Patterns and processes in the evolution of the eukaryotic endomembrane system

Autophagy in protists: examples of secondary loss, lineage-specific innovations, and the conundrum of remodeling a single mitochondrion

(2014) Daniel J. Rigden et al.   Autophagy

Origin of the cell nucleus, mitosis and sex: roles of intracellular coevolution

(2010) Thomas Cavalier-Smith   Biology Direct

The Conserved Bardet-Biedl Syndrome Proteins Assemble a Coat that Traffics Membrane Proteins to Cilia

(2010) Hua Jin et al.   CELL

The Incredible Expanding Ancestor of Eukaryotes

(2010) Eugene V. Koonin   CELL

The Genome of Naegleria gruberi Illuminates Early Eukaryotic Versatility

(2010) Lillian K. Fritz-Laylin et al.   CELL

Mitochondria Supply Membranes for Autophagosome Biogenesis during Starvation

(2010) Dale W. Hailey et al.   CELL

Rab protein evolution and the history of the eukaryotic endomembrane system

(2010) Andrew Brighouse et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

The ciliary membrane

(2010) Rajat Rohatgi et al.   CURRENT OPINION IN CELL BIOLOGY

Further assembly required: construction and dynamics of the endoplasmic reticulum network

(2010) Seong H Park et al.   EMBO REPORTS

Conservation and function of Rab small GTPases in Entamoeba: Annotation of E. invadens Rab and its use for the understanding of Entamoeba biology

(2010) Kumiko Nakada-Tsukui et al.   EXPERIMENTAL PARASITOLOGY

Reconstructing the evolutionary history of the centriole from protein components

(2010) M. E. Hodges et al.   JOURNAL OF CELL SCIENCE

Differential role of Rab proteins in ciliary trafficking: Rab23 regulates Smoothened levels

(2010) C. Boehlke et al.   JOURNAL OF CELL SCIENCE

Phylogenomic Evidence for Separate Acquisition of Plastids in Cryptophytes, Haptophytes, and Stramenopiles

(2010) D. Baurain et al.   MOLECULAR BIOLOGY AND EVOLUTION

The Ectocarpus genome and the independent evolution of multicellularity in brown algae

(2010) J. Mark Cock et al.   NATURE

Sequence space and the ongoing expansion of the protein universe

(2010) Inna S. Povolotskaya et al.   NATURE

Autophagy in unicellular eukaryotes

(2010) J. A. K. W. Kiel   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Peroxisome diversity and evolution

(2010) T. Gabaldon   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Evolution of acidocalcisomes and their role in polyphosphate storage and osmoregulation in eukaryotic microbes

(2010) R. Docampo et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Diversity and reductive evolution of mitochondria among microbial eukaryotes

(2010) K. Hjort et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Universal distribution of protein evolution rates as a consequence of protein folding physics

(2010) A. E. Lobkovsky et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Endocytosis-like protein uptake in the bacterium Gemmata obscuriglobus

(2010) T. G. A. Lonhienne et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Arabidopsis dynamin-related proteins DRP2B and DRP1A participate together in clathrin-coated vesicle formation during endocytosis

(2010) M. Fujimoto et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Palpitomonas bilix gen. et sp. nov.: A Novel Deep-branching Heterotroph Possibly Related to Archaeplastida or Hacrobia

(2010) Akinori Yabuki et al.   PROTIST

Broadly Sampled Multigene Analyses Yield a Well-Resolved Eukaryotic Tree of Life

(2010) Laura Wegener Parfrey et al.   SYSTEMATIC BIOLOGY

Early Origin of Genes Encoding Subunits of Biogenesis of Lysosome-related Organelles Complex-1, -2 and -3

(2010) Verónica T. Cheli et al.   TRAFFIC

Phylogenetic detection of numerous gene duplications shared by animals, fungi and plants

(2010) Xiaofan Zhou et al.   GENOME BIOLOGY

The origin and early evolution of eukaryotes in the light of phylogenomics

(2010) Eugene V Koonin   GENOME BIOLOGY

An overview of the processes shaping protein evolution

(2010) Roy D. Sleator   SCIENCE PROGRESS

Gene Transfer and Diversification of Microbial Eukaryotes

(2009) Jan O. Andersson   Annual Review of Microbiology

Genomic and structural aspects of protein evolution

(2009) Cyrus Chothia et al.   BIOCHEMICAL JOURNAL

Sizing up the genomic footprint of endosymbiosis

(2009) Marek Elias et al.   BIOESSAYS

Kingdoms Protozoa and Chromista and the eozoan root of the eukaryotic tree

(2009) T. Cavalier-Smith   Biology Letters

Phylogeny of the SNARE vesicle fusion machinery yields insights into the conservation of the secretory pathway in fungi

