English
 
User Manual Privacy Policy Disclaimer Contact us
  Advanced SearchBrowse

Item

ITEM ACTIONSEXPORT
  Comparison of target enrichment strategies for ancient pathogen DNA

Furtwängler, A., Neukamm, J., Böhme, L., Reiter, E., Vollstedt, M., Arora, N., et al. (2020). Comparison of target enrichment strategies for ancient pathogen DNA. Biotechniques, 69(6), 455-459. doi:10.2144/btn-2020-0100.

Item is

Basic

show hide
Item Permalink: http://hdl.handle.net/21.11116/0000-0007-A5F0-F Version Permalink: http://hdl.handle.net/21.11116/0000-0007-A5F1-E
Genre: Journal Article

Files

show Files
hide Files
:
shh2799.pdf (Publisher version), 553KB
Name:
shh2799.pdf
Description:
OA
Visibility:
Public
MIME-Type / Checksum:
application/pdf / [MD5]
Technical Metadata:
Copyright Date:
-
Copyright Info:
-

Locators

show
hide
Locator:
Supplementary Note 1-3, Supplementary Table 1, 4, 6, 7 (Supplementary material)
Description:
Supplementary Note 1: Laboratory workflow ; Supplementary Note 2: Bioinformatics and Statistical Analysis ; Supplementary Note 3: Results of the Bioinformatics and Statistical Analysis ; Supplementary Table 1: List of all samples used in this study group according to organism and age together with the original publications ; Supplementary Table 4: Comparison of the specific reads of the three tested protocols ; Supplementary Table 6: Comparison of the variance within each method tested ; Supplementary Table 7: Comparison of the costs per reaction. - (last seen: Jan. 2021)

Creators

show
hide
 Creators:
Furtwängler, Anja1, Author
Neukamm, Judith, Author
Böhme, Lisa, Author
Reiter, Ella, Author
Vollstedt, Melanie, Author
Arora, Natasha, Author
Singh, Pushpendra, Author
Cole, Stewart T, Author
Knauf, Sascha, Author
Calvignac-Spencer, Sébastien, Author
Krause-Kyora, Ben2, Author              
Krause, Johannes1, 2, Author              
Schuenemann, Verena J, Author
Herbig, Alexander2, Author              
Affiliations:
1MHAAM, Max Planck Institute for the Science of Human History, Max Planck Society, ou_2541699              
2Archaeogenetics, Max Planck Institute for the Science of Human History, Max Planck Society, ou_2074310              

Content

show
hide
Free keywords: ancient DNA, high-throughput sequencing, hybridization capture, Mycobacterium leprae, pathogen DNA, target enrichment, Treponema pallidum
 Abstract: In ancient DNA research, the degraded nature of the samples generally results in poor yields of highly fragmented DNA; targeted DNA enrichment is thus required to maximize research outcomes. The three commonly used methods ? array-based hybridization capture and in-solution capture using either RNA or DNA baits ? have different characteristics that may influence the capture efficiency, specificity and reproducibility. Here we compare their performance in enriching pathogen DNA of Mycobacterium leprae and Treponema pallidum from 11 ancient and 19 modern samples. We find that in-solution approaches are the most effective method in ancient and modern samples of both pathogens and that RNA baits usually perform better than DNA baits.

Details

show
hide
Language(s): eng - English
 Dates: 2020-11-022020-12
 Publication Status: Published in print
 Pages: 6
 Publishing info: -
 Table of Contents: -
 Rev. Type: Peer
 Identifiers: DOI: 10.2144/btn-2020-0100
Other: shh2799
 Degree: -

Event

show

Legal Case

show

Project information

show

Source 1

show
hide
Title: Biotechniques
  Other : Biotechniques
Source Genre: Journal
 Creator(s):
Affiliations:
Publ. Info: [Natick, MA : Eaton Pub. Co.
Pages: - Volume / Issue: 69 (6) Sequence Number: - Start / End Page: 455 - 459 Identifier: ISSN: 0736-6205
CoNE: https://pure.mpg.de/cone/journals/resource/954925536105