Mucoromycotina species small subunit ribosomal RNA gene, partial sequence

The dataset contains partial sequence of Mucoromycotina species (liverwort) isolates containing Eukaryota, fungi, Incertae sedis and Mucoromycota analyising for ribosomal RNA genes.

This data is NERC-funded but not held by the EIDC. This data is archived in NCBI Nucleotide Accession Numbers:
MH174461-MH174649 (Mucoromycotina species Isolate)

PopSet: https://www.ncbi.nlm.nih.gov/popset/1375517771

Publication date: 2020-11-23

Get the data

This record describes NERC-funded data managed by NCBI (GenBank) To access the data visit https://www.ncbi.nlm.nih.gov/popset/1375517771

Provenance & quality

Liverwort sections were used for sequencing the 18S ribosomal RNA gene of Mucoromycotina fungi. Genomic DNA extraction was performed using chloroform extraction and the GeneClean II kit. After extraction, fungal DNA was amplified using the universal fungal primers NS1 and JumpStart (Sigma) Following PCR, products were cloned with the Invitrogen TOPO TA Cloning Kit. We re-amplified DNA from between four and eight E. coli colonies per sample
The products of this second PCR were prepared for sequencing using ExoSAP-IT and BigDye v. 3.1 with the NS1 primer. For sequencing, an ABI3730 genetic analyzer was used. The NCBI BLAST was used to assign DNA sequences (ca. 600 bp) to subphyla, and those found to be Mucoromycotina were further sequenced using the primers NS3 and NS5. Sequences (ca. 1600 bp) were edited and assembled into contigs using Geneious v. 7. In cases where more than one clone from a sample was identified as Mucoromycotina, the sequences were aligned, and if they shared a pairwise similarity of more than 98%, then only one was selected for full sequencing of the 18S gene.

Supplemental information

This dataset is referenced in:

Rimington, W.R., Pressel, S., Duckett, J.G. et al. Evolution and networks in ancient and widespread symbioses between Mucoromycotina and liverworts. Mycorrhiza 29, 551–565 (2019)

Correspondence/contact details

Katie Field
University of Sheffield
 K.J.Field@sheffield.ac.uk

Authors

Rimington, W.R.
Imperial College London
Pressel, S.
Natural History Museum, London
Duckett, J.G.
Natural History Museum, London
Field, K.J.
University of Leeds
Bidartondo, M.I.
Imperial College London

Other contacts

Custodian
Publisher

Additional metadata

Topic categories
Biota
Keywords
Mucoromycotina
INSPIRE Theme
Environmental Monitoring Facilities
Funding
Natural Environment Research Council
Last updated
22 September 2021 11:40