(2009) Nickias Kienle et al.   BMC EVOLUTIONARY BIOLOGY

Phylogeny and evolution of Rab7 and Rab9 proteins

(2009) Paweł Mackiewicz et al.   BMC EVOLUTIONARY BIOLOGY

Comparative analysis of plant genomes allows the definition of the "Phytolongins": a novel non-SNARE longin domain protein family

(2009) Marco Vedovato et al.   BMC GENOMICS

Domain mobility in proteins: functional and evolutionary implications

(2009) M. K. Basu et al.   BRIEFINGS IN BIOINFORMATICS

A Class of Dynamin-like GTPases Involved in the Generation of the Tubular ER Network

(2009) Junjie Hu et al.   CELL

Evolution: Revisiting the Root of the Eukaryote Tree

(2009) Andrew J. Roger et al.   CURRENT BIOLOGY

First and last ancestors: reconstructing evolution of the endomembrane system with ESCRTs, vesicle coat proteins, and nuclear pore complexes

(2009) Mark C Field et al.   CURRENT OPINION IN CELL BIOLOGY

Intraflagellar transport: it's not just for cilia anymore

(2009) Cosima T Baldari et al.   CURRENT OPINION IN CELL BIOLOGY

Functional and ecological impacts of horizontal gene transfer in eukaryotes

(2009) Patrick J Keeling   CURRENT OPINION IN GENETICS & DEVELOPMENT

A Contiguous Compartment Functions as Endoplasmic Reticulum and Endosome/Lysosome inGiardia lamblia

(2009) Marla Abodeely et al.   EUKARYOTIC CELL

Evolution and diversity of the Golgi body

(2009) Kevin Mowbrey et al.   FEBS LETTERS

The RJL family of small GTPases is an ancient eukaryotic invention probably functionally associated with the flagellar apparatus

(2009) Marek Elias et al.   GENE

Neogenesis and maturation of transient Golgi-like cisternae in a simple eukaryote

(2009) S. Stefanic et al.   JOURNAL OF CELL SCIENCE

The Role of Acidocalcisomes in Parasitic Protists

(2009) SILVIA N. J. MORENO et al.   JOURNAL OF EUKARYOTIC MICROBIOLOGY

Chromalveolates and the Evolution of Plastids by Secondary Endosymbiosis

(2009) PATRICK J. KEELING   JOURNAL OF EUKARYOTIC MICROBIOLOGY

The RAB Family GTPase Rab1A fromPlasmodium falciparumDefines a Unique Paralog Shared by Chromalveolates and Rhizaria

(2009) MAREK ELIAS et al.   JOURNAL OF EUKARYOTIC MICROBIOLOGY

Remote Homology between Munc13 MUN Domain and Vesicle Tethering Complexes

(2009) Jimin Pei et al.   JOURNAL OF MOLECULAR BIOLOGY

Evidence for a Shared Nuclear Pore Complex Architecture That Is Conserved from the Last Common Eukaryotic Ancestor

(2009) Jeffrey A. DeGrasse et al.   MOLECULAR & CELLULAR PROTEOMICS

Dual Roles of the Mammalian GARP Complex in Tethering and SNARE Complex Assembly at the trans-Golgi Network

(2009) F. J. Perez-Victoria et al.   MOLECULAR AND CELLULAR BIOLOGY

Phylogenetic positions of Glaucophyta, green plants (Archaeplastida) and Haptophyta (Chromalveolata) as deduced from slowly evolving nuclear genes

(2009) Hisayoshi Nozaki et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Homotypic fusion of ER membranes requires the dynamin-like GTPase Atlastin

(2009) Genny Orso et al.   NATURE

Rab GTPases as coordinators of vesicle traffic

(2009) Harald Stenmark   NATURE REVIEWS MOLECULAR CELL BIOLOGY

Structural characterization of Tip20p and Dsl1p, subunits of the Dsl1p vesicle tethering complex

(2009) Arati Tripathi et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Characterization of the Arabidopsis thaliana exocyst complex gene families by phylogenetic, expression profiling, and subcellular localization studies

(2009) Yolanda T. Chong et al.   NEW PHYTOLOGIST

Darwinian evolution in the light of genomics

(2009) E. V. Koonin   NUCLEIC ACIDS RESEARCH

The Pfam protein families database

(2009) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

The Rice  -Amylase Glycoprotein Is Targeted from the Golgi Apparatus through the Secretory Pathway to the Plastids

(2009) A. Kitajima et al.   PLANT CELL

Conservation of Helical Bundle Structure between the Exocyst Subunits

(2009) Nicole J. Croteau et al.   PLoS One

Molecular Phylogeny and Description of the Novel Katablepharid Roombia truncata gen. et sp. nov., and Establishment of the Hacrobia Taxon nov

(2009) Noriko Okamoto et al.   PLoS One

Structural basis for a human glycosylation disorder caused by mutation of the COG4 gene

(2009) B. C. Richardson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Phylogenomic analyses support the monophyly of Excavata and resolve relationships among eukaryotic "supergroups"

(2009) V. Hampl et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Genomic Footprints of a Cryptic Plastid Endosymbiosis in Diatoms

(2009) A. Moustafa et al.   SCIENCE

Stonins-Specialized Adaptors for Synaptic Vesicle Recycling and Beyond?

