Primer Detail
- Primer name
- LR0R
nu-LSU-0042-5'
LR0r - Gene name
- 28S rRNA gene (LSU)
- Primer sequence (5'-3')
- ACCCGCTGAACTTAAGC
- Direction
- F
- Paired primer
- LB-Y LB-Z LR3-Asc LR5-F
- Reference
- Rehner SA, Samuels GJ (1994) Taxonomy and phylogeny of Gliocladium analysed from nuclear large subunit ribosomal DNA sequences. Mycological Research 98: 625-634.
- Literature
- Loretta M. Winton, Jeffrey K. Stone, Everett M. Hansen, R.A. Shoemaker (2007) The systematic position of Phaeocryptopus gaeumannii. Mycologia 99(2): 240-252.
- P.W. Crous, C.L. Schoch, K.D. Hyde, A.R. Wood, C. Gueidan, G.S. de Hoog and J.Z. Groenewald (2009) Phylogenetic lineages in the Capnodiales. Studies in Mycology 64: 17-47.
- K. Tanaka, K. Hirayama, H. Yonezawa, S. Hatakeyama, Y. Harada, T. Sano, T. Shirouzu and T. Hosoya (2009) Molecular taxonomy of bambusicolous fungi: Tetraplosphaeriaceae, a new pleosporalean family with Tetraploa-like. Studies in Mycology 64: 175-209.
- C.L. Schoch, P.W. Crous, J.Z. Groenewald, E.W.A. Boehm, T.I. Burgess, J. de Gruyter, G.S. de Hoog, L.J. Dixon, M. Grube, C. Gueidan, Y. Harada, S. Hatakeyama, K. Hirayama, T. Hosoya, S.M. Huhndorf, K.D. Hyde, E.B.G. Jones, J. Kohlmeyer, Å. Kruys, Y.M. Li, R. Lücking, H.T. Lumbsch, L. Marvanová , J.S. Mbatchou, A.H. McVay, A.N. Miller, G.K. Mugambi, L. Muggia, M.P. Nelsen, P. Nelson, C A. Owensby, A.J.L. Phillips, S. Phongpaichit, S.B. Pointing, V. Pujade-Renaud, H.A. Raja, E. Rivas Plata, B. Robbertse, C. Ruibal, J. Sakayaroj, T. Sano, L. Selbmann, C.A. Shearer, T. Shirouzu, B. Slippers, S. Suetrong, K. Tanaka, B. Volkmann-Kohlmeyer, M.J. Wingfield, A.R. Wood, J.H.C.Woudenberg, H. Yonezawa, Y. Zhang, J.W. Spatafora (2009) A class-wide phylogenetic assessment of Dothideomycetes. Studies in Mycology 64: 1-15.
- Jean-Marc Moncalvo, François M. Lutzoni, Stephen A Rehner, Jacoui Johnson and Rytas Vilgalys (2000) Phylogenetic relationships of agaric fungi based on nuclear large subunit ribosomal DNA sequences. Ststematic Biology 49(2): 278-305.
- C. Ruibal, C. Gueidan, L. Selbmann, A.A. Gorbushina, P.W. Crous, J.Z. Groenewald, L. Muggia, M. Grube, D. Isola, C.L. Schoch, J.T. Staley, F. Lutzoni and G.S. de Hoog (2009) Phylogeny of rock-inhabiting fungi related to Dothideomycetes. Studies in Mycology 64: 123-133.
- Frank Kauff and François Lutzoni (2002) Phylogeny of the Gyalectales and Ostropales (Ascomycota, Fungi): among and within order relationships based on nuclear ribosomal RNA small and large subunits. Molecular Phylogenetics and Evolution 25: 138-156.
- C.A. Shearer, H.A. Raja, A.N. Miller, P. Nelson, K. Tanaka, K. Hirayama, L. Marvanová, K.D. Hyde and Y. Zhang (2009) The molecular phylogeny of freshwater Dothideomycetes. Studies in Mycology 64: 145-153.
- Hofstetter V, Miadlikowska J, Kauff F, Lutzoni F (2007) Phylogenetic comparison of protein-coding versus ribosomal RNA-coding sequence data: a case study of the Lecanoromycetes (Ascomycota). Molecular Phylogenetics and Evolution 44: 412-426.
