Fosmid DNA was purified using PureLink™ Quick Plasmid Miniprep Kit (Invitrogen, Carlsbad), according to the manufacturer’s protocol, and resuspended in a final volume of 75 μL. The DNA quality was verified by 2% agarose gel electrophoresis in 1× TAE buffer. The quantity and quality were analyzed by measuring absorbance 260 nm/280 nm in a Nanodrop™ ND-1000 (Thermo Scientific). The isolated DNA was sequenced by Ion Torrent (314 chip) (Life Technologies, Carlsbad) at the Huck Institutes of Life Sciences, Pennsylvania State University.
Ion torrent 314 chip
Manufactured by Thermo Fisher Scientific
Sourced in United States
The Ion Torrent 314 chip is a semiconductor-based DNA sequencing device designed for high-throughput genetic analysis. It utilizes the Ion Torrent sequencing technology to perform massively parallel sequencing of DNA samples. The core function of the Ion Torrent 314 chip is to enable rapid and accurate DNA sequencing for a variety of genomic applications.
Automatically generated - may contain errors
Lab products found in correlation
Ion torrent pgm semiconductor sequencer, by Thermo Fisher Scientific (3 mentions)
Ion onetouch 200 template kit, by Thermo Fisher Scientific (2 mentions)
Ion xpress plus fragment library kit, by Thermo Fisher Scientific (2 mentions)
Nanodrop nd 1000, by Thermo Fisher Scientific (1 mentions)
Purelink quick plasmid miniprep kit, by Thermo Fisher Scientific (1 mentions)
Agilent bioanalyzer dna 1000 chip, by Agilent Technologies (1 mentions)
Nanodrop bioanalyzer nd1000, by Thermo Fisher Scientific (1 mentions)
Ion xpress fragment library kit, by Thermo Fisher Scientific (1 mentions)
4 protocols using ion torrent 314 chip
1
Fosmid DNA Purification and Sequencing
2
Phage DNA Isolation and Ion Torrent Sequencing
Check if the same lab product or an alternative is used in the 5 most similar protocols
+ Expand
Genomic DNA was isolated from the propagated phages according to the procedure described by Kieser et al. [28 ]. DNA quality was assessed using a Nanodrop Bioanalyzer ND1000 (ThermoScientific). Sequencing libraries were prepared by shearing 1 μg of DNA in blunt-ended fragments by linking the Ion adapters using an Ion XpressTM Plus Fragment Library Kit (Life Technologies, Carlsbad, USA) according to the manufacturer’s specifications. The sized and ligated fragments were amplified by emulsion-PCR using the Ion OneTouch 200 Template kit (Life Technologies, Carlsbad, USA). Quality and insert size distribution were assessed using an Agilent Bioanalyzer DNA 1000 chip. Libraries were sequenced on an Ion Torrent PGM semiconductor sequencer (Life Technologies, Carlsbad, USA) using the 200 bp protocol and an Ion Torrent 314 chip following the manufacturer instructions (Life Technologies, Carlsbad, USA).
3
Ion Torrent Phage DNA Sequencing
Check if the same lab product or an alternative is used in the 5 most similar protocols
+ Expand
Phage DNA has been sequenced with an Ion Torrent PGM semiconductor sequencer (Life Technologies, Carlsbad, USA) using the 200 bp protocol. An Ion Torrent 314 chip has been used following the manufacturer instructions (Life Technologies, Carlsbad, USA). Genomic library has been obtained by shearing 1 μg of DNA in blunt-ended fragments followed by linking the Ion Adapters using the protocol included in the Ion Xpress™ Plus Fragment Library Kit (Life Technologies, Carlsbad, USA). The sized and ligated fragments have been amplified by emulsion-PCR using the Ion OneTouch 200 Template kit and instruments (Life Technologies, Carlsbad, USA).
4
Genomic DNA Extraction and Ion Torrent Sequencing
Check if the same lab product or an alternative is used in the 5 most similar protocols
+ Expand
Genomic DNA was extracted from the bacteriophages, as described by Irshad, Waqas & Saadia (2012) (link), with minor adjustments. The purity and concentration of the DNA was evaluated using a Nanodrop Bioanalyzer N1000 (Thermo Scientific, Waltham, MA, USA). In addition, sequencing libraries were prepared by shearing 1 µg of the phage DNA, to generate blunt-ended fragments, after which the Ion adapters were linked using an Ion Xpress™ Fragment Library Kit (Life Technologies, Carlsbad, CA, USA), in accordance with the manufacturer’s instructions. The produced fragments were amplified employing the Ion OneTouch 200 Template kit (Life Technologies, Carlsbad, CA, USA). Furthermore, libraries were sequenced on an Ion Torrent PGM semiconductor sequencer using the Ion Torrent 314 chip, by applying the standard protocol (Life Technologies, Carlsbad, CA, USA).
About PubCompare
Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.
We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.
However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.
Ready to get started?
Sign up for free.
Registration takes 20 seconds.
Available from any computer
No download required
Revolutionizing how scientists
search and build protocols!