References

Arganoza MT, Min J, Hu Z, Akins RA (1994) Distribution of seven homology groups of mitochondrial plasmids in Neurospora: evidence for widespread mobility between species in nature. Curr Genet 26:62-73 Belnap DM, Steven AC (2000) "Deja vu all over again": the similar structures of bacteriophage PRD1 and adenovirus. Trends Microbiol 8:91-93 Benson SD, Bamford JKH, Bamford DH, Burnett RM (1999) Viral evolution revealed by bacteriophage PRD1 and human adenovirus coat protein structures. Cell 98:825833

Benson SD, Bamford JKH, Bamford DH, Burnett RM (2002) The X-ray crystal structure of P3, the major coat protein of the lipid-containing bacteriophage PRD1, at 1.65 A resolution. Acta Crystallogr D Biol Crystallogr 58:39-59 Bertrand H (2000) Role of mitochondrial DNA in the senescence and hypovirulence of fungi and potential for plant disease control. Annu Rev Phytopathol 38:397-422

Birkeland NK (1994) Cloning, molecular characterization, and expression of the genes encoding the lytic functions of lactococcal bacteriophage phi LC3: a dual lysis system of modular design. Can J Microbiol 40:658-665 Bisaillon M, Lemay G (1997) Viral and cellular enzymes involved in synthesis of mRNA

cap structure. Virology 236:1-7 Blaisonneau J, Nosek J, Fukuhara H (1999) Linear DNA plasmid pPK2 of Pichia kluyveri: distinction between cytoplasmic and mitochondrial linear plasmids in yeasts. Yeast 15:781-791

Bolen PL, Kurtzman CP, Ligon JM, Mannarelli BM, Bothast RJ (1992) Physical and genetic characterization of linear DNA plasmids from the heterothallic yeast Saccharomycopsis crataegensis. Antonie Van Leuwenhoek 61:195-295 Bolen PL, Eastman EM, Cihak PL, Hayman GT (1994) Isolation and sequence analysis of a gene from the linear DNA plasmid pPacl-2 of Pichia acaciae that shows similarity to a killer toxin gene of Kluyveromyces lactis. Yeast 10:403-414 Butler AR, O'Donnell RW, Martin VJ, Gooday GW, Stark MJ (1991a) Kluyveromyces lactis toxin has an essential chitinase activity. Eur J Biochem 199:483-488 Butler AR, Porter M, Stark MJR (1991c) Intracellular expression of Kluyveromyces lactis toxin y subunit mimics treatment with exogenous toxin and distinguishes two classes of toxin-resistant mutant. Yeast 7:617-625 Butler AR, White JH, Stark MJR (1991b) Analysis of the response of Saccharomyces cere-

visiae cells to Kluyveromyces lactis toxin. J Gen Microbiol 137:1749-1757 Butler AR, White JH, Folawiyo Y, Edlin A, Gardiner D, Stark MJR (1994) Two Sac-charomyces cerevisiae genes which control sensitivity to G1 arrest induced by Kluyveromyces lactis toxin. Mol Cell Biol 14:6306-6316 Cermakian N, Ikeda TM, Cedergren R, Gray MW (1996) Sequences homologous to yeast mitochondrial and bacteriophage T3 and T7 RNA polymerases are widespread throughout the eukaryotic lineage. Nucleic Acids Res 24:648-654 Cermakian N, Ikeda TM, Miramontes P, Lang BF, Gray MW, Cedergren R (1997) On the evolution of the single-subunit RNA polymerases. J Mol Evol 45:671-681 Challberg MD, Kelly TJ (1982) Eukaryotic DNA replication: viral and plasmid model systems. Annu Rev Biochem 51:901-934 Chan BS, Court DA, Vierula PJ, Bertrand H (1991) The kalilo linear senescence-inducing plasmid of Neurospora is an invertron and encodes DNA and RNA polymerases. Curr Genet 20:225-237

Chen WB, Han JF, Jong SC, Chang SC (2000) Isolation, purification, and characterization of a killer protein from Schwanniomyces occidentalis. Appl Environ Microbiol 66:53485352

Cong P, Shuman S (1992) Methyltransferase and subunit association domains of Vaccinia virus mRNA capping enzyme. J Biol Chem 267:16424-16429 Cong P, Shuman S (1993) Covalent catalysis in nucleotidyl transfer: a KTDG motif essential for enzyme-GMP complex formation by mRNA capping enzyme is conserved at the active sites of RNA and DNA ligases. J Biol Chem 268:7256-7260 Cong YS, Yarrow D, Li YY, Fukuhara H (1994) Linear DNA plasmids from Pichia etchellsii,

Debaryomyces hansenii and Wingea robertsiae. Microbiology 140:1327-1335 Court DA, Bertrand H (1992) Genetic organization and structural features of maranhar, a senescence-inducing linear mitochondrial plasmid of Neurospora crassa. Curr Genet 22:385-397

Davison AJ, Benko M, Harrach B (2003) Genetic content and evolution of adenoviruses. J Gen Virol 84:2895-2908

de la Cruz J, Kressler D, Linder P (1999) Unwinding RNA in Saccharomyces cerevisiae:

