Kusdian G, Woehle C, Martin WF, Gould SB: The actin-based machinery of Trichomonas vaginalis mediates flagellate-amoeboid transition and migration across host tissue. Cell Microbiol in press (2013).

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Bras XP, Zimorski V, Bolte K, Maier UG, Martin WF, Gould SB: Knockout of the abundant Trichomonas vaginalis hydrogenosomal membrane protein TvHMP23 increases hydrogenosome size but induces no compensatory up-regulation of paralogous copies. FEBS Lett in press (2013).

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Dagan T, Roettger M, Stucken K, Landan G, Koch R, Major P, Gould SB, Goremykin VV, Rippka R, Tandeau de Marsac N, Gugger M, Lockhart PJ, Allen JF, Brune I, Maus I, Puhler A, Martin WF: Genomes of stigonematalean cyanobacteria (subsection v) and the evolution of oxygenic photosynthesis from prokaryotes to plastids. Genome Biol Evol 5:31-44 (2013).

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Zimorski V, Major P, Hoffmann K, Pereira Brás X, Martin WF, Gould SB: The N-Terminal Sequences of Four Major Hydrogenosomal Proteins Are Not Essential for Import into Hydrogenosomes of Trichomonas vaginalis. J Eukaryot Microbiol 60:89-97 (2013).

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Zimorski V, Major P, Yu R-Y, Hoffmann K, Pereira Brás X, Tucci S, Mentel M, Gould SB, Henze K, Martin WF: Evolutionary significance of anaerobic energy metabolism in eukaryotes J Endocytobiosis Cell Res 23:64-68 (2012).

Martin WF, Hazkani-Covo E, Shavit-Greivink L, Schmitt V, Händeler K, Gould SB, Landan G, Graur D, Dagan T: Gene transfers from organelles to the nucleus: How much, what happens, and why none in Elysia? J Endocytobiosis Cell Res 23:16-20 (2012).

Martin WF, Roettger M, Kloesges T, Thiergart T, Woehle C, Gould S, Dagan T: Modern endosymbiotic theory: Getting lateral gene transfer into the equation J Endocytobiosis Cell Res 23:1-5 (2012).

Nelson-Sathi S, Dagan T, Landan G, Janssen A, Steel M, McInerney JO, Deppenmeier U, Martin WF: Acquisition of 1,000 eubacterial genes physiologically transformed a methanogen at the origin of Haloarchaea. Proc Natl Acad Sci U S A in press (2012).

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Atteia A, van Lis R, Tielens AG, Martin W: Anaerobic energy metabolism in unicellular photosynthetic eukaryotes. Biochim Biophys Acta in press (2012).

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Stucken K, Ilhan J, Roettger M, Dagan T, Martin W: Transformation and conjugal transfer of foreign genes into the filamentous multicellular cyanobacteria (subsection v) fischerella and chlorogloeopsis. Curr Microbiol 65:552-60 (2012).

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Muller M, Mentel M, van Hellemond JJ, Henze K, Woehle C, Gould SB, Yu RY, van der Giezen M, Tielens AG, Martin W: Biochemistry and evolution of anaerobic energy metabolism in eukaryotes. Microbiol Mol Biol Rev 76:444-95 (2012).

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Thiergart T, Landan G, Schenk M, Dagan T, Martin W: An evolutionary network of genes present in the eukaryote common ancestor polls genomes on eukaryotic and mitochondrial origin. Genome Biol Evol 4:466-85 (2012).

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Burstein D, Gould SB, Zimorski V, Kloesges T, Kiosse F, Major P, Martin W, Pupko T, Dagan T: A machine learning approach to identify hydrogenosomal proteins in Trichomonas vaginalis. Eukaryot Cell 11:217-28 (2012).

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Martin W: Hydrogen, metals, bifurcating electrons, and proton gradients: the early evolution of biological energy conservation. FEBS Lett 586:485-93 (2012).

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Woehle C, Dagan T, Martin W, Gould SB: Red and Problematic Green Phylogenetic Signals among Thousands of Nuclear Genes from the Photosynthetic and Apicomplexa-Related Chromera velia. Genome Biol Evol 3:1220-30 (2011).

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Martin W: Early evolution without a tree of life. Biol Direct 6:36 (2011).

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Popa O, Hazkani-Covo E, Landan G, Martin W, Dagan T: Directed networks reveal genomic barriers and DNA repair bypasses to lateral gene transfer among prokaryotes. Genome Res 21:599-609 (2011).

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NS Shijulal, List JM, Geisler H, Fangerau H, Gray RD, Martin W, Dagan T: Networks uncover hidden lexical borrowing in Indo-European language evolution. Proc Biol Sci 278:1794-803 (2011).

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Kloesges T, Popa O, Martin W, Dagan T: Networks of gene sharing among 329 proteobacterial genomes reveal differences in lateral gene transfer frequency at different phylogenetic depths. Mol Biol Evol 28:1057-74 (2011).

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Wagele H, Deusch O, Handeler K, Martin R, Schmitt V, Christa G, Pinzger B, Gould SB, Dagan T, Klussmann-Kolb A, Martin W: Transcriptomic evidence that longevity of acquired plastids in the photosynthetic slugs Elysia timida and Plackobranchus ocellatus does not entail lateral transfer of algal nuclear genes. Mol Biol Evol 28:699-706 (2011).

