References

Aguilar A, Hopwood DA (1982) Determination of methylenomycin A synthesis by the pSV1 plasmid from Streptomyces violaceus-ruber SANK 95570. J Gen Microbiol 128:1893-1901

Arakawa K, Mochizuki S, Yamada K, Noma T, Kinashi H (2007) (gamma)-butyrolactone autoregulator-receptor system involved in lankacidin and lankamycin production and morphological differentiation in Streptomyces rochei. Micobiology 153:1817-1827

Bamas-Jacques N, Lorenzon S, Lacroix P, de Swetschin C, Crouzet J (1999) Cluster organization of the genes of Streptomyces pristinaespiralis involved in pristinamycin biosynthesis and resistance elucidated by pulsed-field gel electrophoresis. J Appl Mi-crobiol 87:939-948

Bao K, Cohen SN (2001) Terminal proteins essential for the replication of linear plasmids and chromosomes in Streptomyces. Genes Dev 15:1518-1527

Bentley SD, Chater KF, Cerdeno-Tarraga A-M, Challis GL, Thompson NR, James KD et al (2002) Complete genome sequence of the model actinomycete Streptomyces coeli-color A3(2). Nature 417:141-147 Bentley SD, Brown S, Murphy LD, Harris DE, Quail MA, Parkhill J, Barrel BG, McCor-mick JR, Santamaria RI, Losick R, Yamasaki M, Kinashi H, Chen CW, Chandra G, Jaki-mowiczD, KieserHM, Kieser T, Chater KF (2004) SCP1, a 356,023 bp linear plasmid adapted to the ecology and developmental biology of its host, Streptomyces coelicolor A3(2). Mol Microbiol 51:1615-1628 Bibb MJ, Freeman RF, Hopwood DA (1977) Physical and genetical characterisation of a second sex factor, SCP2, for Streptomyces coelicolor A3(2). Mol Gen Genet 154:155166

Bibb M, Schottel JL, Cohen SN (1980) A DNA cloning system for interspecies gene transfer in antibiotic-producing Streptomyces. Nature 284:526-531 Birnboim HC, Doly J (1979) A rapid alkaline extraction procedure for screening recombinant plasmid DNA. Nucleic Acids Res 7:1513-1523 Carle GF, Olson MV (1984) Separation of chromosomal DNA molecules from yeast by orthogonal-field-alternation gel electrophoresis. Nucleic Acids Res 12:5647-5664 Challis GL, Chater KF (2001) Incorporation of [U-13C]glycerol defines plausible early steps for the biosynthesis of methylenomycin A in Streptomyces coelicolor A3(2). Chem Commun, pp 935-936

Chardon-Lauriaux I, Charpentier M, Percheron F (1986) Isolation and characterization of a linear plasmid from Streptomyces rimosus. FEMS Microbiol Lett 35:153-155 Chater KF (1998) Taking a genetic scalpel to the Streptomyces colony. Microbiology 144:1465-1478

Chater KF (2006) Streptomyces inside out: a new perspective on the bacteria that provide us with antibiotics. Phil Trans R Soc Lond B Biol Sci 361:761-768 Chater KF, Bruton CJ (1983) Mutational cloning in Streptomyces and the isolation of antibiotic production genes. Gene 26:67-78 Chater KF, Bruton CJ (1985) Resistance, regulatory and production genes for the antibiotic methylenomycin are clustered. EMBO J 4:1893-1897 Chater KF, Chandra G (2006) The evolution of development in Streptomyces analysed by genome comparisons. FEMS Microbiol Rev 30:651-672 Chater KF, Horinouchi S (2003) Signalling early developmental events in two highly diverged Streptomyces species. Mol Microbiol 48:9-15 Chen CW (1996) Complications and implications of linear bacterial chromosomes. Trends Genet 12:192-196

Chen CW (2007) Streptomyces Linear Plasmids: Replication and Telomeres (in this volume)

Chen CW, Yu T-W, Lin Y-S, Kieser HM, Hopwood DA (1993) The conjugative plasmid

SLP2 of Streptomyces lividans is a 50-kb linear molecule. Mol Microbiol 7:925-932 Chen CW, Huang C-H, Lee H-H, Tsai H-H, Kirby R (2002) Once the circle has been broken: dynamics and evolution of Streptomyces chromosomes. Trends Genet 18:522529