(2009) Tanja Maritzen et al.   TRAFFIC

Chromalveolate plastids: direct descent or multiple endosymbioses?

(2009) Andrzej Bodył et al.   TRENDS IN ECOLOGY & EVOLUTION

Genomic Analysis of the Basal Lineage Fungus Rhizopus oryzae Reveals a Whole-Genome Duplication

(2009) Li-Jun Ma et al.   PLoS Genetics

Microsporidia: a journey through radical taxonomical revisions

(2009) Nicolas Corradi et al.   Fungal Biology Reviews

Phylogenomics reveals a new 'megagroup' including most photosynthetic eukaryotes

(2008) F. Burki et al.   Biology Letters

Broadly sampled multigene trees of eukaryotes

(2008) Hwan Su Yoon et al.   BMC EVOLUTIONARY BIOLOGY

Peroxisomes: minted by the ER

(2008) Henk F Tabak et al.   CURRENT OPINION IN CELL BIOLOGY

The structure of protein evolution and the evolution of protein structure

(2008) Richard A Goldstein   CURRENT OPINION IN STRUCTURAL BIOLOGY

Evolutionary constraints imposed by gene dosage balance

(2008) Han Liang   Frontiers in Bioscience-Landmark

Evolution of protein domain promiscuity in eukaryotes

(2008) M. K. Basu et al.   GENOME RESEARCH

Evolution of specificity in the eukaryotic endomembrane system

(2008) Joel B. Dacks et al.   INTERNATIONAL JOURNAL OF BIOCHEMISTRY & CELL BIOLOGY

Rab18 and Rab43 have key roles in ER-Golgi trafficking

(2008) S. Y. Dejgaard et al.   JOURNAL OF CELL SCIENCE

The Guanine Nucleotide Exchange Factors Sec2 and PRONE: Candidate Synapomorphies for the Opisthokonta and the Archaeplastida

(2008) M. Elias   MOLECULAR BIOLOGY AND EVOLUTION

SNAREing the Basis of Multicellularity: Consequences of Protein Family Expansion during Evolution

(2008) T. H. Kloepper et al.   MOLECULAR BIOLOGY AND EVOLUTION

Alveolins, a New Family of Cortical Proteins that Define the Protist Infrakingdom Alveolata

(2008) S. B. Gould et al.   MOLECULAR BIOLOGY AND EVOLUTION

Requirement of the Human GARP Complex for Mannose 6-phosphate-receptor-dependent Sorting of Cathepsin D to Lysosomes

(2008) F. Javier Pérez-Victoria et al.   MOLECULAR BIOLOGY OF THE CELL

Repeated secondary loss of adaptin complex genes in the Apicomplexa

(2008) William D. Nevin et al.   PARASITOLOGY INTERNATIONAL

Rab-A2 and Rab-A3 GTPases Define a trans-Golgi Endosomal Membrane Domain in Arabidopsis That Contributes Substantially to the Cell Plate

(2008) C.-M. Chow et al.   PLANT CELL

AtEHDs, novel Arabidopsis EH-domain-containing proteins involved in endocytosis

(2008) Maya Bar et al.   PLANT JOURNAL

The PRA1 Gene Family in Arabidopsis

(2008) C. L. Alvim Kamei et al.   PLANT PHYSIOLOGY

Phylogeny of endocytic components yields insight into the process of nonendosymbiotic organelle evolution

(2008) J. B. Dacks et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The TRAPP Complex: Insights into its Architecture and Function

(2008) Michael Sacher et al.   TRAFFIC

Evolution of the Multivesicular Body ESCRT Machinery; Retention Across the Eukaryotic Lineage

(2008) Ka Fai Leung et al.   TRAFFIC

The Ypt/Rab Family and the Evolution of Trafficking in Fungi

(2008) José B. Pereira-Leal   TRAFFIC

Mechanisms of EHD/RME-1 Protein Function in Endocytic Transport

(2008) Barth D. Grant et al.   TRAFFIC

Arrangements in the modular evolution of proteins

(2008) Andrew D. Moore et al.   TRENDS IN BIOCHEMICAL SCIENCES

The eukaryotic tree of life: endosymbiosis takes its TOL

(2008) Christopher E. Lane et al.   TRENDS IN ECOLOGY & EVOLUTION

How complex is GTPase signaling in trypanosomes?

(2008) Mark C. Field et al.   TRENDS IN PARASITOLOGY

Understanding Protein Evolution: From Protein Physics to Darwinian Selection

(2007) Konstantin B. Zeldovich et al.   Annual Review of Physical Chemistry

Implications of the new eukaryotic systematics for parasitologists

(2007) Joel B. Dacks et al.   PARASITOLOGY INTERNATIONAL