Tricho Blast: A Multilocus Database for Trichoderma and Hypocrea Identifications

Kopchinskiy, Alexey G.; Monika, Komon ́-Zelazowska; Kubicek, Christian P.; Druzhinina, Irina S.

doi:10.1017/s0953756205233397

Cited by 129 publications

(81 citation statements)

References 6 publications

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“…There were some earlier reports about false identification of certain species using morphological characteristics, for example name Trichoderma harzianum was used for many different species (KullnigGradinger et al, 2002) Recently, methods for safe identification of new species are significantly facilitated by development of and a customized similarity search tool (TrichoBLAST) and an oligonucleotide barcode (TrichOKEY), both available online at http://www.isth.info/ Kopchinskiy et al, 2005). Additionally, phenotype microarrays are useful for classification of new species which allow analysis of carbon utilization patters for 96 carbon sources (Bochner et al, 2001).…”

Section: Phylogenic Evolutionmentioning

confidence: 99%

Trichoderma: A significant fungus for agriculture and environment

Waghunde¹,

Shelake²,

Sabalpara³

2016

Afr. J. Agric. Res.

144

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The novel technologies in all areas of agriculture have improved agricultural production, but some modern practices affect the environment. The recent challenge faced by advanced farming is to achieve higher yields in environment-friendly manner. Thus, there is an immediate need to find eco-friendly solutions such as wider application of biocontrol agents. Among various types of species being used as biocontrol agents, including fungi and bacteria, fungal genus Trichoderma produces different kinds of enzymes which play a major role in biocontrol activity like degradation of cell wall, tolerance to biotic or abiotic stresses, hyphal growth etc. The understanding of filamentous fungi belonging to the genus Trichoderma has continuously evolved since last two decades, from the simple concepts of biocontrol agents to their recently established role as symbionts with different beneficial effects to the plants. Recent findings from structural and functional genomics approaches suggest the additional use of these microbes as model to study mechanisms involved in multiple player interactions that is, microbes-microbes-plant-environment. In this work, historical development of Trichoderma spp., mode of action against different biological agents, potential applications and recent mass production techniques are summarized and discussed in detail with updated advances with their application in the agriculture and sustainable environment.

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Section: Phylogenic Evolutionmentioning

confidence: 99%

Trichoderma: A significant fungus for agriculture and environment

Waghunde¹,

Shelake²,

Sabalpara³

2016

Afr. J. Agric. Res.

144

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“…Taxonomic identification based on ITS 1 and 2 was performed with TrichOKEY2 (isth.info/tools/molkey/index.php, ). Sequences of ITS 1 and 2, tef1, and rpb2 were also analysed using TrichoBLAST (isth.info/tools/blast/blast.php; Kopchinskiy et al 2005). To conduct taxonomic identification, intron 4 of the tef1 gene was selected with Tricho-MARK (isth.info/tools/blast/preblast.php) and compared with the International Subcommission on Trichoderma and Hypocrea Taxonomy (ISTH) database (www.isth.info) using TrichoBLAST, and also with publicly available sequences deposited at NCBI (www.ncbi.nlm.nih.gov) by using a basic local alignment search tool (BLAST) (Altschul et al 1997 KJ786721 KJ786802 KP009494 KP009038 TRS30 soil Skierniewice KJ786720 KJ786801 KP009493 KP009037 TRS31 soil Balcerów KJ786740 KJ786821 KP009501 KP009045 TRS32 mushroom farm, air Maków KJ786744 KJ786825 KP009504 KP009048 TRS34 not known not known KJ786719 KJ786800 KP009497 KP009041 TRS36 soil Kątne KJ786729 KJ786810 KP009488 KP009032 TRS38 soil Myślibórz KJ786733 KJ786814 KP009481 KP009025 TRS39 soil Myślibórz KJ786728 KJ786809 KP009479 KP009023 TRS40 organic KP009240 KP008808 KP009389 KP009110 TRS54 soil not known KP009217 KP008833 KP009408 KP009129 TRS55 mushroom farm Maków KP009211 KP008803 KP009400 KP009121 TRS56 mushroom compost Częstochowa KP009242 KP008810 KP009391 KP009112 TRS57 soil Skierniewice KP009241 KP008809 KP009390 KP009111 TRS58 soil Wadowice KP009214 KP008818 KP009403 KP009124 TRS59 soil Balcerów KP009237 KP008790 KP009386 KP009107 TRS61 mushroom …”

