Characterization of Subrepeat Regions within rDNA Intergenic Spacers of the Edible Basidiomycete<i>Lentinula edodes</i>

Saito, Takeshi; Tanaka, Norio; Shinozawa, Takao

doi:10.1271/bbb.66.2125

Cited by 16 publications

(17 citation statements)

References 27 publications

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“…Cytoplasmic ribosomes contain 5S, 5.8S, 18S, and 25S rRNAs consisting of about 120, 160, 1800, and 3400 bases, respectively (Hibbett 1992). The length of nuclear rDNA spacers of L. edodes is about 500 bases for the ITS (Hibbett et al 1995) and about 3300 bases for the intergenic spacer (IGS) between the 25S and 18S rRNA genes (Saito et al 2002). Therefore, the total length of one rDNA repeat in L. edodes can be estimated to be about 9300 bases.…”

Section: Resultsmentioning

confidence: 99%

Genetic analysis of nuclear ribosomal DNA of Lentinula edodes

2006

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Genetic analysis of nuclear ribosomal DNA (rDNA) of Lentinula edodes was carried out using rDNA restriction fragment length polymorphisms (RFLPs) as genetic markers. Two compatible monokaryotic strains that differed in the endonuclease digestion patterns of their rDNA were used. The dikaryotic strain established by crossing them produced mixed RFLP patterns. Single-spore isolates derived from the dikaryotic strain showed three types of rDNA RFLP patterns: either one of the two parental types or a mixed type. From the frequency of the mixed type, the recombination value of rDNA tandem repeats was calculated to be 31.4%. Linkage analysis between rDNA and two incompatibility factors (A and B) revealed that rDNA was not linked to either factor. The rDNA genotypes did not affect mycelial growth among the single-spore isolates.

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Section: Resultsmentioning

confidence: 99%

Genetic analysis of nuclear ribosomal DNA of Lentinula edodes

2006

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“…Saito et al [8] have studied the IGS region of 16 L. edodes commercial cultivars in Japan, and found that there were significant differences within species. The IGS1 sequence number of different mushroom strains is 1-3 bands, and the sizes were between 0.9 kb and 1.5 kb; the IGS2 sequence number varied by 1-4 bands, and the sizes were between 2 kb and 3 kb; IGS1 and IGS2 domains of L. edodes contained intricate sub-repeat regions SR1 and SR2 respectively, while SR1 and SR2 have 6 kinds of short sub-repeats units, the structure and number in different strains were distinct, which caused the polymorphism of L. edodes IGS sequence.…”

Section: Discussionmentioning

confidence: 99%

“…Tree topology was evaluated by performing bootstrap analysis of 1000 data sets using MEGA 3.1 [16]. Moreover, the IGS nucleotide sequences of L. edodes (GenBank accession numbers AB030581 and AB030582) were set as outgroup in the construction of the combined phylogenetical tree [8].…”

Section: Sequence Analysismentioning

confidence: 99%

“…The internal transcribed spacer (ITS) between the 18S and 25S rRNA genes is moderate and has been widely applied in phylogenetic studies of basidiomycetes [2]. The intergenic spacer (IGS) between the 25S and 18S rRNA genes is evolving fastest in the rDNA complex [3,4], and has been applied in the polymorphism analysis of edible fungi, such as Agaricus bisporus [5], Laccaria bicolor [6], Hebeloma cylindrosporum [7], Lentinula edodes [8], Pleurotus eryngii [9], Tricholoma matsutake [10], Ferula sinkiangensis [11], Tuber borchii [12] and Rhodocollybia laulaha [13]. However, sequence analysis of the IGS regions of A. auricula-judae has not been reported.…”

Section: Introductionmentioning

confidence: 99%

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The molecular diversity analysis of Auricularia auricula-judae in China by nuclear ribosomal DNA intergenic spacer

Zhong

Bian

2014

Electronic Journal of Biotechnology

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Background: For the crossbreeding of Auricularia auricula-judae, selecting the appropriated parents in hybridization is very important. However, the classification and diversity analysis of A. auricula-judae has been equivocal, due to the similarity of the fruiting body morphology and its susceptibility to environmental influences. For this purpose, the molecular diversity of 32 A. auricula-judae commercial cultivars in China was analyzed by using the nuclear ribosomal DNA intergenic spacer. Results: The complete nuclear rDNA gene complex of A. auricula-judae isolate is 11,210 bp long, and contains the 18S, 5.8S, and 28S rRNA gene as well as the ITS and IGS regions. Based on the sequence data, four more effective primer combinations for the IGS region of A. auricula-judae were designed. Nucleotide sequence variation in the IGS among 32 A. auricula-judae commercial cultivars in China sorted into three strongly supported clades, which is correlated with geographical regions. Most strains originated from the same area were with a narrow genetic basis and could possibly be domesticated from the local wild-type strains. Conclusion: The grouping information obtained in the present work provides significant information for further genetic improvement in A. auricula-judae, and suggested that the IGS region can be used as an excellent tool for identification of genetic variation.

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“…Similarly, repeat elements in IGS have been identifi ed from different organisms such as the swimming crab (Ryu et al 1999) and Lessingia (Markos and Baldwin 2002), as well as in fungi such as Verticillium dahliae (Pramateftaki et al 2000), Trichophyton rubrum (Jackson et al 2000), Trichophyton tonsurans (Gaedigk et al 2003), and Lentinula edodes (Saito et al 2002). Three tandem repeat elements in P. ultimum varied from 55 to 64 bp (TRE1-TA) and 36 to 39 bp (TRE1-TB), from 4 to 7 bp (TRE2), and from 264 to 366 bp (TRE3).…”

Section: Discussionmentioning

confidence: 99%