-
1
-
-
84874041895
-
Comparative transcriptomics reveals different strategies of Trichoderma mycoparasitism
-
Atanasova L, et al. 2013. Comparative transcriptomics reveals different strategies of Trichoderma mycoparasitism. BMC Genomics 14: 121.
-
(2013)
BMC Genomics
, vol.14
, pp. 121
-
-
Atanasova, L.1
-
2
-
-
0034098730
-
Using gene wise in the Drosophila annotation experiment
-
Birney E, Durbin R. 2000. Using GeneWise in the Drosophila annotation experiment. Genome Res. 10: 547-548.
-
(2000)
Genome Res
, vol.10
, pp. 547-548
-
-
Birney, E.1
Durbin, R.2
-
3
-
-
79951530130
-
Scaffolding pre-assembled contigs using SSPACE
-
Boetzer M, Henkel CV, Jansen HJ, Butler D, PirovanoW. 2011. Scaffolding pre-assembled contigs using SSPACE. Bioinformatics 27: 578-579.
-
(2011)
Bioinformatics
, vol.27
, pp. 578-579
-
-
Boetzer, M.1
Henkel, C.V.2
Jansen, H.J.3
Butler, D.4
Pirovano, W.5
-
4
-
-
0034043778
-
Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis
-
Castresana J. 2000. Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Mol Biol Evol. 17: 540-552.
-
(2000)
Mol Biol Evol
, vol.17
, pp. 540-552
-
-
Castresana, J.1
-
5
-
-
70349245249
-
Characterization and gene cloning of a novel serine protease with nematicidal activity from Trichoderma pseudokoningii SMF2
-
Chen LL, et al. 2009. Characterization and gene cloning of a novel serine protease with nematicidal activity from Trichoderma pseudokoningii SMF2. FEMS Microbiol Lett. 299: 135-142.
-
(2009)
FEMS Microbiol Lett
, vol.299
, pp. 135-142
-
-
Chen, L.L.1
-
6
-
-
3042631307
-
Genome sequence assembly using trace signalsandadditional sequence information
-
1999 Oct 4-6; Hannover, Germany: Comput. Sci. Biol.: Proc. German Conference on Bioinformatics GCB'99 GCB
-
Chevreux B, Wetter T, Suhai S. 1999. Genome sequence assembly using trace signalsandadditional sequence information.GermanConference on Bioinformatics, GCB '99; 1999 Oct 4-6; Hannover, Germany: Comput. Sci. Biol.: Proc. German Conference on Bioinformatics GCB'99 GCB. p. 45-56.
-
(1999)
German Conference on Bioinformatics, GCB '99
, pp. 45-56
-
-
Chevreux, B.1
Wetter, T.2
Suhai, S.3
-
7
-
-
24944435502
-
An oligonucleotide barcode for species identification in Trichoderma and Hypocrea
-
Druzhinina IS, et al. 2005. An oligonucleotide barcode for species identification in Trichoderma and Hypocrea. Fungal Genet Biol. 42: 813-828.
-
(2005)
Fungal Genet Biol
, vol.42
, pp. 813-828
-
-
Druzhinina, I.S.1
-
8
-
-
80053023139
-
Trichoderma: The genomics of opportunistic success
-
Druzhinina IS, et al. 2011. Trichoderma: the genomics of opportunistic success. Nat Rev Microbiol. 9: 749-759.
-
(2011)
Nat Rev Microbiol
, vol.9
, pp. 749-759
-
-
Druzhinina, I.S.1
-
9
-
-
84860377075
-
Molecular phylogeny and species delimitation in the section Longibrachiatum of Trichoderma
-
Druzhinina IS, et al. 2012. Molecular phylogeny and species delimitation in the section Longibrachiatum of Trichoderma. Fungal Genet Biol. 49: 358-368.
-
(2012)
Fungal Genet Biol
, vol.49
, pp. 358-368
-
-
Druzhinina, I.S.1
-
10
-
-
3042666256
-
MUSCLE: Multiple sequence alignment with high accuracy and high throughput
-
Edgar RC. 2004. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res. 32: 1792-1797.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 1792-1797
-
-
Edgar, R.C.1
-
11
-
-
0000365320
-
Fitting the gene lineage into its species lineage, a parsimony strategy illustrated by cladograms constructed from globin sequences
-
Goodman M, Czelusniak J, Moore GW, Romero-Herrera AE, Matsuda G. 1979. Fitting the gene lineage into its species lineage, a parsimony strategy illustrated by cladograms constructed from globin sequences. Syst Zool. 28: 132-168.
