Streicher Lab
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  • NGS Training
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  • Home
  • People
    • Principal Investigator - Jeff Streicher
    • Postdoctoral Researchers
    • Students
    • NHM Collaborators
  • Research
    • Ecological and Spatial Change
    • Evolution of Biodiversity
  • Publications
  • Data
    • DNA >
      • Genomes
      • RADseq + UCEs
      • Shotgun DNA
      • Sanger
    • Micro-CT
    • Other
  • NGS Training
  • News

NGS Training

Next-generation DNA sequencing (NGS) is an essential tool for understanding biodiversity.  

The training units below provide an introduction to short read NGS (a.k.a. 2nd generation sequencing) on Illumina® platforms + the bioinformatics pipelines used to process data. 

Prerequisites: Basic familiarity with the molecular laboratory (i.e. pipetting, DNA extraction, PCR) and command line utilities (i.e. Linux and MacOS ‘bash’ shells or Windows PuTTy command line).

Unit 1: Introduction to short read sequencing and library preparation

In this unit we will learn:
  • The basics of short read sequencing (Lecture)
  • To prepare raw Illumina data for downstream analyses (Bioinformatics Laboratory)
  • To make and use Serapure magnetic beads (Molecular Laboratory)

Unit 1 Lecture (personal use only):
NGS_Lecture_Unit_1_Sept_2021.pdf
File Size: 2772 kb
File Type: pdf
Download File

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NextSeq 500. Image courtesy of Illumina® 

Unit 2: Illumina libraries, de novo assembly and reference mapping

In this unit we will learn:
  • The basics of genome assembly and reference mapping (Lecture)
  • To assemble and map cleaned Illumina data (Bioinformatics Laboratory)
  • To construct NGS shotgun libraries (Molecular Laboratory)

Unit 2 Lecture (personal use only)
NGS_Lecture_Unit_2_Sept_2021.pdf
File Size: 2484 kb
File Type: pdf
Download File

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New England Bio Labs reagents at the NHM

Unit 3: Targeted sequence capture of ultraconserved elements (UCEs)

In this unit we will learn:
  • The basics and applications of UCEs (Lecture)
  • To analyse UCE data using phyluce (Bioinformatics Laboratory)
  • To perform targeted sequence capture (Molecular Laboratory)

Unit 3 Lecture (personal use only)
NGS_Lecture_Unit_3_Sept_2021.pdf
File Size: 3400 kb
File Type: pdf
Download File

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Post-capture UCE libraries at the NHM

​Unit 4: Double digest restriction-site associated DNA sequencing (ddRADseq)

In this unit we will learn:
  • The basics and applications of RADseq and ddRADseq (Lecture)
  • To analyse ddRADseq data using Stacks (Bioinformatics Laboratory)
  • To prepare ddRADseq libraries (Molecular Laboratory)

Unit 4 Lecture (personal use only):
NGS_Lecture_Unit_4_Sept_2021.pdf
File Size: 2573 kb
File Type: pdf
Download File

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DNA extractions for ddRADseq at the NHM

Unit 5: Museum genomics using archival DNA + Illumina library preps ​(Coming Soon!)

Science Group | Room DC1 209B, Darwin Centre | Natural History Museum | London | SW7 5BD 
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