The reductive glycine pathway allows autotrophic growth of Desulfovibrio desulfuricans

Growth of E. coli on formate and methanol via the reductive glycine pathway

(2020) Seohyoung Kim et al.   Nature Chemical Biology

Functional cooperation of the glycine synthase-reductase and Wood–Ljungdahl pathways for autotrophic growth of Clostridium drakei

(2020) Yoseb Song et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Core Catalysis of the Reductive Glycine Pathway Demonstrated in Yeast

(2019) Jorge Gonzalez de la Cruz et al.   ACS Synthetic Biology

An in silico survey of Clostridioides difficile extrachromosomal elements

(2019) Bastian V. H. Hornung et al.   Microbial Genomics

Reinforcing carbon fixation: CO 2 reduction replacing and supporting carboxylation

(2018) Charles AR Cotton et al.   CURRENT OPINION IN BIOTECHNOLOGY

Reversibility of citrate synthase allows autotrophic growth of a thermophilic bacterium

(2018) Achim Mall et al.   SCIENCE

A primordial and reversible TCA cycle in a facultatively chemolithoautotrophic thermophile

(2018) Takuro Nunoura et al.   SCIENCE

The role of dynamic enzyme assemblies and substrate channelling in metabolic regulation

(2018) Lee J. Sweetlove et al.   Nature Communications

In Vivo Assimilation of One-Carbon via a Synthetic Reductive Glycine Pathway in Escherichia coli

(2018) Oren Yishai et al.   ACS Synthetic Biology

Growth of Dehalococcoides mccartyi species in an autotrophic consortium producing limited acetate

(2018) Chang Ding et al.   BIODEGRADATION

The PRIDE database and related tools and resources in 2019: improving support for quantification data

(2018) Yasset Perez-Riverol et al.   NUCLEIC ACIDS RESEARCH

Efficient reduction of CO2by the molybdenum-containing formate dehydrogenase fromCupriavidus necator(Ralstonia eutropha)

(2017) Xuejun Yu et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Metagenomics-guided analysis of microbial chemolithoautotrophic phosphite oxidation yields evidence of a seventh natural CO2fixation pathway

(2017) Israel A. Figueroa et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Pyruvate Formate-Lyase Enables Efficient Growth of Escherichia coli on Acetate and Formate

(2016) Lior Zelcbuch et al.   BIOCHEMISTRY

Reduction of Carbon Dioxide by a Molybdenum-Containing Formate Dehydrogenase: A Kinetic and Mechanistic Study

(2016) Luisa B. Maia et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

The complex evolutionary history of aminoacyl-tRNA synthetases

(2016) Anargyros Chaliotis et al.   NUCLEIC ACIDS RESEARCH

Human Pancreatic Cancer Tumors Are Nutrient Poor and Tumor Cells Actively Scavenge Extracellular Protein

(2015) J. J. Kamphorst et al.   CANCER RESEARCH

CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes

(2015) Donovan H. Parks et al.   GENOME RESEARCH

Proteomics Quality Control: Quality Control Software for MaxQuant Results

(2015) Chris Bielow et al.   JOURNAL OF PROTEOME RESEARCH

2016 update of the PRIDE database and its related tools

(2015) Juan Antonio Vizcaíno et al.   NUCLEIC ACIDS RESEARCH

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

Autotrophy at the thermodynamic limit of life: a model for energy conservation in acetogenic bacteria

(2014) Kai Schuchmann et al.   NATURE REVIEWS MICROBIOLOGY

Pilon: An Integrated Tool for Comprehensive Microbial Variant Detection and Genome Assembly Improvement

(2014) Bruce J. Walker et al.   PLoS One

Clostridium acidurici Electron-Bifurcating Formate Dehydrogenase

(2013) Shuning Wang et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The oxygen-tolerant and NAD+-dependent formate dehydrogenase fromRhodobacter capsulatusis able to catalyze the reduction of CO2to formate

(2013) Tobias Hartmann et al.   FEBS Journal

The carbohydrate-active enzymes database (CAZy) in 2013

(2013) Vincent Lombard et al.   NUCLEIC ACIDS RESEARCH

Design and analysis of metabolic pathways supporting formatotrophic growth for electricity-dependent cultivation of microbes

(2012) Arren Bar-Even et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOENERGETICS

IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth

(2012) Y. Peng et al.   BIOINFORMATICS

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Database resources of the National Center for Biotechnology Information

(2012)   NUCLEIC ACIDS RESEARCH

dbCAN: a web resource for automated carbohydrate-active enzyme annotation

(2012) Yanbin Yin et al.   NUCLEIC ACIDS RESEARCH

The Emergence and Early Evolution of Biological Carbon-Fixation

(2012) Rogier Braakman et al.   PLoS Computational Biology

Isolation of Sulfate-Reducing Bacteria from Sediments Above the Deep-Subseafloor Aquifer

(2012) Katja Fichtel et al.   Frontiers in Microbiology

Ecological Aspects of the Distribution of Different Autotrophic CO2Fixation Pathways

(2011) Ivan A. Berg   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Quality control and preprocessing of metagenomic datasets

(2011) R. Schmieder et al.   BIOINFORMATICS

A statistical framework for SNP calling, mutation discovery, association mapping and population genetical parameter estimation from sequencing data

(2011) H. Li   BIOINFORMATICS

A framework for variation discovery and genotyping using next-generation DNA sequencing data

(2011) Mark A DePristo et al.   NATURE GENETICS

InterPro in 2011: new developments in the family and domain prediction database

(2011) S. Hunter et al.   NUCLEIC ACIDS RESEARCH

eQuilibrator--the biochemical thermodynamics calculator

(2011) A. Flamholz et al.   NUCLEIC ACIDS RESEARCH

KEGG for integration and interpretation of large-scale molecular data sets

(2011) M. Kanehisa et al.   NUCLEIC ACIDS RESEARCH

Elemental formula annotation of polar and lipophilic metabolites using13C,15N and34S isotope labelling, in combination with high-resolution mass spectrometry

(2011) Patrick Giavalisco et al.   PLANT JOURNAL

Prodigal: prokaryotic gene recognition and translation initiation site identification

(2010) Doug Hyatt et al.   BMC BIOINFORMATICS

Clostridium sticklandii, a specialist in amino acid degradation:revisiting its metabolism through its genome sequence

(2010) Nuria Fonknechten et al.   BMC GENOMICS

Autotrophic carbon fixation in archaea

(2010) Ivan A. Berg et al.   NATURE REVIEWS MICROBIOLOGY

The Sequence Alignment/Map format and SAMtools

(2009) H. Li et al.   BIOINFORMATICS

Simultaneous Quantification of Metabolites Involved in Central Carbon and Energy Metabolism Using Reversed-Phase Liquid Chromatography−Mass Spectrometry and in Vitro13C Labeling

(2008) Wen-Chu Yang et al.   ANALYTICAL CHEMISTRY

Syntrophic Growth on Formate: a New Microbial Niche in Anoxic Environments

(2008) J. Dolfing et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

The complete genome sequence of Moorella thermoacetica (f. Clostridium thermoaceticum)

(2008) Elizabeth Pierce et al.   ENVIRONMENTAL MICROBIOLOGY

Glycine cleavage system: reaction mechanism, physiological significance, and hyperglycinemia

(2008) Goro KIKUCHI et al.   PROCEEDINGS OF THE JAPAN ACADEMY SERIES B-PHYSICAL AND BIOLOGICAL SCIENCES