Status
v.1.0. (December 21, 2007): The assembly release of whole genome
shotgun reads was constructed with the JGI assembler, JAZZ, using
paired end sequencing reads at a coverage of 8X. The short summary
of the genome is as follows:
Main Genome read total: 445,647
Main Genome Scaffold total: 135
Main Genome Contig total: 669
Main Genome scaffold sequence total: 38.8 Mb
Main Genome Contig sequence total: 38.6 Mb (-> 0.4% gap)
Main Genome Scaffold N/L50: 9/1.7 Mb
Main Genome Contig N/L50: 71/167 Kb
Main Genome Depth: 8.05 +/-0.04
The current draft release, version 1.0, includes a total of 11,643
gene models predicted and functionally annotated using the JGI
annotation pipeline.
Collaborators
- Chuck Kenerley, TAMU - Texas A and M University
- Heather Wilkinson, TAMU - Texas A and M University
- Dan Ebbole, TAMU - Texas A and M University
- Christian Kubicek, TU-Wien
- Alfredo Herrera-Estrella, Cinvestav
- Helena Nevalainen, Macquarie University
- Scott Baker, Pacific Northwest National Laboratory
- Ben Horwitz, Technio - Israel Institute of Technology
Genome Reference(s)
Please cite the following publication(s) if you use the data from this genome in your research:
Kubicek CP, Herrera-Estrella A, Seidl-Seiboth V, Martinez DA, Druzhinina IS, Thon M, Zeilinger S, Casas-Flores S, Horwitz BA, Mukherjee PK, Mukherjee M, Kredics L, Alcaraz LD, Aerts A, Antal Z, Atanasova L, Cervantes-Badillo MG, Challacombe J, Chertkov O, McCluskey K, Coulpier F, Deshpande N, von Döhren H, Ebbole DJ, Esquivel-Naranjo EU, Fekete E, Flipphi M, Glaser F, Gómez-RodrÃguez EY, Gruber S, Han C, Henrissat B, Hermosa R, Hernández-Oñate M, Karaffa L, Kosti I, Le Crom S, Lindquist E, Lucas S, Lübeck M, Lübeck PS, Margeot A, Metz B, Misra M, Nevalainen H, Omann M, Packer N, Perrone G, Uresti-Rivera EE, Salamov A, Schmoll M, Seiboth B, Shapiro H, Sukno S, Tamayo-Ramos JA, Tisch D, Wiest A, Wilkinson HH, Zhang M, Coutinho PM, Kenerley CM, Monte E, Baker SE, Grigoriev IV
Comparative genome sequence analysis underscores mycoparasitism as the ancestral life style of Trichoderma.
Genome Biol. 2011;12(4):R40. doi: 10.1186/gb-2011-12-4-r40
Kubicek CP, Herrera-Estrella A, Seidl-Seiboth V, Martinez DA, Druzhinina IS, Thon M, Zeilinger S, Casas-Flores S, Horwitz BA, Mukherjee PK, Mukherjee M, Kredics L, Alcaraz LD, Aerts A, Antal Z, Atanasova L, Cervantes-Badillo MG, Challacombe J, Chertkov O, McCluskey K, Coulpier F, Deshpande N, von Döhren H, Ebbole DJ, Esquivel-Naranjo EU, Fekete E, Flipphi M, Glaser F, Gómez-RodrÃguez EY, Gruber S, Han C, Henrissat B, Hermosa R, Hernández-Oñate M, Karaffa L, Kosti I, Le Crom S, Lindquist E, Lucas S, Lübeck M, Lübeck PS, Margeot A, Metz B, Misra M, Nevalainen H, Omann M, Packer N, Perrone G, Uresti-Rivera EE, Salamov A, Schmoll M, Seiboth B, Shapiro H, Sukno S, Tamayo-Ramos JA, Tisch D, Wiest A, Wilkinson HH, Zhang M, Coutinho PM, Kenerley CM, Monte E, Baker SE, Grigoriev IV
Comparative genome sequence analysis underscores mycoparasitism as the ancestral life style of Trichoderma.
Genome Biol. 2011;12(4):R40. doi: 10.1186/gb-2011-12-4-r40
Links
Funding
This work was performed under the auspices of the US Department of
Energy's Office of Science, Biological and Environmental Research
Program, and by the University of California, Lawrence Berkeley
National Laboratory under contract No. DE-AC02-05CH11231, Lawrence
Livermore National Laboratory under Contract No. DE-AC52-07NA27344,
and Los Alamos National Laboratory under contract No.
DE-AC02-06NA25396.
