Draft whole-genome sequence of the Diaporthe helianthi 7/96 strain, causal agent of sunflower stem canker

  1. Ruocco, Michelina
  2. Scala, Felice
  3. Baroncelli, Riccardo
  4. Vergara, Mariarosaira
  5. Thon, Michael R.
  1. 1 Universitaire de Biodiversité et Ecologie Microbienne (LUBEM), University of Western Brittany, Avenue du Technopole, 29280 Plouzané, France
  2. 2 Dipartimento di Agraria, via Università 100, 80055 portici (NA), Italy
  3. 3 Istituto per la Protezione Sostenibile delle Piante, sede secondaria di Portici, (IPSP-CNR) via Università 133, 80055 Portici (NA), Italy.
  4. 4 Scuola Normale Superiore di Pisa, piazza dei Cavalieri 7, 56126 Pisa, Italy.
  5. 5 Instituto Hispano-Luso de Investigaciones Agrarias (CIALE), University of Salamanca, Campus de Villamayor, C/ Del Duero, 12; 37185 Villamayor (Salamanca), Spain
Revista:
Genomics Data

ISSN: 2213-5960

Año de publicación: 2016

Volumen: 10

Páginas: 151-152

Tipo: Artículo

DOI: 10.1016/J.GDATA.2016.11.005 GOOGLE SCHOLAR

Otras publicaciones en: Genomics Data

Resumen

Diaporthe helianthi is a fungus pathogenic to sunflower. Virulent strains of this fungus cause stem canker with important yield losses and reduction of oil content. Here we present the first draft whole-genome sequence of the highly virulent isolate D. helianthi strain 7/96, thus providing a useful platform for future research on stem canker of sunflower and fungal genomics. The genome sequence of the D. helianthi isolate 7/96 was deposited at DDBJ/ENA/GenBank under the accession number MAVT00000000 (BioProject PRJNA327798).Image 1Specifications [standardized info for the reader] Organism/cell line/tissueDiaporthe helianthi strain 7/96SexN/ASequencer or array typeIllumina HiSeq 2000Data formatAssembledExperimental factorsFungal strain pathogen on sunflowerExperimental featuresDe novo genome sequencing followed by assembly and annotationConsentN/ASample source locationD. helianthi 7/96 was isolated from diseased sunflowers in France

Referencias bibliográficas

  • Muntaňola-Cvetkovic M., Mihaljcevi M., Petrof M., 1981. On the identity of the causative agent of a serious Phomopsis-Diaporthe disease in sunflower plants. Nova Hedwigia 34: 417-435.
  • Vergara M., Cristani C., Regis C., Vannacci G., 2004. A coding region in Diaporthe helianthi reveals genetic variability among isolates of different geographic origin. Mycopathologia 158: 123-130.
  • Zerbino DR and Birney E. 2008. Velvet: Algorithms for de novo short read assembly using de Bruijn graphs. Genome Research 18(5): 821-9.
  • Simão FA, Waterhouse RM, Ioannidis P, Kriventseva EV, Zdobnov EM. 2015. BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs. Bioinformatics 31(19):3210-2
  • Holt C, Yandell M. 2011. MAKER2: an annotation pipeline and genome-database management tool for second-generation genome projects. BMC Bioinformatics 12: 491.
  • Petersen TN, Brunak S, von Heijne G and Nielsen H. 2011. SignalP 4.0: discriminating signal peptides from transmembrane regions. Nature Methods, 8: 785-786.
  • Baroncelli R, Sanz-Martín JM, Rech GE, Sukno SA, Thon MR. 2014. Draft genome gequence of Colletotrichum sublineola, a destructive pathogen of cultivated sorghum. Genome Announcement 2(3): e00540-14.
  • Morales-Cruz A, Amrine KC, Blanco-Ulate B, Lawrence DP, Travadon R, Rolshausen PE, Baumgartner K, Cantu D. 2015. Distinctive expansion of gene families associated with plant cell wall degradation, secondary metabolism, and nutrient uptake in the genomes of grapevine trunk pathogens. BMC Genomics 19;16: 469
  • Ma LJ, van der Does HC, Borkovich KA, Coleman JJ, Daboussi MJ, Di Pietro A, Dufresne M, Freitag M, Grabherr M, Henrissat B, Houterman PM, Kang S, Shim WB, Woloshuk C, Xie X, Xu JR, Antoniw J, Baker SE, Bluhm BH, Breakspear A, Brown DW, Butchko RA, Chapman S, Coulson R, Coutinho PM, Danchin EG, Diener A, Gale LR, Gardiner DM, Goff S, Hammond-Kosack KE, Hilburn K, Hua-Van A, Jonkers W, Kazan K, Kodira CD, Koehrsen M, Kumar L, Lee YH, Li L, Manners JM, Miranda-Saavedra D, Mukherjee M, Park G, Park J, Park SY, Proctor RH, Regev A, Ruiz-Roldan MC, Sain D, Sakthikumar S, Sykes S, Schwartz DC, Turgeon BG, Wapinski I, Yoder O, Young S, Zeng Q, Zhou S, Galagan J, Cuomo CA, Kistler HC, Rep M. 2010. Comparative genomics reveals mobile pathogenicity chromosomes in Fusarium. Nature 464(7287): 367-73.
  • Galagan JE, Calvo SE, Borkovich KA, Selker EU, Read ND, Jaffe D, FitzHugh W, Ma LJ, Smirnov S, Purcell S, Rehman B, Elkins T, Engels R, Wang S, Nielsen CB, Butler J, Endrizzi M, Qui D, Ianakiev P, Bell-Pedersen D, Nelson MA, Werner-Washburne M, Selitrennikoff CP, Kinsey JA, Braun EL, Zelter A, Schulte U, Kothe GO, Jedd G, Mewes W, Staben C, Marcotte E, Greenberg D, Roy A, Foley K, Naylor J, Stange-Thomann N, Barrett R, Gnerre S, Kamal M, Kamvysselis M, Mauceli E, Bielke C, Rudd S, Frishman D, Krystofova S, Rasmussen C, Metzenberg RL, Perkins DD, Kroken S, Cogoni C, Macino G, Catcheside D, Li W, Pratt RJ, Osmani SA, DeSouza CP, Glass L, Orbach MJ, Berglund JA, Voelker R, Yarden O, Plamann M, Seiler S, Dunlap J, Radford A, Aramayo R, Natvig DO, Alex LA, Mannhaupt G, Ebbole DJ, Freitag M, Paulsen I, Sachs MS, Lander ES, Nusbaum C, Birren B. 2003. The genome sequence of the filamentous fungus Neurospora crassa. Nature 422(6934): 859-68.
  • Baroncelli R, Amby DB, Zapparata A, Sarrocco S, Vannacci G, Le Floch G, Harrison RJ, Holub E, Sukno SA, Sreenivasaprasad S, Thon MR. Gene family expansions and contractions are associated with host range in plant pathogens of the genus Colletotrichum. BMC genomics in press
  • Dean RA, Talbot NJ, Ebbole DJ, Farman ML, Mitchell TK, Orbach MJ, Thon M, Kulkarni R, Xu JR, Pan H, Read ND, Lee YH, Carbone I, Brown D, Oh YY, Donofrio N, Jeong JS, Soanes DM, Djonovic S, Kolomiets E, Rehmeyer C, Li W, Harding M, Kim S, Lebrun MH, Bohnert H, Coughlan S, Butler J, Calvo S, Ma LJ, Nicol R, Purcell S, Nusbaum C, Galagan JE, Birren BW. The genome sequence of the rice blast fungus Magnaporthe grisea. 2005. Nature 434(7036): 980-6