Capture regions of interest in high resolution
Combining PacBio long-read sequencing with targeted sequence capture provides a powerful tool for a comprehensive view of specific genomic regions of interest, regardless of size.
Single Molecule, Real-Time (SMRT) Sequencing offers a flexible solution for targeting regions of interest and delivers the most comprehensive view of the associated genes using highly accurate long reads (HiFi reads). SMRT Sequencing gives you the ability to:
- Rapidly screen and identify all variants
- Discover haplotype-specific markers
- Resolve difficult-to-sequence regions, regardless of size
- Confirm insertion sites of transgenes and validate gene editing events
Interested in using an amplification-free approach? Explore No-Amp targeted sequencing to enrich and sequence hard-to-amplify genomic regions.
 | Sample & Library Preparation |
| Obtain targeted sequences with flexible sample and library workflows |
 | Sequencing |
| Maximize output and turn-around time with adjustable run parameters on the Sequel Systems. |
 | Data Analysis |
| Make discoveries using bioinformatics tools with the PacBio analytical portfolio. |
Application Brief: Learn more about these best practices for targeted sequencing of amplicons.
Mapping the NLRome: Research Teams Turn to SMRT Sequencing to Trace Plant Immunity
In a recent paper, a multi-institutional team detailed their creation of a nearly complete species-wide database of nucleotide-binding leucine-rich repeat receptors, or NLRs, in Arabidopsis thaliana. The sequences they obtained allowed them to define the core NLR complement, as well as to chart integrated domain diversity, describe new domain architectures, assess presence or absence of polymorphisms in non-core NLRs, and map uncharacterized NLRs onto the A. thaliana Col-0 reference genome. Explore this research further:
Van de Weyer, A.-L., et al. (2019). A Species-Wide Inventory of NLR Genes and Alleles in Arabidopsis thaliana. Cell, 178(5), 1260–1272.e14.
Spotlight: SMRT Sequencing Reveals Biodiversity
“The Sequel II represents a key component in the support infrastructure for BIOSCAN, a new seven-year $180 million research program which will advance our understanding of biodiversity by accelerating species discovery, and by revealing species interactions and dynamics. Given our plans to barcode tens of millions of specimens, it’s critical that analytical costs be reduced and the Sequel II makes this possible while also delivering very high fidelity sequences.”
Explore this news further here.
Selected Resources
- Grech-Baran, Marta et al. (2020) Extreme resistance to Potato virus Y in potato carrying the Rysto gene is mediated by a TIR-NLR immune receptor. Plant biotechnology journal
- Van de Weyer, Anna-Lena et al. (2019) A Species-Wide Inventory of NLR Genes and Alleles in Arabidopsis thaliana. Cell
- Novák, Karel et al. (2019) Potential of TLR-gene diversity in Czech indigenous cattle for resistance breeding as revealed by hybrid sequencing Archives Animal Breeding
- Kao, Tzu-Tong et al. (2019) Low-copy nuclear sequence data confirm complex patterns of farina evolution in notholaenid ferns (Pteridaceae). Molecular phylogenetics and evolution
- Hoff, Siv Nam Khang et al. (2019) Long-read sequence capture of the haemoglobin gene clusters across codfish species. Molecular ecology resources
- Bull, Simon E et al. (2018) Accelerated ex situ breeding of GBSS- and PTST1-edited cassava for modified starch. Science advances
- Kosicki, Michael et al. (2018) Repair of double-strand breaks induced by CRISPR-Cas9 leads to large deletions and complex rearrangements. Nature biotechnology
- Borel, Florie et al. (2018) Editing out five Serpina1 paralogs to create a mouse model of genetic emphysema. Proceedings of the National Academy of Sciences of the United States of America
- Verhey, Theodore B et al. (2018) Analysis of recombinational switching at the antigenic variation locus of the Lyme spirochete using a novel PacBio sequencing pipeline. Molecular microbiology
