Laragen's MiSeq NextGen Sequencing services

Small Genome Sequencing – De novo Assembly

MiSeq small genome de novo assembly sequencing is suitable for small genomes (less than 10 Mb), such as bacteria and viruses.

The potential applications include microbial or viral genomes, microbial or viral exomes, BAC/YAC screening, detecting recombination events and non-model organisms.

MiSeq De Novo Assembly Sequencing will create reference sequence contigs in FASTA format from a novel microorganism and also make direct comparisons between known microorganisms and sub-strains.

Small Genome Sequencing – Whole Genome Resequencing

MiSeq small genome whole genome resequencing completes sequencing of small genomes (less than 250 Mb) with a known reference sequences. A limited list of such genomes includes Drosophila melanogaster (~120 Mb), Arabidopsis thaliana (~115 Mb), Caenorhabditis elegans (100 Mb), Fungi (~30 Mb), Yeast (-12Mb), Bacteria (0.5 to 10 Mb), Viruses (3kb to 1.4 Mb).

The potential applications include determine SNP and short indel and discover recombination events.

MiSeq small genome whole genome resequencing generates bam files and vcf files.

Targeted Resequencing – TruSeq Amplicon

MiSeq TruSeq Amplicon resequencing selects DNA regions of interest via extension-ligation, which is suitable for tens to hundreds of targets. The oligos are designed via Illumina DesignStudio. MiSeq uses manifest file created by DesignStudio to align the regions targeted. There are two types of TruSeq Amplicon sequencing:

  • TruSeq Custom Amplicon (TSCA)
  • TruSeq Amplicon Cancer Panel (TSACP)

The potential applications include variant discovery, validation and screening.

MiSeq TruSeq Amplicon resequencing determine SNPs and short indels and focuses on a subset of the genome (12 – 650 kb, 48 to 1536 amplicons).

96 samples with 58 amplicons each ~ 7000x coverage
24 samples with 1536 amplicons each ~ 500x coverage
96 samples with 1536 amplicons each ~ 130x coverage

Targeted Resequencing – PCR Amplicon Nextera XT

The optimal PCR amplicons for MiSeq PCR amplicons Nextera XT sequencing is > 2000 bp in length.
The minimal PCR amplicons should be > 400 bp in length. Nextera XT only requires 1 ng DNA.

The potential MiSeq PCR amplicons Nextera XT sequencing applications includes:

  • Non-model population genetics
  • Viral load/identity in blood serum
  • High throughput drug screening
  • Knockout screening
  • FFPE or fresh frozen tissue tumor normal comparisons
  • High sample volume genotyping

Targeted Resequencing – Clone Checking

MiSeq Target Resequencing can be used to check plasmid and vector sequences, either from PCR products and plasmid DNA.

The potential MiSeq Clone checking applications includes:

  • Mutagenesis
  • Vector/plasmid inserts
  • Transfect ion/infection checking

Targeted Resequencing – 16S rRNA Metagenomics

MiSeq 16S rRNA metagenomics use the 16S rRNA sequence to study population genetics from environmental samples.

The potential MiSeq 16S rRNA Metagenomics applications include:

  • Bacterial population genetics
  • Environmental testing
  • Animal testing

MiSeq 16S rRNA metagenomics generates a classification of sequencing reads at several taxonomic levels, including Kingdom, Phylum, Class, Order, Family and Genus.

Small RNA sequencing

MiSeq Small RNA sequencing start from total RNA or purified small RNA and sequence post-Dicer/Drosha processed miRNA.

The potential MiSeq small RNA sequencing applications include:

  • Small RNA abundance/discovery
  • Gene regulation
  • Drug efficacy/effect screening

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Laragen, Inc
10601 Virginia Ave, Culver City, CA90232