Choulet F, Aigle B, Gallois F, Mangenot S, Gerbaut C, Truong C, Francou F-X, Fourrier C, Guerineau M, Decaris B, Barbe E, Pernodet J-L, Leblond P (2006) Evolution of the terminal regions of the Streptomyces linear chromosome. Mol Biol Evol 23:2361-2369 Clewell DB, Helinski DR (1969). Supercoiled circular DNA-protein complexes in Es-cherichia coli: purification and conversion to an open-circular DNA form. Proc Natl Acad Sci USA 62:1159-1166

Fernandez-Moreno MA, Martin-Triana AJ, Martinez E, Niemi J, Kieser H, Hopwood DA, Malpartida F (1992) abaA, a new pleiotropic regulatory locus for antibiotic production in Streptomyces coelicolor. J Bacteriol 174:2958-2967 Fetzner S (2007) Catabolic Linear Plasmids (in this volume)

Gehring AM, Nodwell JR, Beverley SM, Losick R (2000). Genome-wide insertional muta-genesis in Streptomyces reveals additional genes involved in morphological differentiation. Proc Natl Acad Sci USA 97:9642-9647 Gravius B, Glocker D, Pigac J, Pandza K, Hranueli D, Cullum J (1994) The 387-kb linear plasmid pPZ101 of Streptomyces rimosus and its interactions with the chromosome. Microbiology 140:2271-2277 Guijarro J, Santamaria R, Schauer A, Losick R (1988) Promoter determining the timing and spatial localization of a cloned Streptomyces coelicolor gene encoding a spore-associated polypeptide. J Bacteriol 170:1895-1901 Hanafusa T, Kinashi H (1992) The structure of an integrated copy of the giant linear plasmid SCP1 in the chromosome of Streptomyces coelicolor 2612. Mol Gen Genet 231:363-368

Haneishi T, Terahara A, Arai M, Hata T, Tamura C (1974) New antibiotics, methyleno-mycins A and B. 2. Structures of methylenomycins A and B. J Antibiot (Tokyo) 27:393-399

Hayes W (1964) The genetics of bacteria and their viruses. Blackwell, Oxford Hertwig S (2007) Linear Plasmids and Prophages in Gram Negative Bacteria (in this volume)

Hirochika H, Sakaguchi K (1982) Analysis of linear plasmids isolated from Streptomyces:

association of protein with the ends of the plasmid DNA. Plasmid 7:59-65 Hirochika H, Nakamura K, Sakaguchi K (1984) A linear plasmid from Streptomyces rochei with a terminal inverted repeat of 614 base pairs. EMBO J 3:761-766 Hodgson DA, Chater KF (1981) A chromosomal locus controlling extracellular agarase production by Streptomyces coelicolor A3(2), and its inactivation by chromosomal integration of plasmid SCP1. J Gen Microbiol 124:339-348 Holsters M (2007) Linear Plasmids and Phytopathogenicity (in this volume) Hopwood DA (1967) Genetic analysis and genome structure in Streptomyces coelicolor

A3(2). Bacteriol Rev 31:373-403 Hopwood DA (1999) Forty years of genetics with Streptomyces: from in vivo through in vitro to in silico. Microbiology 145:2183-2202 Hopwood DA (2006) Soil to genomics: the Streptomyces chromosome. Annu Rev Genet 40:1-23

Hopwood DA (2007) Streptomyces in nature and medicine: the antibiotic makers. Oxford

University Press, New York Hopwood DA, Merrick M (1977) Genetics of antibiotic production. Bacteriol Rev 41:595635

Hopwood DA, Wright HM (1973a) Transfer of a plasmid between Streptomyces species.

J Gen Microbiol 77:187-195 Hopwood DA, Wright HM (1973b) A plasmid of Streptomyces coelicolor carrying a chromosomal locus and its inter-specific transfer. J Gen Microbiol 79:331-342 Hopwood DA, Wright HM (1976a) Genetic studies on SCP1-prime strains of Streptomyces coelicolor A3(2). J Gen Microbiol 95:107-120 Hopwood DA, Wright HM (1976b) Interactions of the plasmid SCP1 with the chromosome of Streptomyces coelicolor A3(2). In: MacDonald KD (ed) Proceedings of the 2nd international symposium on the genetics of industrial micro-organisms. Academic Press, London, pp 607-619

