Publications – Typas Group

Systematic mapping of antibiotic cross-resistance and collateral sensitivity with chemical genetics.

Sakenova N, Cacace E, Orakov A, Huber F, Varik V, Kritikos G, Michiels J, Bork P, Cossart P, Goemans CV, Typas A

Nature microbiology, 2024

doi:10.1038/s41564-024-01857-w.

Salmonella infection impacts host proteome thermal stability.

Birk MS, Walch P, Baykara T, Sefried S, Amelang J, Buerova E, Breuer I, Vervoots J, Typas A, Savitski MM, Mateus A, Selkrig J

European journal of cell biology, 2024

doi:10.1016/j.ejcb.2024.151448.

Emergence of community behaviors in the gut microbiota upon drug treatment.

Garcia-Santamarina S, Kuhn M, Devendran S, Maier L, Driessen M, Mateus A, Mastrorilli E, Brochado AR, Savitski MM, Patil KR, Zimmermann M, Bork P, Typas A

Cell, 2024

doi:10.1016/j.cell.2024.08.037.

LD-transpeptidation is crucial for fitness and polar growth in Agrobacterium tumefaciens.

Aliashkevich A, Guest T, Alvarez L, Gilmore MC, Rea D, Amstutz J, Mateus A, Schiffthaler B, Ruiz I, Typas A, Savitski MM, Brown PJB, Cava F

PLoS genetics, 2024

doi:10.1371/journal.pgen.1011449.

Principles of bacterial innate immunity against viruses.

Laub MT, Typas A

Current opinion in immunology, 2024

doi:10.1016/j.coi.2024.102445.

Essentiality of LD-Transpeptidation in Agrobacterium tumefaciens.

Aliashkevich A, Guest T, Alvarez L, Gilmore MC, Amstutz J, Mateus A, Schiffthaler B, Ruiz I, Typas A, Savitski MM, Brown PJB, Cava F

bioRxiv, 2024

doi:10.1101/2024.06.21.600065.

Uncovering nitroxoline activity spectrum, mode of action and resistance across Gram-negative bacteria.

Cacace E, Tietgen M, Steinhauer M, Mateus A, Schultze TG, Eckermann M, Galardini M, Varik V, Koumoutsi A, Parzeller JJ, Corona F, Orakov A, Knopp M, Brauer-Nikonow A, Bork P, Romao CV, Zimmermann M, Cloetens P, Savitski MM, Typas A, Göttig S

bioRxiv, 2024

doi:10.1101/2024.06.04.597298.

Bactericidal effect of tetracycline in E. coli strain ED1a may be associated with ribosome dysfunction.

Khusainov I, Romanov N, Goemans C, Turoňová B, Zimmerli CE, Welsch S, Langer JD, Typas A, Beck M

Nature communications, 2024

doi:10.1038/s41467-024-49084-5.

TAC-TIC, a high-throughput genetics method to identify triggers or blockers of bacterial toxin-antitoxin systems.

Bobonis J, Yang ALJ, Voogdt CGP, Typas A

Nature protocols, 2024

doi:10.1038/s41596-024-00988-y.

Emergent survival and extinction of species within gut bacterial communities.

van den Berg NI, Tramontano M, Guan R, Andrejev S, Blasche S, Kim Y, Klünemann M, Brochado AR, Kalmar L, Telzerow A, Bork P, Sevin DC, Typas A, Patil KR

bioRxiv, 2024

doi:10.1101/2024.04.29.591619.

High-throughput anaerobic screening for identifying compounds acting against gut bacteria in monocultures or communities.

Müller P, de la Cuesta-Zuluaga J, Kuhn M, Baghai Arassi M, Treis T, Blasche S, Zimmermann M, Bork P, Patil KR, Typas A, Garcia-Santamarina S, Maier L

Nature protocols, 2024

doi:10.1038/s41596-023-00926-4.

Randomly barcoded transposon mutant libraries for gut commensals I: Strategies for efficient library construction.