- Ralf Lindemuth, Nora Wirtz and H. Thorsten Lumbsch (2001) Phylogenetic analysis of nuclear and mitochondrial rDNA sequences supports the view that loculoascomycetes (Ascomycota) are not monophyletic. Mycological Research 105(10): 1176-1181.
- K.A. Seifert, S.J. Hughes, H. Boulay and G. Louis-Seize (2007) Taxonomy, nomenclature and phylogeny of three cladosporium-like hyphomycetes, Sorocybe resinae, Seifertia azaleae and the Hormoconis anamorph of Amorphotheca resinae. Studies in Mycology 58: 235-245.
- H. Thorsten Lumbsch,Imke Schmitt, Ralf Lindemuth, Andrew Miller, Armin Mangold, Fernando Fernandez and Sabine Huhndorf (2005) Performance of four ribosomal DNA regions to infer higher-level phylogenetic relationships of inoperculate euascomycetes (Leotiomyceta). Molecular Phylogenetics and Evolution 34: 512-524.
- Timothy Y James, Frank Kauff, Conrad L Schoch, P Brandon Matheny, Valérie Hofstetter, Cymon J Cox, Gail Celio, Cécile Gueidan, Emily Fraker, Jolanta Miadlikowska, H Thorsten Lumbsch, Alexandra Rauhut, Valérie Reeb, A Elizabeth Arnold, Anja Amtoft, Jason E Stajich, Kentaro Hosaka, Gi-Ho Sung, Desiree Johnson, Ben O'Rourke, Michael Crockett, Manfred Binder, Judd M Curtis, Jason C Slot, Zheng Wang, Andrew W Wilson, Arthur Schüßler, Joyce E Longcore, Kerry O'Donnell, Sharon Mozley-Standridge, David Porter, Peter M Letcher, Martha J Powell, John W Taylor, Merlin M White, Gareth W Griffith, David R Davies, Richard A Humber, Joseph B Morton, Junta Sugiyama, Amy Y Rossman, Jack D Rogers, Don H Pfister, David Hewitt, Karen Hansen, Sarah Hambleton, Robert A Shoemaker, Jan Kohlmeyer, Brigitte Volkmann-Kohlmeyer, Robert A Spotts, Maryna Serdani, Pedro W Crous, Karen W Hughes, Kenji Matsuura, Ewald Langer, Gitta Langer, Wendy A Untereiner, Robert Lücking, Burkhard Büdel, David M Geiser, André Aptroot, Paul Diederich, Imke Schmitt, Matthias Schultz, Rebecca Yahr, David S Hibbett, François Lutzoni, David J McLaughlin, Joseph W Spatafora and Rytas Vilgalys (2006) Reconstructing the early evolution of Fungi using a six-gene phylogeny. Nature 443(19): 818-822.
- Hong-Kai Wang, Andre Aptroot, Pedro W Crous, Kevin D Hyde and Rajesh Jeewon (2007) The polyphyletic nature of Pleosporales: an example from Massariosphaeria based on rDNA and RBP2 gene phylogenies. Mycological Research 111: 1268-1276.
- Constantino Ruibal, Ana M. Millanes and David L Hawksworth (2011) Molecular phylogenetic studies on the lichenicolous Xanthoriicola physciae reveal Antarctic rock-inhabiting fungi and Piedraia species among closest relatives in the Teratosphaeriaceae. IMA Fungus 2(1): 97-103.
- PW Crous, U Braun and JZ Groenewald (2007) Mycosphaerella is polyphyletic. Studies in Mycology 58: 1-32.
- Ruth Del Prado, Imke Schimiitt, Stefanie Kautz, Zdenek Palice, Robert Lucking and H. Thorsten Lumbsch (2006) Molecular data place Trypetheliaceae in Dothideomycetes. Mycological Research 110: 511-520.
- http://www.lutzonilab.net/primers/page244.shtml
- Jolanta Miadlikowska and François Lutzoni (2000) Phylogenetic revision of the genus Peltigera (lichen-forming Ascomycota) based on morphological, chemical, and large subunit nuclear ribosomal DNA data. International Journal of Plant Sciences 161: 925-958.
- Huzefa A. Raja, Conrad L. Schoch, Vincent P. Hustad, Carol A. Shearer and Andrew N. Miller (2011) Testing the phylogenetic utility of MCM7 in the Ascomycota. MycoKeys 1: 63-94.