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O’Malley M, Martin W, Dupré J: The tree of life: introduction to an evolutionary debate. Biology and Philosophy 25:441-453 (2010).

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Lane N, Martin W: The energetics of genome complexity. Nature 467:929-34 (2010).

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Dagan T, Roettger M, Bryant D, Martin W: Genome networks root the tree of life between prokaryotic domains. Genome Biol Evol 2:379-92 (2010).

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Russell MJ, Hall AJ, Martin W: Serpentinization as a source of energy at the origin of life. Geobiology 8:355-71 (2010).

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Mentel M, Martin W: Anaerobic animals from an ancient, anoxic ecological niche. BMC Biol 8:32 (2010).

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Ahmadinejad N, Dagan T, Gruenheit N, Martin W, Gabaldon T: Evolution of spliceosomal introns following endosymbiotic gene transfer. BMC Evol Biol 10:57 (2010).

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Hazkani-Covo E, Zeller RM, Martin W: Molecular poltergeists: mitochondrial DNA copies (numts) in sequenced nuclear genomes. PLoS Genet 6:e1000834 (2010).

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Martin W: Evolutionary origins of metabolic compartmentalization in eukaryotes. Philos Trans R Soc Lond B Biol Sci 365:847-55 (2010).

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Lane N, Allen JF, Martin W: How did LUCA make a living? Chemiosmosis in the origin of life. Bioessays 32:271-80 (2010).

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Tielens AG, van Grinsven KW, Henze K, van Hellemond JJ, Martin W: Acetate formation in the energy metabolism of parasitic helminths and protists. Int J Parasitol 40:387-97 (2010).

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Tucci S, Vacula R, Krajcovic J, Proksch P, Martin W: Variability of wax ester fermentation in natural and bleached Euglena gracilis Strains in response to oxygen and the elongase inhibitor flufenacet. J Eukaryot Microbiol 57:63-9 (2010).

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Martin W: Hydrothermalquellen und der Ursprung des Lebens. Biologie in unserer Zeit 39:166-74 (2009).

Ma Y, Jakowitsch J, Deusch O, Henze K, Martin W, Loffelhardt W: Transketolase from Cyanophora paradoxa: in vitro import into cyanelles and pea chloroplasts and a complex history of a gene often, but not always, transferred in the context of secondary endosymbiosis. J Eukaryot Microbiol 56:568-76 (2009).

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Bapteste E, O'Malley MA, Beiko RG, Ereshefsky M, Gogarten JP, Franklin-Hall L, Lapointe FJ, Dupre J, Dagan T, Boucher Y, Martin W: Prokaryotic evolution and the tree of life are two different things. Biol Direct 4:34 (2009).

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Dagan T, Martin W: Getting a better picture of microbial evolution en route to a network of genomes. Philos Trans R Soc Lond B Biol Sci 364:2187-96 (2009).

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Dagan T, Martin W: Microbiology. Seeing green and red in diatom genomes. Science 324:1651-2 (2009).

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Vesteg M, Vacula R, Burey S, Loffelhardt W, Drahovska H, Martin W, Krajcovic J: Expression of Nucleus-Encoded Genes for Chloroplast Proteins in the Flagellate Euglena gracilis. J Eukaryot Microbiol 56:159-66 (2009).

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Roettger M, Martin W, Dagan T: A machine-learning approach reveals that alignment properties alone can accurately predict inference of lateral gene transfer from discordant phylogenies. Mol Biol Evol 26:1931-9 (2009).

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Atteia A, Adrait A, Brugiere S, Tardif M, van Lis R, Deusch O, Dagan T, Kuhn L, Gontero B, Martin W, Garin J, Joyard J, Rolland N: A proteomic survey of Chlamydomonas reinhardtii mitochondria sheds new light on the metabolic plasticity of the organelle and on the nature of the alpha-proteobacterial mitochondrial ancestor. Mol Biol Evol 26:1533-48 (2009).

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Martin W, Baross J, Kelley D, Russell MJ: Hydrothermal vents and the origin of life. Nat Rev Microbiol 6:805-14 (2008).

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Mentel M, Zimorski V, Haferkamp P, Martin W, Henze K: Protein import into hydrogenosomes of Trichomonas vaginalis involves both N-terminal and internal targeting signals: a case study of thioredoxin reductases. Eukaryot Cell 7:1750-7 (2008).

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Dagan T, Artzy-Randrup Y, Martin W: Modular networks and cumulative impact of lateral transfer in prokaryote genome evolution. Proc Natl Acad Sci U S A 105:10039-44 (2008).

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Mentel M, Martin W: Energy metabolism among eukaryotic anaerobes in light of Proterozoic ocean chemistry. Philos Trans R Soc Lond B Biol Sci 363:2717-29 (2008).

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Gruenheit N, Lockhart PJ, Steel M, Martin W: Difficulties in testing for covarion-like properties of sequences under the confounding influence of changing proportions of variable sites. Mol Biol Evol 25:1512-20 (2008).

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Theissen U, Martin W: Sulfide : quinone oxidoreductase (SQR) from the lugworm Arenicola marina shows cyanide- and thioredoxin-dependent activity. FEBS J 275:1131-9 (2008).