Tripathi S, Voogdt CGP, Bassler SO, Anderson M, Huang PH, Sakenova N, Capraz T, Jain S, Koumoutsi A, Bravo AM, Trotter V, Zimmerman M, Sonnenburg JL, Buie C, Typas A, Deutschbauer AM, Shiver AL, Huang KC

Cell reports, 2024

doi:10.1016/j.celrep.2023.113517.

Randomly barcoded transposon mutant libraries for gut commensals II: Applying libraries for functional genetics.

Voogdt CGP, Tripathi S, Bassler SO, McKeithen-Mead SA, Guiberson ER, Koumoutsi A, Bravo AM, Buie C, Zimmermann M, Sonnenburg JL, Typas A, Deutschbauer AM, Shiver AL, Huang KC

Cell reports, 2024

doi:10.1016/j.celrep.2023.113519.

Systematic analysis of drug combinations against Gram-positive bacteria.

Cacace E, Kim V, Varik V, Knopp M, Tietgen M, Brauer-Nikonow A, Inecik K, Mateus A, Milanese A, Mårli MT, Mitosch K, Selkrig J, Brochado AR, Kuipers OP, Kjos M, Zeller G, Savitski MM, Göttig S, Huber W, Typas A

Nature microbiology, 2023

doi:10.1038/s41564-023-01486-9.

Deep quantitative glycoproteomics reveals gut microbiome induced remodeling of the brain glycoproteome.

Potel CM, Burtscher ML, Garrido-Rodriguez M, Brauer-Nikonow A, Becher I, Typas A, Zimmermann M, Savitski MM

bioRxiv, 2023

doi:10.1101/2023.09.13.557529.

A pathogen-specific isotope tracing approach reveals metabolic activities and fluxes of intracellular Salmonella.

Mitosch K, Beyß M, Phapale P, Drotleff B, Nöh K, Alexandrov T, Patil KR, Typas A

PLoS biology, 2023

doi:10.1371/journal.pbio.3002198.

Consistency across multi-omics layers in a drug-perturbed gut microbial community.

Wuyts S, Alves R, Zimmermann-Kogadeeva M, Nishijima S, Blasche S, Driessen M, Geyer PE, Hercog R, Kartal E, Maier L, Müller JB, Garcia Santamarina S, Schmidt TSB, Sevin DC, Telzerow A, Treit PV, Wenzel T, Typas A, Patil KR, Mann M, Kuhn M, Bork P

Molecular systems biology, 2023

doi:10.15252/msb.202311525.

D-amino acids signal a stress-dependent run-away response in Vibrio cholerae.

Irazoki O, Ter Beek J, Alvarez L, Mateus A, Colin R, Typas A, Savitski MM, Sourjik V, Berntsson RP, Cava F

Nature microbiology, 2023

doi:10.1038/s41564-023-01419-6.

The killing of human gut commensalE. coliED1a by tetracycline is associated with severe ribosome dysfunction.

Khusainov I, Romanov N, Goemans C, Turoňová B, Zimmerli EC, Welsch S, Langer DJ, Typas A, Beck M

bioRxiv, 2023

doi:10.1101/2023.07.06.546847.

The New Microbiology: an international lecture course on the island of Spetses.

Cossart P, Kolter R, Lemaitre B, Typas A

microLife, 2023

doi:10.1093/femsml/uqac026.

Unravelling metabolic cross-feeding in a yeast-bacteria community using 13 C-based proteomics.

Gabrielli N, Maga-Nteve C, Kafkia E, Rettel M, Loeffler J, Kamrad S, Typas A, Patil KR

Molecular systems biology, 2023

doi:10.15252/msb.202211501.

2FAST2Q: a general-purpose sequence search and counting program for FASTQ files.

Bravo AM, Typas A, Veening JW

PeerJ, 2022

doi:10.7717/peerj.14041.