- Zimmer, Christoph T et al. (2018) Neofunctionalization of duplicated P450 genes drives the evolution of insecticide resistance in the brown planthopper. Current biology
- Milon, Nicolas et al. (2019) µLAS technology for DNA isolation coupled to Cas9-assisted targeting for sequencing and assembly of a 30 kb region in plant genome. Nucleic acids research
- Song, Yuning et al. (2019) Large Fragment Deletions Induced by Cas9 Cleavage While Not in BEs System in Rabbit Preprints with the Lancet
- Zong, Dan et al. (2019) Comparative analysis of the complete chloroplast genomes of seven Populus species: Insights into alternative female parents of Populus tomentosa. PloS one
- Jeong, Hyo-Bong et al. (2019) Single-molecule real-time sequencing reveals diverse allelic variations in carotenoid biosynthetic genes in pepper (Capsicum spp.). Plant biotechnology journal
- Arora, Heena et al. (2019) BjuWRR1, a CC-NB-LRR gene identified in Brassica juncea, confers resistance to white rust caused by Albugo candida. TAG. Theoretical and applied genetics
- Ma, Ke-Yi et al. (2019) Construction of a Genomic Bacterial Artificial Chromosome (BAC) Library for the Prawn Macrobrachium rosenbergii and Initial Analysis of ZW Chromosome-Derived BAC Inserts. Marine biotechnology
- Susek, Karolina et al. (2019) Impact of Chromosomal Rearrangements on the Interpretation of Lupin Karyotype Evolution. Genes
- Lefoulon, Emilie et al. (2019) Large Enriched Fragment Targeted Sequencing (LEFT-SEQ) Applied to Capture of Wolbachia Genomes. Scientific reports
- Wei, Kang et al. (2019) A coupled role for CsMYB75 and CsGSTF1 in anthocyanin hyperaccumulation in purple tea. The Plant journal
- Thomas, Mark et al. (2019) Collateral damage and CRISPR genome editing. PLoS genetics
- Slesarev, Alexei et al. (2019) CRISPR/CAS9 targeted CAPTURE of mammalian genomic regions for characterization by NGS. Scientific reports
- Maggiolini, Flavia A M et al. (2019) Genomic inversions and GOLGA core duplicons underlie disease instability at the 15q25 locus. PLoS genetics
- Halo, Julia V et al. (2019) Origin and recent expansion of an endogenous gammaretroviral lineage in domestic and wild canids. Retrovirology
- Kawato, Satoshi et al. (2019) Crustacean Genome Exploration Reveals the Evolutionary Origin of White Spot Syndrome Virus. Journal of virology
- Chien, Chih-Cheng et al. (2019) Analysis of genetic diversity of Xanthomonas oryzae pv. oryzae populations in Taiwan. Scientific reports
- Serpas, Lee et al. (2019) Dnase1l3 deletion causes aberrations in length and end-motif frequencies in plasma DNA. Proceedings of the National Academy of Sciences of the United States of America
- Bai, Chang-Ming et al. (2019) Long-range PCR and high-throughput sequencing of Ostreid herpesvirus 1 indicate high genetic diversity and complex evolution process. Virology
- Patterson, Eric L et al. (2018) Glyphosate resistance and EPSPS gene duplication: Convergent evolution in multiple plant species. The Journal of heredity
- Brashear, Wesley A et al. (2018) Evolutionary conservation of Y Chromosome ampliconic gene families despite extensive structural variation. Genome research
- Aw, Wen C et al. (2018) Genotype to phenotype: Diet-by-mitochondrial DNA haplotype interactions drive metabolic flexibility and organismal fitness. PLoS genetics
- Klymiuk, Valentina et al. (2018) Cloning of the wheat Yr15 resistance gene sheds light on the plant tandem kinase-pseudokinase family. Nature communications
- Wu, Yongzhen et al. (2018) Deletions linked to PROG1 gene participate in plant architecture domestication in Asian and African rice. Nature communications
- Gautier, Mathieu et al. (2018) The genomic basis of color pattern polymorphism in the Harlequin ladybird. Current biology
- Turner, Joe et al. (2018) The sequence of a male-specific genome region containing the sex determination switch in Aedes aegypti. Parasites & vectors