- Andrew M. Minnis and Daniel L. Lindner (2013) Phylogenetic evaluation of Geomyces and allies reveals no close relatives of seudogymnoascus destructans, comb. nov., in bat hibernacula of eastern North America. Fungal Biology 117: 638-649.
- Valérie Reeb, François Lutzoni and Claude Roux (2004) Contribution of RPB2 to multilocus phylogenetic studies of the euascomycetes (Pezizomycotina, Fungi) with special emphasis on the lichen-forming Acarosporaceae and evolution of polyspory. Molecular Phylogenetics and Evolution 32: 1036-1060.
- EWA Boehm, GK Mugambi, AN Miller, SM Huhndorf, S Marincowitz, JW Spatafora and CL Schoch (2009) A molecular phylogenetic reappraisal of the Hysteriaceae, Mytilinidiaceae and Gloniaceae (Pleosporomycetidae, Dothideomycetes) with keys to world species. Studies in Mycology 64: 49-83.
- Abarca GH, Ruiz RF, Mota RM, Hérnandez CI, Gómez S, Bogale M and Untereiner WA (2011) A new species of Heliocephala from Me´xico with an assessment of the systematic positions of the anamorph genera Heliocephala and Holubovaniella. Mycologia 103(3): 631-640.
- Wendy A. Untereiner, Cécile Gueidan, Mary-Jane Orr and Paul Diederich (2011) The phylogenetic position of the lichenicolous ascomycete Capronia peltigerae. Fungal Diversity 49: 225-233.
- K Bensch, U Braun, JZ Groenewald and PW Crous (2012) The genus Cladosporium. Studies in Mycology 72: 1-401.
- Conrad L. Schocha, Keith A. Seifertb, Sabine Huhndorfc, Vincent Robertd, John L. Spougea, C. André Levesqueb, Wen Chenb and Fungal Barcoding Consortium (2012) Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi. Proceedings of the National Academy of Sciences
- Pedro W. Crous, Bernard Slippers, Michael J. Wingfield, John Rheeder, Walter FO Marasas, Alan JL Philips, Artur Alves, Treena Burgess, Paul Barber and Johannes Z Groenewald (2006) Phylogenetic lineages in the Botryosphaeriaceae. Studies in Mycology 55: 235-253.
- AM Minnis, AH Kennedy, DB Grenier, ME Palm and AY Rossman (2012) Phylogeny and taxonomic revision of the Planistromellaceae including its coelomycetous anamorphs: contributions towards a monograph of the genus Kellermania. Persoonia 29: 11-28.
- Matheny PB, Liu YJ, Ammirati JF and Hall BD (2002) Using RPB1 sequences to improve phylogenetic inference among mushrooms (Inocybe, Agaricales). American Journal of Botany 89(4): 688-698.
- M Réblová, W Gams and KA Seifert (2011) Monilochaetes and allied genera of the Glomerellales, and a reconsideration of families in the Microascales. Studies in Mycology 68: 163-191.
- P. Brandon Matheny (2005) Improving phylogenetic inference of mushrooms with RPB1 and RPB2 nucleotide sequences (Inocybe; Agaricales). Molecular Phylogenetics and Evolution 35: 1-20.
- L Lombard, PW Crous, BD Wingfield and MJ Wingfield (2010) Phylogeny and systematics of the genus Calonectria. Studies in Mycology 66: 31-69.
- M Arzanlou, JZ Groenewald, W Gams, U Braun, H-D Shin and PW Crous (2007) Phylogenetic and morphotaxonomic revision of Ramichloridium and allied genera. Studies in Mycology 58: 57-93.
- Simon UK, Groenewald JZ and Crous PW (2009) Cymadothea trifolii, an obligate biotrophic leaf parasite of Trifolium, belongs to Mycosphaerellaceae as shown by nuclear ribosomal DNA analyses. Persoonia 22: 49-55.
- Xu Z, Harrington TC, Gleason ML and Batzer JC (2010) Phylogenetic placement of plant pathogenic Sclerotium species among teleomorph genera. Mycologia 102: 337-346.
- Matheny PB, Wang Z, Binder M, Curtis JM, Lim YW, Nilsson RH, Hughes KW, Hofstetter V, Ammirati JF, Schoch CL, Langer E, Langer G, McLaughlin DJ, Wilson AW, Frøslev T, Ge ZW, Kerrigan RW, Slot JC, Yang ZL, Baroni TJ, Fischer M, Hosaka K, Matsuura K, Seidl MT, Vauras J and Hibbett DS (2007) Contributions of rpb2 and tef1 to the phylogeny of mushrooms and allies (Basidiomycota, Fungi). Molecular Phylogenetics and Evolution 43: 430-451.