Transient glycolytic complexation of arsenate enhances resistance in the enteropathogen Vibrio cholerae.

Bueno E, Pinedo V, Shinde DD, Mateus A, Typas A, Savitski MM, Thomas VC, Cava F

mBio, 2022

doi:10.1128/mbio.01654-22.

Modulation of bacterial cell size and growth rate via activation of a cell envelope stress response.

Miguel A, Zietek M, Shi H, Sueki A, Maier L, Verheul J, Blaauwen Td, Valen DV, Typas A, Huang KC

bioRxiv, 2022

doi:10.1101/2022.07.26.501648.

Bacterial cell widening alters periplasmic size and activates envelope stress responses.

Zietek M, Miguel A, Khusainov I, Shi H, Asmar AT, Ram S, Wartel M, Sueki A, Schorb M, Goulian M, Collet J, Beck M, Huang KC, Typas A

bioRxiv, 2022

doi:10.1101/2022.07.26.501644.

Bacterial retrons encode phage-defending tripartite toxin-antitoxin systems.

Bobonis J, Mitosch K, Mateus A, Karcher N, Kritikos G, Selkrig J, Zietek M, Monzon V, Pfalz B, Garcia-Santamarina S, Galardini M, Sueki A, Kobayashi C, Stein F, Bateman A, Zeller G, Savitski MM, Elfenbein JR, Andrews-Polymenis HL, Typas A

Nature, 2022

doi:10.1038/s41586-022-05091-4.

Early midcell localization of Escherichia coli PBP4 supports the function of peptidoglycan amidases.

Verheul J, Lodge A, Yau HCL, Liu X, Boelter G, Liu X, Solovyova AS, Typas A, Banzhaf M, Vollmer W, den Blaauwen T

PLoS genetics, 2022

doi:10.1371/journal.pgen.1010222.

Bioactivity assessment of natural compounds using machine learning models trained on target similarity between drugs.

Periwal V, Bassler S, Andrejev S, Gabrielli N, Patil KR, Typas A, Patil KR

PLoS computational biology, 2022

doi:10.1371/journal.pcbi.1010029.

High-throughput functional characterization of protein phosphorylation sites in yeast.

Viéitez C, Busby BP, Ochoa D, Mateus A, Memon D, Galardini M, Yildiz U, Trovato M, Jawed A, Geiger AG, Oborská-Oplová M, Potel CM, Vonesch SC, Szu Tu C, Shahraz M, Stein F, Steinmetz LM, Panse VG, Noh KM, Savitski MM, Typas A, Beltrao P

Nature biotechnology, 2021

doi:10.1038/s41587-021-01051-x.

Unravelling the collateral damage of antibiotics on gut bacteria.

Maier L, Goemans CV, Wirbel J, Kuhn M, Eberl C, Pruteanu M, Müller P, Garcia-Santamarina S, Cacace E, Zhang B, Gekeler C, Banerjee T, Anderson EE, Milanese A, Löber U, Forslund SK, Patil KR, Zimmermann M, Stecher B, Zeller G, Bork P, Typas A

Nature, 2021

doi:10.1038/s41586-021-03986-2.

Bioaccumulation of therapeutic drugs by human gut bacteria.

Klünemann M, Andrejev S, Blasche S, Mateus A, Phapale P, Devendran S, Vappiani J, Simon B, Scott TA, Kafkia E, Konstantinidis D, Zirngibl K, Mastrorilli E, Banzhaf M, Mackmull MT, Hövelmann F, Nesme L, Brochado AR, Maier L, Bock T, Periwal V, Kumar M, Kim Y, Tramontano M, Schultz C, Beck M, Hennig J, Zimmermann M, Sévin DC, Cabreiro F, Savitski MM, Bork P, Typas A, Patil KR

Nature, 2021

doi:10.1038/s41586-021-03891-8.

Transcriptional and post-transcriptional polar effects in bacterial gene deletion libraries.