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Deusch O, Landan G, Roettger M, Gruenheit N, Kowallik KV, Allen JF, Martin W, Dagan T: Genes of cyanobacterial origin in plant nuclear genomes point to a heterocyst-forming plastid ancestor. Mol Biol Evol 25:748-61 (2008).

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van Grinsven KW, Rosnowsky S, van Weelden SW, Pütz S, van der Giezen M, Martin W, van Hellemond JJ, Tielens AG, Henze K: Acetate:succinate CoA-transferase in the hydrogenosomes of Trichomonas vaginalis: identification and characterization. J Biol Chem 283:1411-8 (2008).

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Basu MK, Rogozin IB, Deusch O, Dagan T, Martin W, Koonin EV: Evolutionary dynamics of introns in plastid-derived genes in plants: saturation nearly reached but slow intron gain continues. Mol Biol Evol 25:111-9 (2008).

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Kilian B, Ozkan H, Walther A, Kohl J, Dagan T, Salamini F, Martin W: Molecular diversity at 18 loci in 321 wild and 92 domesticate lines reveal no reduction of nucleotide diversity during Triticum monococcum (Einkorn) domestication: implications for the origin of agriculture. Mol Biol Evol 24:2657-68 (2007).

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Eßer C, Martin W: Supertrees and symbiosis in eukaryote genome evolution. Trends Microbiol 15:435-7 (2007).

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Martin W, Roettger M, Lockhart PJ: A reality check for alignments and trees. Trends Genet 23:478-80 (2007).

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Ahmadinejad N, Dagan T, Martin W: Genome history in the symbiotic hybrid Euglena gracilis. Gene 402:35-9 (2007).

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Martin W, Dagan T, Koonin EV, Dipippo JL, Gogarten JP, Lake JA: The evolution of eukaryotes. Science 316:542-3; author reply 542-3 (2007).

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Dagan T, Martin W: Testing hypotheses without considering predictions. Bioessays 29:500-3 (2007).

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Tucci S, Martin W: A novel prokaryotic trans-2-enoyl-CoA reductase from the spirochete Treponema denticola. FEBS Lett 581:1561-6 (2007).

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Allen JF, Martin W: Evolutionary biology: out of thin air. Nature 445:610-2 (2007).

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Martin W, Russell MJ: On the origin of biochemistry at an alkaline hydrothermal vent. Philos Trans R Soc Lond B Biol Sci 362:1887-925 (2007).

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Eßer C, Martin W, Dagan T: The origin of mitochondria in light of a fluid prokaryotic chromosome model. Biol Lett 3:180-4 (2007).

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Winkler C, Delvos B, Martin W, Henze K: Purification, microsequencing and cloning of spinach ATP-dependent phosphofructokinase link sequence and function for the plant enzyme. FEBS J 274:429-38 (2007).

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Dagan T, Martin W: Ancestral genome sizes specify the minimum rate of lateral gene transfer during prokaryote evolution. Proc Natl Acad Sci U S A 104:870-5 (2007).

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Kilian B, Ozkan H, Deusch O, Effgen S, Brandolini A, Kohl J, Martin W, Salamini F: Independent wheat B and g genome origins in outcrossing aegilops progenitor haplotypes. Mol Biol Evol 24:217-27 (2007).

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Nakamura Y, Itoh T, Martin W: Rate and polarity of gene fusion and fission in Oryza sativa and Arabidopsis thaliana. Mol Biol Evol 24:110-21 (2007).

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Theissen U, Martin W: The difference between organelles and endosymbionts. Curr Biol 16:R1016-7; author reply R1017-8 (2006).

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Dagan T, Martin W: The tree of one percent. Genome Biol 7:118 (2006).

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Martin W, Koonin EV: A positive definition of prokaryotes. Nature 442:868 (2006).

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Kilian B, Ozkan H, Kohl J, von Haeseler A, Barale F, Deusch O, Brandolini A, Yucel C, Martin W, Salamini F: Haplotype structure at seven barley genes: relevance to gene pool bottlenecks, phylogeny of ear type and site of barley domestication. Mol Genet Genomics 276:230-41 (2006).

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Embley TM, Martin W: Eukaryotic evolution, changes and challenges. Nature 440:623-30 (2006).

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Martin W, Koonin EV: Introns and the origin of nucleus-cytosol compartmentalization. Nature 440:41-5 (2006).

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Atteia A, van Lis R, Gelius-Dietrich G, Adrait A, Garin J, Joyard J, Rolland N, Martin W: Pyruvate formate-lyase and a novel route of eukaryotic ATP synthesis in Chlamydomonas mitochondria. J Biol Chem 281:9909-18 (2006).

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Torrents E, Trevisiol C, Rotte C, Hellman U, Martin W, Reichard P: Euglena gracilis ribonucleotide reductase: the eukaryote class II enzyme and the possible antiquity of eukaryote B12 dependence. J Biol Chem 281:5604-11 (2006).

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Martin W: Archaebacteria (Archaea) and the origin of the eukaryotic nucleus. Curr Opin Microbiol 8:630-7 (2005).

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Koonin EV, Martin W: On the origin of genomes and cells within inorganic compartments. Trends Genet 21:647-54 (2005).

