Establishment and interpretation of the genome sequence of the phytopathogenic fungus Rhizoctonia solani AG1-IB isolate 7/3/14

Wibberg D, Jelonek L, Rupp O, Kröber M, Eikmeyer FG, Goesmann A, Hartmann A, Borriss R, Grosch R, Pühler A, Schlüter A (2013)
Journal of Biotechnology 167(2): 142-155.

Zeitschriftenaufsatz | Veröffentlicht | Englisch
 
Download
Es wurden keine Dateien hochgeladen. Nur Publikationsnachweis!
DOI
Autor*in
Wibberg, DanielUniBi; Jelonek, LukasUniBi; Rupp, OliverUniBi; Kröber, MagdalenaUniBi; Eikmeyer, Felix GregorUniBi ; Goesmann, AlexanderUniBi ; Hartmann, Anton; Borriss, Rainer; Grosch, Rita; Pühler, AlfredUniBi ; Schlüter, AndreasUniBi
Einrichtung
Technische Fakultät > Computational Genomics
Centrum für Biotechnologie > Arbeitsgruppe A. Goesmann
Centrum für Biotechnologie > Graduate Center > Graduate Cluster Industrial Biotechnology
Centrum für Biotechnologie > Arbeitsgruppe A. Pühler
Abstract / Bemerkung
Anastomosis group AG1-IB isolates of the anamorphic basidiomycetous fungus Rhizoctonia solani Kühn affect various agricultural and horticultural important crops including bean, rice, soybean, figs, hortensia, cabbage and lettuce. To gain insights into the genome structure and content, the first draft genome sequence of R. solani AG1-IB isolate 7/3/14 was established. Four complete runs on the Genome Sequencer (GS) FLX platform (Roche Applied Science) yielding approx. a 25-fold coverage of the R. solani genome were accomplished. Assembly of the sequence reads by means of the gsAssembler software version 2.6 applying the heterozygotic mode resulted in numerous contigs and scaffolds and a predicted size of 87.1Mb for the diploid status of the genome. 'Contig-length vs. read-count' analysis revealed that the assembled contigs can be classified into five different groups. Detailed BLAST-analysis revealed that most contigs of group II feature high-scoring matches to other contigs of the same group suggesting that distinguishable allelic variants exist for many genes. Due to the supposed diploid and heterokaryotic nature of R. solani AG1-IB 7/3/14, this result has been anticipated. However, the heterokaryotic character of the isolate is not really supported by sequencing data obtained for the isolate R. solani AG1-IB 7/3/14. Coverage of group III contigs is twice as high as for group II contigs which can also be explained by the diploid status of the genome and indistinguishable alleles on homologous chromosomes. Assembly of sequence data led to the identification of the rRNA unit (group V contigs) and the mitochondrial (mt) genome (group IV contigs) which is a circular molecule of 162,751bp in size featuring a GC-content of 36.4%. The R. solani 7/3/14 mt-genome is one of the largest fungal mitochondrial genomes known to date. Its large size essentially is due to the presence of numerous non-conserved hypothetical ORFs and introns. Gene prediction for the R. solani AG1-IB 7/3/14 genome was conducted by the Augustus Gene Prediction Software for Eukaryotes (version 2.6.) applying the parameter set for the fungus Coprinopsis cinerea okayama 7#130. Gene prediction and annotation provided first insights into the R. solani AG1-IB 7/3/14 gene structure and content. In total, 12,422 genes were predicted. The average number of exons per gene is five. Exons have a mean length of 214bp, whereas introns on average are 66bp in length. Annotation of the genome revealed that 4169 of 12,422 genes could be assigned to KOG functional categories.
Erscheinungsjahr
2013
Zeitschriftentitel
Journal of Biotechnology
Band
167
Ausgabe
2
Seite(n)
142-155
ISSN
0168-1656
Page URI
https://pub.uni-bielefeld.de/record/2549908