DEAD-box proteins and related families. Trends Biochem Sci 24(5):192-198 Deng L, Shuman S (1998) Vaccinia NPH-I, a DExH-box ATPase, is the energy coupling factor for mRNA transcription termination. Genes Dev 12:538-546 Dufour E, Mendez J, Lazaro JM, de Vega M, Blanco L, Salas M (2000) An aspartic acid residue in TPR-1, a specific region of protein-priming DNA polymerases, is required for the functional interaction with primer terminal protein. J Mol Biol 304:289-300 Dufour E, Rodriguez I, Lazaro JM, de Vega M, Salas M (2003) A conserved insertion in protein-primed DNA polymerases is involved in primer terminus stabilisation. J Mol Biol 331:781-794

Düvell A, Hessberg-Stutzke H, Oeser B, Rogmann-Backwinkel P, Tudzynski P (1988) Structural and functional analysis of mitochondrial plasmids in Claviceps purpurea. Mol Gen Genet 214:128-134 Esberg A, Huang B, Johansson MJ, Bystrom AS (2006) Elevated levels of two tRNA species bypass the requirement for elongator complex in transcription and exocytosis. Mol Cell 24:139-148

Fichtner L, Schaffrath R (2002) KTI11 and KTI13, Saccharomyces cerevisiae genes controlling sensitivity to G1 arrest induced by Kluyveromyces lactis zymocin. Mol Microbiol 44:865-875

Fichtner L, Frohloff F, Burkner K, Larsen M, Breunig KD, Schaffrath R (2002a) Molecular analysis of KTI12/TOT4, a Saccharomyces cerevisiae gene required for Kluyveromyces lactis zymocin action. Mol Microbiol 43:783-791 Fichtner L, Frohloff F, Jablonowski D, Stark MJ, Schaffrath R (2002b) Protein interactions within Saccharomyces cerevisiae Elongator, a complex essential for Kluyveromyces lactis zymocicity. Mol Microbiol 45:817-826 Fichtner L, Jablonowski D, Schierhorn A, Kitamoto HK, Stark MJ, Schaffrath R (2003) Elongator's toxin-target (TOT) function is nuclear localization sequence dependent and suppressed by post-translational modification. Mol Microbiol 49:1297-1307 Francou F (1981) Isolation and characterization of a linear DNA molecule in the fungus

Ascobolus immersus. Mol Gen Genet 184:440-444 Frohloff F, Fichtner L, Jablonowski D, Breuning KD, Schaffrath R (2001) Saccharomyces cerevisiae elongator mutations confer resistance to the Kluyveromyces lactis zymocin. EMBO J 20:1993-2003

Frohloff F, Jablonowski D, Fichtner L, Schaffrath R (2003) Subunit communications crucial for the functional integrity of the yeast RNA polymerase II elongator (y toxin target (TOT)) complex. J Biol Chem 278:956-961 Fukuda K, Maebuchi M, Takata H, Gunge N (1997) The linear plasmid pDHL1 from Debaryomyces hansenii encodes a protein highly homologous to the pGKL1-plasmid DNA polymerase. Yeast 13:613-620 Fukuda K, Jin-Shan C, Kawano M, Sudo K, Gunge N (2004) Stress responses of linear plasmids from Debaryomyces hansenii. FEMS Microbiol Lett 237:243-248 Fukuhara H (1995) Linear DNA plasmids of yeasts. FEMS Microbiol Lett 131:1-9 Galligan JT, Kennell JC (2007) Retroplasmids: Linear and circular plasmids that replicate via reverse transcription. In: Meinhardt F, Klassen R (eds) Microbiology Monographs, vol 7: Microbial linear plasmids. Springer, Berlin Heidelberg (in press) Giese H, Christiansen SK, Jensen HP (1990) Extrachromosomal plasmid-like DNA in the obligate parasitic fungus Erysiphe graminis f. sp. hordei. Theor Appl Genet 79:56-64 Giese H, Lyngkjaer MF, Stummann BM, Grell MN, Christiansen SK (2003) Analysis of the structure and inheritance of a linear plasmid from the obligate biotrophic fungus Blumeria graminis f. sp. hordei Mol Genet Genomics 269:699-705

Graille M, Mora L, Buckingham RH, van Tilbeurgh H, de Zamaroczy M (2004) Structural inhibition of the colicin D tRNase by the tRNA-mimicking immunity protein. EMBO J 23:1474-1482

Greider CW, Blackburn EH (1985) Identification of a specific telomere terminal transferase activity in Tetrahymena extracts. Cell 43:405-413 Greider CW, Blackburn EH (1989) A telomeric sequence in the RNA of Tetrahymena telomerase required for telomere repeat synthesis. Nature 337:331-337 Griffiths AJF (1992) Fungal senescence. Annu Rev Genet 26:351-372 Griffiths AJF (1995) Natural plasmids of filamentous fungi. Microbiol Rev 59:673-685 Gunge N (1995) Plasmid DNA and the killer phenomenon in Kluyveromyces. In: Kück U

(ed) Genetics and biotechnology: the mycota, vol 2. Springer, Berlin, pp 189-209 Gunge N, Sakaguchi K (1981) Intergeneric transfer of deoxyribonucleic acid killer plas-mids, pGKl1 and pGKl2, from Kluyveromyces lactis into Saccharomyces cerevisiae by cell fusion. J Bacteriol 147:155-160 Gunge N, Tokunaga M (2004) Linear DNA plasmids and killer system in Kluyveromyces lactis. In: Kück U (ed) Genetics and biotechnology: the mycota II, 2nd edn. Springer, Berlin, pp 199-217