Section: Bioinformatic Analysis and Trichoderma Species Identificationmentioning

confidence: 99%

Molecular Identification Of Trichoderma Strains Collected To Develop Plant Growth-Promoting And Biocontrol Agents

Oskiera

Szczech

Bartoszewski

2015

Journal of Horticultural Research

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Trichoderma strains that are beneficial to both the growth and health of plants can be used as plant growth-promoting fungi (PGPF) or biological control agents (BCA) in agricultural and horticultural practices. In order to select PGPF or BCA strains, their biological properties and taxonomy must be carefully studied. In this study, 104 strains of Trichoderma collected at geographically different locations in Poland for selection as PGPF or BCA were identified by DNA barcoding, based on the sequences of internal transcribed spacers 1 and 2 (ITS1 and 2) of the ribosomal RNA gene cluster and on the sequences of translation elongation factor 1 alpha (tef1), chitinase 18-5 (chi18-5), and RNA polymerase II subunit (rpb2) gene fragments. Most of the strains were classified as: T. atroviride (38%), T. harzianum (21%), T. lentiforme (9%), T. virens (9%), and T. simmonsii (6%). Single strains belonging to T. atrobrunneum, T. citrinoviride, T. crassum, T. gamsii, T. hamatum, T. spirale, T. tomentosum, and T. viridescens were identified.Three strains that are potentially pathogenic to cultivated mushrooms belonging to T. pleuroticola and T. aggressivum f. europaeum were also identified. Four strains: TRS4, TRS29, TRS33, and TRS73 were classified to Trichoderma spp. and molecular identification was inconclusive at the species level. Phylogeny analysis showed that three of these strains TRS4, TRS29, and TRS33 belong to Trichoderma species that is not yet taxonomically established and strain TRS73 belongs to the T. harzianum complex, however, the species could not be identified with certainty.

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“…Trichoderma ITS1 and 2 sequences were subjected to the oligonucleotide barcode program TrichOKey [26]. Still, ambiguous cases were verified by the analysis of the 4th intron of the translation elongation factor 1-alpha-encoding gene (tef1) using sequence similarity search against NCBI GeneBank and TrichoBLAST [27] databases. Identification of Fusarium strains was done based on the analysis of 690 bp fragment of translation elongation factor 1-alpha (EF-1a) gene amplified using EF1 and EF2 primer pairs as described by O'Donnell et al [28].…”

Section: Dna Barcodingmentioning

confidence: 99%

Novel Endophytic Trichoderma spp. Isolated from Healthy Coffea arabica Roots are Capable of Controlling Coffee Tracheomycosis

et al. 2013

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Abstract:One of the biggest threats to coffee growers in East Africa are emerging vascular wilt diseases (tracheomycosis) caused by Fusarium spp. Many Trichoderma species are known to be natural antagonists of these pathogens and are widely used in biological control of fungal plant diseases. More recently, several Trichoderma spp., which exhibited high antifungal activity have been isolated as endophytes. Consequently, we have investigated the presence and the antagonistic activity of endophytic Trichoderma isolated from roots of healthy coffee plants (Coffea arabica) from the major coffee growing regions of Ethiopia. Our results showed that community of Trichoderma spp. in roots of C. arabica contains fungi from coffee rhizosphere, as well as putatively obligate endophytic fungi. The putatively -true‖ endophytic species, until now, isolated only from coffee plant ecosystems in Ethiopia and recently described as T. flagellatum and novel T. sp. C.P.K. 1812 were able to antagonize Fusarium spp., which cause coffee tracheomycosis. Moreover, we found that strains of these species are also highly antagonistic against other phytopathogenic fungi, such as Alternaria alternata, Botryotinia fuckeliana (anamorph: Botrytis cinerea), and Sclerotinia sclerotiorum.

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Tricho Blast: A Multilocus Database for Trichoderma and Hypocrea Identifications

Cited by 129 publications

References 6 publications

Trichoderma: A significant fungus for agriculture and environment

Trichoderma: A significant fungus for agriculture and environment

Molecular Identification Of Trichoderma Strains Collected To Develop Plant Growth-Promoting And Biocontrol Agents

Novel Endophytic Trichoderma spp. Isolated from Healthy Coffea arabica Roots are Capable of Controlling Coffee Tracheomycosis

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