-
(1979)
Syst Zool
, vol.28
, pp. 132-168
-
-
Goodman, M.1
Czelusniak, J.2
Moore, G.W.3
Romero-Herrera, A.E.4
Matsuda, G.5
-
12
-
-
0002051540
-
BioEdit: A user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT
-
Hall TA. 1999. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucl Acids Symp Ser. 41: 95-98.
-
(1999)
Nucl Acids Symp ser
, vol.41
, pp. 95-98
-
-
Hall, T.A.1
-
13
-
-
1842591134
-
Trichoderma species - Opportunistic, avirulent plant symbionts
-
Harman GE, Howell CR, Viterbo A, Chet I, Lorito M. 2004. Trichoderma species - opportunistic, avirulent plant symbionts. Nat Rev Microbiol. 2: 43-56.
-
(2004)
Nat Rev Microbiol
, vol.2
, pp. 43-56
-
-
Harman, G.E.1
Howell, C.R.2
Viterbo, A.3
Chet, I.4
Lorito, M.5
-
14
-
-
0037226578
-
Mechanisms employed by Trichoderma species in the biological control of plant diseases: The history and evolution of current concepts
-
Howell CR. 2003. Mechanisms employed by Trichoderma species in the biological control of plant diseases: the history and evolution of current concepts. Plant Dis. 87: 4-10.
-
(2003)
Plant Dis
, vol.87
, pp. 4-10
-
-
Howell, C.R.1
-
15
-
-
77951266103
-
Comparative molecular evolution of trichoderma chitinases in response to mycoparasitic interactions
-
Ihrmark K, et al. 2010. Comparative molecular evolution of trichoderma chitinases in response to mycoparasitic interactions. Evol Bioinform Online. 6: 1-26.
-
(2010)
Evol Bioinform Online
, vol.6
, pp. 1-26
-
-
Ihrmark, K.1
-
16
-
-
0345863935
-
The KEGG resource for deciphering the genome
-
Kanehisa M, Goto S, Kawashima S, Okuno Y, Hattori M. 2004. The KEGG resource for deciphering the genome. Nucleic Acids Res. 32: D277-D280. (Pubitemid 38081656)
-
(2004)
Nucleic Acids Research
, vol.32
, Issue.DATABASE ISS
-
-
Kanehisa, M.1
Goto, S.2
Kawashima, S.3
Okuno, Y.4
Hattori, M.5
-
17
-
-
77955274600
-
SMURF: Genomic mapping of fungal secondary metabolite clusters
-
Khaldi N, et al. 2010. SMURF: genomic mapping of fungal secondary metabolite clusters. Fungal Genet Biol. 47: 736-741.
-
(2010)
Fungal Genet Biol
, vol.47
, pp. 736-741
-
-
Khaldi, N.1
-
18
-
-
79955115574
-
Comparative genome sequence analysis underscores mycoparasitism as the ancestral life style of Trichoderma
-
Kubicek CP, et al. 2011. Comparative genome sequence analysis underscores mycoparasitism as the ancestral life style of Trichoderma. Genome Biol. 12:R40.
-
(2011)
Genome Biol
, vol.12
-
-
Kubicek, C.P.1
-
19
-
-
34250665888
-
RNAmmer: Consistent and rapid annotation of ribosomal RNA genes
-
Lagesen K, et al. 2007. RNAmmer: consistent and rapid annotation of ribosomal RNA genes. Nucleic Acids Res. 35: 3100-3108.
-
(2007)
Nucleic Acids Res
, vol.35
, pp. 3100-3108
-
-
Lagesen, K.1
-
20
-
-
34748873304
-
The cell wall: A carbohydrate armour for the fungal cell
-
Latge JP. 2007. The cell wall: a carbohydrate armour for the fungal cell. Mol Microbiol. 66: 279-290.
-
(2007)
Mol Microbiol
, vol.66
, pp. 279-290
-
-
Latge, J.P.1
-
21
-
-
0141519279
-
OrthoMCL: Identification of ortholog groups for eukaryotic genomes
-
Li L, Stoeckert CJ Jr, Roos DS. 2003. OrthoMCL: identification of ortholog groups for eukaryotic genomes. Genome Res. 13: 2178-2189.