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Martin W: The missing link between hydrogenosomes and mitochondria. Trends Microbiol 13:457-9 (2005).

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Huang CY, Grünheit N, Ahmadinejad N, Timmis JN, Martin W: Mutational decay and age of chloroplast and mitochondrial genomes transferred recently to angiosperm nuclear chromosomes. Plant Physiol 138:1723-33 (2005).

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Martin W, Deusch O, Stawski N, Grünheit N, Goremykin V: Chloroplast genome phylogenetics: why we need independent approaches to plant molecular evolution. Trends Plant Sci 10:203-9 (2005).

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Martin W: Crystal ball. Getting a better picture of evolution. Environ Microbiol 7:479-80 (2005).

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Martin W: Molecular evolution: lateral gene transfer and other possibilities. Heredity 94:565-6 (2005).

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Hoffmeister M, Piotrowski M, Nowitzki U, Martin W: Mitochondrial trans-2-enoyl-CoA reductase of wax ester fermentation from Euglena gracilis defines a new family of enzymes involved in lipid synthesis. J Biol Chem 280:4329-38 (2005).

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Graur D, Martin W: Reading the entrails of chickens: molecular timescales of evolution and the illusion of precision Trends Genet. 20:80-86 (2004).

Martin W: Pathogenic archaebacteria: do they not exist because archaebacteria use different vitamins? Bioessays 26:592-593 (2004).

Nowitzki U, Gelius-Dietrich G, Schwieger M, Henze K, Martin W: Chloroplast phosphoglycerate kinase from Euglena gracilis: endosymbiotic gene replacement going against the tide. Eur J Biochem 271:4123-31 (2004).

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Martin W, Embley TM: Evolutionary biology: Early evolution comes full circle. Nature 431:134-7 (2004).

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Trenkamp S, Martin W, Tietjen K: Specific and differential inhibition of very-long-chain fatty acid elongases from Arabidopsis thaliana by different herbicides. Proc Natl Acad Sci U S A 101:11903-8 (2004).

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Russell MJ, Martin W: The rocky roots of the acetyl-CoA pathway. Trends Biochem Sci 29:358-63 (2004).

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Eßer C, Ahmadinejad N, Wiegand C, Rotte C, Sebastiani F, Gelius-Dietrich G, Henze K, Kretschmann E, Richly E, Leister D, Bryant D, Steel MA, Lockhart PJ, Penny D, Martin W: A genome phylogeny for mitochondria among alpha-proteobacteria and a predominantly eubacterial ancestry of yeast nuclear genes. Mol Biol Evol 21:1643-60 (2004).

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Atteia A, van Lis R, van Hellemond JJ, Tielens AG, Martin W, Henze K: Identification of prokaryotic homologues indicates an endosymbiotic origin for the alternative oxidases of mitochondria (AOX) and chloroplasts (PTOX). Gene 330:143-8 (2004).

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Wu M, Sun LV, Vamathevan J, Riegler M, Deboy R, Brownlie JC, McGraw EA, Martin W, Eßer C, Ahmadinejad N, Wiegand C, Madupu R, Beanan MJ, Brinkac LM, Daugherty SC, Durkin AS, Kolonay JF, Nelson WC, Mohamoud Y, Lee P, Berry K, Young MB, Utterback T, Weidman J, Nierman WC, Paulsen IT, Nelson KE, Tettelin H, O'Neill SL, Eisen JA: Phylogenomics of the reproductive parasite Wolbachia pipientis wMel: a streamlined genome overrun by mobile genetic elements. PLoS Biol 2:E69 (2004).

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Hoffmeister M, van der Klei A, Rotte C, van Grinsven KW, van Hellemond JJ, Henze K, Tielens AG, Martin W: Euglena gracilis rhodoquinone:ubiquinone ratio and mitochondrial proteome differ under aerobic and anaerobic conditions. J Biol Chem 279:22422-9 (2004).

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Timmis JN, Ayliffe MA, Huang CY, Martin W: Endosymbiotic gene transfer: organelle genomes forge eukaryotic chromosomes. Nat Rev Genet 5:123-35 (2004).

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Atteia A, van Lis R, Mendoza-Hernandez G, Henze K, Martin W, Riveros-Rosas H, Gonzalez-Halphen D: Bifunctional aldehyde/alcohol dehydrogenase (ADHE) in chlorophyte algal mitochondria Plant Mol.Biol. 53:175-188 (2003).

Martin W, Rotte C, Hoffmeister M, Theissen U, Gelius-Dietrich G, Ahr S, Henze K: Early cell evolution, eukaryotes, anoxia, sulfide, oxygen, fungi first (?) and a tree of genomes revisited IUBMB Life 55:193-204 (2003).

Henze K, Martin W: Evolutionary biology: Essence of mitochondria Nature 426:127-128 (2003).

Martin W: Gene transfer from organelles to the nucleus: Frequent and in big chunks Proc. Natl. Acad. Sci. U. S. A. 100:8612-8614 (2003).

Martin W: The smoking gun of gene transfer Nature Genet. 33:442-442 (2003).

Gerhardt S, Echt S, Busch M, Freigang J, Auerbach G, Bader G, Martin WF, Bacher A, Huber R, Fischer M: Structure and properties of an engineered transketolase from maize Plant Physiol. 132:1941-1949 (2003).

