Biodiversity Biobanking – a Handbook on Protocols and Practices

Carolina Corrales; Jonas J Astrin

doi:10.3897/ab.e101876

Monograph

Advanced Books
https://doi.org/10.3897/ab.e101876 (08 Mar 2023)

Other versions:

(Verbatim name)

(Catalog Number)

DES

Invalid DOI was provided, please try again

Book title
Preface
Acknowledgments
Contributors to the Handbook
List of abbreviations
Chapter 1. Biobank Management
- Introduction
- Development and update of the collection
- Collection backups
- Risk management
- Biosafety and biosecurity
- Quality management for repositories
Chapter 2. Metadata and Data Management
- Introduction
- Field labelling
Chapter 3. Field Collection
- Before going to the field
- Data collection and photographs
- Microorganisms
  - Protists
  - Microfungi and fungus-like forms
  - Plant-Pathogens
  - Microbiomes
- Macrofungi
- Lichens
- Benthic algae
- Plants
  - Living vegetative tissue sampling collection
  - Plant material collection for DNA banking and germplasm conservation
  - Pollen banking
  - Seed banking
- Animals
  - Livestock
  - Wildlife
- Gamete banking
  - Invertebrates
  - Vertebrates
- Parasites
  - Animal parasites
  - Plant parasites
- Environmental samples and community DNA
  - Aqueous samples
  - Sediments
  - Soil
  - Airborne samples
- Paleontological/archaeological remains
  - Permafrost-preserved samples
  - Temperate-preserved samples
  - Sedimentary ancient DNA (sedaDNA)
  - Palaeofaeces
  - Archaeobotanical remains
  - Historical museum samples
Chapter 4. Culture Preservation and Storage Methods
- Protists and microfungi
  - Preservation on liquid and solid media
  - Preservation in mineral oil
  - Preservation in water
  - Preservation in soil
  - Preservation in silica gel
  - Preservation on wood chips
  - Preservation on sterile cereal grains
  - Preservation on sterilised filter papers
  - Preservation on cotton cloth
  - Microbiomes
- Macrofungi
- Lichens
- Macroalgae
- Plants
  - Storage under dry and low temperature conditions
  - In vitro tissue culture techniques
  - Slow-growth preservation
  - Synthetic seed technology
- Animals
  - Invertebrate cultures
  - Animal cell cultures
- Environmental samples
  - Soil and Sediment
  - Water and air samples
- Palaeontological samples and human/archaeological remains
Chapter 5. Cryopreservation
- Introduction
- Microorganisms
  - Protists
  - Fungi and fungus-like organisms
- Lichens
- Benthic algae
- Plants
  - Cryopreservation of embryonic axes, shoot tips, axillary buds, somatic embryos, calluses, and suspension cultures
  - Cryopreservation of bryophytes and ferns
  - Cryopreservation of pollen
  - Cryopreservation of seeds
- Animals
  - Invertebrates
  - Vertebrates
- Environmental samples
Chapter 6. Freeze-drying or Lyophilisation
- Introduction
- Microorganisms and fungi
- Benthic algae and plants
- Animals
- Environmental samples
Chapter 7. Retrieval from Preservation and Viability Assessments
- Introduction
- Protists and fungi
- Lichens
- Benthic algae
- Plants
  - Fern spore viability assessment
  - Pollen viability assessment
  - Seed viability assessment
  - Cultured plant cell viability assessment
- Animals
  - Oocyte and somatic cell viability assessment
  - Sperm viability assessment
  - Environmental samples
Chapter 8. DNA
- Introduction
  - Recommendations for DNA handling
- Ancient DNA
  - Ancient DNA principles
- DNA extraction of fresh samples
  - Protists and microalgae
  - Microfungi
  - Macrofungi
  - Lichens
  - Benthic algae
  - Plants
  - Animals
  - Environmental DNA
- Storage
Chapter 9. High-Molecular-Weight DNA
- Introduction
Chapter 10. DNA Assessment
- Introduction
- DNA purity
- DNA quantification or concentration
- DNA integrity
Chapter 11. Genomic Characterisation
- Introduction
- Whole genome sequencing (WGS)
- Single Nucleotide Polymorphism (SNP) Arrays
- DNA barcoding
  - Protists and algae
  - Fungi
  - Plants
  - Animals
Chapter 12. Ethics
- Introduction
  - Illegal samples
  - Sample collection and engagement of local communities
  - Animal welfare
  - Archaeological and human remains
  - Sample disposal
References
ANNEX I
- Biodiversity and environmental biobanks and biobank networks
- References
ANNEX II
- Further reading and online resources
- Online resources

Subscribe to email alerts for current Article's categories