-
(2003)
Genome Res
, vol.13
, pp. 2178-2189
-
-
Li, L.1
Stoeckert Jr., C.J.2
Roos, D.S.3
-
23
-
-
78649495976
-
Antimicrobial peptaibols induce defense responses and systemic resistance in tobacco against tobacco mosaic virus
-
Luo Y, et al. 2010. Antimicrobial peptaibols induce defense responses and systemic resistance in tobacco against tobacco mosaic virus. FEMS Microbiol Lett. 313: 120-126.
-
(2010)
FEMS Microbiol Lett
, vol.313
, pp. 120-126
-
-
Luo, Y.1
-
24
-
-
43449098828
-
Genome sequencing and analysis of the biomassdegrading fungus Trichoderma reesei (synHypocrea jecorina)
-
Martinez D, et al. 2008. Genome sequencing and analysis of the biomassdegrading fungus Trichoderma reesei (syn. Hypocrea jecorina). Nat Biotechnol. 26: 553-560.
-
(2008)
Nat Biotechnol
, vol.26
, pp. 553-560
-
-
Martinez, D.1
-
25
-
-
27844524905
-
Evolutionary change of the numbers of homeobox genes in bilateral animals
-
Nam J, Nei M. 2005. Evolutionary change of the numbers of homeobox genes in bilateral animals. Mol Biol Evol. 22: 2386-2394.
-
(2005)
Mol Biol Evol
, vol.22
, pp. 2386-2394
-
-
Nam, J.1
Nei, M.2
-
26
-
-
40249098860
-
Extensive gains and losses of olfactory receptor genes in mammalian evolution
-
Niimura Y, Nei M. 2007. Extensive gains and losses of olfactory receptor genes in mammalian evolution. PLoS One 2:e708.
-
(2007)
PLoS One
, vol.2
-
-
Niimura, Y.1
Nei, M.2
-
27
-
-
0031110886
-
From gene to organismal phylogeny: Reconciled trees and the gene tree/species tree problem
-
Page RD, Charleston MA. 1997. From gene to organismal phylogeny: reconciled trees and the gene tree/species tree problem. Mol Phylogenet Evol. 7: 231-240.
-
(1997)
Mol Phylogenet Evol
, vol.7
, pp. 231-240
-
-
Page, R.D.1
Charleston, M.A.2
-
28
-
-
84859426282
-
MEROPS: The database of proteolytic enzymes, their substrates and inhibitors
-
Rawlings ND, Barrett AJ, Bateman A. 2012. MEROPS: the database of proteolytic enzymes, their substrates and inhibitors. Nucleic Acids Res. 40:D343-D350.
-
(2012)
Nucleic Acids Res
, vol.40
-
-
Rawlings, N.D.1
Barrett, A.J.2
Bateman, A.3
-
29
-
-
84860109324
-
MrBayes 3.2: Efficient Bayesian phylogenetic inference and model choice across a large model space
-
Ronquist F, et al. 2012. MrBayes 3.2: efficient Bayesian phylogenetic inference and model choice across a large model space. Syst Biol. 61: 539-542.
-
(2012)
Syst Biol
, vol.61
, pp. 539-542
-
-
Ronquist, F.1
-
30
-
-
0347487346
-
Genera of Bionectriaceae, Hypocreaceae and Nectriaceae (Hypocreales, Ascomycetes)
-
Rossman AY, Samuels GJ, Rogerson CT, Lowen R. 1999. Genera of Bionectriaceae, Hypocreaceae and Nectriaceae (Hypocreales, Ascomycetes). Stud Mycol. 42: 1-83.
-
(1999)
Stud Mycol
, vol.42
, pp. 1-83
-
-
Rossman, A.Y.1
Samuels, G.J.2
Rogerson, C.T.3
Lowen, R.4
-
31
-
-
0034065724
-
Ab initio gene finding in Drosophila genomic DNA
-
Salamov AA, Solovyev VV. 2000. Ab initio gene finding in Drosophila genomic DNA. Genome Res. 10: 516-522.
-
(2000)
Genome Res
, vol.10
, pp. 516-522
-
-
Salamov, A.A.1
Solovyev, V.V.2
-
32
-
-
84864930030
-
The Longibrachiatum clade of Trichoderma: A revision with new species
-
Samuels GJ, et al. 2012. The Longibrachiatum clade of Trichoderma: a revision with new species. Fungal Divers. 55: 77-108.