Hoffmeister M, Martin W: Interspecific evolution: microbial symbiosis, endosymbiosis and gene transfer. Environ Microbiol 5:641-9 (2003).

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Theissen U, Hoffmeister M, Grieshaber M, Martin W: Single eubacterial origin of eukaryotic sulfide:quinone oxidoreductase, a mitochondrial enzyme conserved from the early evolution of eukaryotes during anoxic and sulfidic times. Mol Biol Evol 20:1564-74 (2003).

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Martin W, Russell MJ: On the origins of cells: a hypothesis for the evolutionary transitions from abiotic geochemistry to chemoautotrophic prokaryotes, and from prokaryotes to nucleated cells. Philos Trans R Soc Lond B Biol Sci 358:59-83; discussion 83-5 (2003).

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Martin W, Borst P: Secondary loss of chloroplasts in trypanosomes. Proc Natl Acad Sci U S A 100:765-7 (2003).

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El-Rabey HA, Badr A, Schafer-Pregl R, Martin W, Salamini F: Speciation and species separation in Hordeum L. (Poaceae) resolved by discontinuous molecular markers Plant Biol. 4:567-575 (2002).

Schnarrenberger C, Martin W: Evolution of the enzymes of the citric acid cycle and the glyoxylate cycle of higher plants - A case study of endosymbiotic gene transfer Eur. J. Biochem. 269:868-883 (2002).

Tielens AG, Rotte C, van Hellemond JJ, Martin W: Mitochondria as we don't know them. Trends Biochem Sci 27:564-72 (2002).

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Itoh T, Martin W, Nei M: Acceleration of genomic evolution caused by enhanced mutation rate in endocellular symbionts. Proc Natl Acad Sci U S A 99:12944-8 (2002).

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Martin W, Rujan T, Richly E, Hansen A, Cornelsen S, Lins T, Leister D, Stoebe B, Hasegawa M, Penny D: Evolutionary analysis of Arabidopsis, cyanobacterial, and chloroplast genomes reveals plastid phylogeny and thousands of cyanobacterial genes in the nucleus. Proc Natl Acad Sci U S A 99:12246-51 (2002).

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Salamini F, Ozkan H, Brandolini A, Schafer-Pregl R, Martin W: Genetics and geography of wild cereal domestication in the near east. Nat Rev Genet 3:429-41 (2002).

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Martin W, Hoffmeister M, Rotte C, Henze K: An overview of endosymbiotic models for the origins of eukaryotes, their ATP-producing organelles (mitochondria and hydrogenosomes) and their heterotrophic lifestyle Biol. Chem. 382:1521-1539 (2001).

Rotte C, Martin W: Does endosymbiosis explain the origin of the nucleus? Nat. Cell Biol. 3:E173-E173 (2001).

Henze K, Martin W: How do mitochondrial genes get into the nucleus? Trends Genet. 17:383-387 (2001).

Krepinsky K, Plaumann M, Martin W, Schnarrenberger C: Purification and cloning of chloroplast 6-phosphogluconate dehydrogenase from spinach - Cyanobacterial genes for chloroplast and cytosolic isoenzymes encoded in eukaryotic chromosomes Eur. J. Biochem. 268:2678-2686 (2001).

Rujan T, Martin W: How many genes in Arabidopsis come from cyanobacteria? An estimate from 386 protein phylogenies Trends Genet. 17:113-120 (2001).

Rotte C, Stejskal F, Zhu G, Keithly JS, Martin W: Pyruvate : NADP(+) oxidoreductase from the mitochondrion of Euglena gracilis and from the apicomplexan Cryptosporidium parvum: A biochemical relic linking pyruvate metabolism in mitochondriate and amitochondriate protists Mol. Biol. Evol. 18:710-720 (2001).

Lange BM, Rujan T, Martin W, Croteau R: Isoprenoid biosynthesis: The evolution of two ancient and distinct pathways across genomes Proc. Natl. Acad. Sci. U. S. A. 97:13172-13177 (2000).

Hannaert V, Brinkmann H, Nowitzki U, Lee JA, Albert MA, Sensen CW, Gaasterland T, Muller M, Michels P, Martin W: Enolase from Trypanosoma brucei, from the amitochondriate protist Mastigamoeba balamuthi and from the chloroplast and cytosol of Euglena gracilis: Pieces in the evolutionary puzzle of the eukaryotic glycolytic pathway Mol. Biol. Evol. 17:989-1000 (2000).

Hansmann S, Martin W: Phylogeny of 33 ribosomal and six other proteins encoded in an ancient gene cluster that is conserved across prokaryotic genomes: influence of excluding poorly alignable sites from analysis Int. J. Syst. Evol. Microbiol. 50:1655-1663 (2000).

Deane JA, Fraunholz M, Su V, Maier UG, Martin W, Durnford DG, McFadden GI: Evidence for nucleomorph to host nucleus gene transfer: Light-harvesting complex proteins from cryptomonads and chlorarachniophytes Protist 151:239-252 (2000).

Martin W, Salamini F: A meeting at the gene - Biodiversity and natural history EMBO Rep. 1:208-210 (2000).

