Cryo-EM structures of Escherichia coli Ec86 retron complexes reveal architecture and defence mechanism

Bacterial Retrons Enable Precise Gene Editing in Human Cells

(2022) Bin Zhao et al.   CRISPR Journal

Retron reverse transcriptase termination and phage defense are dependent on host RNase H1

(2022) Christina Palka et al.   NUCLEIC ACIDS RESEARCH

Recording gene expression order in DNA by CRISPR addition of retron barcodes

(2022) Santi Bhattarai-Kline et al.   NATURE

Bacterial retrons encode phage-defending tripartite toxin–antitoxin systems

(2022) Jacob Bobonis et al.   NATURE

Genetically encoded formaldehyde sensors inspired by a protein intra-helical crosslinking reaction

(2021) Rongfeng Zhu et al.   Nature Communications

High-throughput functional variant screens via in vivo production of single-stranded DNA

(2021) Max G. Schubert et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Detecting protein and DNA/RNA structures in cryo-EM maps of intermediate resolution using deep learning

(2021) Xiao Wang et al.   Nature Communications

Highly accurate protein structure prediction with AlphaFold

(2021) John Jumper et al.   NATURE

Precise genome editing without exogenous donor DNA via retron editing system in human cells

(2021) Xiangfeng Kong et al.   Protein & Cell

Efficient retroelement-mediated DNA writing in bacteria

(2021) Fahim Farzadfard et al.   Cell Systems

DeepEMhancer: a deep learning solution for cryo-EM volume post-processing

(2021) Ruben Sanchez-Garcia et al.   Communications Biology

Precise genome editing across kingdoms of life using retron-derived DNA

(2021) Santiago C. Lopez et al.   Nature Chemical Biology

The arms race between bacteria and their phage foes

(2020) Hannah G. Hampton et al.   NATURE

Reverse Transcriptase: From Transcriptomics to Genome Editing

(2020) Samara Martín-Alonso et al.   TRENDS IN BIOTECHNOLOGY

Diverse enzymatic activities mediate antiviral immunity in prokaryotes

(2020) Linyi Gao et al.   SCIENCE

Bacterial Retrons Function In Anti-Phage Defense

(2020) Adi Millman et al.   CELL

Systematic prediction of genes functionally associated with bacterial retrons and classification of the encoded tripartite systems

(2020) Mario Rodríguez Mestre et al.   NUCLEIC ACIDS RESEARCH

DeepTracer for fast de novo cryo-EM protein structure modeling and special studies on CoV-related complexes

(2020) Jonas Pfab et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Positive-unlabeled convolutional neural networks for particle picking in cryo-electron micrographs

(2019) Tristan Bepler et al.   NATURE METHODS

The pan-immune system of bacteria: antiviral defence as a community resource

(2019) Aude Bernheim et al.   NATURE REVIEWS MICROBIOLOGY

Retrons and their applications in genome engineering

(2019) Anna J Simon et al.   NUCLEIC ACIDS RESEARCH

Toxins, Targets, and Triggers: An Overview of Toxin-Antitoxin Biology

(2018) Alexander Harms et al.   MOLECULAR CELL

2′-Deoxyribosyltransferase from Bacillus psychrosaccharolyticus: A Mesophilic-Like Biocatalyst for the Synthesis of Modified Nucleosides from a Psychrotolerant Bacterium

(2018) Alba Fresco-Taboada et al.   Catalysts

Real-space refinement in PHENIX for cryo-EM and crystallography

(2018) Pavel V. Afonine et al.   Acta Crystallographica Section D-Structural Biology

Functional Genetic Variants Revealed by Massively Parallel Precise Genome Editing

(2018) Eilon Sharon et al.   CELL

Structure of a Thermostable Group II Intron Reverse Transcriptase with Template-Primer and Its Functional and Evolutionary Implications

(2017) Jennifer L. Stamos et al.   MOLECULAR CELL

cryoSPARC: algorithms for rapid unsupervised cryo-EM structure determination

(2017) Ali Punjani et al.   NATURE METHODS

MolProbity: More and better reference data for improved all-atom structure validation

(2017) Christopher J. Williams et al.   PROTEIN SCIENCE

The Discovery of Reverse Transcriptase

(2016) John M. Coffin et al.   Annual Review of Virology

Characterization of cell death in Escherichia coli mediated by XseA, a large subunit of exonuclease VII

(2015) Hyeim Jung et al.   JOURNAL OF MICROBIOLOGY

EMRinger: side chain–directed model and map validation for 3D cryo-electron microscopy

(2015) Benjamin A Barad et al.   NATURE METHODS

Tools for macromolecular model building and refinement into electron cryo-microscopy reconstructions

(2015) Alan Brown et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

Structures of HIV-1 RT-RNA/DNA ternary complexes with dATP and nevirapine reveal conformational flexibility of RNA/DNA: insights into requirements for RNase H cleavage

(2014) Kalyan Das et al.   NUCLEIC ACIDS RESEARCH

Genomically encoded analog memory with precise in vivo DNA writing in living cell populations

(2014) F. Farzadfard et al.   SCIENCE

Quantifying the local resolution of cryo-EM density maps

(2013) Alp Kucukelbir et al.   NATURE METHODS

High-resolution noise substitution to measure overfitting and validate resolution in 3D structure determination by single particle electron cryomicroscopy

(2013) Shaoxia Chen et al.   ULTRAMICROSCOPY

Structure of the Tribolium castaneum telomerase catalytic subunit TERT

(2008) Andrew J. Gillis et al.   NATURE