-
(2012)
Fungal Divers
, vol.55
, pp. 77-108
-
-
Samuels, G.J.1
-
33
-
-
23144460836
-
The tRNAscan-SE, snoscan and snoGPS web servers for the detection of tRNAs and snoRNAs
-
DOI 10.1093/nar/gki366
-
Schattner P, Brooks AN, Lowe TM. 2005. The tRNAscan-SE, snoscan and snoGPS web servers for the detection of tRNAs and snoRNAs. Nucleic Acids Res. 33:W686-W689. (Pubitemid 44530010)
-
(2005)
Nucleic Acids Research
, vol.33
, Issue.WEB. SERV. ISS
-
-
Schattner, P.1
Brooks, A.N.2
Lowe, T.M.3
-
34
-
-
44449145113
-
Chitinases of filamentous fungi: A large group of diverse proteins with multiple physiological functions
-
Seidl V. 2008. Chitinases of filamentous fungi: a large group of diverse proteins with multiple physiological functions. Fungal Biol Rev. 22: 36-42.
-
(2008)
Fungal Biol Rev
, vol.22
, pp. 36-42
-
-
Seidl, V.1
-
35
-
-
84855234390
-
Antimicrobial peptaibols from Trichoderma pseudokoningii induce programmed cell death in plant fungal pathogens
-
Shi M, et al. 2010. Antimicrobial peptaibols from Trichoderma pseudokoningii induce programmed cell death in plant fungal pathogens. Microbiology 158: 166-175.
-
(2010)
Microbiology
, vol.158
, pp. 166-175
-
-
Shi, M.1
-
36
-
-
41549141861
-
Horizontal transfer of a nitrate assimilation gene cluster and ecological transitions in fungi: A phylogenetic study
-
Slot JC, Hibbett DS. 2007. Horizontal transfer of a nitrate assimilation gene cluster and ecological transitions in fungi: a phylogenetic study. PLoS One 2:e1097.
-
(2007)
PLoS One
, vol.2
-
-
Slot, J.C.1
Hibbett, D.S.2
-
37
-
-
33745045234
-
Broad-spectrum antimicrobial activity and high stability of Trichokonins from Trichoderma koningii SMF2 against plant pathogens
-
Song XY, et al. 2006. Broad-spectrum antimicrobial activity and high stability of Trichokonins from Trichoderma koningii SMF2 against plant pathogens. FEMS Microbiol Lett. 260: 119-125.
-
(2006)
FEMS Microbiol Lett
, vol.260
, pp. 119-125
-
-
Song, X.Y.1
-
38
-
-
34547510882
-
Solid-state fermentation for Trichokonins production from Trichoderma koningii SMF2 and preparative purification of Trichokonin VI by a simple protocol
-
Song XY, et al. 2007. Solid-state fermentation for Trichokonins production from Trichoderma koningii SMF2 and preparative purification of Trichokonin VI by a simple protocol. J Biotechnol. 131: 209-215.
-
(2007)
J Biotechnol
, vol.131
, pp. 209-215
-
-
Song, X.Y.1
-
39
-
-
84866678519
-
Antimicrobial peptide trichokonin VI-induced alterations in the morphological and nanomechanical properties of Bacillus subtilis
-
Su HN, et al. 2012. Antimicrobial peptide trichokonin VI-induced alterations in the morphological and nanomechanical properties of Bacillus subtilis. PLoS One 7:e45818.
-
(2012)
PLoS One
, vol.7
-
-
Su, H.N.1
-
40
-
-
79957613599
-
MEGA5: Molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods
-
Tamura K, et al. 2011. MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol. 28: 2731-2739.
-
(2011)
Mol Biol Evol
, vol.28
, pp. 2731-2739
-
-
Tamura, K.1
-
41
-
-
0037036464
-
Identification of peptaibols from Trichoderma virens and cloning of a peptaibol synthetase
-
Wiest A, et al. 2002. Identification of peptaibols from Trichoderma virens and cloning of a peptaibol synthetase. J Biol Chem. 277: 20862-20868.
-
(2002)
J Biol Chem
, vol.277
, pp. 20862-20868
-
-
Wiest, A.1
-
42
-
-
34248669040
-
KaKs-Calculator: Calculating Ka and Ks through model selection and model averaging
-
Zhang Z, et al. 2006. KaKs-Calculator: calculating Ka and Ks through model selection and model averaging. Genomics Proteomics Bioinformatics. 4: 259-263.
-
(2006)
Genomics Proteomics Bioinformatics
, vol.4
, pp. 259-263
-
-
Zhang, Z.1
|