Rotte C, Henze K, Muller M, Martin W: Origins of hydrogenosomes and mitochondria - Commentary Curr. Opin. Microbiol. 3:481-486 (2000).

Martin W: Evolutionary biology - A powerhouse divided Science 287:1219-1219 (2000).

Martin W: Primitive anaerobic protozoa: the wrong host for mitochondria and hydrogenosomes? Microbiology-(UK) 146:1021-1022 (2000).

Dooijes D, Chaves I, Kieft R, Dirks-Mulder A, Martin W, Borst P: Base J originally found in kinetoplastida is also a minor constituent of nuclear DNA of Euglena gracilis Nucleic Acids Res. 28:3017-3021 (2000).

Adachi J, Waddell PJ, Martin W, Hasegawa M: Plastid genome phylogeny and a model of amino acid substitution for proteins encoded by chloroplast DNA. J Mol Evol 50:348-58 (2000).

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Liaud MF, Lichtle C, Apt K, Martin W, Cerff R: Compartment-specific isoforms of TPI and GAPDH are imported into diatom mitochondria as a fusion protein: evidence in favor of a mitochondrial origin of the eukaryotic glycolytic pathway. Mol Biol Evol 17:213-23 (2000).

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Martin W, Kowallik KV: Annotated English translation of Mereschkowsky's 1905 paper 'Uber Natur und Ursprung der Chromatophoren im Pflanzenreiche Eur. J. Phycol. 34:287-295 (1999).

Martin W: A briefly argued case that mitochondria and plastids are descendants of endosymbionts but that the nuclear compartment is not Proc. R. Soc. Lond. Ser. B-Biol. Sci. 266:1387-1395 (1999).

Hansen A, Hansmann S, Samigullin T, Antonov A, Martin W: Gnetum and the angiosperms: Molecular evidence that their shared morphological characters are convergent rather than homologous Mol. Biol. Evol. 16:1006-1009 (1999).

Zuppini A, Barbato R, Bergantino E, Dainese P, Meggio F, Martin W, Mariani P: Ca2+ binding protein calreticulin in Chlamydomonas reinhardtii (Chlorophyta): Biochemical characterization differential expression during sexual reproduction and phylogenetic analysis J. Phycol. 35:1224-1232 (1999).

Samigullin TK, Martin W, Troitsky AV, Antonov AS: Molecular data from the chloroplast rpoC1 gene suggest a deep and distinct dichotomy of contemporary spermatophytes into two monophyla: gymnosperms (including Gnetales) and angiosperms. J Mol Evol 49:310-5 (1999).

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Race HL, Herrmann RG, Martin W: Why have organelles retained genomes? Trends Genet 15:364-70 (1999).

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Muller M, Martin W: The genome of Rickettsia prowazekii and some thoughts on the origin of mitochondria and hydrogenosomes. Bioessays 21:377-81 (1999).

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Flechner A, Gross W, Martin W, Schnarrenberger C: Chloroplast class I and class II aldolases are bifunctional for fructose-1,6-biphosphate and sedoheptulose-1,7-biphosphate cleavage in the Calvin cycle. FEBS Lett 447:200-2 (1999).

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Martin W: Mosaic bacterial chromosomes: a challenge en route to a tree of genomes. Bioessays 21:99-104 (1999).

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Stoebe B, Martin W, Kowallik KV: Distribution and nomenclature of protein-coding genes in 12 sequenced chloroplast genomes Plant Mol. Biol. Rep. 16:243-255 (1998).

Martin W, Stoebe B, Goremykin V, Hapsmann S, Hasegawa M, Kowallik KV: Gene transfer to the nucleus and the evolution of chloroplasts. Nature 393:162-5 (1998).

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Embley TM, Martin W: A hydrogen-producing mitochondrion. Nature 396:517-9 (1998).

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Martin W, Herrmann RG: Gene transfer from organelles to the nucleus: how much, what happens, and Why? Plant Physiol 118:9-17 (1998).

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Nowitzki U, Flechner A, Kellermann J, Hasegawa M, Schnarrenberger C, Martin W: Eubacterial origin of nuclear genes for chloroplast and cytosolic glucose-6-phosphate isomerase from spinach: sampling eubacterial gene diversity in eukaryotic chromosomes through symbiosis. Gene 214:205-13 (1998).

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Navazio L, Nardi MC, Pancaldi S, Dainese P, Baldan B, Fitchette-Laine AC, Faye L, Meggio F, Martin W, Mariani P: Functional conservation of calreticulin in Euglena gracilis. J Eukaryot Microbiol 45:307-13 (1998).

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Meyer-Gauen G, Herbrand H, Pahnke J, Cerff R, Martin W: Gene structure, expression in Escherichia coli and biochemical properties of the NAD+ -dependent glyceraldehyde-3-phosphate dehydrogenase from Pinus sylvestris chloroplasts. Gene 209:167-74 (1998).

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Martin W, Muller M: The hydrogen hypothesis for the first eukaryote. Nature 392:37-41 (1998).

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Samigullin TH, Valiejo-Roman KM, Troitsky AV, Bobrova VK, Filin VR, Martin W, Antonov AS: Sequences of rDNA internal transcribed spacers from the chloroplast DNA of 26 bryophytes: properties and phylogenetic utility. FEBS Lett 422:47-51 (1998).

