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Directed evolution of the rRNA methylating enzyme Cfr reveals molecular basis of antibiotic resistance

Kaitlyn Tsai, Vanja Stojković, Lianet Noda-Garcia, Iris D Young, Alexander G Myasnikov, Jordan Kleinman, Ali Palla, Stephen N Floor, Adam Frost, James S Fraser, Dan S Tawfik, Danica Galonić Fujimori

ELife Research Article (2022) PDF

Dan Salah Tawfik (1955–2021)

Longo, L.M., Despotović, D. & Noda-García L

Nature Obituary (2020) PDF

Enzyme evolution in natural products biosynthesis: target- or diversity-oriented?

Noda-Garcia L & Tawfik D 

Current Opinion in Chemical Biology (2020) PDF


Multiple Forms of Multifunctional Proteins in Health and Disease.

Espinosa-Cantú A, Cruz-Bonilla E, Noda-Garcia L & DeLuna A

Frontiers in Cell and Developmental Biology (2020) PDF 

Chance and pleiotropy dominate genetic diversity in complex bacterial environments.

Noda-García L, Davidi D, Korenblum E, Elazar A, Putintseva E, Aharoni A & Tawfik DS

Nature Microbiology (2019) PDF


Metabolite–Enzyme Coevolution: From Single Enzymes to Metabolic Pathways and Networks.

Noda-Garcia L, Liebermeister W & Tawfik DS

Annual Review of Biochemistry (2018) PDF


The genetic basis for the adaptation of E. coli to sugar synthesis from CO2.

Herz E, Antonovsky N, Bar-On Y, Davidi D, Gleizer S, Prywes N, Noda-Garcia L, Lyn Frisch K, Zohar Y, Wernick DG, Savidor A, Barenholz U & Milo R 

Nature Communications (2017) PDF

Bacilli glutamate dehydrogenases diverged via coevolution of transcription and enzyme regulation.

Noda-Garcia L, Romero Romero ML, Longo LM, Kolodkin‐Gal I & Tawfik DS

EMBO Reports (2017) PDF

Native Mass Spectrometry of Recombinant Proteins from Crude Cell Lysates.

Gan J, Ben-Nissan G, Arkind G, Tarnavsky M, Trudeau D, Noda Garcia L, Tawfik DS & Sharon M 

Analytical Chemistry (2017) PDF

Evolution of substrate specificity in a retained enzyme driven by gene loss.

Juárez-Vázquez AL, Edirisinghe JN, Verduzco-Castro EA, Michalska K, Wu C, Noda-García L, Babnigg G, Endres M, Medina-Ruíz S, Santoyo-Flores J, Carrillo-Tripp M, Ton-That H, Joachimiak A, Henry CS & Barona-Gómez F 

Elife (2017) PDF

Antibiotic resistance evolved via inactivation of a ribosomal RNA methylating enzyme.

Stojković V, Noda-Garcia L, Tawfik DS & Fujimori DG 

Nucleic Acids Research (2016) PDF

Co-occurrence of analogous enzymes determines evolution of a novel (βα)8-isomerase sub-family after non-conserved mutations in flexible loop.

Verduzco-Castro EA, Michalska K, Endres M, Juárez-Vazquez AL, Noda-García L, Chang C, Henry CS, Babnigg G, Joachimiak A & Barona-Gómez F

Biochemical Journal (2016) 

Insights into the evolution of enzyme substrate promiscuity after the discovery of (βα)8 isomerase evolutionary intermediates from a diverse metagenome.

Noda-García L, Juárez-Vázquez AL, Ávila-Arcos MC, Verduzco-Castro EA, Montero-Morán G, Gaytán P, Carrillo-Tripp M & Barona-Gómez F

BMC Evolutionary Biology (2015) PDF


Enzyme evolution beyond gene duplication: A model for incorporating horizontal gene transfer.

Noda-García L & Barona-Gómez F 

Mobile Genetic Elements (2013) PDF


Evolution of substrate specificity in a recipient’s enzyme following horizontal gene transfer.

Noda-García L, Camacho-Zarco AR, Medina-Ruíz S, Gaytán P, Carrillo-Tripp M, Fülöp V & Barona-Gómez F 

Molecular Biology and Evolution (2013) PDF


What can genome-scale metabolic network reconstructions do for prokaryotic systematics?

Barona-Gómez F, Cruz-Morales P & Noda-García L 

Antonie Van Leeuwenhoek (2012) PDF

Identification and analysis of residues contained on β → α loops of the dual-substrate (βα)8 phosphoribosyl isomerase a specific for its phosphoribosyl anthranilate isomerase activity.

Noda-García L, Camacho-Zarco AR, Verdel-Aranda K, Wright H, Soberón X, Fülöp V & Barona-Gómez F 

Protein Science (2010) PDF


The structure/function relationship of a dual-substrate (βα)8-isomerase.

Wright H, Noda-García L, Ochoa-Leyva A, Hodgson DA, Fülöp V & Barona-Gómez F 

Biochemical and Biophysical Research Communications (2008) PDF

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