Gunge N, Tamaru A, Ozawa F, Sakaguchi K (1981) Isolation and characterization of linear deoxyribonucleic acid plasmids from Kluyveromyces lactis and the plasmid-associated killer character. J Bacteriol 145:382-390 Gunge N, Murata K, Sakaguchi K (1982) Transformation of Saccharomyces cerevisiae with linear DNA killer plasmids from Kluyveromyces lactis. J Bacteriol 151:462-464 Gunge N, Takata H, Matsuura A, Fukuda K (2003) Progressive rearrangement of telomeric sequences added to both the ITR ends of the yeast linear pGKL plasmid. Biol Proced Online 5:29-42

Hashiba T, Nagasaka A (2007) Hairpin plasmids from the plant pathogenic fungus Rhizoctonia solani and Fusarium oxysporum. In: Meinhardt F, Klassen R (eds) Microbiology Monographs, vol 7: Microbial linear plasmids. Springer, Berlin Heidelberg (in press) Hayman GT, Bolen BL (1991) Linear DNA plasmids of Pichia inositovora are associated with a novel killer toxin activity. Curr Genet 19:389-393 Hermanns J, Osiewacz HD (1992) The linear mitochondrial plasmid pAL2-1 of a long-lived Podospora anserina mutant is an invertron encoding a DNA and RNA polymerase. Curr Genet 22:491-500 Hermanns J, Asseburg A, Osiewacz HD (1994) Evidence for a life span-prolonging effect of a linear plasmid in a longevity mutant of Podospora anserina. Mol Gen Genet 243:297-307

Hermanns J, Asseburg A, Osiewacz HD (1995) Evidence for giant linear plasmids in the ascomycete Podospora anserina. Curr Genet 27:379-386 Hertwig S (2007) Linear Plasmids and Prophages in Gram Negative Bacteria. In: Meinhardt F, Klassen R (eds) Microbiology Monographs, vol 7: Microbial linear plasmids. Springer, Berlin Heidelberg (in press) Higman HA, Bourgeois N, Niles EG (1992) The Vaccinia virus mRNA (guanine-N7-)-methyltransferase requires both subunits of the mRNA capping enzyme for activity J Biol Chem 267:16430-16437 Higman MA, Christen LA, Niles EG (1994) The mRNA (guanine-7)methyltransferase domain of the Vaccinia virus mRNA capping enzyme: expression in Escherichia coli and structural and kinetic comparison to the intact capping enzyme. J Biol Chem 269:14974-14981

Hishinuma F, Hirai K (1991) Genome organization of the linear plasmid, pSKL, isolated from Saccharomyces kluyveri. Mol Gen Genet 226:97-106

Hishinuma F, Nakamura K, Hirai K, Nishizawa R, Gunge N, Maeda T (1984) Cloning and nucleotide sequence of the DNA killer plasmids from yeast. Nucleic Acids Res 12:7581-7597

Huang B, Johansson MJ, Bystrom AS (2005) An early step in wobble uridine tRNA modification requires the Elongator complex. RNA 11:424-436 Ito J, Braithwaite DK (1991) Compilation and alignment of DNA polymerase sequences.

Nucleic Acids Res 19:4045-4057 Jablonowski D, Fichtner L, Martin VJ, Klassen R, Meinhardt F, Stark MJR, Schaffrath R (2001a) Saccharomyces cerevisiae cell wall chitin, the potential Kluyveromyces lactis zymocin receptor. Yeast 18:1285-1299 Jablonowski D, Butler AR, Fichtner L, Gardiner D, Schaffrath R, Stark MJR (2001b) Sit4p protein phosphatase is required for sensitivity of Saccharomyces cerevisiae to Kluyveromyces lactis zymocin. Genetics 159:1479-1489 Jablonowski D, Frohloff F, Fichtner L, Stark MJR, Schaffrath R (2001c) Kluyveromyces lactis zymocin mode of actin is linked to RNA polymerase II function via Elongator. Mol Microbiol 42:1095-1105 Jablonowski D, Fichtner L, Stark MJ, Schaffrath R (2004) The yeast elongator histone acetylase requires Sit4-dependent dephosphorylation for toxin-target capacity. Mol Biol Cell 15:1459-1469

Jablonowski D, Zink S, Mehlgarten C, Daum G, Schaffrath R (2006) tRNAGl" wobble uridine methylation by Trm9 identifies Elongator's key role for zymocin-induced cell death in yeast. Mol Microbiol 59:677-688 Jankowsky E, Bowers H (2006) Remodeling of ribonucleoprotein complexes with DExH/D

