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Cox1 Barcoding of Penicillium and Fusarium

Agriculture and. Agriculture et. Agri-Food Canada. Agroalimentaire Canada. Canada. Cox1 Barcoding of Penicillium and Fusarium. Keith A. Seifert , Scott Gilmore and Karol Rivera Biodiversity, Agriculture & Agri-Food Canada, Ottawa, Ontario, Canada. Gene 1 tree. Taxon 1. Taxon 2.

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Cox1 Barcoding of Penicillium and Fusarium

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  1. Agriculture and Agriculture et Agri-Food Canada Agroalimentaire Canada Canada Cox1 Barcoding of Penicillium and Fusarium • Keith A. Seifert, Scott Gilmore and Karol Rivera • Biodiversity, Agriculture & Agri-Food Canada, Ottawa, Ontario, Canada.

  2. Gene 1 tree

  3. Taxon 1 Taxon 2 Taxon 3 Cox1 Gene 1 T 474 Outgroup 1 24432 T Taxon 3 complex Gene 2 T 478 Outgroup 1 45782 T 483 Outgroup 1 45672 T 475 Outgroup 1 45872 T 485 Outgroup 2 46272 T 486 Outgroup 2 43993 100 T 488 Outgroup 2 50873 T 487 Outgroup 2 18472 T 354 Taxon 3 13567 T 352 Taxon 3 47984 100 100 Taxon 3 T L Taxon 3 22130 98 T 357 Taxon 3 23438 T 066 Taxon 2 44978 99 Taxon 2 T 068 Taxon 2 46695 T 100 T 071 Taxon 2 1 change T 342 Taxon 1 101032 100 Taxon 1 T 347 Taxon 1 46595 T 348 Taxon 1 46495

  4. Taxon 8 Taxon 1 Taxon 2 Taxon 6 Taxon 4 Taxon 3 Taxon 4 Taxon 2 Taxon 5 Taxon 1 Taxon 6 Cox1 Taxon 5 Taxon 7 Taxon 3 Taxon 7 Taxon 8 beta-tubulin Gene 2 tree Gene 1 tree

  5. Comparison of Three Potential Barcoding Loci Gene 1 Gene 2 Gene 3 Mean bp 545 446 555 Infraspecific 0.06 0.83 0.51 range 0-0.6 0-4.9 0-5.3 Interspecific x 5.6 14.4 5.1 range 0-15.4 0.5-67.2 0-26.8 Species 67.1 81.2 24.5 resolution Or 92 100 33 PCR success rate 95% 75% 95% Introns 0 3 0 Gaps 0 258 150

  6. Comparison of Three Potential Barcoding Loci in Penicillium subgenus Penicillium Cox1 BenA ITS Mean bp 545 446 555 Infraspecific 0.06 0.83 0.51 range 0-0.6 0-4.9 0-5.3 Interspecific x 5.6 14.4 5.1 range 0-15.4 0.5-67.2 0-26.8 Species 67.1 81.2 24.5 resolution Or 92 100 33 PCR success rate 95% 75% 95% Introns 0 3 0 Gaps 0 258 150

  7. Taxon 3 genome 1 Taxon 2 DAOM235753 Taxon 4 DAOM 235795 Taxon 5 genome ** 3 species from 3 taxonomic sections of genus. Identical barcodes. Taxon 2 DAOM 235752 b1 Taxon 2 DAOM 235752 b5 Taxon 1 DAOM 235624 Taxon 1 DAOM 235800 Taxon 3 genome 2 Taxon 6 BBA 67786 Taxon 7 DAOM 235678 ** 55 Taxon 8 BBA 69792 ** Taxon 9 BBA 63606 ** Taxon 10 BBA 68459 ** Taxon 2 DAOM 235758 Taxon 1 DAOM 235624 i4b ** Taxon 11 BBA 64400 Taxon 12 BBA 64535 ** Taxon 13 DAOM 235643 ** 66 Taxon 14 DAOM 235647 i4b ** Taxon 1 DAOM 235621 i4b ** 80 Taxon 15 BBA 64798 ** Taxon 16 BBA 64465 Taxon 17 BBA 62149 ** Taxon 18 BBA 63784 i4b ** Taxon 18 BBA 63784 Taxon 19 BBA 71782 ** 2 species from 2 taxonomic sections of genus. Identical barcodes. Taxon 1 DAOM 235621 Taxon 20 DAOM 235731 ** 75 Taxon 21 DAOM 235651 ** 99 Taxon 2 DAOM 235753 b5 59 Taxon 1 DAOM 235621 seq2 59 Taxon 14 DAOM 235647 Outgroup 1 DAOM 2266670 Outgroup 2 DAOM 226847 Outgroup 3 DAOM 232048 Outgroup 4 DAOM 229273 ** Outgroup 5 DAOM 226707 Outgroup 6 DAOM 237735 62 99 Outgroup 7 LRC1370 Outgroup 7 DAOM 2335220 Outgroup 8 KAS 2832 0.02 R R F F F R

  8. F. oxysporum genome 1 F. circinatum DAOM235753 F. sacchari DAOM 235795 F. verticillioides genome ** 3 species from 3 taxonomic sections of Fusarium. Identical barcodes. F. circinatum DAOM 235752 b1 F. circinatum DAOM 235752 b5 F. graminearum DAOM 235624 F. graminearum DAOM 235800 F. oxysporum genome 2 F. equiseti BBA 67786 F. babinda DAOM 235678 ** 55 F. pallidoroseum BBA 69792 ** F. diversisporum BBA 63606 ** F. incarnatum BBA 68459 ** F. circinatum DAOM 235758 F. graminearum DAOM 235624 i4b ** F. coeruleum BBA 64400 F. flocciferum BBA 64535 ** F. graminum DAOM 235643 ** 66 F. dimerum DAOM 235647 i4b ** F. graminearum DAOM 235621 i4b ** 80 F. lateritium var. majus BBA 64798 ** F. torulosum BBA 64465 F. acuminatum BBA 62149 ** Fusarium sp. nov. BBA 63784 i4b ** Fusarium sp. nov. BBA 63784 F. avenaceum BBA 71782 ** 2 species from 2 taxonomic sections of Fusarium. Identical barcodes. F. graminearum DAOM 235621 F. polyphialidicum DAOM 235731 ** 75 F. solani DAOM 235651 ** 99 F. circinatum DAOM 235753 b5 59 F. graminearum DAOM 235621 seq2 59 F. dimerum DAOM 235647 Acremonium chrysogenum DAOM 2266670 Monocillium mucidum DAOM 226847 Hypocrea jecorina DAOM 232048 Lanatonectria flocculenta DAOM 229273 ** Emericellopsis minima DAOM 226707 Metarhizium anisopliae DAOM 237735 62 99 Beauveria bassiana LRC1370 Beauveria bassiana DAOM 2335220 Cylindrocarpon sp. KAS 2832 0.02 R R F F F R Neighbour joining analysis of Cox1 exon region between Fusarium intron 4b and end of barcode (439bp).

  9. FI3-F FI4b-F AHyFu-F 1 2 3 4 5 6 7 8 9 10 11 FI3-R AHyFu-R Hypocreales – Primer Design

  10. Acknowledgements • This work was funded by grants to the Canadian Barcode of Life Network by • The Natural Sciences and Engineering Research Council of Canada (NSERC) • Genome Canada

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