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OK so it’s a non-sporulating zygomycetous fungi, but which one?

The patient is not responding and the clinician needs a definitive species identification to optimize antifungal treatment.

For non-sporulating zygomycetous fungi, ITS sequencing is required for differentiation of species, and may be necessary to achieve identification in a timely manner (Alvarez et al. 2010, Walther et al. 2012, Halliday et al. 2015).

Here is your ITS gene partial sequence ready to perform a pairwise sequence alignment.

atggctatga ttctagtctt tgctctaaac aaaaactaga accatctctt atcctgtgca atgaatttgt cgcctggggt ttgaaaatag tctttgggcc ctctctttct tgggagcctt tagctgaccc caataggcat tctttattaa accacttttt tgtaactgaa aaaccaaatt tttttcttga tggatcttat cattgagaag tttaaccaaa tgggttgtat atattctagt atatacggct tgtttgaaaa acaactttta gcaatggatc tcttggttct cgcatcgatg aagaacgtag caaactgcga taagtagtgt gaattgcatt tagtgaatca tcgaatcttt gaacgcacct tgcactcact ggtattccgg tgagtacgcc tgtttcagta tcattgaaaa cacacaatca aaacatttct tttggtttga ttggctttgg gtctatcaaa aagtttggct tgtttcttac aagccaagcg gcctgaaata tattgtctgg ctaattgcat cgttgatgat cgctattaga ctttggcttt tttaaatgaa ctggaggttg attaaccagt tttagcttta gtcaaatggt cattgtaaaa aaaatctcga tcttggctag gtgtttatag ccgaaaattt ttttttggct ataaccgaaa ccaatataat cacatttagtt

Now copy the above sequence, go to one of the databases listed below and perform a search.

CBS Fungal Biodiversity Centre Link to external website
To perform a pairwise sequence alignment use the link provided, check the disclaimer box, paste the above sequence into the “align” box, hit the “start alignment" box.

GenBank Link to external website
To perform a pairwise sequence alignment use the link provided, select nucleotide blast, paste sequence into the “enter query sequence” box, select “Other” in the database section, hit the BLAST button.

Hopefully you will get the right answer.

References:

  1. Alvarez, E., A.M. Stchigel, J. Cano, et al. 2010. Molecular phylogenetic diversity of the emerging mucoralean fungus Apophysomyces: proposal of three new species. Revta Iberoam. Micol. 27: 80-89.
  2. Alvarez, E., D. Garcia-Hermoso, D.A. Sutton, et al. 2010. Molecular phylogeny and proposal of two new species of the emerging pathogenic fungus Saksenaea. J. Clin. Microbiol. 48: 4410-4416.
  3. Halliday, C., S.E. Kidd, T.C. Sorrell and S. C-A. Chen. 2015. Molecular diagnostic methods for invasive fungal disease: the horizon draws nearer? Pathology 47: 257-269.
  4. Walther, G., J. Pawlowska, A. Alastruey-Izquierd et al. 2012. DNA barcoding in Mucorales: an inventory of biodiversity. Persoonia 30: 11-47.
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