Mitochondrial DNA organisation of the mtDNA type 2b of<i>Aspergillus tubingensis</i>compared to the<i>Aspergillus niger</i>mtDNA type 1a

Juhász, Ákos; Láday, M.; Gácser, Attila; Kucsera, Judit; Pfeiffer, Ilona; Kevei, Ferenc; Hamari, Zsuzsanna

doi:10.1016/j.femsle.2004.10.025

Cited by 10 publications

(24 citation statements)

References 27 publications

(48 reference statements)

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“…The ndh5 gene contains at least two EcoRI sites in the mtDNA of types 2a, 2b and 2e, while type 2c contains only the first, and types 2d and 2f only the second site. The region between the ndh1 and ndh4 genes is special, since it contains two ORFs presumed to code for endonucleases and a tandem-repeat sequence region, as similarly demonstrated in the case of the mtDNA of type 2b (Juhá sz et al 2004). The presence of EcoRI and BglII sites varies in this particular region, too (nucleotides 4603-4959 of complete genome of mtDNA type 2b; Accession No.…”

Section: It Has Previously Been Demonstrated Thatmentioning

confidence: 80%

“…We compared the mitochondrial genome of types 2a, 2c, 2d, 2e and 2f of A. tubingensis with the well-described mtDNA of type 2b (Juhá sz et al 2004) by RFLP analysis (Fig. 1) and by constructing restriction maps of the mtDNAs (Fig.…”

Section: Resultsmentioning

confidence: 99%

“…In this way, we determined the orders and sizes of different genes and also the sizes of the intergenic regions between them. This method was described earlier with the list of the PCR primers employed, when the detailed map of mtDNA of type 2b was reported (Juhá sz et al 2004). This genome was partially described earlier (Juhá sz et al 2004), but the sequencing has recently been completed and the sequence data are already available under Accession No.…”

Section: Cloning Restriction Maps and Construction Functional Mapsmentioning

confidence: 99%

“…The accession numbers for the sequence data are listed in Table 1. The cox1 gene in type 2b contains three group I introns related to the IB subtype of group I introns and carrying ORFs with LAGLI-DADG motifs (Juhá sz et al 2004;Cummings et al 1990). Focusing on the intron content, we amplified the intronic regions by using exonspecific PCR primers (see ''Materials and methods'').…”

Section: It Has Previously Been Demonstrated Thatmentioning

confidence: 99%

“…(Kistler and Benny 1989); 30-60 kb in black Aspergillus sp. (Juhá sz et al 2004;Hamari et al 1997); and 90-102 kb in Podospora sp. (Cummings et al 1990;Belcour et al 1997;Sellem et al 1996); even intraspecific mtDNA (mitochondrial DNA) polymorphism is well known, where different isolates of the same species vary in their mtDNA RFLP (restriction fragment length polymorphism) patterns and sizes.…”

Section: Introductionmentioning

confidence: 96%

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Interpretation of mtDNA RFLP variability among Aspergillus tubingensis isolates

Juhász

Engi

Pfeiffer

et al. 2006

Antonie van Leeuwenhoek

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Aspergillus tubingensis isolates collected from distant geographic areas were earlier classified into six groups on the basis of the mtDNA RFLP variability they exhibited (mtDNA types 2a-2f). In the present work, we investigated the reason for the intraspecific mtDNA variability and we describe here how this fungus, with a relatively small mitochondrial genome, can display intraspecific polymorphism due to intron acquisition and also sporadic point mutations affecting the recognition motifs of the restriction enzymes employed in the RFLP analysis. Three different LAGLI-DADG type group I introns were identified in the cox1 gene amongst the six mtDNA RFLP types. MtDNAs of types 2b and 2d contain all of the three introns, mtDNA of type 2f carries only one, and the other mtDNA types contain two introns each. Comparative analysis showed that the first and second introns of mtDNAs of types 2b and 2d are well distributed among fungi, indicating their active horizontal transfer capacity. The third intron occurs rarely among fungi and is restricted to a limited number of fungal species, namely to A. tubingensis and the yeast Candida stellata. It is interesting that this intron is present in a small mitochondrial genome such as that of A. tubingensis and, considering its rarity, its presence amongst black Aspergillus isolates is recommended to be considered as a tool to establish taxonomical unit(s) or to track down evolutionary divergence of closely related taxonomical units.

