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Literature

 
 
Please find below a selection of scientific peer reviewed papers where the next generation sequencing department of Microsynth has been involved.

Targeted Sequencing

Amplicon Metagenomics
 
2019
  • Matthias T. BuhmannDominik AbtOliver NolteThomas R. NeuSebastian StrempelWerner C. AlbrichPatrick BetschartValentin ZumsteinAntonia NeelsKatharina Maniura-Weber, Qun Ren (2019) Encrustations on ureteral stents from patients without urinary tract infection reveal distinct urotypes and a low bacterial load. Microbiome 7:60, https://doi.org/10.1186/s40168-019-0674-x
2017
  • Petri RM, Pourazad P, Khiaosa-ard R, Klevenhusen F, Metzler-Zebeli BU, Zebeli Q (2017) Temporal dynamics of in-situ fiber-adherent bacterial community under ruminal acidotic conditions determined by 16S rRNA gene profiling. PLoS ONE 12(8): e0182271. https://doi.org/10.1371/journal.pone.0182271
  • Schären, M. et al., Differential effects of monensin and a blend of essential oils on rumen microbiota composition of transition dairy cows, Journal of Dairy Science , Volume 100 , Issue 4 , 2765 - 2783
  • Schären M, Kiri K, Riede S, Gardener M, Meyer U, Hummel J, Urich T, Breves G and Dänicke S (2017) Alterations in the Rumen Liquid-, Particle- and Epithelium-Associated Microbiota of Dairy Cows during the Transition from a Silage- and Concentrate-Based Ration to Pasture in Spring.
    Front. Microbiol. 8:744. doi: 10.3389/fmicb.2017.00744
2015
  • Wilkins, L. G. E. et al. Increased diversity of egg-associated bacteria on brown trout (Salmo trutta) at elevated temperatures. Sci. Rep. 5, 17084; doi: 10.1038/srep17084 (2015).
CRISPR/Cas9
 
2016
  • Cross, B. C. S. et al. Increasing the performance of pooled CRISPR–Cas9 drop-out screening. Sci. Rep. 6, 31782; doi: 10.1038/srep31782 (2016).
2015
  • Ulrike Mock, Rafał Machowicz, Ilona Hauber, Stefan Horn, Pierre Abramowski, Belinda Berdien, Joachim Hauber, Boris Fehse; mRNA transfection of a novel TAL effector nuclease (TALEN) facilitates efficient knockout of HIV co-receptor CCR5, Nucleic Acids Research, Volume 43, Issue 11, 23 June 2015, Pages 5560–5571, https://doi.org/10.1093/nar/gkv469

Transcriptome Sequencing

Reference Transcriptome
 
2017
  • Neves, R.C., Guimaraes, J.C., Strempel, S. et al., Transcriptome profiling of Symbion pandora (phylum Cycliophora): insights from a differential gene expression analysis, Org Divers Evol (2017) 17: 111. https://doi.org/10.1007/s13127-016-0315-1
RNA Seq
 
2016
2015
  • Sandrine Borgeaud, Lisa C. Metzger, Tiziana Scrignari, Melanie Blokesch, The type VI secretion system of Vibrio cholerae fosters horizontal gene transfer, Science 02 Jan 2015: Vol. 347, Issue 6217, pp. 63-67. DOI: 10.1126/science.1260064
Small RNA Seq
 
2018
  • Bhupesh K. Prusty, Nitish Gulve, Suvagata Roy Chowdhury, Michael Schuster, Sebastian Strempel, Vincent Descamps, Thomas Rudel (2018) HHV-6 encoded small non-coding RNAs define an intermediate and early stage in viral reactivation, npj Genomic Medicine 3:25, https://www.nature.com/articles/s41525-018-0064-5

Genome Sequencing

2015
  • Grass, R. N., Heckel, R., Puddu, M., Paunescu, D. and Stark, W. J. (2015), Robust Chemical Preservation of Digital Information on DNA in Silica with Error-Correcting Codes. Angew. Chem. Int. Ed., 54: 2552–2555. doi:10.1002/anie.201411378