RNA helicases. Nucleic Acids Res 34:4181-4188 Jeske S, Meinhardt F (2006) Autonomous cytoplasmic linear plasmid pPac1-1 of Pichia acaciae: molecular structure and expression studies. Yeast 23:476-486 Jeske S, Meinhardt F, Klassen R (2006a) Extranuclear inheritance: virus-like DNA elements in yeast. In: Esser K, Lüttge U, Beyschlag W, Murata J (eds) Progress in Botany, vol 68. Springer, Berlin Heidelberg New York, pp 98-129 Jeske S, Tiggemann M, Meinhardt F (2006b) Yeast autonomous linear plasmid pGKL2 ORF9 is an actively transcribed essential gene with multiple transcription start points. FEMS Microbiol Lett 255:321-327 Kalhor HR, Clarke S (2003) Novel methyltransferase for modified uridine residues at the wobble position of tRNA. Mol Cell Biol 23:9283-9292 Kämper J, Meinhardt F, Gunge N, Esser K (1989a) New recombinant linear DNA elements derived from Kluyveromyces lactis killer plasmids. Nucleic Acids Res 17(4):1781 Kämper J, Meinhardt F, Gunge N, Esser K (1989b) In vivo construction of linear vectors based on killer plasmids from Kluyveromyces lactis: selection of a nuclear gene results in attachment of telomeres. Mol Cell Biol 9(9):3931-3937 Kämper J, Esser K, Gunge N, Meinhardt F (1991) Heterologous gene expression on the linear DNA killer plasmid from Kluyveromyces lactis. Curr Genet 19:109-118 Kamtekar S, Berman AJ, Wang J, Lázaro JM, de Vega M, Blanco L, Salas M, Steitz TA (2004) Insights into strand displacement and processivity from the crystal structure of the protein-primed DNA polymerase of bacteriophage phi29. Mol Cell 16:609-618 Kamtekar S, Ho RS, Cocco MJ, Li W, Wenwieser SV, Boocock MR, Grindley ND, Steitz TA (2006) Implications of structures of synaptic tetramers of gamma delta resolvase for the mechanism of recombination. Proc Natl Acad Sci USA 103:10642-10647 Kawamoto S, Sasaki T, Itahashi S, Hatsuyama Y, Ohno T (1993) A mutant allele skt5 affecting protoplast regeneration and killer toxin resistance has double mutations in its wild-type structural gene in Saccharomyces cerevisiae. Biosci Biotechnol Biochem 57:1391-1393

Kempken F, Meinhardt F, Esser K (1989) In organello replication and viral affinity of linear, extrachromosomal DNA of the ascomycete Ascobolus immersus. Mol Gen Genet 218:523-530

Kempken F, Hermanns J, Osiewacz HD (1992) Evolution of linear plasmids. J Mol Evol 35:502-513

Kim EK, Jeong JH, Youn HS, Koo YB, Roe JH (2000) The terminal protein of a linear mitochondrial plasmid is encoded in the N-terminus of the DNA polymerase gene in white-rot fungus Pleurotus ostreatus. Curr Genet 38:283-290 Kishida M, Tokunaga M, Katayose Y, Yajima H, Kawamura-Watabe A, Hishinuma F (1996) Isolation and genetic characterization of pGKL killer-insensitive mutants (iki) from Saccharomyces cerevisiae. Biosci Biotechnol Biochem 60:798-801 Kitada K, Gunge N (1988) Palindrome-hairpin linear plasmids possessing only a part of the ORF1 gene of the yeast killer plasmid pGKL1. Mol Gen Genet 215:46-52 Kitada K, Hishinuma H (1987) A new linear plasmid isolated from the yeast Saccha-

romyces kluyveri. Mol Gen Genet 206:377-381 Klassen R, Meinhardt F (2002) Linear plasmids pWR1A and pWR1B of the yeast Wingea robertsiae are associated with a killer phenotype. Plasmid 48:142-148 Klassen R, Meinhardt F (2003) Structural and functional analysis of the killer element pPin1-3 from Pichia inositovora. Mol Genet Genomics 270:190-199 Klassen R, Meinhardt F (2005) Induction of DNA damage and apoptosis in Saccharomyces cerevisiae by a yeast killer toxin. Cell Microbiol 7:393-401 Klassen R, Tontsidou L, Larsen M, Meinhardt F (2001) Genome organization of the linear cytoplasmic element pPE1B from Pichia etchellsii. Yeast 18:953-961 Klassen R, Jablonowski D, Schaffrath R, Meinhardt F (2002) Genome organization of the linear Pichia etchellsii plasmid pPE1A: evidence for expression of an extracellular chitin binding protein homologous to the a-subunit of the Kluyveromyces lactis killer toxin. Plasmid 47:224-233 Klassen R, Teichert S, Meinhardt F (2004) Novel yeast killer toxins provoke S-phase arrest and DNA damage checkpoint activation. Mol Microbiol 53:263-273 Klassen R, Jablonowski D, Stark MJR, Schaffrath R, Meinhardt F (2006) Mating type locus control of killer toxins from Kluyveromyces lactis and Pichia acaciae. FEMS Yeast Res 6:404-413

Kobryn K (2007) The linear hairpin replicons of Borrelia burgdorferi. In: Meinhardt F, Klassen R (eds) Microbiology Monographs, vol 7: Microbial linear plasmids. Springer, Berlin Heidelberg (in press) Kuzmin EV, Levchenko IV, Zaitseva GN (1988) S2 plasmid from cms-S-maize mitochondria potentially encodes a specific RNA polymerase. Nucleic Acids Res 16:4177 Larsen M, Meinhardt F (2000) Kluyveromyces lactis killer system: identification of a new gene encoded by pGKL2. Curr Genet 38:271-275 Larsen M, Gunge N, Meinhardt F (1998) Kluyveromyces lactis killer plasmid pGKL2: evidence for a viral-like capping enzyme encoded by OFR3. Plasmid 40:243-246 Leffers H, Gropp F, Lottspeich F, Zillig W, Garrett RA (1989) Sequence, organisation, transcription and evolution of RNA polymerase subunit genes from the archaebacte-rial extreme halophiles Halobacterium halobium and Halococcus morrhuae. J Mol Biol 206:1-17