Mateus A, Shah M, Hevler J, Kurzawa N, Bobonis J, Typas A, Savitski MM

mSystems, 2021

doi:10.1128/mSystems.00813-21.

Impact of phosphorylation on thermal stability of proteins.

Potel CM, Kurzawa N, Becher I, Typas A, Mateus A, Savitski MM

Nature methods, 2021

doi:10.1038/s41592-021-01177-5.

Global mapping of Salmonella enterica-host protein-protein interactions during infection.

Walch P, Selkrig J, Knodler LA, Rettel M, Stein F, Fernandez K, Viéitez C, Potel CM, Scholzen K, Geyer M, Rottner K, Steele-Mortimer O, Savitski MM, Holden DW, Typas A

Cell Host and Microbe, 2021

doi:10.1016/j.chom.2021.06.004.

Towards a mechanistic understanding of reciprocal drug-microbiome interactions.

Zimmermann M, Patil KR, Typas A, Maier L

Molecular systems biology, 2021

doi:10.15252/msb.202010116.

SARS-CoV-2 infection remodels the host protein thermal stability landscape.

Selkrig J, Stanifer M, Mateus A, Mitosch K, Barrio-Hernandez I, Rettel M, Kim H, Voogdt CGP, Walch P, Kee C, Kurzawa N, Stein F, Potel C, Jarzab A, Kuster B, Bartenschlager R, Boulant S, Beltrao P, Typas A, Savitski MM

Molecular systems biology, 2021

doi:10.15252/msb.202010188.

The functional proteome landscape of Escherichia coli.

Mateus A, Hevler J, Bobonis J, Kurzawa N, Shah M, Mitosch K, Goemans CV, Helm D, Stein F, Typas A, Savitski MM

Nature, 2020

doi:10.1038/s41586-020-3002-5.

Bioactivity assessment of natural compounds using machine learning models based on drug target similarity.

Periwal V, Bassler S, Andrejev S, Gabrielli N, Typas A, Patil KR

bioRxiv, 2020

doi:10.1101/2020.11.06.371112.

Editorial overview: microbial systems biology.

Typas A, Li GW

Current opinion in microbiology, 2020

doi:10.1016/j.mib.2020.11.004.

Midcell localization of PBP4 of Escherichia coli is essential for the timing of divisome assembly.

Verheul J, Lodge A, Yau HCL, Liu X, Solovyova AS, Typas A, Banzhaf M, Vollmer W, den Blaauwen T

bioRxiv, 2020

doi:10.1101/2020.07.30.230052.

Spatiotemporal proteomics uncovers cathepsin-dependent macrophage cell death during Salmonella infection.

Selkrig J, Li N, Hausmann A, Mangan MSJ, Zietek M, Mateus A, Bobonis J, Sueki A, Imamura H, El Debs B, Sigismondo G, Florea BI, Overkleeft HS, Kopitar-Jerala N, Turk B, Beltrao P, Savitski MM, Latz E, Hardt WD, Krijgsveld J, Typas A

Nature microbiology, 2020

doi:10.1038/s41564-020-0736-7.

Phage proteins block and trigger retron toxin/antitoxin systems.

Bobonis J, Mitosch K, Mateus A, Kritikos G, Elfenbein JR, Savitski MM, Andrews-Polymenis H, Typas A

bioRxiv, 2020

doi:10.1101/2020.06.22.160242.

A dual-mechanism antibiotic kills gram-negative bacteria and avoids drug resistance.

Martin JK, Sheehan JP, Bratton BP, Moore GM, Mateus A, Li SH, Kim H, Rabinowitz JD, Typas A, Savitski MM, Wilson MZ, Gitai Z

Cell, 2020

doi:10.1016/j.cell.2020.05.005.

McQ – an open-source multiplexed SARS-CoV-2 quantification platform.

