Truseq dna pcr free library prep

Manufactured by Illumina

Sourced in United States

The TruSeq DNA PCR-Free Library Prep is a lab equipment product designed for DNA library preparation. It is a sample preparation kit that enables DNA library construction without the need for PCR amplification.

Automatically generated - may contain errors

Lab products found in correlation

Novaseq 6000 sequencer, by Illumina (2 mentions) Bioanalyzer, by Agilent Technologies (2 mentions) Hiseq 4000, by Illumina (2 mentions) Picogreen dsdna assay, by Thermo Fisher Scientific (1 mentions) Dneasy plant mini kit, by Qiagen (1 mentions) Nextseq 550, by Illumina (1 mentions) Hiseq 2500, by Illumina (1 mentions) Truseq dna pcr free library preparation kit, by Illumina (1 mentions) M220 focused ultrasonicator, by Covaris (1 mentions) Hiseq 4000 platform, by Illumina (1 mentions) Kapa library quantification kit for sequencing platforms, by Illumina (1 mentions)

Spelling variants of this product

TruSeq DNA PCR-Free Library Prep Kit (79 citations) TruSeq PCR (39 citations) TruSeq DNA PCR-Free (27 citations) TruSeq PCR-free DNA library (19 citations) TruSeq DNA PCR (18 citations) TruSeq DNA PCR-Free High Throughput Library Prep Kit (13 citations) TruSeq DNA PCR-Free LT Library Prep Kit (9 citations) TruSeq DNA PCR-Free HT Library Prep Kit (7 citations) TruSeq DNA PCR-Free Low Throughput Library Prep Kit (6 citations) TruSeq DNA PCR-Free Library Prep Protocol (2 citations)

6 protocols using truseq dna pcr free library prep

Genomic DNA Extraction and Microsatellite Development

Cited 1 time

Check if the same lab product or an alternative is used in the 5 most similar protocols

After extracting the genomic DNA of P. fuscipes and A. curtula, we checked the quality of DNA by 1% agarose gel electrophoresis and PicoGreen^® dsDNA Assay (Invitrogen). DNA library was prepared according to Illumina Truseq DNA PCR-Free Library prep protocol. The quality of the libraries was verified by capillary electrophoresis (Bioanalyzer, Agilent). The library was clustered on the Illumina cBOT station and sequenced paired end for 101 cycles on the Novaseq 6000 sequencer according to the Illumina cluster and sequencing protocols.
Appropriate microsatellite loci from the genome sequence were searched using the QDD program (Meglécz et al. 2010 (link)), and flanking primer sets were also detected. Appropriate primer sequences were selected with high effective diversity according to the microsatellite development workflow (Lepais et al. 2020 (link)).

Choi Y., Yi J., Lee C.J., Kim J.W., Jeon M.J., Park J.S, & Cho S.J. (2022). Development of markers using microsatellite loci of two rove beetle species, Paederus fuscipes Curtis and Aleochara (Aleochara) curtula Goeze (Coleoptera: Staphylinidae), followed by analyses of genetic diversity and population structure. Genes & Genomics, 44(12), 1471-1476.

+ Open protocol

+ Expand

Whole Genome Sequencing of Maize Aneuploids

Cited 1 time

Check if the same lab product or an alternative is used in the 5 most similar protocols

DNA was extracted using DNeasy Plant Mini Kit (QIAGEN). Libraries were prepared according to TruSeq DNA PCR-Free Library Prep (Illumina). DNA samples isolated from one tetrasomic Dp4 and its diploid sibling were sequenced on a NextSeq High Output Flow Cell - SE75 (Illumina) at the DNA core of University of Missouri. DNA samples extracted from a trisomic 10L18, 6Sa, and their respective diploid sibling were subjected to the same procedure. Adaptor trimming and low-quality read removal were performed the same as in the mRNA-seq data process. Then the remaining DNA reads were aligned to the maize reference genome W22v2 along with the maize chloroplast and mitochondrial genome using Bowtie 2 with default parameters (Langmead and Salzberg, 2012 (link)). Uniquely mapped read counts were extracted and then subjected to Reads Per Kilobase per Million mapped reads (RPKM) normalization. Subsequently, ratios of normalized counts of tetrasomic Dp4 to diploid were generated on a per gene basis, which was used for determination of Dp4 breakpoints later (Supplemental Figure S14A). Ratios of normalized counts of trisomic 10L or 6S to the diploid were computed to determine the breakpoint of TB-10L18 and TB-6Sa (Supplemental Figure S14). Breakpoints of other distal aneuploids were determined as described in the companion study (Yang et al., 2021 ).

Shi X., Yang H., Chen C., Hou J., Hanson K.M., Albert P.S., Ji T., Cheng J, & Birchler J.A. (2021). Genomic imbalance determines positive and negative modulation of gene expression in diploid maize. The Plant Cell, 33(4), 917-939.

+ Open protocol

+ Expand

Whole Genome Sequencing of Trios

Check if the same lab product or an alternative is used in the 5 most similar protocols

Detailed methods are found in online supplementary material 1. Briefly, DNA was extracted using Chemagic-STAR (Hamilton, USA). Whole genome gDNA libraries were prepared using TruSeq DNA PCR-Free Library Prep (Illumina, USA) following manufacturer’s advice starting with 1 μg of sheared gDNA. Parental samples were pooled at equimolar concentrations and sequenced on Illumina NextSeq 550 High-Output Mode (29 hours). Patient samples were sequenced on Illumina HighSeq 2500 Dual Flow Cell, Rapid Run Mode (27 hours) except for patient samples from the last two trios, which were sequenced on NextSeq 550 High-Throughput Mode (29 hours). Mapping and variant calling were performed using a Genalice appliance running Genalice Map 2.5.5 including Mapping, Variant Calling and the Population Calling module for trio analysis (Genalice Core BV, Netherlands). Genalice default configuration files were used for WGS mapping and trio variant detection.

