Supplemental data sets for Raudabaugh et al., Where are they hiding? Testing the body snatchers hypothesis in pyrophilous fungi

Dataset

Description

The data set contains Supplemental data sets for the Manuscript entitled "Where are they hiding? Testing the body snatchers hypothesis in pyrophilous fungi."

Environmental sampling: Amplification of nuclear DNA regions (ITS1 and ITS2) were completed using the Fluidigm Access Array and the resulting amplicons were sequenced on an Illumina MiSeq v2 platform runs using rapid 2 × 250 nt paired-end reads. Illumina sequencing run amplicons that were size selected into <500nt and >500nt sub-pools, then remixed together <500nt: >500nt by nM concentration in a 1x:3x proportion. All amplification and sequencing steps were performed at the Roy J. Carver Biotechnology Center at the University of Illinois Urbana-Champaign.

ITS1 region primers consisted of ITS1F (5'-CTTGGTCATTTAGAGGAAGTAA-'3) and ITS2 (5'-GCTGCGTTCTTCATCGATGC-'3).
ITS2 region primers consisted of fITS7 (5'-GTGARTCATCGAATCTTTG-'3) and ITS4 (5'-TCCTCCGCTTATTGATATGC-'3).

Supplemental files 1 through 5 contain the raw data files.
Supplemental 1 is the ITS1 Illumina MiSeq forward reads and Supplemental 2 is the corresponding index files.
Supplemental 3 is the ITS2 Illumina MiSeq forward reads and Supplemental 4 is the corresponding index files.
Supplemental 5 is the map file needed to process the forward reads and index files in QIIME.


Supplemental 6 and 7 contain the resulting QIIME 1.9.1. OTU tables along with UNITE, NCBI, and CONSTAX taxonomic assignments in addition to the representative OTU sequence.

Numeric samples within the OTU tables correspond to the following:
1 Brachythecium sp.
2 Usnea cornuta
3 Dicranum sp.
4 Leucodon julaceus
5 Lobaria quercizans
6 Rhizomnium sp.
7 Dicranum sp.
8 Thuidium delicatulum
9 Myelochroa aurulenta
10 Atrichum angustatum
11 Dicranum sp.
12 Hypnum sp.
13 Atrichum angustatum
14 Hypnum sp.
15 Thuidium delicatulum
16 Leucobryum sp.
17 Polytrichum commune
18 Atrichum angustatum
19 Atrichum angustatum
20 Atrichum crispulum
21 Bryaceae
22 Leucobryum sp.
23 Conocephalum conicum
24 Climacium americanum
25 Atrichum angustatum
26 Huperzia serrata
27 Polytrichum commune
28 Diphasiastrum sp.
29 Anomodon attenuatus
30 Bryoandersonia sp.
31 Polytrichum commune
32 Thuidium delicatulum
33 Brachythecium sp.
34 Leucobryum glaucum
35 Bryoandersonia sp.
36 Anomodon attenuatus
37 Pohlia sp.
38 Cinclidium sp.
39 Hylocomium splendens
40 Polytrichum commune
41 negative control
42 Soil
43 Soil
44 Soil
45 Soil
46 Soil
47 Soil

If a sample number is not present within the OTU table; either no sequences were obtained or no sequences passed the quality filtering step in QIIME.

Supplemental 8 contains the Summary of unique species per location.
Date made availableJun 12 2019
PublisherUniversity of Illinois at Urbana-Champaign

Cite this

Miller, A. N. (Creator), Raudabaugh, D. (Creator) (Jun 12 2019). Supplemental data sets for Raudabaugh et al., Where are they hiding? Testing the body snatchers hypothesis in pyrophilous fungi. University of Illinois at Urbana-Champaign. 10.13012/B2IDB-1530363_V1