| Literature DB >> 23192526 |
Lidia Błaszczyk1, Marek Siwulski, Krzysztof Sobieralski, Dorota Frużyńska-Jóźwiak.
Abstract
The present study includes the molecular characteristics of Trichoderma pleurotum and Trichoderma pleuroticola isolates collected from green moulded cereal straw substrates at 47 oyster mushroom farms in Poland. The screening of the 80 Trichoderma isolates was performed by morphological observation and by using the multiplex PCR assay. This approach enabled specific detection of 47 strains of T. pleurotum and 2 strains of T. pleuroticola. Initial identifications were confirmed by sequencing the fragment of internal transcribed spacer regions 1 and 2 (ITS1 and ITS2) of the rRNA gene cluster and the fragment including the fourth and fifth introns and the last long exon of the translation-elongation factor 1-alpha (tef1) gene. ITS and tef1 sequence information was also used to establish the intra- and interspecies relationship of T. pleurotum and T. pleuroticola originating from the oyster mushroom farms in Poland and from other countries. Comparative analysis of the ITS sequences showed that all T. pleurotum isolates from Poland represent one haplotype, identical to that of T. pleurotum strains from Hungary and Romania. Sequence analysis of the tef1 locus revealed two haplotypes ("T" and "N") of Polish T. pleurotum isolates. The "T" type isolates of T. pleurotum were identical to those of strains from Hungary and Romania. The "N" type isolates possessed a unique tef1 allele. Detailed analysis of the ITS and tef1 sequences of two T. pleuroticola isolates showed their identicalness to Italian strain C.P.K. 1540.Entities:
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Year: 2012 PMID: 23192526 PMCID: PMC3683140 DOI: 10.1007/s12223-012-0214-6
Source DB: PubMed Journal: Folia Microbiol (Praha) ISSN: 0015-5632 Impact factor: 2.099
The list of strains collected from oyster mushroom farms in Poland and identified on the basis of multiplex PCR and ITS and tef1 sequence analysis
| Culture code | Origin–localization | ITS and | ||
|---|---|---|---|---|
| Type of | ||||
| T24//T | Western Poland | Babimost |
| – |
| TH/24 | Babimost |
|
| |
| T72/A | Budziłowo |
| “T” | |
| TV72/C | Budziłowo |
|
| |
| T63/DR | Chobienice |
| “N” | |
| T14/Ł | Chrosnica |
| “T” | |
| T58/2A | Kalisz |
| “N” | |
| Tv57/2B | Kalisz |
|
| |
| TB112 | Konin |
| “N” | |
| T155 | Łobez |
| “T” | |
| TH55/F | Łobez |
|
| |
| TH25/A | Łobez |
|
| |
| TV55/Ł | Łobez |
|
| |
| T16/2/Ab | Nądnia |
| “N” | |
| T37/Ł | Nowy Tomyśl |
| “N” | |
| TH370 | Nowy Tomyśl |
|
| |
| Tv37/10 | Nowy Tomyśl |
|
| |
| T71/B | Pleszew |
| “N” | |
| T83/TB | Skoków |
| “N” | |
| T12/Bb | Widzim Stary |
|
| |
| TP53Ł | Wielichowo |
| “N” | |
| Th530 | Wielichowo |
|
| |
| T52/2D | Witaszyce |
| “N” | |
| Tv52/G | Witaszyce |
|
| |
| TP81R | Wolsztyn |
| “N” | |
| T2/DR | Wroniary |
| “T” | |
| TP12/S | Northern Poland | Człopa |
| “T” |
| T05C | Gryfino |
| “T” | |
| TB40/M | Jakubowo Kisielickie |
| “T” | |
| T13/CB | Kamionki |
| “T” | |
| Tv130/A | Kamionki |
|
| |
| T77/3 | Kłębowo |
| “N” | |
| TB63 | Kłębowo |
| “T” | |
| Tv76/D | Kłębowo |
|
| |
| Th76/K | Kłębowo |
|
| |
| T50A | Kołaczkowo |
| “N” | |
| T36/Bi | Koszalin |
| “N” | |
| Tv37/Ci | Koszalin |
|
| |
| T6/AR | Krępsko |
| “T” | |
| TP32M | Kudypy |
| “N” | |
| TH320 | Kudyby |
|
| |
| T41/T | Opatów |
| “N” | |
| TH410 | Opatów |
|
| |
| TB18A | Przechlewo |
| “N” | |
| TP19/S | Zblewo |
| “T” | |
| Th19/B | Zblewo |
|
| |
