Assemble and refine the genome of your favorite organism, whether it’s a bacterial strain or a plant. Using a comparable bioinformatic approach, we can also reconstruct the genomes of entire microbial communities from environmental and biological samples.

Past projects:

  • Large genome comparison to develop a trait-based workflow for the prediction of bacterial functional and interaction traits (Zoccarato et al., 2022).
  • Combining Nanopore sequencing, metabolic reconstruction, and phenotypic assays to investigate chromids and plasmids in sibling strains (ongoing project).
  • Data mining of metagenomes and metatranscriptomes of sponge microbiomes (Britstein, Zoccarato et al., 2017; Britstein et al., 2020), giant polyploid bacteria (Ionescu, Zoccarato et al., 2020) and rivers (Fasching, Zoccarato et al., 2020).

What we will do for you:

  • Quality control to filter out low-quality sequences, accompanied by detailed reports and statistics.
  • Assembly high-quality reads using an ensemble approach and error-correction polishing.
  • Binning and deduplication (removing overlaps and haplotigs) of contigs.
  • Generation of draft-genomes along with key quality metrics and statistics.
  • [Optional] Functional and taxonomic classification of genomes using standard and/or custom-designed databases, as well as RNAseq.
  • Consultation for exploratory and down-stream analysis.