Levings CS, Sederoff RR (1983) Nucleotide sequence of the S-2 mitochondrial DNA from the S cytoplasm of maize. Proc Natl Acad Sci USA 80:4055-4059

Ligon JM, Bolen PL, Hill DS, Bothast RJ, Kurtzman CP (1989) Physical and biological characterization of linear DNA plasmids of the yeast Pichia inositovora. Plasmid 2:185-194

Lu J, Huang B, Esberg A, Johansson MJ, Bystrom AS (2005) The Kluyveromyces lactis

Y toxin targets tRNA anticodons. RNA 11:1648-1654 Maas MF, de Boer HJ, Debets AJ, Hoekstra RF (2004) The mitochondrial plasmid pAL2-1 reduces calorie restriction mediated life span extension in the filamentous fungus Podospora anserina. Fungal Genet Biol 41:865-871 Maas MF, van Mourik A, Hoekstra RF, Debets AJ (2005) Polymorphism for pKALILO based senescence in Hawaiian populations of Neurospora intermedia and Neurospora tetrasperma. Fungal Genet Biol 42:224-232 Mao X, Shuman S (1994) Intrinsic RNA (guanine-7)methyltransferase activity of the Vaccinia capping enzyme D1 subunit is stimulated by the D12 subunit: identification of amino acid residues in the D1 protein required for subunit association and methyl group transfer. J Biol Chem 269:24472-24479 Martin SA, Paoletti E, Moss B (1975) Purification of mRNA guanylyltransferase and mRNA

(guanine-7)methyltransferase from Vaccinia virions. J Biol Chem 250:9322-9329 Masaki H, Ogawa T (2002) The modes of action of colicins E5 and D, and related cytotoxic tRNases. Biochimie 84:433-438 Masters BS, Stohl LL, Clayton DA (1987) Yeast mitochondrial RNA polymerase is homologous to those encoded by bacteriophages T3 and T7. Cell 51:89-99 McCracken DA, Martin VJ, Stark MJ, Bolen PL (1994) The linear-plasmid-encoded toxin produced by the yeast Pichia acaciae: characterization and comparison with the toxin of Kluyveromyces lactis. Microbiology 140:425-431 McNeel DG, Tamanoi F (1991) Terminal region recognition factor 1, a DNA-binding protein recognizing the inverted terminal repeats of the pGKl linear DNA plasmids. Proc Natl Acad Sci USA 88:11398-11402 Mehlgarten C, Schaffrath R (2003) Mutant casein kinase I (Hrr25p/Kti14p) abrogates the G1 cell cycle arrest induced by Kluyveromyces lactis zymocin in budding yeast. Mol Genet Genomics 269:188-196 Mehlgarten C, Schaffrath R (2004) After chitin docking, toxicity of Kluyveromyces lactis zymocin requires Saccharomyces cerevisiae plasma membrane H+-ATPase. Cell Micro-biol 6:569-580

Meijer WJ, Horcajadas JA, Salas M (2001) Phi29 family of phages. Microbiol Mol Biol Rev 65:261-287

Meinhardt F, Rohe R (1993) Extranuclear inheritance: linear protein-primed replicating genomes in plants and microorganisms. In: Esser K, Lüttge U, Kadereit JW, Beyschlag W (eds) Progress in botany, vol 54. Springer, Heidelberg, pp 51-70 Meinhardt F, Schaffrath R (2001) Extranuclear inheritance: cytoplasmic linear double-stranded DNA killer elements of the dairy yeast Kluyveromyces lactis. In: Esser K, Lüttge U, Kadereit JW, Beyschlag W (eds) Progress in botany, vol 62. Springer, Heidelberg, pp 51-70

Meinhardt F, Kempken F, Esser K (1986) Proteins are attached to the ends of a linear plasmid in the filamentous fungus Ascobolus immersus. Curr Genet 11:243-246 Meinhardt F, Kempken F, Kamper J, Esser K (1990) Linear plasmids among eukaryotes:

fundamentals and application. Curr Genet 17:89-95 Mendez J, Blanco L, Esteban JA, Bernad A, Salas M (1992) Initiation of phi29 DNA replication occurs at the second 3' nucleotide of the linear template: a sliding-back mechanism for protein-primed DNA replication. Proc Natl Acad Sci USA 89(20):9579-9583

Mendez J, Blanco L, Salas M (1997) Protein-primed DNA replication: a transition between two modes of priming by a unique DNA polymerase. EMBO J 16:2519-27 Mogen KL, Siegel MR, Schardl CL (1991) Linear DNA plasmids of the perennial ryegrass choke pathogen, Epichloe typhina (Clavicipitaceae). Curr Genet 20:519-526 Myers CJ, Griffiths AJ, Bertrand H (1989) Linear kalilo DNA is a Neurospora mitochondrial plasmid that integrates into the mitochondrial DNA. Mol Gen Genet 220:113120