Hopwood DA, Wright HM (1983) CDA is a new chromosomally determined antibiotic from Streptomyces coelicolor A3(2). J Gen Microbiol 129:3575-3579 Hopwood DA, Harold RJ, Vivian A, Ferguson HM (1969) A new kind of fertility variant in Streptomyces coelicolor. Genetics 62:461-477 Hopwood DA, Chater KF, Dowding JE, Vivian A (1973) Recent advances in Streptomyces coelicolor genetics. Bacteriol Rev 37:371-405 Hopwood DA, Bibb MJ, Ward JM, Westpheling J (1979) Plasmids in Streptomyces coelicolor and related species. In: Timmis KN, Puhler A (eds) Plasmids of medical, environmental and commercial importance. Elsevier, Amsterdam, pp 245258

Huang CH, Chen CY, Tsai HH, Chen C, Lin YS, Chen CW (2003) Linear plasmid SLP2 of

Streptomyces lividans is a composite replicon. Mol Microbiol 47:1563-1576 Ikeda H, Ishikawa J, Hanamoto A, Shinose M, Kikuchi H, Shiba T, Sakaki Y, Hattori M, Omura S (2004) Complete genome sequence and comparative analysis of the industrial microorganism Streptomyces avermitilis. Nat Biotechnol 21:526-531 Kalkus JR, Menne R, Reh M, Schlegel HG (1998) The terminal structures of linear plas-

mids from Rhodococcus opacus. Microbiology 144:1271-1279 Keen CL, Mendelovitz S, Cohen G, Aharonowitz Y, Roy KL (1988). Isolation and characterization of a linear DNA plasmid from Streptomyces clavuligerus. Mol Gen Genet 212:172-176

Kim HJ, Calcutt MJ, Schmidt FJ, Chater KF (2000) Partitioning of the linear chromosome during sporulation of Streptomyces coelicolor A3(2) involves an oriC-linked parAB locus. J Bacteriol 182:1313-1320 Kinashi H (1994) Linear plasmids from actinomycetes. Actinomycetologica 8:87-96 Kinashi H, Shimaji M (1987) Detection of giant linear plasmids in antibiotic producing strains of Streptomyces by the OFAGE technique. J Antibiot 40:913-916 Kinashi H, Shimaji-Murayama M (1991) Physical characterization of SCP1, a giant linear plasmid from Streptomyces coelicolor. J Bacteriol 173:1523-1529 Kinashi H, Shimaji M, Sakai A (1987) Giant linear plasmids in Streptomyces which code for antibiotic biosynthesis genes. Nature 328:454-456 Kinashi H, Otten SL, Duncan JS, Hutchinson CR (1988) Frequent loss and restoration of antibiotic production by Streptomyces lasaliensis. J Antibiot 41:624-637 Kinashi H, Murayama M, Hanafusa T (1992) Integration of SCP1, a giant linear plasmid, into the Streptomyces chromosome. Gene 115:35-41 Kinashi H, Murayama M, Matsushita H, Nimi O (1993) Structural analysis of the giant linear plasmid SCP1 in various Streptomyces coelicolor strains. J Gen Microbiol 139:1261-1269

Kinashi H, Mori E, Hatani A, Nimi O (1994) Isolation and characterization of linear plasmids from lankacidin-producing Streptomyces species. J Antibiot (Tokyo) 47:14471455

Kinashi H, Fujii S, Hatani A, Kurokawa T, Shinkawa H (1998) Physical mapping of the linear plasmid pSLA2-L and localization of the eryAI and actI homologs. Biosci Biotechnol Biochem 62:1892-1897 Kirby R, Hopwood DA (1977) Genetic determination of methylenomycin synthesis by the

SCP1 plasmid of Streptomyces coelicolor A3(2). J Gen Microbiol 98:239-252 Kirby R, Wright LF, Hopwood DA (1975) Plasmid-determined antibiotic synthesis and resistance in Streptomyces coelicolor. Nature 254:265-267 Lawlor EJ, Baylis H, Chater KF (1987) Pleiotropic morphological and antibiotic deficiencies result from mutations in a gene encoding a tRNA-like product in Streptomyces coelicolor A3(2). Genes Dev 1:1305-1310