Zitieren

Wibberg D, Jelonek L, Rupp O, et al. Establishment and interpretation of the genome sequence of the phytopathogenic fungus Rhizoctonia solani AG1-IB isolate 7/3/14. Journal of Biotechnology. 2013;167(2):142-155.
Wibberg, D., Jelonek, L., Rupp, O., Kröber, M., Eikmeyer, F. G., Goesmann, A., Hartmann, A., et al. (2013). Establishment and interpretation of the genome sequence of the phytopathogenic fungus Rhizoctonia solani AG1-IB isolate 7/3/14. Journal of Biotechnology, 167(2), 142-155. doi:10.1016/j.jbiotec.2012.12.010
Wibberg, Daniel, Jelonek, Lukas, Rupp, Oliver, Kröber, Magdalena, Eikmeyer, Felix Gregor, Goesmann, Alexander, Hartmann, Anton, et al. 2013. “Establishment and interpretation of the genome sequence of the phytopathogenic fungus Rhizoctonia solani AG1-IB isolate 7/3/14”. Journal of Biotechnology 167 (2): 142-155.
Wibberg, D., Jelonek, L., Rupp, O., Kröber, M., Eikmeyer, F. G., Goesmann, A., Hartmann, A., Borriss, R., Grosch, R., Pühler, A., et al. (2013). Establishment and interpretation of the genome sequence of the phytopathogenic fungus Rhizoctonia solani AG1-IB isolate 7/3/14. Journal of Biotechnology 167, 142-155.
Wibberg, D., et al., 2013. Establishment and interpretation of the genome sequence of the phytopathogenic fungus Rhizoctonia solani AG1-IB isolate 7/3/14. Journal of Biotechnology, 167(2), p 142-155.
D. Wibberg, et al., “Establishment and interpretation of the genome sequence of the phytopathogenic fungus Rhizoctonia solani AG1-IB isolate 7/3/14”, Journal of Biotechnology, vol. 167, 2013, pp. 142-155.
Wibberg, D., Jelonek, L., Rupp, O., Kröber, M., Eikmeyer, F.G., Goesmann, A., Hartmann, A., Borriss, R., Grosch, R., Pühler, A., Schlüter, A.: Establishment and interpretation of the genome sequence of the phytopathogenic fungus Rhizoctonia solani AG1-IB isolate 7/3/14. Journal of Biotechnology. 167, 142-155 (2013).
Wibberg, Daniel, Jelonek, Lukas, Rupp, Oliver, Kröber, Magdalena, Eikmeyer, Felix Gregor, Goesmann, Alexander, Hartmann, Anton, Borriss, Rainer, Grosch, Rita, Pühler, Alfred, and Schlüter, Andreas. “Establishment and interpretation of the genome sequence of the phytopathogenic fungus Rhizoctonia solani AG1-IB isolate 7/3/14”. Journal of Biotechnology 167.2 (2013): 142-155.

36 Zitationen in Europe PMC

Daten bereitgestellt von Europe PubMed Central.

