Data from: Comparative analyses of clinical and environmental populations of Cryptococcus neoformans in Botswana

Chen Y, Litvintseva AP, Frazzitta AE, Haverkamp MR, Wang L, Fang C, Muthoga C, Mitchell TG, Perfect JR

Date Published: June 4, 2015

DOI: http://dx.doi.org/10.5061/dryad.tn28f

 

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Title Input file for Structure
Description Input file for Structure. 139 isolates in total without two VNII isolates.
Download Structure.input (136.9 Kb)
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Title Input file for SplitsTree
Description Input file for SplitsTree
Download SplitsTree.nex (1.046 Mb)
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Title Input file for SmartPCA
Description Input file for SmartPCA
Download SmartPCA.ped (145.3 Kb)
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Title Input file for MultiLoc
Description Input file for MultiLoc
Download Multiloc.mus (78.67 Kb)
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Title Input file for eBurst
Description Input file for eBurst
Download EBurst.csv (4.734 Kb)
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Title Concatenated fasta file
Description Concatenated fasta file of all isolates with 8 loci.
Download Concatenate.all.fas (779.0 Kb)
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Title Aligned fasta file of CAP59
Download CAP59.all.noRef.aln.fas (82.97 Kb)
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Title Aligned fasta file of GPD1
Download GPD1.all.noRef.aln.fas (82.55 Kb)
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Title Aligned fasta file of IGS1
Download IGS1.all.noRef.aln.fas (124.8 Kb)
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Title Aligned fasta file of LAC1
Download LAC1.all.noRef.aln.fas (98.91 Kb)
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Title Aligned fasta file of PLB1
Download PLB1.all.noRef.aln.fas (93.13 Kb)
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Title Aligned fasta file of SOD1
Download SOD1.all.noRef.aln.fas (89.88 Kb)
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Title Aligned fasta file of TEF1
Download TEF1.all.noRef.aln.fas (117.8 Kb)
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Title Aligned fasta file of URA5
Download URA5.all.noRef.aln.fas (107.5 Kb)
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Title PacBio CCS Reads
Description Pacbio CCS raw reads, barcode information and primer sequences were used in MLSTEZ for generating consensus sequences.
Download RawReads.zip (22.01 Mb)
Download README.txt (886 bytes)
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When using this data, please cite the original publication:

Chen Y, Litvintseva AP, Frazzitta AE, Haverkamp MR, Wang L, Fang C, Muthoga C, Mitchell TG, Perfect JR (2015) Comparative analyses of clinical and environmental populations of Cryptococcus neoformans in Botswana. Molecular Ecology 24(14): 3559–3571. http://dx.doi.org/10.1111/mec.13260

Additionally, please cite the Dryad data package:

Chen Y, Litvintseva AP, Frazzitta AE, Haverkamp MR, Wang L, Fang C, Muthoga C, Mitchell TG, Perfect JR (2015) Data from: Comparative analyses of clinical and environmental populations of Cryptococcus neoformans in Botswana. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.tn28f
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