Prospects for fungus identification using CO1 DNA barcodes, with Penicillium as a test case.
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 (beta)-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.
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cat-fedepalma-277442022-08-05T00:22:17ZProspects for fungus identification using CO1 DNA barcodes, with Penicillium as a test case. deWaard, Jeremy R., autor. aut 57869 Houbraken, Jos. 57870 Lévesque, C. André. 57871 Samson, Robert A. 57872 Seifert, Keith A. 37598 text©2007ng 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 (beta)-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.Incluye referencias bibliográficas.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 (beta)-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.Hongos.Plagas. |
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Hongos. Plagas. Hongos. Plagas. deWaard, Jeremy R., autor. aut 57869 Houbraken, Jos. 57870 Lévesque, C. André. 57871 Samson, Robert A. 57872 Seifert, Keith A. 37598 Prospects for fungus identification using CO1 DNA barcodes, with Penicillium as a test case. |
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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 (beta)-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. |
format |
Texto |
topic_facet |
Hongos. Plagas. |
author |
deWaard, Jeremy R., autor. aut 57869 Houbraken, Jos. 57870 Lévesque, C. André. 57871 Samson, Robert A. 57872 Seifert, Keith A. 37598 |
author_facet |
deWaard, Jeremy R., autor. aut 57869 Houbraken, Jos. 57870 Lévesque, C. André. 57871 Samson, Robert A. 57872 Seifert, Keith A. 37598 |
author_sort |
deWaard, Jeremy R., autor. aut 57869 |
title |
Prospects for fungus identification using CO1 DNA barcodes, with Penicillium as a test case. |
title_short |
Prospects for fungus identification using CO1 DNA barcodes, with Penicillium as a test case. |
title_full |
Prospects for fungus identification using CO1 DNA barcodes, with Penicillium as a test case. |
title_fullStr |
Prospects for fungus identification using CO1 DNA barcodes, with Penicillium as a test case. |
title_full_unstemmed |
Prospects for fungus identification using CO1 DNA barcodes, with Penicillium as a test case. |
title_sort |
prospects for fungus identification using co1 dna barcodes, with penicillium as a test case. |
publishDate |
©200 |
work_keys_str_mv |
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