The Ancient Origins of Death Domains Support the ‘Original Sin’ Hypothesis for the Evolution of Programmed Cell Death

The Role of Pseudo-Orthocaspase (SyOC) of Synechocystis sp. PCC 6803 in Attenuating the Effect of Oxidative Stress

(2021) Saul Lema A et al.   Frontiers in Microbiology

TaxonKit: A practical and efficient NCBI taxonomy toolkit

(2021) Wei Shen et al.   Journal of Genetics and Genomics

IQ-TREE 2: New Models and Efficient Methods for Phylogenetic Inference in the Genomic Era

(2020) Bui Quang Minh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Isolation of an archaeon at the prokaryote–eukaryote interface

(2020) Hiroyuki Imachi et al.   NATURE

Classification and Nomenclature of Metacaspases and Paracaspases: No More Confusion with Caspases

(2020) Elena A. Minina et al.   MOLECULAR CELL

Estimate of the sequenced proportion of the global prokaryotic genome

(2020) Zheng Zhang et al.   Microbiome

Programmed cell death as a black queen in microbial communities

(2020) Andrew Ndhlovu et al.   MOLECULAR ECOLOGY

UniProt: the universal protein knowledgebase in 2021

(2020) et al.   NUCLEIC ACIDS RESEARCH

Phylogenetic Distribution and Diversity of Bacterial Pseudo-Orthocaspases Underline Their Putative Role in Photosynthesis

(2019) Marina Klemenčič et al.   Frontiers in Plant Science

Interactive Tree Of Life (iTOL) v4: recent updates and new developments

(2019) Ivica Letunic et al.   NUCLEIC ACIDS RESEARCH

Origins of peptidases

(2019) Neil D. Rawlings et al.   BIOCHIMIE

The Evolutionary Origins of Programmed Cell Death Signaling

(2019) Kay Hofmann   Cold Spring Harbor Perspectives in Biology

Ancestral State Reconstruction of the Apoptosis Machinery in the Common Ancestor of Eukaryotes

(2018) Joanna Klim et al.   G3-Genes Genomes Genetics

UFBoot2: Improving the Ultrafast Bootstrap Approximation

(2017) Diep Thi Hoang et al.   MOLECULAR BIOLOGY AND EVOLUTION

ModelFinder: fast model selection for accurate phylogenetic estimates

(2017) Subha Kalyaanamoorthy et al.   NATURE METHODS

Functional horizontal gene transfer from bacteria to eukaryotes

(2017) Filip Husnik et al.   NATURE REVIEWS MICROBIOLOGY

Mechanisms of gene flow in archaea

(2017) Alexander Wagner et al.   NATURE REVIEWS MICROBIOLOGY

Structural and functional diversity of caspase homologues in non-metazoan organisms

(2017) Marina Klemenčič et al.   PROTOPLASMA

Coupling immunity and programmed cell suicide in prokaryotes: Life-or-death choices

(2016) Eugene V. Koonin et al.   BIOESSAYS

The evolving world of pseudoenzymes: proteins, prejudice and zombies

(2016) Patrick A. Eyers et al.   BMC BIOLOGY

Programmed Cell Death and Complexity in Microbial Systems

(2016) Pierre M. Durand et al.   CURRENT BIOLOGY

Programmed Cell Death in Unicellular Phytoplankton

(2016) Kay D. Bidle   CURRENT BIOLOGY

A new view of the tree of life

(2016) Laura A. Hug et al.   Nature Microbiology

Comparative structural analysis of the caspase family with other clan CD cysteine peptidases

(2015) Karen McLuskey et al.   BIOCHEMICAL JOURNAL

The dual role of a yeast metacaspase: What doesn't kill you makes you stronger

(2015) Sandra Malmgren Hill et al.   BIOESSAYS

Genomic Expansion of Domain Archaea Highlights Roles for Organisms from New Phyla in Anaerobic Carbon Cycling