Vonesch SC, Bredikhin D, Dobrev N, Villacorta L, Kleinendorst R, Cacace E, Flock J, Frank M, Jung F, Kornienko J, Mitosch K, Osuna-Lopez M, Zimmermann J, Goettig S, Hamprecht A, Kraeusslich H, Knop M, Typas A, Steinmetz LM, Benes V, Remans K, Krebs AR

medRxiv, 2020

doi:10.1101/2020.12.02.20242628.

Thermal proteome profiling for interrogating protein interactions.

Mateus A, Kurzawa N, Becher I, Sridharan S, Helm D, Stein F, Typas A, Savitski MM

Molecular systems biology, 2020

doi:10.15252/msb.20199232.

Systematic localization of Escherichia coli membrane proteins.

Sueki A, Stein F, Savitski MM, Selkrig J, Typas A

mSystems, 2020

doi:10.1128/mSystems.00808-19.

Proton motive force disruptors block bacterial competence and horizontal gene transfer.

Domenech A, Brochado AR, Sender V, Hentrich K, Henriques-Normark B, Typas A, Veening JW

Cell host & microbe, 2020

doi:10.1016/j.chom.2020.02.002.

Outer membrane lipoprotein NlpI scaffolds peptidoglycan hydrolases within multi-enzyme complexes in Escherichia coli.

Banzhaf M, Yau HC, Verheul J, Lodge A, Kritikos G, Mateus A, Cordier B, Hov AK, Stein F, Wartel M, Pazos M, Solovyova AS, Breukink E, van Teeffelen S, Savitski MM, den Blaauwen T, Typas A, Vollmer W

The EMBO journal, 2020

doi:10.15252/embj.2019102246.

Dissecting the collateral damage of antibiotics on gut microbes.

Maier L, Goemans CV, Pruteanu M, Wirbel J, Kuhn M, Cacace E, Banerjee T, Anderson EE, Milanese A, Löber U, Forslund SK, Patil KP, Zeller G, Bork P, Typas A

bioRxiv, 2020

doi:10.1101/2020.01.09.893560.

The impact of the genetic background on gene deletion phenotypes in Saccharomyces cerevisiae.

Galardini M, Busby BP, Vieitez C, Dunham AS, Typas A, Beltrao P

Molecular systems biology, 2019

doi:10.15252/msb.20198831.

Towards a systematic map of the functional role of protein phosphorylation.

Viéitez C, Busby BP, Ochoa D, Mateus A, Galardini M, Jawed A, Memon D, Potel CM, Vonesch SC, Tu CS, Shahraz M, Stein F, Steinmetz LM, Savitski MM, Typas A, Beltrao P

bioRxiv, 2019

doi:10.1101/872770.

The first wide-scale drug repurposing screen using the Prestwick Chemical Library (1200 bioactive molecules) against Neisseria gonorrhoeae identifies high in vitro activity of auranofin and many additional drugs.

Foerster S, Gustafsson TN, Rita Brochado A, Desilvestro V, Typas A, Unemo M

APMIS : acta pathologica, microbiologica, et immunologica Scandinavica, 2019

doi:10.1111/apm.13014.

Escherichia coli limits Salmonella Typhimurium infections after diet shifts and fat-mediated microbiota perturbation in mice.

Wotzka SY, Kreuzer M, Maier L, Arnoldini M, Nguyen BD, Brachmann AO, Berthold DL, Zund M, Hausmann A, Bakkeren E, Hoces D, Gul E, Beutler M, Dolowschiak T, Zimmermann M, Fuhrer T, Moor K, Sauer U, Typas A, Piel J, Diard M, Macpherson AJ, Stecher B, Sunagawa S, Slack E, Hardt WD

Nature microbiology, 2019

doi:10.1038/s41564-019-0568-5.

A new antibiotic selectively kills Gram-negative pathogens.