Niwa O, Sakaguchi K, Gunge N (1981) Curing of the killer deoxyribonucleic acid plasmids of Kluyveromyces lactis. J Bacteriol 148:988-990 Oeser B (1988) S2 plasmid from Zea mays encodes a specific RNA polymerase: an alternative alignment. Nucleic Acids Res 16:8729 Oeser B, Tudzynski P (1989) The linear mitochondrial plasmid pClK1 of the phy-topathogenic fungus Claviceps purpurea may code for a DNA polymerase and an RNA polymerase. Mol Gen Genet 217:132-140 Oeser B, Rogmann-Backwinkel P, Tudzynski P (1993) Interaction between mitochondrial DNA and mitochondrial plasmids in Claviceps purpure: analysis of plasmid-homologous sequences upstream of the lrRNA gene. Curr Genet 23:315-322 Ogawa T, Tomita K, Ueda T, Watanabe K, Uozumi T, Masaki H (1999) A cytotoxic ribonu-

clease targeting specific transfer RNA anticodons. Science 283:2097-2100 Otero G, Fellows J, Li Y, de Bizemont T, Dirac AM, Gustafsson CM, Erdjument-Bromage H, Tempst P, Svejstrup JQ (1999) Elongator, a multisubunit component of a novel RNA polymerase II holoenzyme for transcriptional elongation. Mol Cell 3:109-118 Paillard M, Sederoff RR, Levings CS (1985) Nucleotide sequence of the S-1 mitochondrial

DNA from the S cytoplasm of maize. EMBO J 4:1125-1128 Pontig CP, Aravind L, Schultz J, Bork P, Koonin EV (1999) Eukaryotic signalling domain homologues in archaea and bacteria: ancient ancestry and horizontal gene transfer. J Mol Biol 289:729-745 Pring DR, Levings CS III, Hu WWL, Timothy DH (1977) Unique DNA associated with mitochondria in the "S"-type cytoplasm of male-sterile maize. Proc Natl Acad Sci USA 74:2904-2908

Rahl PB, Chen CZ, Collins RN (2005) Elp1p, the yeast homolog of the FD disease syndrome protein, negatively regulates exocytosis independently of transcriptional elongation. Mol Cell 17:841-853 Raths S, Rohrer J, Crausaz F, Riezman H (1993) end3 and end4: two mutants defective in receptor-mediated and fluid-phase endocytosis in Saccharomyces cerevisiae. J Cell Biol 120:55-65

Reiter J, Herker E, Madeo F, Schmitt MJ (2005) Viral killer toxins induce caspase-

mediated apoptosis in yeast. J Cell Biol 168:353-358 Rodriguez I, Lazaro JM, Blanco L, Kamtekar S, Berman AJ, Wang J, Steitz TA, Salas M, de Vega M (2005) A specific subdomain in phi29 DNA polymerase confers both pro-cessivity and strand-displacement capacity. Proc Natl Acad Sci USA 102:6407-6412 Rohe M, Schrage K, Meinhardt F (1991) The linear plasmid pMC3-2 from Morchella conica is structurally related to adenoviruses. Curr Genet 20:527-533 Rohe M, Schründer J, Tudzynski P, Meinhardt F (1992) Phylogenetic relationships of linear protein-primed replicating genomes. Curr Genet 21:173-176 Romanos M, Boyd A (1988) A transcriptional barrier to expression of cloned toxin genes of the linear plasmid k1 of Kluyveromyces lactis: evidence that native k1 has novel promoters. Nucleic Acids Res 16:7333-7350 Salas M (1991) Protein priming of DNA replication. Annu Rev Biochem 60:39-71

Samac DA, Leong SA (1988) Two linear plasmids in mitochondria of Fusarium solani f.

sp. cucurbitae. Plasmid 19:57-67 San Martin C, Burnett RM (2003) Structural studies on adenoviruses. Curr Top Microbiol Immunol 272:57-94

Schaffrath R, Meacock PA (2001) An SSB encoded by and operating on linear killer plasmids from Kluyveromyces lactis. Yeast 18:1239-1247 Schaffrath R, Meinhardt F (2004) Kluyveromyces lactis zymocin and other plasmid-encoded yeast killer toxins. In: Schmitt M, Schaffrath R (eds) Topics in current genetics, vol 11: microbial protein toxins. Springer, Heidelberg, pp 133-155 Schaffrath R, Stark MJR, Gunge N, Meinhardt F (1992) Kluyveromyces lactis killer system: ORF1 of pGKL2 has no function in immunity expression and is dispensable for killer plasmid replication and maintenance. Curr Genet 21:357-363 Schaffrath R, Soond SM, Meacock PA (1995) The DNA and RNA polymerase genes of yeast plasmid pGKL2 are essential loci for plasmid integrity and maintenance. Microbiology 141:2591-2599 Schaffrath R, Meinhardt F, Meacock PA (1996) Yeast killer plasmid pGKL2: molecular analysis of UCS5, a cytoplasmic promoter element essential for ORF5 gene function. Mol Gen Genet 250:286-294 Schaffrath R, Meinhardt F, Meacock PA (1997) ORF7 of yeast plasmid pGKL2: analysis of gene expression in vivo. Curr Genet 31:190-192 Schickel J, Helmig C, Meinhardt F (1996) Kluyveromyces lactis killer system: analysis of cytoplasmic promoters of linear plasmids. Nucleic Acids Res 24:1879-1886 Schmitt MJ, Breinig F (2002) The viral killer system in yeast: from molecular biology to application. FEMS Microbiol Rev 26:257-276 Schründer J, Meinhardt F (1995) An extranuclear expression system for analysis of cytoplasmic promoters of yeast linear killer plasmids. Plasmid 33:139-151 Schründer J, Gunge N, Meinhardt F (1996) Extranuclear expression of the bacterial xylose isomerase (xylA) and the UDP-glucose dehydrogenase (hasB) genes in yeast with Kluyveromyces lactis linear killer plasmids as vectors. Curr Microbiol 33:323-330 Schwer B (2001) A new twist on RNA helicases: DExH/D box proteins as RNPases. Nat Struct Biol 8:113-116