A comprehensive analysis of the Lactuca sativa, L. transcriptome during different stages of the compatible interaction with Rhizoctonia solani.
Verwaaijen B, Wibberg D, Winkler A, Zrenner R, Bednarz H, Niehaus K, Grosch R, Pühler A, Schlüter A., Sci Rep 9(1), 2019
PMID: 31076623
Identification of candidate pathogenicity determinants of Rhizoctonia solani AG1-IA, which causes sheath blight disease in rice.
Ghosh S, Kanwar P, Jha G., Curr Genet 64(3), 2018
PMID: 29196814
Rhizosphere Competence and Biocontrol Effect of Pseudomonas sp. RU47 Independent from Plant Species and Soil Type at the Field Scale.
Schreiter S, Babin D, Smalla K, Grosch R., Front Microbiol 9(), 2018
PMID: 29449832
Raphidocelis subcapitata (=Pseudokirchneriella subcapitata) provides an insight into genome evolution and environmental adaptations in the Sphaeropleales.
Suzuki S, Yamaguchi H, Nakajima N, Kawachi M., Sci Rep 8(1), 2018
PMID: 29795299
Broad Genomic Sampling Reveals a Smut Pathogenic Ancestry of the Fungal Clade Ustilaginomycotina.
Kijpornyongpan T, Mondo SJ, Barry K, Sandor L, Lee J, Lipzen A, Pangilinan J, LaButti K, Hainaut M, Henrissat B, Grigoriev IV, Spatafora JW, Aime MC., Mol Biol Evol 35(8), 2018
PMID: 29771364
Alterations in rice chloroplast integrity, photosynthesis and metabolome associated with pathogenesis of Rhizoctonia solani.
Ghosh S, Kanwar P, Jha G., Sci Rep 7(), 2017
PMID: 28165003
The Rhizoctonia solani AG1-IB (isolate 7/3/14) transcriptome during interaction with the host plant lettuce (Lactuca sativa L.).
Verwaaijen B, Wibberg D, Kröber M, Winkler A, Zrenner R, Bednarz H, Niehaus K, Grosch R, Pühler A, Schlüter A., PLoS One 12(5), 2017
PMID: 28486484
Draft genome sequence of the potato pathogen Rhizoctonia solani AG3-PT isolate Ben3.
Wibberg D, Genzel F, Verwaaijen B, Blom J, Rupp O, Goesmann A, Zrenner R, Grosch R, Pühler A, Schlüter A., Arch Microbiol 199(7), 2017
PMID: 28597196
Transcriptome analysis reveals the host selection fitness mechanisms of the Rhizoctonia solani AG1IA pathogen.
Xia Y, Fei B, He J, Zhou M, Zhang D, Pan L, Li S, Liang Y, Wang L, Zhu J, Li P, Zheng A., Sci Rep 7(1), 2017
PMID: 28860554
Comparative secretome analysis of Rhizoctonia solani isolates with different host ranges reveals unique secretomes and cell death inducing effectors.
Anderson JP, Sperschneider J, Win J, Kidd B, Yoshida K, Hane J, Saunders DGO, Singh KB., Sci Rep 7(1), 2017
PMID: 28874693
Recent Developments in Using Advanced Sequencing Technologies for the Genomic Studies of Lignin and Cellulose Degrading Microorganisms.
Kameshwar AK, Qin W., Int J Biol Sci 12(2), 2016
PMID: 26884714
Proteomic Analysis of Rhizoctonia solani Identifies Infection-specific, Redox Associated Proteins and Insight into Adaptation to Different Plant Hosts.
Anderson JP, Hane JK, Stoll T, Pain N, Hastie ML, Kaur P, Hoogland C, Gorman JJ, Singh KB., Mol Cell Proteomics 15(4), 2016
PMID: 26811357
Draft genome sequence of the sugar beet pathogen Rhizoctonia solani AG2-2IIIB strain BBA69670.
Wibberg D, Andersson L, Rupp O, Goesmann A, Pühler A, Varrelmann M, Dixelius C, Schlüter A., J Biotechnol 222(), 2016
PMID: 26851388
Complete mitochondrial genome of the scleractinian coral Porites rus.
Celis JS, Wibberg D, Winkler A, Wilke T, Kalinowski J., Mitochondrial DNA A DNA Mapp Seq Anal 27(5), 2016
PMID: 27158873
Population genomics reveals that within-fungus polymorphism is common and maintained in populations of the mycorrhizal fungus Rhizophagus irregularis.
Wyss T, Masclaux FG, Rosikiewicz P, Pagni M, Sanders IR., ISME J 10(10), 2016
PMID: 26953600
Draft Genome Sequence of the Vaccination Strain Mycobacterium bovis BCG S4-Jena.
Wibberg D, Winkler A, Straube E, Karrasch M, Keller PM, Kalinowski J., Genome Announc 4(2), 2016
PMID: 27103721
Extracellular electron transfer systems fuel cellulose oxidative degradation.
Kracher D, Scheiblbrandner S, Felice AK, Breslmayr E, Preims M, Ludwicka K, Haltrich D, Eijsink VG, Ludwig R., Science 352(6289), 2016
PMID: 27127235
Integration event induced changes in recombinant protein productivity in Pichia pastoris discovered by whole genome sequencing and derived vector optimization.
Schwarzhans JP, Wibberg D, Winkler A, Luttermann T, Kalinowski J, Friehs K., Microb Cell Fact 15(), 2016
PMID: 27206580
Comparative and transcriptional analysis of the predicted secretome in the lignocellulose-degrading basidiomycete fungus Pleurotus ostreatus.
Alfaro M, Castanera R, Lavín JL, Grigoriev IV, Oguiza JA, Ramírez L, Pisabarro AG., Environ Microbiol 18(12), 2016
PMID: 27117896
Complete Chloroplast and Mitochondrial Genome Sequences of the Hydrocarbon Oil-Producing Green Microalga Botryococcus braunii Race B (Showa).
