Tag: molecular labPage 1 of 2
The thalloid liverwort Aneura pinguis (L.) Dumort. (basionym Jungermannia pinguis L.) has been reported from a bewildering range of climates and habitats, from neotropical cloud forests to Scottish…
Following on from the rather unpredictable results we obtained from fragmenting duplicate aliquots of CTAB-extracted Polytrichum DNA in the Bioruptor, Isuru cleaned aliquots of IK31 and IK53 using…
When we’re working out a protocol or troubleshooting, we spend a lot of time quantifying small quantities of fluids, looking at DNA concentrations on the DeNovix, running tapes…
We started our lab work on the Polytrichum hybrid baits project on the 1st of October, by normalising some CTAB-extracted DNA with 0.1X TE to 55 µL of…
The current Next Gen Sequencing lab project at the Botanics involves looking at the phylogeny of Polytrichum section Polytrichum, using hybrid capture. The work will form part of…
After testing bead-to-sample ratios of 30:50, 35:50, 40:50, 50:50 and 60:50 on a Thermo Scientific™ GeneRuler™ 50 bp DNA Ladder, using Beckman Coulter AMPure XP beads, we focused…
When we made our Begonia libraries, working with (in some cases) relatively small quantities of very degraded DNA, we should have diluted the adaptors. We didn’t. Consequently, we…
For one of the taxa in our study set, Begonia scottii (living collection no. 20170076), we made a few replicate DNA extractions using Qiagen DNeasy plant mini-kits, and…
The set of DNA extractions from one of our test plants (#8, Begonia stictopoda RBGE accession 20170115) contained rather low concentrations of DNA. We decided against preparing NGS…
There’s an exciting project, The 10KP (10,000 Plants) Genome Sequencing Project, that aims to sequence and characterize representative genomes from every major clade of embryophytes, green algae, and…
Quality and quantity of DNA recovered from stored plant material is becoming more important as DNA sequencing technologies change from the relatively simple Sanger sequencing, to next generation…
Keen to see the effects of different specimen preservation techniques on DNA quantity and quality, we have assessed extractions of DNA from nine Begonia accessions x seven preservation…
In order to look at the effects of herbarium preservation methods on DNA quality, Hannah Wilson and Mark Hughes took a trip down to our research glasshouses, and…
When working out new protocols, it’s very useful to have a big stash of DNA to test them on. Just now, in a collaborative project with Dr Michelle…
Dr Des Callaghan spends rather a lot of his time chasing after rare things. He’s an environmental consultant with many strings to his bow, but a particular specialisation…
There are lots of different primers that sit in slightly different parts of the ITS locus, some forward and some reverse. There’s a very well-worn printout stored on…
The Science building at the Botanics closes down between Christmas and New Year, so any last bits of work for the year have to be packed up and…
Rapid developments in high-throughput sequencing platforms are providing a step change in the recoverability of DNA sequence data from natural history collections. Short-read massively parallel sequencers are intrinsically…
Looking at the capture plates from the two DNA extraction protocols that were tested on our QIAcube, it was fairly obvious that a lot more plant fragments and…
One of the amazing things about the polymerase chain reaction, PCR, is how little starting DNA is needed, with an exponential increase in the number of copies of…