Mestek-Boukhibar L., Clement E., Jones W.D., Drury S., Ocaka L., Gagunashvili A., Le Quesne Stabej P., Bacchelli C., Jani N., Rahman S., Jenkins L., Hurst J.A., Bitner-Glindzicz M., Peters M., Beales P.L, & Williams H.J. (2018). Rapid Paediatric Sequencing (RaPS): comprehensive real-life workflow for rapid diagnosis of critically ill children. Journal of Medical Genetics, 55(11), 721-728.

+ Open protocol

+ Expand

Exome and Genome Sequencing Protocol

Check if the same lab product or an alternative is used in the 5 most similar protocols

Exome and genome sequencing was carried out in DNA extracted from blood derived leukocytes. For exome sequencing, exonic regions were enriched using SureSelect Human All Exon XT V6 kits (Agilent, Santa Clara, USA) for family B and C and using xGen Exome Research Panel v1.0 (IDT, San Jose, USA) for family D. Genome-sequencing libraries for family A were prepared using TruSeq DNA PCR-Free Library Prep (Illumina, San Diego, USA). Paired-end sequencing was performed on HiSeq X HD v2.5 (family A), HiSeq2500 (family B), and HiSeq4000 (family C and D) platforms (all Illumina, San Diego, USA).

Wagner M., Osborn D.P., Gehweiler I., Nagel M., Ulmer U., Bakhtiari S., Amouri R., Boostani R., Hentati F., Hockley M.M., Hölbling B., Schwarzmayr T., Karimiani E.G., Kernstock C., Maroofian R., Müller-Felber W., Ozkan E., Padilla-Lopez S., Reich S., Reichbauer J., Darvish H., Shahmohammadibeni N., Tafakhori A., Vill K., Zuchner S., Kruer M.C., Winkelmann J., Jamshidi Y, & Schüle R. (2019). Bi-allelic variants in RNF170 are associated with hereditary spastic paraplegia. Nature Communications, 10, 4790.

+ Open protocol

+ Expand

Illumina TruSeq DNA PCR-Free Library Preparation

Check if the same lab product or an alternative is used in the 5 most similar protocols

DNA library preparation was performed according to the Illumina Truseq DNA PCR-Free Library prep protocol. For library sample preparation, 2 μg of genomic DNA for 550 bp insert size was randomly sheared to yield DNA fragments using the Covaris S2 system (Covaris, Woburn, MA, USA). The fragments were blunt-ended, and a single ‘A’ nucleotide was added to the 3′ ends of the fragments for adaptor ligation. After the ligation step with adaptors having different sequences at the 5′ and 3′ ends of each fragment, library quality check was conducted using Bioanalyzer (Agilent Technologies, Santa Clara, CA, USA). The library was clustered on the Illumina cBOT station, and paired ends were sequenced for 101 cycles on an Illumina Novaseq 6000 sequencer (Illumina, San Diego, CA, USA) according to the Illumina cluster and sequencing protocols.

Choi E., Kim S.H., Lee S.J., Jo E., Kim J., Kim J.H., Parker S.J., Chi Y.M, & Park H. (2021). A First Genome Survey and Genomic SSR Marker Analysis of Trematomus loennbergii Regan, 1913. Animals : an Open Access Journal from MDPI, 11(11), 3186.

+ Open protocol

+ Expand

Whole Genome Sequencing of DNA Samples

Check if the same lab product or an alternative is used in the 5 most similar protocols

One μg of each DNA sample was used as starting material for whole genome library preparation. DNA was sheared using an M220 Focused-ultrasonicator™ and microTUBE-50 tubes (Covaris, Inc.). The targeted library insert size was 350 bp. Genomic DNA libraries were constructed using TruSeq DNA PCR-Free Library Preparation Kits (Illumina, Inc., USA). All laboratory procedures were conducted in accordance with the protocol "TruSeq DNA PCR-Free Library Prep Reference Guide" (Illumina Part # 15036187 Rev. D, 2015). The final libraries were quantified using the KAPA library quantification kit for Illumina sequencing platforms (KAPA Biosystems, Inc., USA) and sequenced on the Illumina HiSeq 4000 platform (PE 2 × 150 bp; Illumina, Inc., USA) at the Resource Center Biobank of the Research Park of Saint-Petersburg State University, Russia, in accordance with the protocol "Illumina HiSeq 4000 System Guide" (Illumina Part # 15066496, Rev. 02 RUS, 2016).

Zhernakova D.V., Brukhin V., Malov S., Oleksyk T.K., Koepfli K.P., Zhuk A., Dobrynin P., Kliver S., Cherkasov N., Tamazian G., Rotkevich M., Krasheninnikova K., Evsyukov I., Sidorov S., Gorbunova A., Chernyaeva E., Shevchenko A., Kolchanova S., Komissarov A., Simonov S., Antonik A., Logachev A., Polev D.E., Pavlova O.A., Glotov A.S., Ulantsev V., Noskova E., Davydova T.K., Sivtseva T.M., Limborska S., Balanovsky O., Osakovsky V., Novozhilov A., Puzyrev V, & O'Brien S.J. (2020). Genome-wide sequence analyses of ethnic populations across Russia. Genomics, 112(1).

+ Open protocol

+ Expand

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?

Revolutionizing how scientists
search and build protocols!