Imai Y, Meyer KJ, Iinishi A, Favre-Godal Q, Green R, Manuse S, Caboni M, Mori M, Niles S, Ghiglieri M, Honrao C, Ma X, Guo J, Makriyannis A, Linares-Otoya L, Wuisan ZG, Böhringer N, Wu R, Kaur H, Typas A, Mateus A, Espinoza JL, Savitski MM, Nelson KE, O'Rourke A, Noinaj N, Hiller S, D'Onofrio A, Schäberle TF, Lewis K

Nature, 2019

doi:10.1038/s41586-019-1791-1.

A resource of variant effect predictions of single nucleotide variants in model organisms.

Wagih O, Galardini M, Busby BP, Memon D, Typas A, Beltrao P

Molecular systems biology, 2018

doi:10.15252/msb.20188430.

Recovery of gut microbiota of healthy adults following antibiotic exposure.

Palleja A, Mikkelsen KH, Forslund SK, Kashani A, Allin KH, Nielsen T, Hansen TH, Liang S, Feng Q, Zhang C, Pyl PT, Coelho LP, Yang H, Wang J, Typas A, Nielsen HB, Nielsen MF, Wang J, Bork P, Hansen T, Vilsbøll T, Arumugam M, Knop FK, Pedersen O

Nature microbiology, 2018

doi:10.1038/s41564-018-0257-9.

Thermal proteome profiling in bacteria: probing protein state in vivo.

Mateus A, Bobonis J, Kurzawa N, Stein F, Helm D, Hevler J, Typas A, Savitski MM

Molecular systems biology, 2018

doi:10.15252/msb.20188242.

Species-specific activity of antibacterial drug combinations.

Brochado AR, Telzerow A, Bobonis J, Banzhaf M, Mateus A, Selkrig J, Huth E, Bassler S, Zamarreño Beas J, Zietek M, Ng N, Foerster S, Ezraty B, Py B, Barras F, Bork P, Savitski MM, Göttig S, Typas A

Nature, 2018

doi:10.1038/s41586-018-0278-9.

Pervasive protein thermal stability variation during the cell cycle.

Becher I, Andrés-Pons A, Romanov N, Stein F, Schramm M, Baudin F, Helm D, Kurzawa N, Mateus A, Mackmull MT, Typas A, Müller CW, Bork P, Beck M, Savitski MM

Cell, 2018

doi:10.1016/j.cell.2018.03.053.

Nutritional preferences of human gut bacteria reveal their metabolic idiosyncrasies.

Tramontano M, Andrejev S, Pruteanu M, Klünemann M, Kuhn M, Galardini M, Jouhten P, Zelezniak A, Zeller G, Bork P, Typas A, Patil KR

Nature microbiology, 2018

doi:10.1038/s41564-018-0123-9.

Extensive impact of non-antibiotic drugs on human gut bacteria.

Maier L, Pruteanu M, Kuhn M, Zeller G, Telzerow A, Anderson EE, Brochado AR, Fernandez KC, Dose H, Mori H, Patil KR, Bork P, Typas A

Nature, 2018

doi:10.1038/nature25979.

Emerging and evolving concepts in gene essentiality.

Rancati G, Moffat J, Typas A, Pavelka N

Nature reviews. Genetics, 2017

doi:10.1038/nrg.2017.74.

Phenotype inference in an Escherichia coli strain panel.

Galardini M, Koumoutsi A, Herrera-Dominguez L, Cordero Varela JA, Telzerow A, Wagih O, Wartel M, Clermont O, Denamur E, Typas A, Beltrao P

eLife, 2017

doi:10.7554/eLife.31035.

Salt-responsive gut commensal modulates TH17 axis and disease.

Wilck N, Matus MG, Kearney SM, Olesen SW, Forslund K, Bartolomaeus H, Haase S, Mähler A, Balogh A, Markó L, Vvedenskaya O, Kleiner FH, Tsvetkov D, Klug L, Costea PI, Sunagawa S, Maier L, Rakova N, Schatz V, Neubert P, Frätzer C, Krannich A, Gollasch M, Grohme DA, Côrte-Real BF, Gerlach RG, Basic M, Typas A, Wu C, Titze JM, Jantsch J, Boschmann M, Dechend R, Kleinewietfeld M, Kempa S, Bork P, Linker RA, Alm EJ, Müller DN

Nature, 2017

doi:10.1038/nature24628.