Blifernez-Klassen O, Wibberg D, Winkler A, Blom J, Goesmann A, Kalinowski J, Kruse O., Genome Announc 4(3), 2016
PMID: 27284138
An assemblage of Frankia Cluster II strains from California contains the canonical nod genes and also the sulfotransferase gene nodH.
Nguyen TV, Wibberg D, Battenberg K, Blom J, Vanden Heuvel B, Berry AM, Kalinowski J, Pawlowski K., BMC Genomics 17(1), 2016
PMID: 27729005
What lies beneath: belowground defense strategies in plants.
De Coninck B, Timmermans P, Vos C, Cammue BP, Kazan K., Trends Plant Sci 20(2), 2015
PMID: 25307784
Improved genome sequence of the phytopathogenic fungus Rhizoctonia solani AG1-IB 7/3/14 as established by deep mate-pair sequencing on the MiSeq (Illumina) system.
Wibberg D, Rupp O, Jelonek L, Kröber M, Verwaaijen B, Blom J, Winkler A, Goesmann A, Grosch R, Pühler A, Schlüter A., J Biotechnol 203(), 2015
PMID: 25801332
IMA Genome-F 4: Draft genome sequences of Chrysoporthe austroafricana, Diplodia scrobiculata, Fusarium nygamai, Leptographium lundbergii, Limonomyces culmigenus, Stagonosporopsis tanaceti, and Thielaviopsis punctulata.
Wingfield BD, Ades PK, Al-Naemi FA, Beirn LA, Bihon W, Crouch JA, de Beer ZW, De Vos L, Duong TA, Fields CJ, Fourie G, Kanzi AM, Malapi-Wight M, Pethybridge SJ, Radwan O, Rendon G, Slippers B, Santana QC, Steenkamp ET, Taylor PW, Vaghefi N, van der Merwe NA, Veltri D, Wingfield MJ., IMA Fungus 6(1), 2015
PMID: 26203426
Cyclic Lipopeptides of Bacillus amyloliquefaciens subsp. plantarum Colonizing the Lettuce Rhizosphere Enhance Plant Defense Responses Toward the Bottom Rot Pathogen Rhizoctonia solani.
Chowdhury SP, Uhl J, Grosch R, Alquéres S, Pittroff S, Dietel K, Schmitt-Kopplin P, Borriss R, Hartmann A., Mol Plant Microbe Interact 28(9), 2015
PMID: 26011557
Development of a Rhizoctonia solani AG1-IB Specific Gene Model Enables Comparative Genome Analyses between Phytopathogenic R. solani AG1-IA, AG1-IB, AG3 and AG8 Isolates.
Wibberg D, Rupp O, Blom J, Jelonek L, Kröber M, Verwaaijen B, Goesmann A, Albaum S, Grosch R, Pühler A, Schlüter A., PLoS One 10(12), 2015
PMID: 26690577
Mobile elements and mitochondrial genome expansion in the soil fungus and potato pathogen Rhizoctonia solani AG-3.
Losada L, Pakala SB, Fedorova ND, Joardar V, Shabalina SA, Hostetler J, Pakala SM, Zafar N, Thomas E, Rodriguez-Carres M, Dean R, Vilgalys R, Nierman WC, Cubeta MA., FEMS Microbiol Lett 352(2), 2014
PMID: 24461055
The impact of the pathogen Rhizoctonia solani and its beneficial counterpart Bacillus amyloliquefaciens on the indigenous lettuce microbiome.
Erlacher A, Cardinale M, Grosch R, Grube M, Berg G., Front Microbiol 5(), 2014
PMID: 24795707
Genome sequencing and comparative genomics of the broad host-range pathogen Rhizoctonia solani AG8.
Hane JK, Anderson JP, Williams AH, Sperschneider J, Singh KB., PLoS Genet 10(5), 2014
PMID: 24810276
Mitochondrial genome of Phlebia radiata is the second largest (156 kbp) among fungi and features signs of genome flexibility and recent recombination events.
Salavirta H, Oksanen I, Kuuskeri J, Mäkelä M, Laine P, Paulin L, Lundell T., PLoS One 9(5), 2014
PMID: 24824642
Transcriptome analysis of the phytopathogenic fungus Rhizoctonia solani AG1-IB 7/3/14 applying high-throughput sequencing of expressed sequence tags (ESTs).
Wibberg D, Jelonek L, Rupp O, Kröber M, Goesmann A, Grosch R, Pühler A, Schlüter A., Fungal Biol 118(9-10), 2014
PMID: 25209639
Lipopolysaccharide (LPS) stimulation of fungal secondary metabolism.
Khalil ZG, Kalansuriya P, Capon RJ., Mycology 5(3), 2014
PMID: 25379339
Identification and functional analysis of AG1-IA specific genes of Rhizoctonia solani.
Ghosh S, Gupta SK, Jha G., Curr Genet 60(4), 2014
PMID: 25070039
Soil type dependent rhizosphere competence and biocontrol of two bacterial inoculant strains and their effects on the rhizosphere microbial community of field-grown lettuce.
Schreiter S, Sandmann M, Smalla K, Grosch R., PLoS One 9(8), 2014
PMID: 25099168
The 203 kbp mitochondrial genome of the phytopathogenic fungus Sclerotinia borealis reveals multiple invasions of introns and genomic duplications.
Mardanov AV, Beletsky AV, Kadnikov VV, Ignatov AN, Ravin NV., PLoS One 9(9), 2014
PMID: 25216190
Reconstruction of the lipid metabolism for the microalga Monoraphidium neglectum from its genome sequence reveals characteristics suitable for biofuel production.
Bogen C, Al-Dilaimi A, Albersmeier A, Wichmann J, Grundmann M, Rupp O, Lauersen KJ, Blifernez-Klassen O, Kalinowski J, Goesmann A, Mussgnug JH, Kruse O., BMC Genomics 14(), 2013
PMID: 24373495