- Daniel A Henk and Rytas Vilgalys (2007) Molecular phylogeny suggests a single origin of insect symbiosis in the Pucciniomycetes with support for some relationships within the genus Septobasidium. American Journal of Botany 94: 1515-1526.
- Riethmüller A, Voglmayr H, Göker M, Weiß M and Oberwinkler F (2002) Phylogenetic relationships of the downy mildews (Peronosporales) and related groups based on nuclear large subunit ribosomal DNA sequences. Mycologia 94: 834-849.
- Woudenberg JH, Aveskamp MM, de Gruyter J, Spiers AG and Crous PW (2009) Multiple Didymella teleomorphs are linked to the Phoma clematidina morphotype. Persoonia 22: 56-62.
- Leho Tederso, Teele Jairus, Bryony M Horton, Kessy Abarenkov, Triin Suvi, Irja Saar and Urmas Kõljalg (2008) Strong host preference of ectomycorrhizal fungi in a Tasmanian wet sclerophyll forest as revealed by DNA barcoding and taxon-specific primers. New Phytologist 180: 479-490.
- K Tanaka, K Hirayama, H Yonezawa, G Sato, A Toriyabe, H Kudo, A Hashimoto, M Matsumura, Y Harada, Y Kurihara, T Shirouzu and T Hosoya (2015) Revision of the Massarineae (Pleosporales, Dothideomycetes). Studies in Mycology 82: 75-136.
- Reference Strain
Aquastroma magniostiolata JCM 19429, MAFF 243824 Aquilomyces rebunensis JCM 19427, MAFF 243862 Astrosphaeriella aggregata MAFF 239485, MAFF 239486 Astrosphaeriella stellata MAFF 239487 Bactrodesmium cubense JCM 14126 Clypeoloculus akitaensis JCM 19424, MAFF 239467 Clypeoloculus hirosakiensis JCM 19425, MAFF 243864 Clypeoloculus microsporus JCM 19426, MAFF 243863 Clypeoloculus towadaensis JCM 19428, MAFF 243865 Dictyosporium aff. bulbosum JCM 19403, MAFF 243829 Dictyosporium aff. Heptasporum JCM 19406, MAFF 243828 Dictyosporium bulbosum MAFF 243835 Dictyosporium digitatum JCM 19404, JCM 19405, MAFF 243830, MAFF 243833, MAFF 243837 Dictyosporium hughesii JCM 19407, MAFF 243832 Dictyosporium pseudomusae JCM 19408, JCM 19409, MAFF 243831, MAFF 243836 Dictyosporium tetrasporum JCM 19410, MAFF 243834 Fuscostagonospora sasae JCM 13104, MAFF 239614 Gregarithecium curvisporum JCM 19411, MAFF 243838 Helicascus aquaticus JCM 19423, MAFF 243866 Helicascus elaterascus MAFF 243867 Helicascus thalassioideus JCM 14147, JCM 17526, NBRC 107811 Helminthosporium dalbergiae MAFF 243853 Helminthosporium magnisporum MAFF 239278 Helminthosporium massarinum JCM 13094, JCM 13095, MAFF 239604, MAFF 239605 Helminthosporium sp. MAFF 243856, MAFF 243857, MAFF 243858 Helminthosporium velutinum MAFF 243854, MAFF 243855, MAFF 243859 Kalmusia scabrispora JCM 12851, MAFF 239517, NBRC 106237 Katumotoa bambusicola JCM 13131, MAFF 239641 Keissleriella breviasca JCM 19413, JCM 19414, JCM 19415, MAFF 239476, MAFF 243843, MAFF 243844 Keissleriella culmifida JCM 19416, JCM 19417, MAFF 243848, MAFF 243849 Keissleriella gloeospora MAFF 239474 Keissleriella quadriseptata JCM 19418, MAFF 243850 Keissleriella sp. JCM 19420, MAFF 243845 Keissleriella taminensis MAFF 239475, MAFF 243846, MAFF 243847 Keissleriella yonaguniensis JCM 19419, MAFF 243851 Lentithecium