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Martin W, Schnarrenberger C: The evolution of the Calvin cycle from prokaryotic to eukaryotic chromosomes: a case study of functional redundancy in ancient pathways through endosymbiosis. Curr Genet 32:1-18 (1997).

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Plaumann M, Pelzer-Reith B, Martin W, Schnarrenberger C: Multiple recruitment of class-I aldolase to chloroplasts and eubacterial origin of eukaryotic class-II aldolases revealed by cDNAs from Euglena gracilis. Curr Genet 31:430-8 (1997).

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Munster T, Pahnke J, Di Rosa A, Kim JT, Martin W, Saedler H, Theissen G: Floral homeotic genes were recruited from homologous MADS-box genes preexisting in the common ancestor of ferns and seed plants. Proc Natl Acad Sci U S A 94:2415-20 (1997).

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Brinkmann H, Martin W: Higher-plant chloroplast and cytosolic 3-phosphoglycerate kinases: A case of endosymbiotic gene replacement Plant Mol.Biol. 30:65-75 (1996).

Martin WF: Is something wrong with the tree of life? Bioessays 18:523-527 (1996).

Baalmann E, Scheibe R, Cerff R, Martin W: Functional studies of chloroplast glyceraldehyde-3-phosphate dehydrogenase subunits A and B expressed in Escherichia coli: formation of highly active A4 and B4 homotetramers and evidence that aggregation of the B4 complex is mediated by the B subunit carboxy terminus. Plant Mol Biol 32:505-13 (1996).

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Martin W, Mustafa AZ, Henze K, Schnarrenberger C: Higher-plant chloroplast and cytosolic fructose-1,6-bisphosphatase isoenzymes: origins via duplication rather than prokaryote-eukaryote divergence. Plant Mol Biol 32:485-91 (1996).

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Flechner A, Dressen U, Westhoff P, Henze K, Schnarrenberger C, Martin W: Molecular characterization of transketolase (EC 2.2.1.1) active in the Calvin cycle of spinach chloroplasts. Plant Mol Biol 32:475-84 (1996).

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Bohle UR, Hilger HH, Martin W: Island colonization and evolution of the insular woody habit in Echium L. (Boraginaceae). Proc Natl Acad Sci U S A 93:11740-5 (1996).

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Tholl D, Ober D, Martin W, Kellermann J, Hartmann T: Purification, molecular cloning and expression in Escherichia coli of homospermidine synthase from Rhodopseudomonas viridis. Eur J Biochem 240:373-9 (1996).

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Bohlmann J, Lins T, Martin W, Eilert U: Anthranilate synthase from Ruta graveolens. Duplicated AS alpha genes encode tryptophan-sensitive and tryptophan-insensitive isoenzymes specific to amino acid and alkaloid biosynthesis. Plant Physiol 111:507-14 (1996).

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Martin W, Henze K, Kellerman J, Flechner A, Schnarrenberger C: Microsequencing and cDNA cloning of the Calvin cycle/OPPP enzyme ribose-5-phosphate isomerase (EC 5.3.1.6) from spinach chloroplasts. Plant Mol Biol 30:795-805 (1996).

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Goremykin V, Bobrova V, Pahnke J, Troitsky A, Antonov A, Martin W: Noncoding sequences from the slowly evolving chloroplast inverted repeat in addition to rbcL data do not support gnetalean affinities of angiosperms. Mol Biol Evol 13:383-96 (1996).

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DONATH M, MENDEL R, CERFF R, MARTIN W: INTRON-DEPENDENT TRANSIENT EXPRESSION OF THE MAIZE GAPA1 GENE Plant Mol.Biol. 28:667-676 (1995).

Nowitzki U, Wyrich R, Westhoff P, Henze K, Schnarrenberger C, Martin W: Cloning of the amphibolic Calvin cycle OPPP enzyme D-ribulose-5-phosphate 3-epimerase (EC 5.1.3.1) from spinach chloroplasts: Functional and evolutionary aspects Plant Mol.Biol. 29:1279-1291 (1995).

BOHLMANN J, DELUCA V, EILERT U, MARTIN W: PURIFICATION AND CDNA CLONING OF ANTHRANILATE SYNTHASE FROM RUTA-GRAVEOLENS - MODES OF EXPRESSION AND PROPERTIES OF NATIVE AND RECOMBINANT ENZYMES Plant J. 7:491-501 (1995).

SCHNARRENBERGER C, FLECHNER A, MARTIN W: ENZYMATIC EVIDENCE FOR A COMPLETE OXIDATIVE PENTOSE-PHOSPHATE PATHWAY IN CHLOROPLASTS AND AN INCOMPLETE PATHWAY IN THE CYTOSOL OF SPINACH LEAVES Plant Physiol. 108:609-614 (1995).

Henze K, Badr A, Wettern M, Cerff R, Martin W: A nuclear gene of eubacterial origin in Euglena gracilis reflects cryptic endosymbioses during protist evolution. Proc Natl Acad Sci U S A 92:9122-6 (1995).

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BADR A, MARTIN W, JENSEN U: CHLOROPLAST DNA RESTRICTION SITE POLYMORPHISM IN GENISTEAE (LEGUMINOSAE) SUGGESTS A COMMON ORIGIN FOR EUROPEAN AND AMERICAN LUPINES Plant Syst. Evol. 193:95-106 (1994).