72 References

Daten bereitgestellt von Europe PubMed Central.

Basic local alignment search tool.
Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ., J. Mol. Biol. 215(3), 1990
PMID: 2231712
Gapped BLAST and PSI-BLAST: a new generation of protein database search programs.
Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ., Nucleic Acids Res. 25(17), 1997
PMID: 9254694

Adams, 1996
Evolution of mitochondrial gene content: gene loss and transfer to the nucleus.
Adams KL, Palmer JD., Mol. Phylogenet. Evol. 29(3), 2003
PMID: 14615181
CRITICA: coding region identification tool invoking comparative analysis.
Badger JH, Olsen GJ, Woese CR., Mol. Biol. Evol. 16(4), 1999
PMID: 10331277
First report of leaf blight of Basella alba caused by Rhizoctonia solani AG 1-IB in India
Baiswar, Plant Disease 96(6), 2012
The incomplete natural history of mitochondria.
Ballard JW, Whitlock MC., Mol. Ecol. 13(4), 2004
PMID: 15012752
The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003.
Boeckmann B, Bairoch A, Apweiler R, Blatter MC, Estreicher A, Gasteiger E, Martin MJ, Michoud K, O'Donovan C, Phan I, Pilbout S, Schneider M., Nucleic Acids Res. 31(1), 2003
PMID: 12520024
The phylogenetic distribution of resupinate forms across the major clades of mushroom-forming fungi (Homobasidiomycetes)
Binder, Systematics and Biodiversity 3(2), 2005
A color atlas of disease of lettuce and related salad crops: observation
Blancard, 2006
Hyphal anastomosis reactions, rDNA-internal transcribed spacer sequences, and virulence levels among subsets of Rhizoctonia solani anastomosis group-2 (AG-2) and AG-BI.
Carling DE, Kuninaga S, Brainard KA., Phytopathology 92(1), 2002
PMID: IND23274695
Phylogeography of the Solanaceae-infecting Basidiomycota fungus Rhizoctonia solani AG-3 based on sequence analysis of two nuclear DNA loci.
Ceresini PC, Shew HD, James TY, Vilgalys RJ, Cubeta MA., BMC Evol. Biol. 7(), 2007
PMID: 17854492
Rhizoctonia solani genome project; providing insight into a link between beneficial and plant pathogenic fungi
Cubeta, Phytopathology 99(), 2009
The complete DNA sequence of the mitochondrial genome of Podospora anserina.
Cummings DJ, McNally KL, Domenico JM, Matsuura ET., Curr. Genet. 17(5), 1990
PMID: 2357736