Leskiw BK, Lawlor EJ, Fernandez-Abalos JM, Chater KF (1991) TTA codons in some genes prevent their expression in a class of developmental, antibiotic-negative, Streptomyces mutants. Proc Natl Acad Sci USA 88:2461-2465 Li W, Wu J, Tao W, Zhao C, Wang Y, He X, Chandra G, Zhou X, Deng Z, Chater KF, Tao M (2007) A genetic and bioinformatic analysis of Streptomyces coelicolor genes containing TTA codons, possible targets for regulation by a developmentally significant tRNA. FEMS Microbiol Lett 266:20-28 Lin YS, Kieser HM, Hopwood DA, Chen CW (1993) The chromosomal DNA of Strepto-

myces lividans 66 is linear. Mol Microbiol 10:923-933 Mochizuki S, Hiratsu K, Suwa M, Ishii T, Sugino F, Yamada K, Kinashi H (2003) The large linear plasmid pSLA2-L of Streptomyces rochei has an unusually condensed gene organization for secondary metabolism. Mol Microbiol 48:1501-1510 Molle V, Palframan WJ, Findlay KC, Buttner MJ (2000) WhiD and WhiB, homologous proteins required for different stages of sporulation in Streptomyces coelicolor A3(2). J Bacteriol 182:1286-1295 Okanishi M, Ita T, Umezawa H (1970) Possible control of formation of aerial mycelium and antibiotic production in Streptomyces by episomic factors. J Antibiot (Tokyo) 23:45-47 Okanishi M, Manome T, Umezawa H (1980) Isolation and characterization of plasmid

DNAs in actinomycetes. J Antibiot 33:88-91 O'Rourke S (2003) PhD Thesis, University of East Anglia, Norwich, UK Pandza S, Biukovic G, Paravic A, Dadbin A, Cullum J, Hranueli D (1998) Recombination between the linear plasmid pPZG101 and the linear chromosome of Streptomyces rimosus can lead to exchange of ends. Mol Microbiol 28:1165-1176 Perez-Llarena FJ, Liras P, Rodriguez-Garcia A, Martin JF (1997) A regulatory gene (ccaR) required for cephamycin and clavulanic acid production in Streptomyces clavuligerus: amplification results in overproduction of both beta-lactam compounds. J Bacteriol 179:2053-2059

Rathos MJ, Verma NC, Notani NK (1989) Separation by pulsed-field gradient gel elec-trophoresis of giant linear plasmids from antibiotic-producing strains of Streptomyces and Nocardia. Curr Sci 58:1235-1239 Redenbach M, Ikeda K, Yamasaki M, Kinashi H (1998) Cloning and physical mapping of the £co RI fragments of the giant linear plasmid SCP1. J Bacteriol 180:2796-2799 Redenbach M, Bibb M, Gust B, Seitz B, Spychaj A (1999) The linear plasmid SCP1 of Streptomyces coelicolor A3(2) possesses a centrally located replication origin and shows significant homology to the transposon Tn4811. Plasmid 42:174-185 Reynolds KA (1998) Combinatorial biosynthesis: lesson learned from nature. Proc Natl

Acad Sci USA 95:12744-12746 Rudd BAM, Hopwood DA (1979) Genetics of actinorhodin biosynthesis by Streptomyces coelicolor A3(2). J Gen Microbiol 114:35-43 Rudd BAM, Hopwood DA (1980) A pigmented mycelial antibiotic in Streptomyces coelicolor: control by a chromosomal gene cluster. J Gen Microbiol 119:333-340 Sakaguchi K (1990) Invertrons, a class of structurally and functionally related genetic elements that includes linear DNA plasmids, transposable elements, and genomes of adeno-type viruses. Microbiol Rev 54:66-74 Schrempf H, Bujard H, Hopwood DA, Goebel W (1975) Isolation of covalently closed circular deoxyribonucleic acid from Streptomyces coelicolor A3(2). J Bacteriol 121:416421

Schwarz DC, Cantor CR (1984) Separation of yeast chromosome-sized DNAs by pulsed field gradient gel electrophoresis. Cell 37:67-75

Sermonti G, Casciano S (1963) Sexual polarity in Streptomyces coelicolor. J Gen Microbiol 33:293-301

Snyder L, Champness W (2002) Molecular genetics of bacteria, 2nd edn. ASM, Washington DC

Sherratt DJ, Soballe B, Barre FX, Filipe S, Lau I, Massey T, Yates J (2004) Recombination and chromosome segregation. Philos Trans R Soc Lond B Biol Sci 359:61-69 Soliveri JA, Gomez J, Bishai WR, Chater KF (2000) Multiple paralogous genes related to the Streptomyces coelicolor developmental regulatory gene whiB are present in Strep-tomyces and other actinomycetes. Microbiology 146:333-343 Spatz K, Kohn H, Redenbach M (2002) Characterization of the Streptomyces violaceoruber