Shepherd HS (1992) Linear, non-mitochondrial plasmids of Alternaria alternata. Curr Genet 21:169-172

Shuman S, Hurwitz J (1981) Mechanism of mRNA capping by Vaccinia virus guanylyl-transferase: characterization of an enzyme-guanylate intermediate. Proc Natl Acad Sci USA 78:187-191

Shuman S, Schwer B (1995) RNA capping enzyme and DNA ligase: a superfamily of covalent nucleotidyltransferases. Mol Microbiol 17:405-410 Shutt TE, Gray MW (2006) Bacteriophage origins of mitochondrial replication and transcription proteins. Trends Genet 22:90-95 Sor F, Fukuhara H (1985) Structure of a linear plasmid of the yeast Kluyveromyces lactis:

compact organization of the killer genome. Curr Genet 9:147-155 Stam JC, Kwakman J, Meijer M, Stuitje AR (1986) Efficient isolation of the linear DNA killer plasmid of Kluyveromyces lactis: evidence for location and expression in the cytoplasm and characterization of their terminally bound proteins. Nucleic Acids Res 14:6871-6884

Stark MJR, Boyd A (1986) The killer toxin of Kluyveromyces lactis: characterization of the toxin subunits and identification of the genes which encode them. EMBO J 5:19952002

Stark MJ, Mileham AJ, Romanos MA, Boyd A (1984) Nucleotide sequence and transcription analysis of a linear DNA plasmid associated with the killer character of the yeast Kluyveromyces lactis. Nucleic Acids Res 12:6011-6030 Stark MJR, Boyd A, Mileham AJ, Romanos MA (1990) The plasmid encoded killer system of Kluyveromyces lactis: a review. Yeast 6:1-29 Sugisaki Y, Gunge N, Sakaguchi K, Yamasaki M, Tamura G (1985) Transfer of DNA killer plasmids from Kluyveromyces lactis to Kluyveromyces fragilis and Candida pseu-dotropicalis. J Bacteriol 164:1373-1375 Sun TP, Webster RE (1987) Nucleotide sequence of a gene cluster involved in entry of E colicins and single-stranded DNA of infecting filamentous bacteriophages into Escherichia coli. J Bacteriol 169:2667-2674 Takeda M, Hiraishi H, Takesako T, Tanase S, Gunge N (1996) The terminal protein of the linear DNA plasmid pGKL2 shares an N-terminal domain with the plasmid encoded DNA polymerase. Yeast 12:241-246 Takita MA, Castilho-Valavicius B (1993) Absence of cell wall chitin in Saccharomyces cerevisiae leads to resistance to Kluyveromyces lactis killer toxin. Yeast 9:589-598 Tanguy-Rougeau C, Wesolowski-Louvel M, Fukuhara H (1988) The Kluyveromyces lactis

KEX1 gene encodes a subtilisin-type serine proteinase. FEBS Lett 234:464-470 Tanner NK, Linder P (2001) DExD/H box RNA helicases: from generic motors to specific dissociation functions. Mol Cell 8:251-262 Thuriaux P, Sentenac A (1992) Yeast nuclear RNA polymerases. In: Jones EW, Pringle JR, Broach JR (eds) The molecular and cellular biology of the yeast Saccharomyces cere-visiae. Cold Spring Harbor, New York, pp 1-48 Tiggemann M, Jeske S, Larsen M, Meinhardt F (2001) Kluyveromyces lactis cytoplasmic plasmid pGKL2: heterologous expression of Orf3p and proof of guanylyltransferase and mRNA triphosphatase activities. Yeast 18:815-825 Tiranti V, Savoia A, Forti F, D'Apolito MF, Centra M, Rocchi M, Zeviani M (1997) Identification of the gene encoding the human mitochondrial RNA polymerase (h-mtRPOL) by cyberscreening of the Expressed Sequence Tags database. Hum Mol Genet 6:615625

Tokunaga M, Wada N, Hishinuma F (1987) Expression and identification of immunity determinants on linear DNA killer plasmids pGKL1 and pGKL2 in Kluyveromyces lactis. Nucleic Acids Res 15:1031-1046 Tokunaga M, Wada N, Hishinuma F (1988) A novel yeast secretion signal isolated from 28K killer precursor protein encoded on the linear DNA plasmid pGKL1. Nucleic Acids Res 16:7499-7511 Tokunaga M, Kawamura A, Hishinuma F (1989) Expression of pGKL killer 28K subunit in Saccharomyces cerevisiae: identification of 28K subunit as a killer protein. Nucleic Acids Res 17:3435-3446 Tokunaga M, Kawamura A, Kitada K, Hishinuma F (1990) Secretion of killer toxin encoded on the linear DNA plasmid pGKL1 from Saccharomyces cerevisiae. J Biol Chem 265:17274-17280