- Van Ghelder, Cyril et al. (2018) Ma orthologous genes in Prunus spp. shed light on a noteworthy NBS-LRR cluster conferring differential resistance to root-knot nematodes. Frontiers in plant science
- Poster: Baybayan, Primo et al. (2016) Application specific barcoding strategies for SMRT Sequencing
- Poster: Ranade, Swati et al. (2016) Immune regions are no longer incomprehensible with SMRT Sequencing
- Presentation: Berges, Helene et al. (2016) Long read sequencing technology to solve complex genomic regions assembly in plants
- Poster: Gu, Jenny et al. (2016) Targeted sequencing of genes from soybean using NimbleGen SeqCap EZ and PacBio SMRT Sequencing
- Korlach, Jonas and Graves-Lindsay, Tina and Vierra, Michelle (2020) PacBio Workshop: Understanding the biology of genomes with HiFi sequencing
- Gharbi, Karim (2020) Customer Experience: Advancing UK genomics research with the PacBio Sequel II System
- Schmutz, Jeremy and Conesa, Ana and Gharbi, Karim and Kuo, Richard (2020) Customer Experience: HiFi reads help scientists explore genomes and transcriptomes
- Mars, Kristin and Laird Smith, Melissa and Vinnere Pettersson, Olga and Hardigan, Michael (2020) Webinar: Sequencing 101 – How long-read sequencing improves access to genetic information
- (2020) Video: Introduction to PacBio highly accurate long-read sequencing
- Vierra, Michelle (2020) PAG Conference: PacBio update on products and HiFi applications
- U’Ren, Jana (2020) PAG Conference: Phylogenetic insights into the endophyte symbiosis using PacBio ribosomal DNA sequencing
- Korlach, Jonas (2019) User Group Meeting: Sequencing chemistry & application updates
- Korlach, Jonas and Corney, Dave (2018) Webinar: A new paradigm in DNA sequencing – Highly accurate single-molecule long reads
- Pillai, Nisha (2018) Webinar: Assessing the targeted regions using a PacBio Amplicon analysis applications
- Hatas, Emily (2017) Webinar: SMRT Sequencing applications in plant and animal sciences: an overview
- Kujawa, Steve (2017) Webinar: PacBio targeted sequencing of long amplicons using PCR or hybrid capture
- Turner, Stephen (2017) Webinar: An introduction to PacBio’s long-read sequencing & how it has been used to make important scientific discoveries
- (2017) Tutorial: Long amplicon analysis application [SMRT Link v5.0.0]
- Wing, Rod (2017) PAG PacBio Workshop: Introducing 5 new high-quality PacBio genome assemblies for rice to help solve the 10-billion people question
- Korlach, Jonas (2017) PAG PacBio Workshop: SMRT Sequencing for complete genomes
- Ranade, Swati (2016) AGBT Virtual Poster: Immune regions are no longer incomprehensible with SMRT Sequencing
- Heiner, Cheryl (2016) AGBT Virtual Poster: Minimization of chimera formation and substitution errors in full-length 16S PCR amplification
- Berges, Hélène (2016) PAG Conference: Long reads sequencing technology to solve complex genomic regions assembly in plants
- PacBio Customers (2018) User Group Meeting: Lightning Talks – Fast-paced updates from our user base
- Application Brochure: HiFi reads for highly accurate long-read sequencing (2020)
- Application Brochure: What can you do with one SMRT Cell? (2020)
- Case Study: Diving Deep – Revealing the mysteries of marine life with SMRT Sequencing (2019)
- SMRT Sequencing Brochure: Delivering highly accurate long reads to drive discovery in life science (2019)
- Application Brief: Targeted sequencing for amplicons – Best Practices (2019)
- PacBio Certified Service Providers (2019)
- Case Study: SMRT sequencing brings clarity to HIV vaccine and transplant research at the Wisconsin national primate research center (2017)
- Application Note: Multiplex target enrichment using barcoded multi-kilobase fragments and probe-based capture technologies (2016)
- Certified Service Provider Profile: Institute for Genome Sciences expands long-read sequencing services with new Sequel System (2016)
- Application Note: Targeted sequencing and chromosomal haplotype assembly using Cergentis TLA technology with SMRT Sequencing (2016)