(2015) Cindy J. Castelle et al.   CURRENT BIOLOGY

Orthocaspases are proteolytically active prokaryotic caspase homologues: the case ofMicrocystis aeruginosa

(2015) Marina Klemenčič et al.   MOLECULAR MICROBIOLOGY

JPred4: a protein secondary structure prediction server

(2015) Alexey Drozdetskiy et al.   NUCLEIC ACIDS RESEARCH

Horizontal gene flow from Eubacteria to Archaebacteria and what it means for our understanding of eukaryogenesis

(2015) Wasiu A. Akanni et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Skylign: a tool for creating informative, interactive logos representing sequence alignments and profile hidden Markov models

(2014) Travis J Wheeler et al.   BMC BIOINFORMATICS

Virus-host arms race at the joint origin of multicellularity and programmed cell death

(2014) Jaime Iranzo et al.   CELL CYCLE

Old, new and emerging functions of caspases

(2014) S Shalini et al.   CELL DEATH AND DIFFERENTIATION

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

(2014) Lam-Tung Nguyen et al.   MOLECULAR BIOLOGY AND EVOLUTION

mazEF-mediated programmed cell death in bacteria: “What is this?”

(2013) Bhaskar Chandra Mohan Ramisetty et al.   CRITICAL REVIEWS IN MICROBIOLOGY

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

Insights into the phylogeny and coding potential of microbial dark matter

(2013) Christian Rinke et al.   NATURE

Bacterial programmed cell death: making sense of a paradox

(2013) Kenneth W. Bayles   NATURE REVIEWS MICROBIOLOGY

MEROPS: the database of proteolytic enzymes, their substrates and inhibitors

(2013) Neil D. Rawlings et al.   NUCLEIC ACIDS RESEARCH

Why did eukaryotes evolve only once? Genetic and energetic aspects of conflict and conflict mediation

(2013) N. W. Blackstone   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

New types of metacaspases in phytoplankton reveal diverse origins of cell death proteases

(2013) C J Choi et al.   Cell Death & Disease

Cell death in parasitic protozoa: regulated or incidental?

(2012) William R. Proto et al.   NATURE REVIEWS MICROBIOLOGY

Prokaryotic Caspase Homologs: Phylogenetic Patterns and Functional Characteristics Reveal Considerable Diversity

(2012) Johannes Asplund-Samuelsson et al.   PLoS One

Crystal structure of a Trypanosoma brucei metacaspase

(2012) K. McLuskey et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The non-death role of metacaspase proteases

(2012) Amit Shrestha et al.   Frontiers in Oncology

How an Organism Dies Affects the Fitness of Its Neighbors

(2011) Pierre M. Durand et al.   AMERICAN NATURALIST

Metacaspases

(2011) L Tsiatsiani et al.   CELL DEATH AND DIFFERENTIATION

Trypanosoma bruceiMetacaspase 4 Is a Pseudopeptidase and a Virulence Factor

(2011) William R. Proto et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Crystal structure of the mucosa-associated lymphoid tissue lymphoma translocation 1 (MALT1) paracaspase region

(2011) J. W. Yu et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The archaeal ‘TACK’ superphylum and the origin of eukaryotes

(2011) Lionel Guy et al.   TRENDS IN MICROBIOLOGY

ON THE PARADIGM OF ALTRUISTIC SUICIDE IN THE UNICELLULAR WORLD

(2010) Aurora M. Nedelcu et al.   EVOLUTION

Arabidopsis Type I Metacaspases Control Cell Death

(2010) N. S. Coll et al.   SCIENCE

On the Origin of Cells and Viruses

(2009) Eugene V. Koonin   Annals of the New York Academy of Sciences

Jalview Version 2--a multiple sequence alignment editor and analysis workbench

(2009) A. M. Waterhouse et al.   BIOINFORMATICS

Predicting protein function from domain content

(2008) Kristoffer Forslund et al.   BIOINFORMATICS

A Non-Death Role of the Yeast Metacaspase: Yca1p Alters Cell Cycle Dynamics

(2008) Robin E. C. Lee et al.   PLoS One