Davis, 1997
Improved microbial gene identification with GLIMMER.
Delcher AL, Harmon D, Kasif S, White O, Salzberg SL., Nucleic Acids Res. 27(23), 1999
PMID: 10556321
Notes on resupinate fungi II. The tullasneloid fungi
Donk, Reinwardtia 3(), 1956
The plant cell wall-decomposing machinery underlies the functional diversity of forest fungi.
Eastwood DC, Floudas D, Binder M, Majcherczyk A, Schneider P, Aerts A, Asiegbu FO, Baker SE, Barry K, Bendiksby M, Blumentritt M, Coutinho PM, Cullen D, de Vries RP, Gathman A, Goodell B, Henrissat B, Ihrmark K, Kauserud H, Kohler A, LaButti K, Lapidus A, Lavin JL, Lee YH, Lindquist E, Lilly W, Lucas S, Morin E, Murat C, Oguiza JA, Park J, Pisabarro AG, Riley R, Rosling A, Salamov A, Schmidt O, Schmutz J, Skrede I, Stenlid J, Wiebenga A, Xie X, Kues U, Hibbett DS, Hoffmeister D, Hogberg N, Martin F, Grigoriev IV, Watkinson SC., Science 333(6043), 2011
PMID: 21764756
The complete genome sequences of four new IncN plasmids from wastewater treatment plant effluent provide new insights into IncN plasmid diversity and evolution.
Eikmeyer F, Hadiati A, Szczepanowski R, Wibberg D, Schneiker-Bekel S, Rogers LM, Brown CJ, Top EM, Puhler A, Schluter A., Plasmid 68(1), 2012
PMID: 22326849
The mitochondrial genome of the phytopathogenic basidiomycete Moniliophthora perniciosa is 109 kb in size and contains a stable integrated plasmid.
Formighieri EF, Tiburcio RA, Armas ED, Medrano FJ, Shimo H, Carels N, Goes-Neto A, Cotomacci C, Carazzolle MF, Sardinha-Pinto N, Thomazella DP, Rincones J, Digiampietri L, Carraro DM, Azeredo-Espin AM, Reis SF, Deckmann AC, Gramacho K, Goncalves MS, Moura Neto JP, Barbosa LV, Meinhardt LW, Cascardo JC, Pereira GA., Mycol. Res. 112(Pt 10), 2008
PMID: 18786820
Genomics of the fungal kingdom: insights into eukaryotic biology.
Galagan JE, Henn MR, Ma LJ, Cuomo CA, Birren B., Genome Res. 15(12), 2005
PMID: 16339359
Highly efficient concerted evolution in the ribosomal DNA repeats: total rDNA repeat variation revealed by whole-genome shotgun sequence data.
Ganley AR, Kobayashi T., Genome Res. 17(2), 2007
PMID: 17200233
Review: biology and systematics of the forn genus Rhizoctonia
González-Garcia, Spanish Journal of Agricultural Research 4(1), 2006
Role of natural seed infection by the web blight pathogen in common bean seed damage, seedling emergence, and early disease development.
Godoy-Lutz G, Arias J, Steadman JR, Eskridge KM., Plant Dis. 80(8), 1996
PMID: IND20533300
Phylogenetic analysis of Rhizoctonia solani subgroups associated with web blight symptoms on common bean based on ITS-5.8S rDNA
Godoy-Lutz G, Kuninaga S, Steadman JR, Powers K., J. Gen. Plant Pathol. 74(1), 2008
PMID: IND44005247
Analyzing genomes with cumulative skew diagrams.
Grigoriev A., Nucleic Acids Res. 26(10), 1998
PMID: 9580676
Characterisation of Rhizoctonia solani anastomosis groups causing bottom rot in field grown lettuce in Germany
Grosch, European Journal Plant Pathology 110(), 2004
Development of a specific PCR assay for the detection of Rhizoctonia solani AG 1-IB using SCAR primers.
Grosch R, Schneider JH, Peth A, Waschke A, Franken P, Kofoet A, Jabaji-Hare SH., J. Appl. Microbiol. 102(3), 2007
PMID: 17309631
The mitochondrial genome of the wood-degrading basidiomycete Trametes cingulata.
Haridas S, Gantt JS., FEMS Microbiol. Lett. 308(1), 2010
PMID: 20455947
The gene ontology (GO) database and informatics resource
Harris, Nucleic Acids Research 32(), 2004
Insights into the completely annotated genome of Lactobacillus buchneri CD034, a strain isolated from stable grass silage.
Heinl S, Wibberg D, Eikmeyer F, Szczepanowski R, Blom J, Linke B, Goesmann A, Grabherr R, Schwab H, Puhler A, Schluter A., J. Biotechnol. 161(2), 2012
PMID: 22465289
Characteristics of Rhizoctonia isolates associated with botton rot of lettuce in organic soils in Ohio.
Herr LJ., Phytopathology 82(10), 1992
PMID: IND93048554
r2cat: synteny plots and comparative assembly.
Husemann P, Stoye J., Bioinformatics 26(4), 2009
PMID: 20015948
Characterization and pathogenicity of Rhizoctonia spp. isolated from rice, soybean, and other crops grown in rotation with rice in Texas.
Jones RK, Belmar SB., Plant Dis. 73(12), 1989
PMID: IND90008212
Independence of sexual and vegetative incompatibility mechanisms of Thanatephorus cucumeris (Rhizoctonia solani) anastomosis group 1.
Julian MC, Debets F, Keijer J., Phytopathology 86(6), 1996
PMID: IND20594609
The KEGG resource for deciphering the genome
Kanehisa, Nucleic Acids Research 32(), 2004
Heterogeneity in electrophoretic karyotype within and between anastomosis groups of Rhizoctonia solani.
Keijer J, Houterman PM, Dullemans AM, Korsman MG., Mycol. Res. 100(7), 1996
PMID: IND20613857
BLAT--the BLAST-like alignment tool.
Kent WJ., Genome Res. 12(4), 2002