clioninum JCM 12703, MAFF 239293, MAFF 243839 Lentithecium pseudoclioninum JCM 19421, JCM 19422, MAFF 243840, MAFF 243841 Lindgomyces breviappendiculatus JCM 12701, JCM 12702, MAFF 239291, MAFF 239292 Lindgomyces ingoldianus JCM 16479 Lindgomyces sp. JCM 16480, JCM 16481, JCM 16482, JCM 16483, JCM 16484, MAFF 239473 Lophiostoma macrostomum JCM 13545, JCM 13546, MAFF 239447 Magnicamarosporium iriomotense JCM 19402, MAFF 243827 Massarina arundinariae MAFF 239461, NBRC 106238, NBRC 106239 Massarina cisti JCM 14140 Massarina eburnea JCM 14422, JCM 14442 Massariosphaeria typhicola MAFF 239218, MAFF 239219 Monodictys sp. MAFF 243825, MAFF 243826 Monodictys velatispora JCM 17529, JCM 17530, NBRC 107812, NBRC 107814 Myrmecridium schulzeri JCM 6967, JCM 6974, JCM 7234 Neokalmusia brevispora JCM 13543 Ophiosphaerella sasicola JCM 13134, MAFF 239644 Parabambusicola bambusina MAFF 239462, MAFF 243822, MAFF 243823 Paraphaeosphaeria michotii MAFF 243861 Periconia byssoides MAFF 243869, MAFF 243872, MAFF 243873 Periconia homothallica JCM 13100, MAFF 239610 Periconia igniaria JCM 14142 Periconia pseudobyssoides MAFF 243868, MAFF 243874 Periconia pseudodigitata MAFF 239674, MAFF 239675, MAFF 239676 Periconia sp. MAFF 243870, MAFF 243871 Phaeosphaeria brevispora MAFF 239276, NBRC 106240 Phaeosphaeria sp. NBRC 106255 Polyplosphaeria fusca JCM 13173, JCM 13175, JCM 13176, JCM 13177, MAFF 239683, MAFF 239685, MAFF 239686, MAFF 239687 Pseudocoleophoma calamagrostidis JCM 19412, MAFF 239468 Pseudotetraploa curviappendiculata JCM 12852, MAFF 239495, MAFF 239496, NBRC 106241 Pseudotetraploa javanica JCM 12854, MAFF 239498 Pseudotetraploa longissima JCM 12853, MAFF 239497 Pseudoxylomyces elegans MAFF 243852 Quadricrura meridionalis NBRC 106242 Quadricrura septentrionalis NBRC 106243, NBRC 106244 Ramichloridium apiculatum JCM 6966, JCM 6972 Rhinocladiella basitona IFM 47593 Roussoella hysterioides JCM 13126, MAFF 239636 Roussoella pustulans JCM 13127, MAFF 239637 Roussoella sp. NBRC 106245 Roussoellopsis sp. NBRC 106246 Roussoellopsis tosaensis JCM 13128, MAFF 239638 Setoseptoria arundinacea MAFF 239460, MAFF 243842 Setoseptoria magniarundinacea JCM 13540, MAFF 239294 Spegazzinia deightonii MAFF 243876, MAFF 243877 Spegazzinia sp. MAFF 243878 Spegazzinia tessarthra MAFF 243875 Stagonospora berchemiae JCM 13101, MAFF 239611 Stagonospora perfecta JCM 13099, MAFF 239609 Stagonospora pseudoperfecta JCM 13097, MAFF 239607 Stagonospora sp. JCM 13098, MAFF 239608 Stagonospora tainanensis MAFF 243860 Tetraploa sp. JCM 14424, NBRC 106251 Tetraplosphaeria nagasakiensis JCM 13168, MAFF 239678 Tetraplosphaeria sasicola JCM 13167, MAFF 239677 Tingoldiago graminicola JCM 16485, JCM 16486, MAFF 239472, NBRC 106131, NBRC 106132 Trematosphaeria pertusa JCM 19430, MAFF 243879 Triplosphaeria cylindrica JCM 13169, JCM 14425, MAFF 239679, NBRC 106247 Triplosphaeria maxima JCM 13172, MAFF 239682 Triplosphaeria sp. NBRC 106248, NBRC 106249 Trisplophaeria acuta JCM 13171, MAFF 239681 Versicolorisporium triseptatum JCM 14775