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Synthetic bacterial lipid rafts to optimize industrial bioprocesses

Deliverables

Initial communication material

A report describing the status of the first delivery of activities regarding communication and the potential impact of the stakeholders.

Study cases promotional material

Delivery of communication material dedicated to promote the showcases of Rafts4Biotech among the stakeholders.

Visual identity, website and social networks

Generation of a corporative logo and corporative colors for rafts4Biotech (Visual identity). Creation and launching of a website Integration of rafts4biotech in social networks

Project management guideline meeting for project overall and WPs

Description of the agenda for Project management. Guideline meeting for project overall and completion of the work packages associated with this project.

Mid-project communication and engagement material

A report describing the status of the mid-project delivery of activities regarding communication and engagement material and the potential impact of the stakeholders

Iterative loop 1

A report of the activities performed using the first line of microbial chassis to adapt these strains and optimise them to industrially relevant scenarios.

Description of the optimal design of the microfluidic chip and the related software for transforming chip data into kinetic values

A report of the perform of the microfluidic chip and the related software for transforming chip data into kinetic values.

Description of the design of capillary microfluidic device and related software for automated control of bioreactor device

A report of the design of capillary microfluidic device, description of the related software and the possibilities to elevate them to marketable applications.

Iterative loop 2

A report of the modifications and adaptations of the synthetic lipid rafts in the second generation of microbial chassis to improve their performance in laboratory conditions.

Metabolomic data analyses

A report of the results and data analysis of the metabolomic data of the first and second line of microbial chassis.

Presentation of Data Management Plan

A report of the main activities delineated to handle the scientific data produced during the completion of rafts4Biotech.

Transcriptomics data analyses and comparison studies

A report of the results and data analysis of the transcriptomics data of the first and second line of microbial chassis.

Proteomic data analyses and comparison studies

A report of the results and data analysis of the proteomics data of the first and second line of microbial chassis

Publications

The contribution of bacterial genome engineering to sustainable development


Published in: ISSN 1751-7915
DOI: 10.1111/1751-7915.12784

BAGEL4: a user-friendly web server to thoroughly mine RiPPs and bacteriocins

Author(s): Auke J van Heel, Anne de Jong, Chunxu Song, Jakob H Viel, Jan Kok, Oscar P Kuipers
Published in: Nucleic Acids Research, 2018, ISSN 0305-1048
DOI: 10.1093/nar/gky383

Haloalkane Dehalogenases From Marine Organisms

Author(s): Antonin Kunka, Jiri Damborsky, Zbynek Prokop
Published in: Methods in Enzymology, 2018, Page(s) 203-251, ISSN 0076-6879
DOI: 10.1016/bs.mie.2018.03.005

HotSpot Wizard 3.0: web server for automated design of mutations and smart libraries based on sequence input information

Author(s): Lenka Sumbalova, Jan Stourac, Tomas Martinek, David Bednar, Jiri Damborsky
Published in: Nucleic Acids Research, Issue 46/W1, 2018, Page(s) W356-W362, ISSN 0305-1048
DOI: 10.1093/nar/gky417

CalFitter: a web server for analysis of protein thermal denaturation data

Author(s): Stanislav Mazurenko, Jan Stourac, Antonin Kunka, Sava Nedeljković, David Bednar, Zbynek Prokop, Jiri Damborsky
Published in: Nucleic Acids Research, Issue 46/W1, 2018, Page(s) W344-W349, ISSN 0305-1048
DOI: 10.1093/nar/gky358

Increased osmolarity in biofilm triggers RcsB-dependent lipid A palmitoylation in Escherichia coli.

Author(s): Szczesny, M., C. Beloin and J.-M. Ghigo
Published in: mBio. In press., 2018, ISSN 0305-1048
DOI: 10.1128/mBio.01415-18

Bioremediation 3 . 0 : Engineering pollutant-removing bacteria in the times of systemic biology

Author(s): Pavel Dvořák, Pablo I. Nikel, Jiří Damborský, Víctor de Lorenzo
Published in: Biotechnology Advances, Issue 35/7, 2017, Page(s) 845-866, ISSN 0734-9750
DOI: 10.1016/j.biotechadv.2017.08.001