PMID: 11932250
DNA base sequenee homology in Rhizoctonia solani Kühn VI. Genetic relatedness among seven anastomosis groups
Kuninaga, Annals of Phytopathological Society of Japan 51(), 1985
DNA base sequence homology in Rhizoctonia solani Kühn VII. Genetic relatedness between AG-B1 and other anastomosis groups
Kuninaga, Annals of Phytopathological Society of Japan 51(), 1985
Mitochondrial introns: a critical view.
Lang BF, Laforest MJ, Burger G., Trends Genet. 23(3), 2007
PMID: 17280737
tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence.
Lowe TM, Eddy SR., Nucleic Acids Res. 25(5), 1997
PMID: 9023104
Development of joint application strategies for two microbial gene finders.
McHardy AC, Goesmann A, Puhler A, Meyer F., Bioinformatics 20(10), 2004
PMID: 14988122
Relation between infection by Rhizoctonia solani and Rhizoctonia oryzae and disease severity in rice.
Marshall DS, Rush MC., Phytopathology 70(10), 1980
PMID: IND80129711
The genome of Laccaria bicolor provides insights into mycorrhizal symbiosis.
Martin F, Aerts A, Ahren D, Brun A, Danchin EG, Duchaussoy F, Gibon J, Kohler A, Lindquist E, Pereda V, Salamov A, Shapiro HJ, Wuyts J, Blaudez D, Buee M, Brokstein P, Canback B, Cohen D, Courty PE, Coutinho PM, Delaruelle C, Detter JC, Deveau A, DiFazio S, Duplessis S, Fraissinet-Tachet L, Lucic E, Frey-Klett P, Fourrey C, Feussner I, Gay G, Grimwood J, Hoegger PJ, Jain P, Kilaru S, Labbe J, Lin YC, Legue V, Le Tacon F, Marmeisse R, Melayah D, Montanini B, Muratet M, Nehls U, Niculita-Hirzel H, Oudot-Le Secq MP, Peter M, Quesneville H, Rajashekar B, Reich M, Rouhier N, Schmutz J, Yin T, Chalot M, Henrissat B, Kues U, Lucas S, Van de Peer Y, Podila GK, Polle A, Pukkila PJ, Richardson PM, Rouze P, Sanders IR, Stajich JE, Tunlid A, Tuskan G, Grigoriev IV., Nature 452(7183), 2008
PMID: 18322534
Scanning electron microscopy of the infection process of Rhizoctonia solani in leaf sheaths of rice plants.
Matsuura K., Phytopathology 76(8), 1986
PMID: IND86074060
GenDB--an open source genome annotation system for prokaryote genomes.
Meyer F, Goesmann A, McHardy AC, Bartels D, Bekel T, Clausen J, Kalinowski J, Linke B, Rupp O, Giegerich R, Puhler A., Nucleic Acids Res. 31(8), 2003
PMID: 12682369
Rot of cabbage by Rhizoctonia solani
Mukou, Annals of Phytopathological Society of Japan 41(), 1975
Ecology and pathogenicity of anastomosis and intraspecfic groups of Rhizoctonia solani Kühn
Ogoshi, Annual Review of Phytopathology 25(), 1987
Genome sequence of the model mushroom Schizophyllum commune.
Ohm RA, de Jong JF, Lugones LG, Aerts A, Kothe E, Stajich JE, de Vries RP, Record E, Levasseur A, Baker SE, Bartholomew KA, Coutinho PM, Erdmann S, Fowler TJ, Gathman AC, Lombard V, Henrissat B, Knabe N, Kues U, Lilly WW, Lindquist E, Lucas S, Magnuson JK, Piumi F, Raudaskoski M, Salamov A, Schmutz J, Schwarze FW, vanKuyk PA, Horton JS, Grigoriev IV, Wosten HA., Nat. Biotechnol. 28(9), 2010
PMID: 20622885
The fungal mitochondrial genome project: evolution of fungal mitochondrial genomes and their gene expression.
Paquin B, Laforest MJ, Forget L, Roewer I, Wang Z, Longcore J, Lang BF., Curr. Genet. 31(5), 1997
PMID: 9162109
Characterization by conventional techniques and PCR of Rhizoctonia solani isolates causing banded leaf sheath blight in maize.
Pascual CB, Toda T, Raymondo AD, Hyakumachi M., Plant Pathol. 49(1), 2000
PMID: IND22046212
Characterization of a new subgroup of Rhizoctonia solani anastomosis group 1 (AG-1-ID), causal agent of a necrotic leaf spot on coffee.
Priyatmojo A, Escopalao VE, Tangonan NG, Pascual CB, Suga H, Kageyama K, Hyakumachi M., Phytopathology 91(11), 2001
PMID: IND23248743
High levels of gene flow and heterozygote excess characterize Rhizoctonia solani AG-1 IA (Thanatephorus cucumeris) from Texas.
Rosewich UL, Pettway RE, McDonald BA, Kistler HC., Fungal Genet. Biol. 28(3), 1999
PMID: 10669581
The neighbor-joining method: a new method for reconstructing phylogenetic trees.
Saitou N, Nei M., Mol. Biol. Evol. 4(4), 1987
PMID: 3447015
Phylogenetic grouping of cultural types of Rhizoctonia solani AG 2-2 based on ribosomal ITS sequences.
Salazar O, Julian MC, Hyakumachi M, Rubio V., Mycologia 92(3), 2000
PMID: IND22078830
Ribosomal DNA intergenic spacer of indoor wood-decay fungi
Schmidt, Holzforschung 62(), 2008
Insights into evolution of multicellular fungi from the assembled chromosomes of the mushroom Coprinopsis cinerea (Coprinus cinereus)
Stajich, Proceedings of the National Academy of Sciences of the United States of America 107(26), 2010
The complete genome sequence of the acarbose producer Actinoplanes sp. SE50/110.
Schwientek P, Szczepanowski R, Ruckert C, Kalinowski J, Klein A, Selber K, Wehmeier UF, Stoye J, Puhler A., BMC Genomics 13(), 2012
PMID: 22443545