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Section: It Has Previously Been Demonstrated Thatmentioning

confidence: 80%

Section: Resultsmentioning

confidence: 99%

Section: Cloning Restriction Maps and Construction Functional Mapsmentioning

confidence: 99%

Section: It Has Previously Been Demonstrated Thatmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 96%

See 3 more Smart Citations

Interpretation of mtDNA RFLP variability among Aspergillus tubingensis isolates

Juhász

Engi

Pfeiffer

et al. 2006

Antonie van Leeuwenhoek

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The complete mitochondrial genome of the conifer needle endophyte, Phialocephala scopiformis DAOMC 229536 confirms evolutionary division within the fungal Phialocephala fortinii s.l. – Acephala appalanata species complex

et al. 2017

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Despite the recent surge in mitochondrial (mt) genome sequencing, Kingdom Fungi remains underrepresented with respect to mtDNA. We describe the mt genome of the conifer needle endophyte, Phialocephala scopiformis DAOMC 229536 (Helotiales, Ascomycota). This strain is of interest to the Canadian forestry industry as it produces the anti-insectan compound rugulosin. Sequence was obtained from whole genome shotgun sequencing. Comparison to the only other published Phialocephala mt genome, Phialocephala subalpina, indicates that the suite of common mt genes - cox1-3, cob, nad1-6 and 4L, atp6, 8 and 9, as well as rrnL and rrnS - has retained an identical order. Nad4L remains one of the most conserved mitochondrial genes within Phialocephala. Members of the closely related Phialocephala fortinii s.l. - Acephala appalanata species complex (PAC) share too much sequence similarity to properly resolve lineages using ITS barcoding alone. Using P. scopiformis sequence as an outgroup, we determined ancestral gene states that help confirm clades within Phialocephala. Our results show: (1) the complete mt genome of P. scopiformis, representing the 10th complete mt genome for the order Helotiales (containing >3800 species), and (2) how large-scale genomic patterns, such as mitochondrial gene order, can be used to confirm lineages within fungal species complexes.

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Prospects for fungus identification usingCO1DNA barcodes, withPenicilliumas a test case

Seifert

Samson

deWaard

et al. 2007

Proc. Natl. Acad. Sci. U.S.A.

329

266

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DNA barcoding systems employ a short, standardized gene region to identify species. A 648-bp segment of mitochondrial cytochrome c oxidase 1 (CO1) is the core barcode region for animals, but its utility has not been tested in fungi. This study began with an examination of patterns of sequence divergences in this gene region for 38 fungal taxa with full CO1 sequences. Because these results suggested that CO1 could be effective in species recognition, we designed primers for a 545-bp fragment of CO1 and generated sequences for multiple strains from 58 species of Penicillium subgenus Penicillium and 12 allied species. Despite the frequent literature reports of introns in fungal mitochondrial genomes, we detected introns in only 2 of 370 Penicillium strains. Representatives from 38 of 58 species formed cohesive assemblages with distinct CO1 sequences, and all cases of sequence sharing involved known species complexes. CO1 sequence divergences averaged 0.06% within species, less than for internal transcribed spacer nrDNA or ␤-tubulin sequences (BenA). CO1 divergences between species averaged 5.6%, comparable to internal transcribed spacer, but less than values for BenA (14.4%). Although the latter gene delivered higher taxonomic resolution, the amplification and alignment of CO1 was simpler. The development of a barcoding system for fungi that shares a common gene target with other kingdoms would be a significant advance.␤-tubulin ͉ cytochrome c oxidase I ͉ DNA barcoding ͉ internal transcribed spacer ͉ species identification

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Mitochondrial DNA organisation of the mtDNA type 2b ofAspergillus tubingensiscompared to theAspergillus nigermtDNA type 1a

Cited by 10 publications

References 27 publications

Interpretation of mtDNA RFLP variability among Aspergillus tubingensis isolates

Interpretation of mtDNA RFLP variability among Aspergillus tubingensis isolates

The complete mitochondrial genome of the conifer needle endophyte, Phialocephala scopiformis DAOMC 229536 confirms evolutionary division within the fungal Phialocephala fortinii s.l. – Acephala appalanata species complex

Prospects for fungus identification usingCO1DNA barcodes, withPenicilliumas a test case

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