Yeast creates a niche for symbiotic lactic acid bacteria through nitrogen overflow.

Ponomarova O, Gabrielli N, Sévin DC, Mülleder M, Zirngibl K, Bulyha K, Andrejev S, Kafkia E, Typas A, Sauer U, Ralser M, Patil KR

Cell systems, 2017

doi:10.1016/j.cels.2017.09.002.

Systematically investigating the impact of medication on the gut microbiome.

Maier L, Typas A

Current opinion in microbiology, 2017

doi:10.1016/j.mib.2017.11.001.

Learning directed acyclic graphs from large-scale genomics data.

Nikolay F, Pesavento M, Kritikos G, Typas N

EURASIP journal on bioinformatics & systems biology, 2017

doi:10.1186/s13637-017-0063-3.

Chemical genetics in drug discovery.

Cacace E, Kritikos G, Typas A

Current Opinion in Systems Biology, 2017

doi:10.1016/j.coisb.2017.05.020.

Host-Microbe Co-metabolism Dictates Cancer Drug Efficacy in C. elegans.

Scott TA, Quintaneiro LM, Norvaisas P, Lui PP, Wilson MP, Leung KY, Herrera-Dominguez L, Sudiwala S, Pessia A, Clayton PT, Bryson K, Velagapudi V, Mills PB, Typas A, Greene NDE, Cabreiro F

Cell, 2017

doi:10.1016/j.cell.2017.03.040.

Construction and analysis of two genome-scale deletion libraries for Bacillus subtilis.

Koo BM, Kritikos G, Farelli JD, Todor H, Tong K, Kimsey H, Wapinski I, Galardini M, Cabal A, Peters JM, Hachmann AB, Rudner DZ, Allen KN, Typas A, Gross CA.

Cell Systems, 2017

doi:10.1016/j.cels.2016.12.013.

A tool named Iris for versatile high-throughput phenotyping in microorganisms.

Kritikos G, Banzhaf M, Herrera-Dominguez L, Koumoutsi A, Wartel M, Zietek M, Typas A.

Nature Microbiology, 2017

doi:10.1038/nmicrobiol.2017.14.

An atlas of human kinase regulation.

Ochoa D, Jonikas M, Lawrence RT, El Debs B, Selkrig J, Typas A, Villén J, Santos SD, Beltrao P

Molecular systems biology, 2016

doi:10.15252/msb.20167295.

A chemical-genomic screen of neglected antibiotics reveals illicit transport of kasugamycin and blasticidin S.

Shiver AL, Osadnik H, Kritikos G, Li B, Krogan N, Typas A, Gross CA

PLoS genetics, 2016

doi:10.1371/journal.pgen.1006124.

Integration of multi-omics data of a genome-reduced bacterium: Prevalence of post-transcriptional regulation and its correlation with protein abundances.

Chen WH, van Noort V, Lluch-Senar M, Hennrich ML, H Wodke JA, Yus E, Alibés A, Roma G, Mende DR, Pesavento C, Typas A, Gavin AC, Serrano L, Bork P

Nucleic acids research, 2016

doi:10.1093/nar/gkw004.

Editorial overview: microbial systems biology.

Brown ED, Typas A

Current opinion in microbiology, 2015

doi:10.1016/j.mib.2015.09.007.

Bacterial protein networks: properties and functions.

Typas A, Sourjik V

Nature reviews. Microbiology, 2015

doi:10.1038/nrmicro3508.

Coordination of peptidoglycan synthesis and outer membrane constriction during Escherichia coli cell division.