Hofmann CJ, Rensing SA, Hauber MM, Martin W, Muller SB, Couch J, McFadden GI, Igloi GL, Maier UG: The smallest known eukaryotic genomes encode a protein gene: towards an understanding of nucleomorph functions. Mol Gen Genet 243:600-4 (1994).

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Kersanach R, Brinkmann H, Liaud MF, Zhang DX, Martin W, Cerff R: Five identical intron positions in ancient duplicated genes of eubacterial origin. Nature 367:387-9 (1994).

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Jansson S, Meyer-Gauen G, Cerff R, Martin W: Nucleotide distribution in gymnosperm nuclear sequences suggests a model for GC-content change in land-plant nuclear genomes. J Mol Evol 39:34-46 (1994).

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Liaud MF, Valentin C, Martin W, Bouget FY, Kloareg B, Cerff R: The evolutionary origin of red algae as deduced from the nuclear genes encoding cytosolic and chloroplast glyceraldehyde-3-phosphate dehydrogenases from Chondrus crispus. J Mol Evol 38:319-27 (1994).

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Bohle UR, Hilger H, Cerff R, Martin W: Non-coding chloroplast DNA for plant molecular systematics at the infrageneric level. EXS 69:391-403 (1994).

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Henze K, Schnarrenberger C, Kellermann J, Martin W: Chloroplast and cytosolic triosephosphate isomerases from spinach: purification, microsequencing and cDNA cloning of the chloroplast enzyme. Plant Mol Biol 26:1961-73 (1994).

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Meyer-Gauen G, Schnarrenberger C, Cerff R, Martin W: Molecular characterization of a novel, nuclear-encoded, NAD(+)-dependent glyceraldehyde-3-phosphate dehydrogenase in plastids of the gymnosperm Pinus sylvestris L. Plant Mol Biol 26:1155-66 (1994).

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SOMERVILLE CC, JOUANNIC S, MARTIN W, KLOAREG B, LOISEAUXDEGOER S: SECONDARY STRUCTURE AND PHYLOGENY OF THE CHLOROPLAST 23S RIBOSOMAL-RNA GENE FROM THE BROWN ALGA PYLAIELLA-LITTORALIS Plant Mol.Biol. 21:779-787 (1993).

MARTIN W, NOCK S, MEYERGAUEN G, HAGER KP, JENSEN U, CERFF R: A METHOD FOR ISOLATION OF CDNA-QUALITY MESSENGER-RNA FROM IMMATURE SEEDS OF A GYMNOSPERM RICH IN POLYPHENOLICS Plant Mol.Biol. 22:555-556 (1993).

Martin W, Brinkmann H, Savonna C, Cerff R: Evidence for a chimeric nature of nuclear genomes: eubacterial origin of eukaryotic glyceraldehyde-3-phosphate dehydrogenase genes Proceedings of the National Academy of Sciences 90:8692-8696 (1993).

Barakate A, Martin W, Quigley F, Mache R: Characterization of a multigene family encoding an exopolygalacturonase in maize. J Mol Biol 229:797-801 (1993).

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Kolukisaoglu HU, Braun B, Martin W, Schneider-Poetsch HA: Mosses do express conventional, distantly B-type-related phytochromes. Phytochrome of Physcomitrella patens (Hedw.). FEBS Lett 334:95-100 (1993).

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PISABARRO AG, MARTIN W, PETERSON PA, SAEDLER H, GIERL A: MOLECULAR ANALYSIS OF THE UBIQUITOUS (UQ) TRANSPOSABLE ELEMENT SYSTEM OF ZEA-MAYS Mol. Gen. Genet. 230:201-208 (1991).

Assali NE, Martin W, Sommerville CC, Loiseaux-de Goer S: Evolution of the Rubisco operon from prokaryotes to algae: structure and analysis of the rbcS gene of the brown alga Pylaiella littoralis. Plant Mol Biol 17:853-63 (1991).

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Menssen A, Hohmann S, Martin W, Schnable PS, Peterson PA, Saedler H, Gierl A: The En/Spm transposable element of Zea mays contains splice sites at the termini generating a novel intron from a dSpm element in the A2 gene. EMBO J 9:3051-7 (1990).

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Martin W, Lagrange T, Li YF, Bisanz-Seyer C, Mache R: Hypothesis for the evolutionary origin of the chloroplast ribosomal protein L21 of spinach. Curr Genet 18:553-6 (1990).

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MARTIN W, GIERL A, SAEDLER H: ANGIOSPERM ORIGINS - REPLY Nature 342:132-132 (1989).

Martinez P, Martin W, Cerff R: Structure, evolution and anaerobic regulation of a nuclear gene encoding cytosolic glyceraldehyde-3-phosphate dehydrogenase from maize. J Mol Biol 208:551-65 (1989).

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Quigley F, Brinkmann H, Martin W, Cerff R: Strong functional GC pressure in a light-regulated maize gene encoding subunit GAPA of chloroplast glyceraldehyde-3-phosphate dehydrogenase: implications for the evolution of GAPA pseudogenes. J Mol Evol 29:412-21 (1989).

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