Sneh, 1996
AUGUSTUS at EGASP: using EST, protein and genomic alignments for improved gene prediction in the human genome.
Stanke M, Tzvetkova A, Morgenstern B., Genome Biol. 7 Suppl 1(), 2006
PMID: 16925833
A note on the neighbor-joining algorithm of Saitou and Nei
Studier, Molecular Biology and Evolution, 1988 5(6), 1988
A probabilistic method for identifying start codons in bacterial genomes.
Suzek BE, Ermolaeva MD, Schreiber M, Salzberg SL., Bioinformatics 17(12), 2001
PMID: 11751220
Higher taxa of basidiomycetes: an 18S rRNA gene perspective.
Swann EC, Taylor JW., Mycologia 85(6), 1993
PMID: IND20599207
Sequencing and comparative analysis of IncP-1α antibiotic resistance plasmids reveal a highly conserved backbone and differences within accessory regions.
Szczepanowski R, Eikmeyer F, Harfmann J, Blom J, Rogers LM, Top EM, Schluter A., J. Biotechnol. 155(1), 2010
PMID: 21115076
The COG database: an updated version includes eukaryotes.
Tatusov RL, Fedorova ND, Jackson JD, Jacobs AR, Kiryutin B, Koonin EV, Krylov DM, Mazumder R, Mekhedov SL, Nikolskaya AN, Rao BS, Smirnov S, Sverdlov AV, Vasudevan S, Wolf YI, Yin JJ, Natale DA., BMC Bioinformatics 4(), 2003
PMID: 12969510
Heterokaryon formation in Thanatephorus cucumeris anastomosis group 2-2 IV.
Toda T, Hyakumachi M., Mycologia 98(5), 2006
PMID: 17256576
Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation.
Trapnell C, Williams BA, Pertea G, Mortazavi A, Kwan G, van Baren MJ, Salzberg SL, Wold BJ, Pachter L., Nat. Biotechnol. 28(5), 2010
PMID: 20436464
Nucleotide composition of nuclear and mitochondrial deoxyribonucleic acid of fungi
Villa, Journal of Bacterioloy 96(1), 1968
The mitochondrial genome of the Basidiomycete fungus Pleurotus ostreatus (oyster mushroom).
Wang Y, Zeng F, Hon CC, Zhang Y, Leung FC., FEMS Microbiol. Lett. 280(1), 2008
PMID: 18248422
Seedling infection of soybean by isolates of Rhizoctonia solani AG-1, causal agent of aerial blight and web blight of soybean.
Yang XB, Berggren GT, Snow JP., Plant Dis. 74(7), 1990
PMID: IND90033516
Histopathology of resistant mustard and susceptible canola hypocotyls infected by Rhizoctonia solani.
Yang J, Verma PR, Tewari JP., Mycol. Res. 96(3), 1992
PMID: IND92033540
Export

Markieren/ Markierung löschen
Markierte Publikationen

Open Data PUB

Web of Science

Dieser Datensatz im Web of Science®
Quellen

PMID: 23280342
PubMed | Europe PMC

Suchen in

Google Scholar