Gray AN, Egan AJ, Van't Veer IL, Verheul J, Colavin A, Koumoutsi A, Biboy J, Altelaar MA, Damen MJ, Huang KC, Simorre JP, Breukink E, den Blaauwen T, Typas A, Gross CA, Vollmer W

eLife, 2015

doi:10.7554/elife.07118.

Detecting Envelope Stress by Monitoring β-Barrel Assembly.

Cho SH, Szewczyk J, Pesavento C, Zietek M, Banzhaf M, Roszczenko P, Asmar A, Laloux G, Hov AK, Leverrier P, Van der Henst C, Vertommen D, Typas A, Collet JF

Cell, 2014

doi:10.1016/j.cell.2014.11.045.

Outer-membrane lipoprotein LpoB spans the periplasm to stimulate the peptidoglycan synthase PBP1B.

Egan AJ, Jean NL, Koumoutsi A, Bougault CM, Biboy J, Sassine J, Solovyova AS, Breukink E, Typas A, Vollmer W, Simorre JP

Proceedings of the National Academy of Sciences of the United States of America, 2014

doi:10.1073/pnas.1400376111.

Dynamic protein complexes for cell growth:

Banzhaf M, Typas A

Proceedings of the National Academy of Sciences of the United States of America, 2014

doi:10.1073/pnas.1402016111.

A genome-wide screen for bacterial envelope biogenesis mutants identifies a novel factor involved in cell wall precursor metabolism

Paradis-Bleau C, Kritikos G, Orlova K, Typas A, Bernhardt TG

PLoS genetics, 2014

doi:10.1371/journal.pgen.1004056.

Country-specific antibiotic use practices impact the human gut resistome

Forslund K, Sunagawa S, Kultima JR, Mende DR, Arumugam M, Typas A, Bork P

Genome research, 2013

doi:10.1101/gr.155465.113.

Fe-S cluster biosynthesis controls uptake of aminoglycosides in a ROS-less death pathway

Ezraty B, Vergnes A, Banzhaf M, Duverger Y, Huguenot A, Brochado AR, Su SY, Espinosa L, Loiseau L, Py B, Typas A, Barras F

Science (New York, N.Y.), 2013

doi:10.1126/science.1238328.

High-throughput approaches to understanding gene function and mapping network architecture in bacteria

Brochado AR, Typas A

Current opinion in microbiology, 2013

doi:10.1016/j.mib.2013.01.008.

From the regulation of peptidoglycan synthesis to bacterial growth and morphology

Typas A, Banzhaf M, Gross CA, Vollmer W

Nature reviews. Microbiology, 2012

doi:10.1038/nrmicro2677.

Selective ribosome profiling reveals the cotranslational chaperone action of trigger factor in vivo

Oh E, Becker AH, Sandikci A, Huber D, Chaba R, Gloge F, Nichols RJ, Typas A, Gross CA, Kramer G, Weissman JS, Bukau B

Cell, 2011

doi:10.1016/j.cell.2011.10.044.

Escherichia coli σ⁷⁰ senses sequence and conformation of the promoter spacer region

Singh SS, Typas A, Hengge R, Grainger DC

Nucleic acids research, 2011

doi:10.1093/nar/gkr080.

Phenotypic landscape of a bacterial cell

Nichols RJ, Sen S, Choo YJ, Beltrao P, Zietek M, Chaba R, Lee S, Kazmierczak KM, Lee KJ, Wong A, Shales M, Lovett S, Winkler ME, Krogan NJ, Typas A, Gross CA

Cell, 2011

doi:10.1016/j.cell.2010.11.052.

Regulation of peptidoglycan synthesis by outer-membrane proteins

Typas A, Banzhaf M, van den Berg van Saparoea B, Verheul J, Biboy J, Nichols RJ, Zietek M, Beilharz K, Kannenberg K, von Rechenberg M, Breukink E, den Blaauwen T, Gross CA, Vollmer W

Cell, 2010

doi:10.1016/j.cell.2010.11.038.