Tokunaga M, Kawamura A, Omori A, Hishinuma F (1991) Purification and determination of the NH2-terminal amino acid sequence of mouse alpha-amylase secreted from Saccharomyces cerevisiae: correct processing of the secretion signal from pGKL killer 28-kDa precursor protein. Biochim Biophys Acta 1080:135-137 Tokunaga M, Kawamura A, Omori A, Hishinuma F (1992) Structure of yeast pGKL 128-kDa killer-toxin secretion signal sequence. Processing of the 128-kDa killer-toxin-secretion-signal-alpha-amylase fusion protein. Eur J Biochem 203:415-423

Tomita K, Ogawa T, Uozumi T, Watanabe K, Masaki H (2000) A cytotoxic ribonuclease which specifically cleaves four isoaccepting arginine tRNAs at their anticodon loops. Proc Natl Acad Sci USA 97:8278-8283 Tommasino M (1991) Killer system of Kluyveromyces lactis: the open reading frame 10 of the pGK12 plasmid encodes a putative DNA binding protein. Yeast 7:245-252 Tommasino M, Ricci S, Galeotti C (1988) Genome organization of the killer plasmid pGKL2 from Kluyveromyces lactis. Nucleic Acids Res 16:5863-5978 Tudzynski P, Esser K (1986) Extrachromosomal genetics of Claviceps purpurea. II. Plas-mids in various wild strains and integrated plasmid sequences in mitochondrial genomic DNA. Curr Genet 10:463-467 Tudzynski P, Düvell A, Esser K (1983) Extrachromosomal genetics of Claviceps purpurea.

I. Mitochondrial DNA and mitochondrial plasmids. Curr Genet 7:145-150 van der Gaag M, Debets AJ, Osiewacz HD, Hoekstra RF (1998) The dynamics of pAL2-1

homologous linear plasmids in Podospora anserina. Mol Gen Genet 258:521-529 Vierula PJ, Cheng CK, Court DA, Humphrey RW, Thomas DY, Bertrand H (1990) The kalilo senescence plasmid of Neurospora intermedia has covalently linked 5' terminal proteins. Curr Genet 17:195-201 Weihe A, Hedtke B, Borner T (1997) Cloning and characterization of a cDNA encoding a bacteriophage-type RNA polymerase from the higher plant Chenopodium album. Nucleic Acids Res 25:2319-2325 Wesolowski-Louvel M, Tanguy-Rougeau C, Fukuhara H (1988) A nuclear gene required for the expression of the linear DNA-associated killer system in the yeast Kluyveromyces lactis. Yeast 4:71-81 Wesp A, Hicke L, Palecek J, Lombardi R, Aust T, Munn AL, Riezman H (1997) End4p/Sla2p interacts with actin-associated proteins for endocytosis in Saccharomyces cerevisiae. Mol Biol Cell 8:2291-2306 White JH, Butler AR, Stark MJR (1989) Kluyveromyces lactis toxin does not inhibit yeast adenylyl cylcase. Nature 341:666-668 Wilson DW, Meacock PA (1988) Extranuclear gene expression in yeast: evidence for a plasmid encoded RNA polymerase of unique structure. Nucleic Acids Res 16:80978112

Winkler GS, Petrakis TG, Ethelberg S, Tokunaga M, Erdjument-Bromage H, Tempst P, Svejstrup JQ (2001) RNA polymerase II elongator holoenzyme is composed of two discrete subcomplexes. J Biol Chem 276:32743-32749 Wittschieben BO, Otero G, de Bizemont T, Fellows J, Erdjument-Bromage H, Ohba R, Li Y, Allis CD, Tempst P, Svejstrup JQ (1999) A novel histone acetyltransferase is an integral subunit of elongating RNA polymerase II holoenzyme. Mol Cell 4:123-128 Worsham PL, Bolen PL (1990) Killer toxin production in Pichia acaciae is associated with linear DNA plasmids. Curr Genet 18:77-80 Xu Y, Yang S, Turitsa I, Griffiths A (1999) Divergence of a linear and a circular plasmid in disjunct natural isolates of the fungus Neurospora. Plasmid 42:115-125 Yang X, Griffiths AJ (1993) Plasmid diversity in senescent and nonsenescent strains of

Neurospora. Mol Gen Genet 237:177-186 Yuewang W, Yang X, Griffiths AJ (1996) Structure of a Gelasinospora linear plasmid closely related to the kalilo plasmid of Neurospora intermedia. Curr Genet 29:150-158 Zink S, Mehlgarten C, Kitamoto HK, Nagase J, Jablonowski D, Dickson RC, Stark MJR, Schaffrath R (2005) Mannosyl-diinositolphosphoceramide, the major yeast plasma membrane sphingolipid, governs toxicity of Kluyveromyces lactis zymocin. Eukaryot Cell 4:879-889

Microbiol Monogr (7)

F. Meinhardt • R. Klassen: Microbial Linear Plasmids DOI 10.1007/7171_2007_096/Published online: 26 May 2007 © Springer-Verlag Berlin Heidelberg 2007

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