SANK 95570 plasmids pSV1 and pSV2. FEMS Microbiol Lett 213:87-92 Steyn AJ, Collins DM, Hondalus MK, Jacobs WR Jr, Kawakami RP, Bloom BR (2002) Mycobacterium tuberculosis WhiB3 interacts with RpoV to affect host survival but is dispensable for in vivo growth. Proc Natl Acad Sci USA 99:3147-3152 Suwa M, Sugino H, Sasaoka A, Mori E, Fujii S, Shinkawa H, Nimi O, Kinashi H (2000) Identification of two polyketide synthase gene clusters on the linear plasmid pSLA2-L in Streptomyces rochei. Gene 246:123-131 Takano E (2006) Gamma-butyrolactones: small signalling molecules that regulate antibiotic production and differentiation. Curr Opin Microbiol 9:287-294 Vivian A (1971) Genetic control of fertility in Streptomyces coelicolor A3(2): plasmid involvement in the interconversion of UF and IF strains. J Gen Microbiol 69:353364

Vivian A, Hopwood DA (1970) Genetic control of fertility in Streptomyces coelicolor A3(2):

the IF fertility type. J Gen Microbiol 64:101-117 Vivian A, Hopwood DA (1973) Genetic control of fertility in Streptomyces coelicolor A3(2):

new kinds of donor strains. J Gen Microbiol 76:147-162 Volff JN, Altenbuchner J (2000) A new beginning with new ends: linearisation of circular chromosomes during bacterial evolution. FEMS Microbiol Lett 186:143-150 Ward JM, Hodgson JE (1993) The biosynthetic genes for clavulanic acid and cephamycin production occur as a "super-cluster" in three Streptomyces. FEMS Microbiol Lett 110:239-242

Weaver D, Karoonuthaisiri N, Tsai HH, Huang CH, Ho ML, Gai S, Patel KG, Huang J, Cohen SN, Hopwood DA, Chen CW, Kao CM (2004) Genome plasticity in Streptomyces: identification of 1 Mb TIRs in the S. coelicolor A3(2) chromosome. Mol Microbiol 51:1535-1550

Wildermuth H (1970) Development and organization of the aerial mycelium in Strepto-

myces coelicolor. J Gen Microbiol 60:43-50 Wright LF, Hopwood DA (1976a) Identification of the antibiotic determined by the SCP1

plasmid of Streptomyces coelicolor A3(2). J Gen Microbiol 95:96-106 Wright LF, Hopwood DA (1976b) Actinorhodin is a chromosomally-determined antibiotic in Streptomyces coelicolor A3(2). J Gen Microbiol 96:289-297 Wu X, Roy K (1993) Complete nucleotide sequence of a linear plasmid from Streptomyces clavuligerus and characterisation of its RNA transcripts. J Bacteriol 175:37-52 Yamasaki M, Kinashi H (2004) Two chimeric chromosomes of Streptomyces coelicolor A3(2) generated by single crossover of the wild-type chromosome and linear plasmid SCP1. J Bacteriol 186:6553-6559 Yamasaki M, Miyashita K, Cullum J, Kinashi H (2000) A complex insertion sequence cluster at a point of interaction between the linear plasmid SCP1 and the linear chromosome of Streptomyces coelicolor A3(2). J Bacteriol 182:3104-3110

Yamasaki M, Redenbach M, Kinashi H (2001) Integrated structures of the linear plas-mid SCP1 in two bidirectional donor strains of Streptomyces coelicolor A3(2). Mol Gen Genet 264:634-642

Yamasaki M, Ikuto Y, Ohira A, Chater K, Kinashi H (2003) Limited regions of homology between linear and circular plasmids encoding methylenomycin biosynthesis in two independently isolated streptomycetes. Microbiology 149:1351-1356 Yang MC, Losick R (2001) Cytological evidence for association of the ends of the linear chromosome in Streptomyces coelicolor. J Bacteriol 183:5180-5186

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F. Meinhardt • R. Klassen: Microbial Linear Plasmids DOI 10.1007/7171_2007_090/Published online: 23 June 2007 © Springer-Verlag Berlin Heidelberg 2007

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