PhotoSynLab

Handling sequence files

To merge (concatenate) individual sequence files into one file: cat *.seq > combined.seq To reverse complement the sequences: Save the code below as FileNameOfYourChoice.py from Bio.SeqRecord import SeqRecord def make_rc_record(record): “””Returns a new SeqRecord with the reverse complement sequence.””” return SeqRecord(seq = record.seq.reverse_complement(), \ id = “rc_” + record.id, \ description = “reverse complement”) from Bio import SeqIO # I…

Erland and Anne at SYNBIOSYS summer school

Erland and Anne attended the PhD summer school SYNthetic BIOlogy: From pro- to eukaryotic SYStems (SYNBIOSYS) at the Copenhagen Plant Science Center in Denmark. During this summer school, they discussed the idea of synthetic biology as a new approach to genetic research: using standardization, modularity and abstraction to create new biological systems. In order to combine the theoretical background with…

Visit to SB 7.0 in Singapore

Martin and Anne participated in the seventh internation meeting on synthetic biology (SB 7.0) in Singapore. Anne presented her poster ‘Streamlining recombination-mediated genetic engineering in Synechococcus sp. PCC 7002 by validating three neutral integration sites’ which is accessible via this link. A program of the meeting can be found here.

New paper published

Anne, Rahmi and Martin published a paper with the titel ‘Streamlining recombination-mediated genetic engineering by validating three neutral integration sites in Synechococcus sp. PCC 7002′. The paper is published in the Journal of Biological Engineering and it presents the results of their work on neutral integration sites in the cyanobacterium Synechococcus sp. PCC 7002. The open-access paper can be found…

Lab trip to Røros

This year, we decided to visit the beautiful city of Røros. We started with some sightseeing in the city centre, had a Norwegian lunch and then we visited the copper mine Olavsgruva to learn more about the mining history of Røros. We concluded the lab trip with a nice dinner at Skanckebua where we discussed future lab trips.

PhD Grand Prix

Anne participated in the PhD Grand Prix of the Faculty of Natural Science and she was awarded the second prize for her presentation on nanowire-mediated iron uptake. During this competition, PhD candidates had to present their research to a braod audience within 5 minutes. They were judged by a jury and by the audience. A video of my performance can…

Molecular tools – BT8105

PCR invention   Different types of DNA polymerases https://www.neb.com/tools-and-resources/selection-charts/dna-polymerase-selection-chart   Restriction Enzymes   Golden Gate cloning Gibson cloning   TALEN Methylation in Bacteria https://www.neb.com/tools-and-resources/selection-charts/dam-dcm-and-cpg-methylation   BioBricks   Biopython Bioperl   Bioconductor     DNA synthesis   from: http://synbiobeta.com/     Benchling   VisualBiologyLanguage (VisBOL) http://visbol.org   SBOL / PidgenCad http://pigeoncad.org/ http://sbolstandard.org/software/tools/   Databases of relevance: https://en.wikipedia.org/wiki/List_of_biological_databases   Resistance fusion genes…