Sample collection and eDNA extraction from Sterivex filter units v1

Mapping Intimacies ◽

10.17504/protocols.io.bwaspaee ◽

2021 ◽

Author(s):

Oscar E Chiang ◽

Pedro Inostroza

Keyword(s):

Dna Extraction ◽

Environmental Samples ◽

Dna Analysis ◽

Water Systems ◽

Sample Collection ◽

Extraction Protocol ◽

Water Collection ◽

Sterile Filter

The following workflow covers several steps in the DNA analysis of environmental samples, from the water collection to the analysis back in the lab. The samples can be taken from several water systems (i.e. sea, lakes, rivers, streams) and collected in triplicate (1 L) in Sterivex sterile filter units (Merck, cat. no. SVGP01050). The DNA extraction protocol modifies the Dneasy PowerWater Sterivex kit (Qiagen, cat. no. 14600-50-nf).

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Extracting DNA from submerged pine wood

Genome ◽

10.1139/g04-045 ◽

2004 ◽

Vol 47 (5) ◽

pp. 994-997 ◽

Cited By ~ 10

Author(s):

M Megan Reynolds ◽

Claire G Williams

Keyword(s):

Dna Extraction ◽

Dna Analysis ◽

Pcr Amplification ◽

Pinus Palustris ◽

Proteinase K ◽

High Molecular Weight Dna ◽

Bisphosphate Carboxylase ◽

Extraction Protocol ◽

High Sequence Homology ◽

Reaction Sequencing

A DNA extraction protocol for submerged pine logs was developed with the following properties: (i) high molecular weight DNA, (ii) PCR amplification of chloroplast and nuclear sequences, and (iii) high sequence homology to voucher pine specimens. The DNA extraction protocol was modified from a cetyltrimehtylammonium bromide (CTAB) protocol by adding stringent electrophoretic purification, proteinase K, RNAse, polyvinyl pyrrolidone (PVP), and Gene Releaser®. Chloroplast rbcL (ribulose-1,5-bisphosphate carboxylase) could be amplified. Nuclear ribosomal sequences had >95% homology to Pinus taeda and Pinus palustris. Microsatellite polymorphism for PtTX2082 matched 2 of 14 known P. taeda alleles. Our results show DNA analysis for submerged conifer wood is feasible.Key words: conifers, wood, polymerase chain reaction, sequencing.

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DNA Analysis Using Noninvasive Samples: Methods of Sample Collection, DNA Extraction, PCR Amplification and Kinship Analysis

Primate Research ◽

10.2354/psj.31.007 ◽

2015 ◽

Vol 31 (1) ◽

pp. 3-18 ◽

Cited By ~ 2

Author(s):

Eiji INOUE

Keyword(s):

Dna Extraction ◽

Dna Analysis ◽

Pcr Amplification ◽

Sample Collection ◽

Kinship Analysis ◽

Noninvasive Samples

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Integrated DNA Extraction Protocol to Avoid PCR-Inhibitors from Fecal and Environmental Samples for Next-Generation Sequencing

Biomedical Journal of Scientific & Technical Research ◽

10.26717/bjstr.2021.37.006014 ◽

2021 ◽

Vol 37 (3) ◽

Author(s):

Ricardo A González-Sánchez

Keyword(s):

Next Generation Sequencing ◽

Dna Extraction ◽

Environmental Samples ◽

Next Generation ◽

Pcr Inhibitors ◽

Extraction Protocol ◽

Generation Sequencing

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DNA extraction

10.1093/oso/9780198767220.003.0005 ◽

2018 ◽

Author(s):

Pierre Taberlet ◽

Aurélie Bonin ◽

Lucie Zinger ◽

Eric Coissac

Keyword(s):

Dna Extraction ◽

Phosphate Buffer ◽

Environmental Samples ◽

Soil Samples ◽

Mobile Laboratory ◽

Extraction Protocol ◽

Soil Sediment ◽

Total Dna ◽

Practical Constraints ◽

Detailed Protocol

Chapter 5 “DNA extraction” focuses on the particularities and practical constraints associated with the isolation of eDNA from environmental samples. The extraction protocol is indeed crucial in eDNA studies, as it will determine whether extracellular, intracellular, or total DNA is targeted. Chapter 5 describes the main advantages and limitations of the most popular extraction kits aimed at obtaining DNA from soil, sediment, litter, feces, or water. It provides a detailed protocol for DNA extraction from soil samples using a saturated phosphate buffer. This protocol has been optimized for an easy implementation in the field using a mobile laboratory, so the material and consumables necessary are also listed.

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OPTIMATION OF DNA EXTRACTION PROTOCOL OF Elaeidobius kamerunicus

Jurnal Penelitian Kelapa Sawit ◽

10.22302/10.22302/iopri.jur.jpks.v24i2.10 ◽

2018 ◽

Vol 24 (2) ◽

pp. 77-86

Author(s):

Sri Wening ◽

Agus Eko Prasetyo ◽

Tjut Ahmad Perdana Rozziansha ◽

Agus Susanto

Keyword(s):

Dna Fingerprinting ◽

Dna Extraction ◽

Oil Palm ◽

Fruit Set ◽

Fragment Length Polymorphism ◽

Basic Knowledge ◽

Biological Study ◽

Palm Fruit ◽

Extraction Protocol ◽

Elaeidobius Kamerunicus

African pollination weevil (Elaeidobius kamerunicus Faust) has an important role in the productivity of Indonesian oil palm plantation. Up to now, there has not been a comprehensive biological study of the species at molecular level. The basic knowledge is very useful for exploitation of the weevil for effective oil palm fruit set development. This research aimed to obtain DNA extraction protocol of E. kamerunicus for DNA fingerprinting of the species. Results showed that using a DNA extraction kit,material disruption by using micro pestle resulted the highest quantity of DNA, while there were no significant differences of resulted DNA quantity among treatments using tissue lyser for material disruption. DNA extracted by using micro pestle or tissue lyser for material disruption is adequate for DNA fingerprinting using AFLP (Amplified Fragment Length Polymorphism) and sequencing techniques.

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