| T270/C | Żodyń |
| “T” | |
| Th271/B | Żodyń |
|
| |
| TP17M | Eastern Poland | Garbów |
| “T” |
| TH17/7 | Garbów |
|
| |
| T53B | Grodzisk Mazowiecki |
| “N” | |
| TP25S | Łosice |
| “N” | |
| TB73/L | Nowa Huta |
| “N” | |
| TB6M | Radom |
| “N” | |
| Th6/M4 | Radom |
|
| |
| TP20S | Siedlce |
| “N” | |
| T27/Z | Siedlce |
| “N” | |
| Tv18/AB | Siedlce |
|
| |
| TB27S | Wiśniew |
| “N” | |
| T127 | Wola Łaska |
| “N” | |
| Tv127/RU | Wola Łaska |
|
| |
| T35Ab | Southern Poland | Bratkowice |
| “T” |
| TB33 |
|
| “T” | |
| TV/33a | Brzeźnica |
|
| |
| TP11Ł | Bytom |
| “N” | |
| T4/15/A | Czermin |
| “T” | |
| TH15/C | Czermin |
|
| |
| TV17/C | Czermin |
|
| |
| T158/1 | Ćwiklice |
| “T” | |
| TH58/2 | Ćwiklice |
|
| |
| TP23M | Kraków |
| “N” | |
| TB2 | Opole |
| “N” | |
| Th2/33 | Opole |
|
| |
| TB103 | Pszczyna |
| “N” | |
| Th10/PS | Pszczyna |
|
| |
| Th11/PS | Pszczyna |
|
| |
| Tv104/PS | Pszczyna |
|
| |
| T55Z/2 | Ręczno |
| “T” | |
| TB108 | Smyków |
| “T” | |
| Tv18/AB | Smyków |
|
| |
aThe type of allele observed on the basis of tef1 sequence analysis of T. pleurotum isolates
bThe representatives of T. pleurotum and T. pleuroticola isolates used in comparative analysis (Figs. 1 and 2)
Fig. 1The intra- and interspecies variability in the ITS sequences of selected T. pleurotum and T. pleuroticola isolates from oyster mushroom farms in Poland and strains deposited in NCBI GeneBank (Tables 1 and 2). The nucleotide polymorphism for T. pleurotum and T. pleuroticola strains are enclosed. Single nucleotide polymorphism (A/C transversion) between ITS alleles of T. pleurotum and T. pleuroticola is shown by the arrow
Fig. 2The intra- and interspecies variability in the tef1 sequences of selected T. pleurotum and T. pleuroticola isolates from oyster mushroom farms in Poland and strains deposited in NCBI GeneBank (Tables 1 and 2). The nucleotide polymorphism for T. pleurotum and T. pleuroticola strains are enclosed. Single nucleotide insertion/deletion (“T”/“N” allele) between Polish T. pleuroticola isolates is shown by the arrow
The list of Trichoderma strains selected from the NCBI GeneBank database and used for the comparative analysis
| Strain no. | Other collection | Origin | Habitat | NCBI GenBank accession no. | |
|---|---|---|---|---|---|
| ITS |
| ||||
|
| |||||
| C.P.K. 2113 | CBS121147, DAOM 236051 | Hungary |
| EF392808 | EF392773 |
| C.P.K. 2096 | Hungary |
| EF392797 | EF392770 | |
| C.P.K.2097 | Hungary |
| EF392798 | EF392771 | |
| C.P.K. 2100 | Hungary |
| EF392801 | EF392772 | |
| C.P.K. 2116 | CBS 121148 | Hungary |
| EF392810 | EF392774 |
| C.P.K. 2117 | Hungary |
| EF392811 | EF392775 | |
| C.P.K. 1532 | CBS 121216 | Italy |
| EF392795 | EF601678 |
| C.P.K. 2815 | Romania |
| EF601675 | EF601680 | |
|
| |||||
| DAOM 175924 | CBS121144 | Canada |
| AY605726 | AY605769 |
| DAOM 229916 | USA | Forest soil | AY605738 | AY605781 | |
| C.P.K. 1540 | CBS 121217 | Italy |
| EF392782 | EF392762 |
| C.P.K. 1544 | Italy |
| EF392786 | EF392763 | |
| C.P.K. 1550 | Italy | Mushroom farm | EF392791 | EF392765 | |
| C.P.K. 1551 | Italy | Mushroom farm | EF392792 | EF392766 | |
| C.P.K. 2104 | CBS 121145 | Hungary |
| EF392794 | EF392769 |
| C.P.K. 3266 | Hungary |
| EU918148 | EU918160 | |
| C.P.K. 3193 | Hungary |
| EU918140 | EU918160 | |
| C.P.K. 2816 | Romania |
| EF601676 | EF601681 | |
| C.P.K. 2817 | Romania |
| EF601677 | EF601682 | |
| G.J.S. 95-81 | The Netherlands |
| AF345948 | AF348102 | |
| T 1295 | Colombia | Soil | EU280071.1 | EU279973.1 | |