sarah Hildebrandt, Kirstin Gutekunst, Jean-Charles Portais, Christoph Wittmann

Date Published: 1st Dec 2022

Publication Type: Journal

DOI: 10.1186/s12934-022-01790-9

Citation: Microb Cell Fact 21(1),69

Created: 30th Nov 2022 at 13:25, Last updated: 30th Nov 2022 at 13:25

Cell Biology Methods to Study Recombinant Proteins in Seeds

PlanOvac

Abstract

Not specified

Authors: Machtelt Braaksma, Elsa Arcalís, Elena S Martens-Uzunova, Emanuela Pedrazzini, Peter J Punt, Ulrike Hörmann-Dietrich, Peter J Schaap, Alessandro Vitale, Eva Stoger

Date Published: 2022

Publication Type: Journal

DOI: 10.1007/978-1-0716-2241-4_4

Citation: Recombinant Proteins in Plants 2480:61-80,Springer US

Created: 30th Nov 2022 at 13:10, Last updated: 30th Nov 2022 at 13:11

High-level production of industrially relevant oxidases by a two-stage fed-batch approach: overcoming catabolite repression in arabinose-inducible Escherichia coli systems

FLOX: FLavin-containing OXidoreductases

Abstract

Not specified

Authors: Ramón Román, Nikola Lončar, Antoni Casablancas, Marco W. Fraaije, Glòria Gonzalez

Date Published: 1st Jun 2020

Publication Type: Journal

DOI: 10.1007/s00253-020-10622-y

Citation: Appl Microbiol Biotechnol 104(12):5337-5345

Created: 30th Nov 2022 at 13:13, Last updated: 30th Nov 2022 at 13:13

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D8.4 Review of international standards activities

PREP-IBISBA deliverables

No description specified

Creator: Munazah Andrabi

Submitter: Munazah Andrabi

DOI: 10.34701/ibisba.1.document.73.2

Investigations: No Investigations

Studies: No Studies

Assays: No Assays

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Created: 15th Mar 2024 at 10:05, Last updated: 15th Mar 2024 at 10:21

D8.5 FAIR research infrastructure services for supporting IBISBA-ERIC

PREP-IBISBA deliverables

No description specified

Creator: Munazah Andrabi

Submitter: Munazah Andrabi

DOI: 10.34701/ibisba.1.document.66.1

Investigations: No Investigations

Studies: No Studies

Assays: No Assays

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Created: 11th May 2023 at 22:29

D 8.3 A first draft capacity building roadmap for EU-IBISBA asset management

PREP-IBISBA deliverables

No description specified

Creator: Munazah Andrabi

Submitter: Munazah Andrabi

DOI: 10.34701/ibisba.1.document.65.1

Investigations: No Investigations

Studies: No Studies

Assays: No Assays

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Created: 11th May 2023 at 22:28

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